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Thread: The Genomic History of the Bronze Age Southern Levant

  1. #81
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    Quote Originally Posted by misnomer View Post
    Can someone analyze the Y hg on the Megiddo outlier R kid I2189?
    Definitely R1 (M640). Maybe R1a (several SNPs).

    But this isn't my area of focus, so I second your motion.

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  3. #82
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    Y chr Haplogroup assignments:

    I7182 Yehud J2b
    I2189 Megiddo_MLBA_family4 R1a1a1:F3551/V8042/PF6231
    I2190 Megiddo_MLBA J2a1a1a2b2a1a:Z509/PF5155
    I2195 Megiddo_MLBA J1a2a1a2d2:FGC1677/Z2326
    I2198 Megiddo_MLBA J1a2a1a2d2b2F4849/Z1855
    I2201 Abel T1a1a1b2b2b1a1a2:CTS6280
    I3965 Hazor J1a2a1a2d2b2b2F4881/YSC0000235
    I3966 Hazor E1b1b1b2a1a:M34/PF2022/L797/Z1146/PF2016
    I4517 Megiddo_IA J1a2a1a2d2b2b2c2:S16807/S21060
    I4518 Megiddo_MLBA T1a1a1b2:CTS2214
    I4519 Megiddo_MLBA_family1 J2a1a1a2b2a1a:M92
    I4521 Megiddo_IBA J2b
    I4525 Megiddo_MLBA J1a2a1a2:AM01339/PF4826/Z1874
    I6461 Baqah_family6 J1a2a1a2d2b2bF4843/Z2324
    I6464 Baqah J1a2a1a2d2b2b2c3:FGC63758/HU80
    I6566 Baqah J1a2a1a2d2b2b2c4b1:FGC8223/V7510/Y3441
    I6569 Baqah J1a2a1a2d2b2b2c4b:FGC8182/V5320/Y2920/FGC8185/ZS219/Y5761
    I6459 Baqah J1a2a1a2d2b2b2c4b1c:FGC8224/Y3442
    I6460 Baqah J1a2a1a2d2b2b2c4b:FGC8182/V5320/Y2920/FGC8185/ZS219/Y5761
    I3985 Baqah J1a2a1a2d2b2b2c4b:FGC8185/ZS219/Y5761
    I3987 Baqah J1a2a1a2d2b2b2c4b1:FGC8223/V7510/Y3441
    I3705 Baqah J1a2a1a2d2b2b2c4b:FGC8182/V5320/Y2920/FGC8185/ZS219/Y5761
    I3706 Baqah J1a2a1a2d2b2b2c4b1c:FGC8224/Y3442
    I3703 Baqah J1a2a1a2d2b2b2c4b1c:FGC8224/Y3442
    I6928 Yehud_low_coverage J2b
    I6923 Yehud J2b
    I7003 Yehud J2b
    I10093 Megiddo_MLBA J1a2a1a2d2b2bF4843/Z2324
    I10101 Megiddo_MLBA_family3 J1a2a1a258/PAGE8/PF4698/PAGES00008
    I10104 Megiddo_MLBA J1
    I10106 Megiddo_MLBA J1a2a1a2d2F4854/YSC0000183/Z2320
    I10264 Megiddo_MLBA J1a2a1a2d2b2:CTS11719/PF4863/Z1888
    I10266 Megiddo_MLBA J2a2a1a:Z28375
    I10268 Megiddo_MLBA J1a2a1a2d2b2b2c2:S21060
    I10269 Megiddo_MLBA_low_coverage R
    I10359 Megiddo_MLBA J1a2a1a2d2:CTS2453/PF4806/Z2319/FGC1677/Z2326
    I10361 Megiddo_MLBA_family3 J1a2a1:AM01312/CTS4376/Z1861
    I8187 Megiddo_MLBA J1a2a1a2d2b2b2F4881/YSC0000235
    I8188 Megiddo_MLBA_family2 J1a2a1a2d2b:Z1853
    S10769.E1.L1 Megiddo_MLBA E1b1b1b2a1a:M34/PF2022/L797/Z1146/PF2016
    S10770.E1.L1 Megiddo_MLBA E1b1b1b2a1a1:L29/PAGE47/PAGES00047
    S10768.E1.L1 Megiddo_MLBA R1b1a1b:M269

    List of derived and ancestral snps for each sample.

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  5. #83
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    Quote Originally Posted by kolgeh View Post
    Y chr Haplogroup assignments:

    I7182 Yehud J2b
    I2189 Megiddo_MLBA_family4 R1a1a1:F3551/V8042/PF6231
    I2190 Megiddo_MLBA J2a1a1a2b2a1a:Z509/PF5155
    I2195 Megiddo_MLBA J1a2a1a2d2:FGC1677/Z2326
    I2198 Megiddo_MLBA J1a2a1a2d2b2F4849/Z1855
    I2201 Abel T1a1a1b2b2b1a1a2:CTS6280
    I3965 Hazor J1a2a1a2d2b2b2F4881/YSC0000235
    I3966 Hazor E1b1b1b2a1a:M34/PF2022/L797/Z1146/PF2016
    I4517 Megiddo_IA J1a2a1a2d2b2b2c2:S16807/S21060
    I4518 Megiddo_MLBA T1a1a1b2:CTS2214
    I4519 Megiddo_MLBA_family1 J2a1a1a2b2a1a:M92
    I4521 Megiddo_IBA J2b
    I4525 Megiddo_MLBA J1a2a1a2:AM01339/PF4826/Z1874
    I6461 Baqah_family6 J1a2a1a2d2b2bF4843/Z2324
    I6464 Baqah J1a2a1a2d2b2b2c3:FGC63758/HU80
    I6566 Baqah J1a2a1a2d2b2b2c4b1:FGC8223/V7510/Y3441
    I6569 Baqah J1a2a1a2d2b2b2c4b:FGC8182/V5320/Y2920/FGC8185/ZS219/Y5761
    I6459 Baqah J1a2a1a2d2b2b2c4b1c:FGC8224/Y3442
    I6460 Baqah J1a2a1a2d2b2b2c4b:FGC8182/V5320/Y2920/FGC8185/ZS219/Y5761
    I3985 Baqah J1a2a1a2d2b2b2c4b:FGC8185/ZS219/Y5761
    I3987 Baqah J1a2a1a2d2b2b2c4b1:FGC8223/V7510/Y3441
    I3705 Baqah J1a2a1a2d2b2b2c4b:FGC8182/V5320/Y2920/FGC8185/ZS219/Y5761
    I3706 Baqah J1a2a1a2d2b2b2c4b1c:FGC8224/Y3442
    I3703 Baqah J1a2a1a2d2b2b2c4b1c:FGC8224/Y3442
    I6928 Yehud_low_coverage J2b
    I6923 Yehud J2b
    I7003 Yehud J2b
    I10093 Megiddo_MLBA J1a2a1a2d2b2bF4843/Z2324
    I10101 Megiddo_MLBA_family3 J1a2a1a258/PAGE8/PF4698/PAGES00008
    I10104 Megiddo_MLBA J1
    I10106 Megiddo_MLBA J1a2a1a2d2F4854/YSC0000183/Z2320
    I10264 Megiddo_MLBA J1a2a1a2d2b2:CTS11719/PF4863/Z1888
    I10266 Megiddo_MLBA J2a2a1a:Z28375
    I10268 Megiddo_MLBA J1a2a1a2d2b2b2c2:S21060
    I10269 Megiddo_MLBA_low_coverage R
    I10359 Megiddo_MLBA J1a2a1a2d2:CTS2453/PF4806/Z2319/FGC1677/Z2326
    I10361 Megiddo_MLBA_family3 J1a2a1:AM01312/CTS4376/Z1861
    I8187 Megiddo_MLBA J1a2a1a2d2b2b2F4881/YSC0000235
    I8188 Megiddo_MLBA_family2 J1a2a1a2d2b:Z1853
    S10769.E1.L1 Megiddo_MLBA E1b1b1b2a1a:M34/PF2022/L797/Z1146/PF2016
    S10770.E1.L1 Megiddo_MLBA E1b1b1b2a1a1:L29/PAGE47/PAGES00047
    S10768.E1.L1 Megiddo_MLBA R1b1a1b:M269

    List of derived and ancestral snps for each sample.
    Can the Megiddo R1a sample be checked for R1a-L657, R1a-Z2124 or R-F1345?

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  7. #84
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    Quote Originally Posted by kolgeh View Post
    Y chr Haplogroup assignments:

    I2189 Megiddo_MLBA_family4 R1a1a1:F3551/V8042/PF6231

    List of derived and ancestral snps for each sample.
    Thanks, yep, that makes sense.

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  9. #85
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    Quote Originally Posted by kolgeh View Post
    Y chr Haplogroup assignments:

    I7182 Yehud J2b
    I2189 Megiddo_MLBA_family4 R1a1a1:F3551/V8042/PF6231
    I2190 Megiddo_MLBA J2a1a1a2b2a1a:Z509/PF5155
    I2195 Megiddo_MLBA J1a2a1a2d2:FGC1677/Z2326
    I2198 Megiddo_MLBA J1a2a1a2d2b2F4849/Z1855
    I2201 Abel T1a1a1b2b2b1a1a2:CTS6280
    I3965 Hazor J1a2a1a2d2b2b2F4881/YSC0000235
    I3966 Hazor E1b1b1b2a1a:M34/PF2022/L797/Z1146/PF2016
    I4517 Megiddo_IA J1a2a1a2d2b2b2c2:S16807/S21060
    I4518 Megiddo_MLBA T1a1a1b2:CTS2214
    I4519 Megiddo_MLBA_family1 J2a1a1a2b2a1a:M92
    I4521 Megiddo_IBA J2b
    I4525 Megiddo_MLBA J1a2a1a2:AM01339/PF4826/Z1874
    I6461 Baqah_family6 J1a2a1a2d2b2bF4843/Z2324
    I6464 Baqah J1a2a1a2d2b2b2c3:FGC63758/HU80
    I6566 Baqah J1a2a1a2d2b2b2c4b1:FGC8223/V7510/Y3441
    I6569 Baqah J1a2a1a2d2b2b2c4b:FGC8182/V5320/Y2920/FGC8185/ZS219/Y5761
    I6459 Baqah J1a2a1a2d2b2b2c4b1c:FGC8224/Y3442
    I6460 Baqah J1a2a1a2d2b2b2c4b:FGC8182/V5320/Y2920/FGC8185/ZS219/Y5761
    I3985 Baqah J1a2a1a2d2b2b2c4b:FGC8185/ZS219/Y5761
    I3987 Baqah J1a2a1a2d2b2b2c4b1:FGC8223/V7510/Y3441
    I3705 Baqah J1a2a1a2d2b2b2c4b:FGC8182/V5320/Y2920/FGC8185/ZS219/Y5761
    I3706 Baqah J1a2a1a2d2b2b2c4b1c:FGC8224/Y3442
    I3703 Baqah J1a2a1a2d2b2b2c4b1c:FGC8224/Y3442
    I6928 Yehud_low_coverage J2b
    I6923 Yehud J2b
    I7003 Yehud J2b
    I10093 Megiddo_MLBA J1a2a1a2d2b2bF4843/Z2324
    I10101 Megiddo_MLBA_family3 J1a2a1a258/PAGE8/PF4698/PAGES00008
    I10104 Megiddo_MLBA J1
    I10106 Megiddo_MLBA J1a2a1a2d2F4854/YSC0000183/Z2320
    I10264 Megiddo_MLBA J1a2a1a2d2b2:CTS11719/PF4863/Z1888
    I10266 Megiddo_MLBA J2a2a1a:Z28375
    I10268 Megiddo_MLBA J1a2a1a2d2b2b2c2:S21060
    I10269 Megiddo_MLBA_low_coverage R
    I10359 Megiddo_MLBA J1a2a1a2d2:CTS2453/PF4806/Z2319/FGC1677/Z2326
    I10361 Megiddo_MLBA_family3 J1a2a1:AM01312/CTS4376/Z1861
    I8187 Megiddo_MLBA J1a2a1a2d2b2b2F4881/YSC0000235
    I8188 Megiddo_MLBA_family2 J1a2a1a2d2b:Z1853
    S10769.E1.L1 Megiddo_MLBA E1b1b1b2a1a:M34/PF2022/L797/Z1146/PF2016
    S10770.E1.L1 Megiddo_MLBA E1b1b1b2a1a1:L29/PAGE47/PAGES00047
    S10768.E1.L1 Megiddo_MLBA R1b1a1b:M269

    List of derived and ancestral snps for each sample.
    Is there any BAMs available yet? That J2b should be checked for branches, but it's likely M205.

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  11. #86
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    Quote Originally Posted by Coldmountains View Post
    Can the Megiddo R1a sample be checked for R1a-L657, R1a-Z2124 or R-F1345?
    He's derived at R1a1F7542, R1a1a:CTS5069, R1a1a:CTS570, R1a1a1:F3551/V8042/PF6231 and ancestral at R1a1a1b1a1a1c:CTS11962.1/Z2953.1, R1a1a1b1a1a1c1:AMM272/S4548/Z2954, R1a1a1b2a2a3:S23592, R1a1a1b2e1:F17329. We should wait for bam files for other snps.

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  13. #87
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    Quote Originally Posted by Trojet View Post
    Is there any BAMs available yet? That J2b should be checked for branches, but it's likely M205.
    Not yet.

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  15. #88
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    Albania Kosovo
    Quote Originally Posted by kolgeh View Post
    Y chr Haplogroup assignments:

    I7182 Yehud J2b
    I2189 Megiddo_MLBA_family4 R1a1a1:F3551/V8042/PF6231
    I2190 Megiddo_MLBA J2a1a1a2b2a1a:Z509/PF5155
    I2195 Megiddo_MLBA J1a2a1a2d2:FGC1677/Z2326
    I2198 Megiddo_MLBA J1a2a1a2d2b2F4849/Z1855
    I2201 Abel T1a1a1b2b2b1a1a2:CTS6280
    I3965 Hazor J1a2a1a2d2b2b2F4881/YSC0000235
    I3966 Hazor E1b1b1b2a1a:M34/PF2022/L797/Z1146/PF2016
    I4517 Megiddo_IA J1a2a1a2d2b2b2c2:S16807/S21060
    I4518 Megiddo_MLBA T1a1a1b2:CTS2214
    I4519 Megiddo_MLBA_family1 J2a1a1a2b2a1a:M92
    I4521 Megiddo_IBA J2b
    I4525 Megiddo_MLBA J1a2a1a2:AM01339/PF4826/Z1874
    I6461 Baqah_family6 J1a2a1a2d2b2bF4843/Z2324
    I6464 Baqah J1a2a1a2d2b2b2c3:FGC63758/HU80
    I6566 Baqah J1a2a1a2d2b2b2c4b1:FGC8223/V7510/Y3441
    I6569 Baqah J1a2a1a2d2b2b2c4b:FGC8182/V5320/Y2920/FGC8185/ZS219/Y5761
    I6459 Baqah J1a2a1a2d2b2b2c4b1c:FGC8224/Y3442
    I6460 Baqah J1a2a1a2d2b2b2c4b:FGC8182/V5320/Y2920/FGC8185/ZS219/Y5761
    I3985 Baqah J1a2a1a2d2b2b2c4b:FGC8185/ZS219/Y5761
    I3987 Baqah J1a2a1a2d2b2b2c4b1:FGC8223/V7510/Y3441
    I3705 Baqah J1a2a1a2d2b2b2c4b:FGC8182/V5320/Y2920/FGC8185/ZS219/Y5761
    I3706 Baqah J1a2a1a2d2b2b2c4b1c:FGC8224/Y3442
    I3703 Baqah J1a2a1a2d2b2b2c4b1c:FGC8224/Y3442
    I6928 Yehud_low_coverage J2b
    I6923 Yehud J2b
    I7003 Yehud J2b
    I10093 Megiddo_MLBA J1a2a1a2d2b2bF4843/Z2324
    I10101 Megiddo_MLBA_family3 J1a2a1a258/PAGE8/PF4698/PAGES00008
    I10104 Megiddo_MLBA J1
    I10106 Megiddo_MLBA J1a2a1a2d2F4854/YSC0000183/Z2320
    I10264 Megiddo_MLBA J1a2a1a2d2b2:CTS11719/PF4863/Z1888
    I10266 Megiddo_MLBA J2a2a1a:Z28375
    I10268 Megiddo_MLBA J1a2a1a2d2b2b2c2:S21060
    I10269 Megiddo_MLBA_low_coverage R
    I10359 Megiddo_MLBA J1a2a1a2d2:CTS2453/PF4806/Z2319/FGC1677/Z2326
    I10361 Megiddo_MLBA_family3 J1a2a1:AM01312/CTS4376/Z1861
    I8187 Megiddo_MLBA J1a2a1a2d2b2b2F4881/YSC0000235
    I8188 Megiddo_MLBA_family2 J1a2a1a2d2b:Z1853
    S10769.E1.L1 Megiddo_MLBA E1b1b1b2a1a:M34/PF2022/L797/Z1146/PF2016
    S10770.E1.L1 Megiddo_MLBA E1b1b1b2a1a1:L29/PAGE47/PAGES00047
    S10768.E1.L1 Megiddo_MLBA R1b1a1b:M269

    List of derived and ancestral snps for each sample.
    Very interesting to see that the majority of the samples from Bronze Age Jordan (Baq'ah) are in fact YSC76+ (Y2919). I see that a couple belong to further downstreams such as Y3442 and Y3442>Y3441. One of the samples from Iron Age Beirut, Lebanon, also turned out to be J-Y3441*, whilst the others belonged to YSC76>ZS1711* and YSC76>ZS1711>ZS5563.

    I also see that one of the samples from Iron Age Megiddo, Israel, is J-S21060 which is equivalent to Y3081 (ZS241).
    Ydna: J1>P58>YSC234>ZS241>BY32817 (Y179831)

    Maternal Ydna: E-V13>CTS1273*

    Mtdna: T1a1l

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  17. #89
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    Y-DNA (P)
    J1-Z18271
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    U7a5

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    Quote Originally Posted by kolgeh View Post
    Y chr Haplogroup assignments:

    I7182 Yehud J2b
    I2189 Megiddo_MLBA_family4 R1a1a1:F3551/V8042/PF6231
    I2190 Megiddo_MLBA J2a1a1a2b2a1a:Z509/PF5155
    I2195 Megiddo_MLBA J1a2a1a2d2:FGC1677/Z2326
    I2198 Megiddo_MLBA J1a2a1a2d2b2F4849/Z1855
    I2201 Abel T1a1a1b2b2b1a1a2:CTS6280
    I3965 Hazor J1a2a1a2d2b2b2F4881/YSC0000235
    I3966 Hazor E1b1b1b2a1a:M34/PF2022/L797/Z1146/PF2016
    I4517 Megiddo_IA J1a2a1a2d2b2b2c2:S16807/S21060
    I4518 Megiddo_MLBA T1a1a1b2:CTS2214
    I4519 Megiddo_MLBA_family1 J2a1a1a2b2a1a:M92
    I4521 Megiddo_IBA J2b
    I4525 Megiddo_MLBA J1a2a1a2:AM01339/PF4826/Z1874
    I6461 Baqah_family6 J1a2a1a2d2b2bF4843/Z2324
    I6464 Baqah J1a2a1a2d2b2b2c3:FGC63758/HU80
    I6566 Baqah J1a2a1a2d2b2b2c4b1:FGC8223/V7510/Y3441
    I6569 Baqah J1a2a1a2d2b2b2c4b:FGC8182/V5320/Y2920/FGC8185/ZS219/Y5761
    I6459 Baqah J1a2a1a2d2b2b2c4b1c:FGC8224/Y3442
    I6460 Baqah J1a2a1a2d2b2b2c4b:FGC8182/V5320/Y2920/FGC8185/ZS219/Y5761
    I3985 Baqah J1a2a1a2d2b2b2c4b:FGC8185/ZS219/Y5761
    I3987 Baqah J1a2a1a2d2b2b2c4b1:FGC8223/V7510/Y3441
    I3705 Baqah J1a2a1a2d2b2b2c4b:FGC8182/V5320/Y2920/FGC8185/ZS219/Y5761
    I3706 Baqah J1a2a1a2d2b2b2c4b1c:FGC8224/Y3442
    I3703 Baqah J1a2a1a2d2b2b2c4b1c:FGC8224/Y3442
    I6928 Yehud_low_coverage J2b
    I6923 Yehud J2b
    I7003 Yehud J2b
    I10093 Megiddo_MLBA J1a2a1a2d2b2bF4843/Z2324
    I10101 Megiddo_MLBA_family3 J1a2a1a258/PAGE8/PF4698/PAGES00008
    I10104 Megiddo_MLBA J1
    I10106 Megiddo_MLBA J1a2a1a2d2F4854/YSC0000183/Z2320
    I10264 Megiddo_MLBA J1a2a1a2d2b2:CTS11719/PF4863/Z1888
    I10266 Megiddo_MLBA J2a2a1a:Z28375
    I10268 Megiddo_MLBA J1a2a1a2d2b2b2c2:S21060
    I10269 Megiddo_MLBA_low_coverage R
    I10359 Megiddo_MLBA J1a2a1a2d2:CTS2453/PF4806/Z2319/FGC1677/Z2326
    I10361 Megiddo_MLBA_family3 J1a2a1:AM01312/CTS4376/Z1861
    I8187 Megiddo_MLBA J1a2a1a2d2b2b2F4881/YSC0000235
    I8188 Megiddo_MLBA_family2 J1a2a1a2d2b:Z1853
    S10769.E1.L1 Megiddo_MLBA E1b1b1b2a1a:M34/PF2022/L797/Z1146/PF2016
    S10770.E1.L1 Megiddo_MLBA E1b1b1b2a1a1:L29/PAGE47/PAGES00047
    S10768.E1.L1 Megiddo_MLBA R1b1a1b:M269

    List of derived and ancestral snps for each sample.
    If validated, this clearly is a leap forward. I can see two ZS241 samples, I10268 (MBA Megiddo, dated 1971-1782 calBCE) and I4517 (IA Megiddo, 1107-923 calBCE). This is important because it further increases the odds that both this sample and the individual from Abel Beth Maacah are Israelites. I also see one FGC4745 from Al Baqah, the individual is HU80 (I6464, dated 1550-1150 BCE) which is an HU58 equivalent (TMRCA ~500 yBP), it has only been found in Yemen so far, FGC4745 OTOH comprises a branch that is mainly found among Palestinian Christians from Beit Sahour (near Bethlehem), this branch is ZS6270. The other individuals from Al Baqah all seem to be YSC76, they are probably all going to be Y3442, which has also been found in the IA samples from Beirut.

    The implications for the overall history of J1-P58's branches and how they correlate with Semitic dispersals are enormous, unlike the FGC11 Sidonian this by and large corresponds to the common understanding of how P58's phylogeny mirrors the Semitic language tree:

     
    מכורותיך ומולדותיך מארץ הכנעני אביך האמורי ואמך חתית
    יחזקאל פרק טז ג-


    ᾽Άλλο δέ τοι ἐρέω, σὺ δ᾽ ἐνὶ φρεσὶ βάλλεο σῇσιν:
    κρύβδην, μηδ᾽ ἀναφανδά, φίλην ἐς πατρίδα γαῖαν
    νῆα κατισχέμεναι: ἐπεὶ οὐκέτι πιστὰ γυναιξίν.


    -Αγαμέμνων; H Οδύσσεια, Ραψωδία λ

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  19. #90
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    Quote Originally Posted by Patarames View Post
    Someone needs to check all those J and look if its J1, J2a or J2b.

    Then looking at the ages, because it seems like J2a arrived late, around the time of Hittite influence.
    So it's confirmed, earliest J2a sample for now is from ~1500BC.

    Whether Hittite, Hatti, Mitanni, Hurrian, Philistine or generally "Sea people".

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