>input_sequence_54780
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------------------------------------------ATGTGGCTCGCCAGCGGCAACAATCAGATCATGTCGGG
TTTCATGGTACGTTCCTGCTTCACATCCCTC----------TCTCTCTCTAATCACCACAGGATCC--ACACGTCCATCA
TCACTC-----TGTTGCGTTGCAGGTATCCCCCGAGCAGTACAACGACACCGATCTCCATTTCTTCGTGTCATGGACGGT
ACGTGCG---TGCGTGCACCATTGATAAGCTGCGCAGCTAAACCAGGAGGACTACGTGCTGATG--TGGTGTTTGTTGTC
TCGATC------AGGCCGATGGGTTCAACGCCACGGGCTGCATGGACACGGACTGCCAGGGCTTCGTGGGCTCCACGCCG
CCGGCCAGCGTCTCCCCCGGGTCGACGGTCACGCCGACGTCCGTCTACCACGGCAAACAGACCGAGTACACCGTCACCAT
CCTCCAGGTTCGACCCTGACGACGGCCACCCGACACAAAGGCGCCACACTACATTGTGCAACGCCTCACAGATAGGCGCT
ACACGCCTGGCCAGCGTTGCACCCCAGACTGCCTAAAAATTGCTAAGTCATTGTGCAGAGCTTCAGAGCTAGGCGCTGCA
CTGTATAGTGTGGCGCCTAGCTCTCAGGCGCTGCACTAGTGGTTGCACTACAAAATGAAGCAACCACTAGTGCAACGCCT
AGAAGCTAGGCGCTACACTGTATAGTGTGGCGCCTAGCTCTCAGGCGCTGCACACTGACTTAGTAATTTTCAGATCACAC
GGGTGCGACGCTGGTCAGGCATGTAGCGCATATCTGTGAGGCGTTGCACAGTGTAGTGTGGCGCCTTCGCGTCGGGCGTC
ACACAAAAAGGTCAGCCGCGTGAAATAGTTTCACGGACAGTTCATTCTGTGATTTGATTTTGTCCATAGGTCAAATTTGT
CAATTTTGCCGCTGCTGTACTTCATTCGGTTCGTTTGGTGCTTTGCC------------------GCAGGTGGCTGGGAA
CTGGTCCCTCATCGTGGACCTGTCGGGGGAGAACGAGACGGTCGGGTACTTGCCCGGCTCGCTGTTCACGGGCCTGGCGA
GCAACGCGACGGTGGTCGGCTGGGGAGGCAACGCGCAGTCGTCGTC---CGGCGCCGGGCCGCCGATGGGGAGCGGACAC
GGGCCGGACGAGGGGGACGGCGTCGCGGCCTACGTGGCCAGCATCGCGGTGTACGATTCCAAGGGGAACGCCACCGCCCC
GGCGGCCGGGAACGTGACGTCGCTCACGGACGCCGGAGACTGCTACGGTGCCAGCGATTACGAGGTCGGAAAGGACGACG
GCGGGTTCTTCTATTACGGGGGGCCTCAAGGTTGCAACCACTAA------------------------------------
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>chr2D_1_TraesCS2D01G102500
TAGTGTGTATCCTCCTATAGAGTTATAGACA------TATACAATATGCGTATATACCGGTGTCTGTGTCCGCTCACCAA
AATACCCGGACCGACCAATCTTAATCCCCC---------AGTAGTAGCAAAGCAATCTTAATAACCATTATTAAGAACAG
CCTCTGCTTCGTGTGACGCCAGTACATAGGCCAGCTAATTAAGTGAGCGAGCAAAGCATATGCCCGTTCTCACTTCACTA
TCGTCCTCTGCCTCTCTTGCTCGTCCTCTTCCTCCTCTAAGGAAACACGTACGTAC----ATGCTGTCCATGTCGAAGCA
TCGAACACACAATCGGGGCTTCCGTAGCTAGGCAGCATCCTGTCGCCGTACGTGCTTCGTCTGTCGATATGGTGCACGAC
AAAAGTACCCTCTTGATCTTCGTCGTCGTGGTGGCCGCTCATGCGAGAGCTAGCGCCACCGTACCGGCTATTTG----TT
CCGCTCATGTATGTGTTGTCCGGACGG---------GTCCTTCACACATCAGAGGCGCTCCACTA--GCTTAACTGCTCA
CGAAAAATGGCCTCGAAACGTCTCGCTCTTC---CTGCTGTGGTTGCTTGCCTCGTCCAACTCATGCTACCACAAGCTCG
GTGTCATGGCGTTGGAAGGGCTCTAGT---GCCTGGAGGGCTGCGTCATGTATCCGGCGCAAATAGCAGCAGCATCAATC
ATGTATTGCCTAA-------------------------------------TATTTCCTTTTTTCTTGCGTGTTTATTTTT
CACTCAAGAACTCACGAGGATAATGCATATGGTCTGACGTGGCAATAAGATTGCTGTTACACATACAATA-----ATACG
AGTACAGGACTCTGCAATTGCGTGGGCATTCGCTGTTTCAAGAAGTTAAATACTTTGTGTTAACTAAATAACTAGGGTTA
TTTTGACGCAGTGGGTTGGGTACCAGACCGGAGAGGGGCGGGGAGGAGAGTTCTACGGCGGCAGCGCCAGGATCAACGCG
TGGGACCTGGAACTGAAGCCCGATCAGGCCAGCTCGTCGGTCATGTGGCTCGCCAGCGGCAACAATCAGATCATGTCGGG
TTTCATGGTACGTTCCTGCTTCACATCCCTC----------TCTCTCTCTAATCACCACAGGATCC--ACACGTCCATCA
TCACTC-----TGTTGCGTTGCAGGTATCCCCCGAGCAGTACAACGACACCGATCTCCATTTCTTCGTGTCATGGACGGT
ACGTGCG---TGCGTGCACCATTGATAAGCTGCGCAGCTAAACCAGGAGGACTACGTGCTGATG--TGGTGTTTGTTGTC
TCGATC------AGGCCGATGGGTTCAACGCCACGGGCTGCATGGACACGGACTGCCAGGGCTTCGTGGGCTCCACGCCG
CCGGCCAGCGTCTCCCCCGGGTCGACGGTCACGCCGACGTCCGTCTACCACGGCAAACAGACCGAGTACACCGTCACCAT
CCTCCAGGTTCGACCCTGACGACGGCCACCCGACACAAAGGCGCCACACTACATTGTGCAACGCCTCACAGATAGGCGCT
ACACGCCTGGCCAGCGTTGCACCCCAGACTGCCTAAAAATTGCTAAGTCATTGTGCAGAGCTTCAGAGCTAGGCGCTGCA
CTGTATAGTGTGGCGCCTAGCTCTCAGGCGCTGCACTAGTGGTTGCACTACAAAATGAAGCAACCACTAGTGCAACGCCT
AGAAGCTAGGCGCTACACTGTATAGTGTGGCGCCTAGCTCTCAGGCGCTGCACACTGACTTAGTAATTTTCAGATCACAC
GGGTGCGACGCTGGTCAGGCATGTAGCGCATATCTGTGAGGCGTTGCACAGTGTAGTGTGGCGCCTTCGCGTCGGGCGTC
ACACAAAAAGGTCAGCCGCGTGAAATAGTTTCACGGACAGTTCATTCTGTGATTTGATTTTGTCCATAGGTCAAATTTGT
CAATTTTGCCGCTGCTGTACTTCATTCGGTTCGTTTGGTGCTTTGCC------------------GCAGGTGGCTGGGAA
CTGGTCCCTCATCGTGGACCTGTCGGGGGAGAACGAGACGGTCGGGTACTTGCCCGGCTCGCTGTTCACGGGCCTGGCGA
GCAACGCGACGGTGGTCGGCTGGGGAGGCAACGCGCAGTCGTCGTC---CGGCGCCGGGCCGCCGATGGGGAGCGGACAC
GGGCCGGACGAGGGGGACGGCGTCGCGGCCTACGTGGCCAGCATCGCGGTGTACGATTCCAAGGGGAACGCCACCGCCCC
GGCGGCCGGGAACGTGACGTCGCTCACGGACGCCGGAGACTGCTACGGTGCCAGCGATTACGAGGTCGGAAAGGACGACG
GCGGGTTCTTCTATTACGGGGGGCCTCAAGGTTGCAACCACTAAAA----------------------------------
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-TGTGAGGATGGCTTCATCATGGGTGTCGAGACTCGAGACCAACAGTAGTCATCAGATATGATGAATAAGTGGATGATTT
ATAATTACAGTACTACATTTTATCTAGCAAACATGCATGTGCGGTTACAAATAATGTATGCTCATAGCACAATGAGCACG
ACTCAAGACCCGCTTTAGGTCCACGTTACCTATTTCAACAGTCTCCTCCGTGTTGTTGCTTATTCTCCTTGATAGCAACG
CATCTGAGCGTGGTTAATTATGTGATGATCTGGGCCACCGCGCGCGCGCACACACCCGAGCTAGAGCCTACACCTAGTCC
ATAGACCATCCCTCGTACGCCCACTTACTTTCTGCCAATAGATGCAAATGCAGTCCTGAAGATACCTACTTGCACTAACA
ACACCGAGGATTTCTGGGCTTGGTATTCGGACAGAAAGGGCAGGTTCACGGTAGCCTCCGCGTACAA-TTTATTGTTAAA
AACGAAGCTGCAGAGAGAAGAGTGGTTACAGGGAAGAGGTGGTTCATCAAGTGTTCAGAGAGACGAAAAGTCCTGGTGCT
CCTTGTGGAAAGTAAAGATTCCCTCGAAGATCAGAATCTTCTTATGGCGGCTGATGCCCCATCATTCACTCCCTACCACC
GATGTTCTAAAGAAGCGCAACATGTCAGTTCAAGATGCATGTCCGCTCTGCGGATGTCAGGATTCATGGAGACATGCCCT
AGTTTCATGCACTATGTCCAGATGCATTTGGGCGTTGTCCGATGATGTGATGGTTCAGCGCATGTCTGCCAACATGGAAC
CCAATGCGAGATTGTGGTTATTTGAACTCAGCGATGAATTGGATCAAGCGAGCTTCACGGCGATGGCCGTCACTCTCTTG
TCCATATGGTATGCTAGACGCAAAGCGGTCTATGAATCCATCTTTCAAAGTCCCCAACAGACAATTTCCTTTGTAAACTA
CTTTATAGCAGAACTGGGGCAGCTTGCTAATAGCCCAGAG
>chr2B_1
TAGTGTGTATCCTCCTGTAAATTTATAGACATATTCGTATACAATATGCGTATATACCGCTGTCTGTGTCTGCTCACCAA
AATATCCGCACCGACCAGTCTTAGTAATCTCCTAATAGGAGTAGCACCAAAGCAATGTTGACCT------TTAAGAACAG
TCCCTGCTCCGTGTGACGCCAATACATAGGC-------TTAAGTGAGTTAGCAAAGCATATGCCTGTTCTCACTTCACTA
TCGTCCTCTGCCTCTCTTGCTCGTCCTCTTCCTCCTGTGAGGAAACACGTACGTACGTACATGCTGTCCATGTCGAAGCA
TCGAACTCACAATCGGGACGTCCG----TAGGCAGCATCCTGTC-----------TTTGCCTGTCGATATGGTTCGCGAC
AAAAGTACCCTCTTGATCTTCGTCGTCGTCGTGGCCGCTCATGCGAGAGCTGGCGCCACCGTACGGGCTATTTGTTCCTT
CCGCTCATATATGTGTTGTCCGGACGGGTACCTACAGTCCTTCACACATCAGAGGCGCTCCACTATAGCTTAACTGCTCA
TGAAAAATGGCCTCGAAACGTCTCGCTGTTCCTGCTGCTGTGTTTGCTTGCCTGGTCCAACTCATGCTACCACAATCTCT
GGGTCATGGCGTTGGAAGGGCTCTAATGCCGCCTGGAGGGCTGCGTCATGTATCCGGCGCAAATAGCAGCAGCATGAATC
ATGTATTGCCCTTTTCTCAAAATAAATAAATAAATCATGTCATTGCCTTTTATTTCCCTTTTT-TTGGGTGTATGTTTTC
TACTCAAGAACTCAAGAAGATAATGCATATGGCCTAACGTGACAATAACGTTGCTGTTACACAACGGGACAGCACATACG
AGTACAGTACTCTGCAATTGTGTGGGCATTCGCTGTTTGAAGAACTTAAATACTTTGTGTTAACTACACAT----GGTTC
TCTTGACGCAGTGGGCTGGGTACCAGACCGCGGCGGGGCGGGGAGGAGAGTTGTACGGCGGCAGCGCCAGGATCAACGCG
TGGGACCTGGAGCTGAAGCCCGATGAGGCCAGCTCGTCGGTCATGTGGCTCTCCAGCGGCAACAATCAGATCATGTCGGG
TTTCATGGTACGTACGTTCCTGCCTGCATGCTTGAGTTAAATCTCTTTCTAATCACCACACAAAAACGACACGTCCATCA
TCACTCCACTCTGTTGCGTTGCAGGTATCCCCCGAGCAGTACAACGACACCCACCTCCATTTCTTCGTCTCATGGACGGT
ACGTGCGGCGTGCGTGCACCATTCATAAACTGCGCAACTAAACCAGGAGGAGTACGACTCTGTATATGATGGTTGTTGTC
TCGATCTCGACCAGGCCGATGGGTTCAACGCCACGGGCTGCATGGACACGGACTGCCCGGGCTTCGTGGGCTCCACGCCG
CCGGCCAGCGTCACCCCCGGGTCGACGGTGGCGCCGACGTCCGTCTACCACGGCAACCAGACCGAGTACATCGTCACCAT
ACTCCAGGTCCGACCCCAACCGACGCCCGTCTACAA--------------------------------------------
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----------------GTTCTACGTTCGGTTCATTGATGAATCACTGGTGTTTTGAACTTTTGATGCAGGTGGCTGGGAA
CTGGTCCCTCATCGTGGACGCGTCGGGGGAGAACGAGACGGTCGGGTACTTGCCCGGCTCGCTGTTCACGGGCCTGGCGG
GCAACGCGACGGTGGTCGGCTGGGGAGGCAACGCGCAGTCGTCGTCGGGCGTCGCTGGGCCGCCGATGGGGAGCGGGCAC
GGCCCGGACGAGGGGGACGGCGGCGCGGCCTACGTGGCCAGCATCCAGGTGTACGATTCCAAGGGGAGCGCCACCGCCCC
GGCGGCCGGGAACCTGACGTCGCTCACGGACGCCGGAGACTGCTACGGTGCCAGCGATTACGAAGTCGGAAAGGACGACG
GCGGGTTCTTCTATTACGGGGGGCCTCAAGGTTGCAACCACTAAAAAAAAGTAAAATGCACCGGCGGTCATTGAACTTGC
ATCGATAGCTCACTTTGGTCATCGTACTTAAGAATACGGTCAATACGGTTACTATATACATCTGTTGGTGATTATACGGT
CACTGCCTCATCGTGTATAGCTTCGTATTTTCCTCGGTTGACCCGTCAAACAGTCCAAAAGGTGCCTCATCCGCTCAGGT
CCCACATGTCAGTGTGATAAAGAAATAAATAAAAGAAACTAAAATTATGTTTGTTAGGCGAATCGACAGAGGGACTTGTT
GGTGCAACCCAGACGCGCTAGCGAATTGAGCGCGCGGAAACCTTTGTGATGCAAAATTTATTTACTATTACTAGTACAAC
TCAGGGACAACACACCCGATCCTTAAAAAAAAAAAGGGACAACACACACCCAGCACGCAGGCACGTGCGCCCGCAAGAAC
GCGCGCGCCCACACACGTGTGACTACTCTCCTCCTGCCCCCGCAACACACAGGTGCATGCACATCACTTCTCGGTGTATT
GCTCATGGCGCAGCGGCAAGCTCATCGCCTGCCCCCGCCCCCGGCTTTGACGCCGAGCGCGCGTGGTCGTGGACTTATGG
CTTTACGTATCTCGCCTGTCGAACAGTACTGCCGGTCGGCGGCTGCAGCCGAGCTGGTCGACACTAGCCAGTGTGTGTTC
AATCGATCAAATCCATTATTTGTATGTGTGTCTAATCGGCCGCAACCCGTCCATCGAGAGAACATGCATGCATGGCTGTA
TGTGAGAGCGGATACTCTTGTGAGTCTTGTGATCCGGTGTTTGTTGTGTGCATACGTGCTGTGTGCTAGCGTGTGCGTCG
CGTGCGTGCGTACAATGTGTTCTCGTCCTGTGTGCGTCGTGGGTAATTTATACGGAGTATAAACTATAAAGTATCAACCA
ATTTATTTTTTTACACAAAAAAGGTTGTGCGCTCAACCGGTTAGTTTACGTGGTCGGCGGCGGCGAGCGAGAGATCCATG
GTTCGATACCCAACGTCCATAATTCTAGTTTAACTTTAACCCACTCACATGGGGGGATTCACAAAGCCAGAGACAATGCT
TTTTTACCCCACTGACATGCTGGGCCTACATAAGGCAGAGAGAATGCGAGCTGGTGAGGCTCCACTTGGAATCCTTGACC
GGTCAACTAAAAGAAATACAAAGCTATATGATGATGCAGTGACCGTATAATCACCAACAGACGTATATAGTGACTGTATT
GATCATATTTTTAAGTACGATGACCAAAGTAAGCTATCGACGCAAGTTCAATGATCGCCAGTGCATTTTATTCCTAAAAA
ATGTCAGGATTGCTTCATCATGGGTG-------TCGAGACCAACAGTAGTCATCAGAT-------------GGATGATTT
ATAATTACAGTAC---ATTTTATCTAGCAAACATGCATGGGCGGTTGCAAATAATGTATG--------------------
-CTCAAGACCCGCTTTAGGTCCACGTTACCAATTTCAACAGTCTCCTCCGTGTTGTTGCTTATTCTCCTTGATAACAATG
CGTCTGAGCATGGTTAATTATATGATGATCTTGGCCACCGCGCGCACACACAC---------------------------
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>chr1A_2662
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---------------------------CTTTCTGCCAATAGATGCAAATGCAATCCTGAAGATACCTACTTGCACTAACA
ACACCGAAGATTTCTGGGCTTGGTATCCGGACAGAAAGGGCAGGTTCATGGTAGCCTCCGCGTACAATTTTTTTGTTAAA
AACGAAGTTGCAGAGAGAAGAGTGGTTACAGGGAAGAGGTGGTTCATCAAGTGTTCAGAGAGACGAAAGGTCCTGGTGCT
CCTTGTGGAAACTAAAGATTCCCTCGAAGATCAGGATCTTCTTATGGCGGCTGG---CCCATCATTCACTCCCTACCACC
GATGTTCTAAAGAAGCGCAACATGTCAGTTCAAGATGCATGTCCGCTCTGCGGATGTCAGGATTCATGGAGACATGCCCT
AGTTTCATGCACTATGTCCAGATGCATTTGGGCGTTGTCCAATGATGTGATGGTTCAGCGCATGTCTGCCAACATGGAAC
CCAATGCGAGATTGTGGTTATTTGAACTCAGTGATGAATTGGATCAAGCGAGCTTCACAGCGATGGCCATCACTCTCTGT
TCCATATGGTATGCTAGACGCAAAGCGGTCTATGAATCCATCTTTCAAAGTCCCCAACAAACAATTTCCTTTGTAAACAA
CTTTATAGCAGAACTGGGGCAGCTTGCTAATAGCC-----
>SNPs
----------------S--S-S-------------------------------------S----------S---------
----S---S--------S-----S-SSS-S--------------S-S---------S--S-SSSSSSSSS----------
S-S-----S------------S---------SSSSSSS---------SS---------------S---------------
------------------------------------S-S-----------------------------------------
------S----------S-S----SSSS----------------SSSSSSSSSSS--S-S-------------S-S----
-----------------------------S---------------------S------------S---------------
--------S-----------------------------------------------------------------------
S--------------------------S--------------S----------S---------------------S---S
-S-----------------------S-------------------------------------------------S----
----------SSS--------------------------------------------S-----S---S----S-S----S
S-------------S--S--------------S--S-----S------SS-------------SSSSSSS----------
-------S------------S-----------------S-----S---------------------S-S-SSSSS----S
-S-------------S--------------SS-S------------------S---------------------------
-----------S------------S--------------------------S----------------------------
-------------S-S-S-S-SS-SS-SSS----------------S-------------SS-SSS--------------
---------------------------------------------------S-S--------------S-----------
-----------------------S----S-------S--------------S----SSSSSS-S----S--S--------
---------------------------------------------------------S----------------------
------------S----------------SS-------------------------S-------------S---------
S--------S------SS--SSSS---SSS-S---SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSS--S--S-S--------S--SSSSSS-SSSSS---------------------------------
-------------------SS----------------------------------------------------------S
---------------------------------------------------S---S--------------------S---
--S-------------------S----------------------SS--------------------S------------
-------------S-------------------------------------------------S----------------
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----S-----S---------------SSSSSSS-------------------------SSSSSSSSSSSSS---------
-------------SSS-----------------------S------S-------------SSSSSSSSSSSSSSSSSSSS
S-----------------------------S-------------------------------------------S---S-
-S-------S-----------S---------S-------------S-S-----SSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSS-------------------------S---------------------------
-------S------------------S---------------------S----------------------S--------
-------S------------------------------------------------------------S-----------
-----------S----------------------S------------------SSSS-----------------------
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----------------------------------------S---------------------------------------
-------------------------------S--------------------------S---------S---------SS
-----------------------------------------------------------S------------------S-
-----------------------------------SSSSS
>forward_642
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--------------------------------------------------------------CATGCTACCACAAGCTCG
GT------------------------------------------------------------------------------
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>reverse_1914
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-------------------------------------------------------------------------GGGCGTC
ACACAAAAAGGTC-------------------------------------------------------------------
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>forward_1687
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-------------------------------------------------------------------GCTAGGCGCTGCA
CTGTATA-------------------------------------------------------------------------
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>reverse_4374
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-----------------------------------------------------ATGCCCCATCATTCACTCCC-------
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