Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_043907
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 179562
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Found at i:14471 original size:27 final size:27
Alignment explanation
Indices: 14389--14479 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
14379 GAAAAGCGAT
* *
14389 TATATAAACGAAACTTCAGTTTCTGCA
1 TATATATACGAAACTTCAGTTTCTGTA
* * ** * * *
14416 TATGTATATGCTATTTGAAGTTATATGTA
1 TATATATACGAAACTT-CAGTT-TCTGTA
14445 TATATATACGAAACTTCAGTTTCTGTA
1 TATATATACGAAACTTCAGTTTCTGTA
*
14472 TATGTATA
1 TATATATA
14480 TGCTATTTCC
Statistics
Matches: 45, Mismatches: 17, Indels: 4
0.68 0.26 0.06
Matches are distributed among these distances:
27 22 0.49
28 8 0.18
29 15 0.33
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (27 bp):
TATATATACGAAACTTCAGTTTCTGTA
Left flanking sequence: Indices 13889 -- 14388
ACCTCGTTCTTGATGGTTTGCCCCTAGTCGAGTCCTCCATCGAATAATATAACGCTTAAACCCGG
TAGACATTCGCGGCTGCTGGATGATCGCCGATGTGAGCTGTCACATAACCCCGATCTACGAAGTG
TTCCACAAATTGCTTTGTCATTAAAAACCTCGAAGGAACCGCAAAGGCTATAATTAAGCCTAGAA
CGTATCAACTGCAAACTGCGCAGACTATCCATGAATAAATGAAAGGCTCGGAAAGGTCCAGTACG
CGCTGTCGTTCCGCGTACGAAGATAAAAACATAAAGGTGTACGATACGCGGCCTAACTCGGGCAC
TTCGAAGAAATGAGTAACTTTCAAACAAAATTTTGGGGGTAATCAATCACATAGGTATAATAAAC
GCGGATTAGCACATAAACGCCTCTGACTGCTGCAATTAGATAGTAACTTTGGCGGCTTCTTTCCA
TAAATTATTTCGACGTGCACCTCGACAACGAATGTGAAAAGCGAT
Right flanking sequence: Indices 14480 -- 14979
TGCTATTTCCAATTATTTATCTGTATACGAAACTCCAGTTTCGTGTATTCTATATGATATAACAA
GTCCTACATGCTATGCGTTATGCCGCCGCACTCCGCGACACGCCCCGGGGCCGTCTTCTTCTGGG
AACCAATAACACGTAAACTATGTGAAACTGGAGCGAATCAATATACAAAAAACACGAATTATAAT
TTCCTCCAGAATTGTTTTTAATACAAAATGCATTATATTTCGTCGTGTGTTGGACTTGATAAAAA
CCAGGAAAACGCAAAGCAAAAAAAAATATTTTTTGTTCGTTTTATTCCATCGGACCCTTTCTTTT
TCAGCCTTCATTCGCGATGCGAATAAAGCGGGAGAGAAGAAAGAAGCAAGCTTCTCTGGAATTCA
CTCGTCTTTTGCGAAGTGGTTAGTAATGTGCCGCATTCTTAGCTCAGTTGGATAGAGCAACAACC
TTCTAAGTTGAAGGTCACAGGTTCAAATCCTGTAGAATGCGTAAA
Found at i:14534 original size:54 final size:56
Alignment explanation
Indices: 14389--14535 Score: 185
Period size: 56 Copynumber: 2.7 Consensus size: 56
14379 GAAAAGCGAT
* * *
14389 TATATAAACGAAACTTCAGTTTCTGCATATGTATATGCTATTTGAAGTTATATGTA
1 TATATATACGAAACTTCAGTTTCTGTATATGTATATGCTATTTCAAGTTATATGTA
14445 TATATATACGAAACTTCAGTTTCTGTATATGTATATGCTATTTCCAA-TTAT-T-TA
1 TATATATACGAAACTTCAGTTTCTGTATATGTATATGCTATTT-CAAGTTATATGTA
* * * *
14499 TCTGTATACGAAACTCCAGTTTCGTGTAT-TCTATATG
1 TATATATACGAAACTTCAGTTTC-TGTATATGTATATG
14536 ATATAACAAG
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
54 29 0.35
55 6 0.07
56 45 0.55
57 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.43
Consensus pattern (56 bp):
TATATATACGAAACTTCAGTTTCTGTATATGTATATGCTATTTCAAGTTATATGTA
Left flanking sequence: Indices 13889 -- 14388
ACCTCGTTCTTGATGGTTTGCCCCTAGTCGAGTCCTCCATCGAATAATATAACGCTTAAACCCGG
TAGACATTCGCGGCTGCTGGATGATCGCCGATGTGAGCTGTCACATAACCCCGATCTACGAAGTG
TTCCACAAATTGCTTTGTCATTAAAAACCTCGAAGGAACCGCAAAGGCTATAATTAAGCCTAGAA
CGTATCAACTGCAAACTGCGCAGACTATCCATGAATAAATGAAAGGCTCGGAAAGGTCCAGTACG
CGCTGTCGTTCCGCGTACGAAGATAAAAACATAAAGGTGTACGATACGCGGCCTAACTCGGGCAC
TTCGAAGAAATGAGTAACTTTCAAACAAAATTTTGGGGGTAATCAATCACATAGGTATAATAAAC
GCGGATTAGCACATAAACGCCTCTGACTGCTGCAATTAGATAGTAACTTTGGCGGCTTCTTTCCA
TAAATTATTTCGACGTGCACCTCGACAACGAATGTGAAAAGCGAT
Right flanking sequence: Indices 14536 -- 15035
ATATAACAAGTCCTACATGCTATGCGTTATGCCGCCGCACTCCGCGACACGCCCCGGGGCCGTCT
TCTTCTGGGAACCAATAACACGTAAACTATGTGAAACTGGAGCGAATCAATATACAAAAAACACG
AATTATAATTTCCTCCAGAATTGTTTTTAATACAAAATGCATTATATTTCGTCGTGTGTTGGACT
TGATAAAAACCAGGAAAACGCAAAGCAAAAAAAAATATTTTTTGTTCGTTTTATTCCATCGGACC
CTTTCTTTTTCAGCCTTCATTCGCGATGCGAATAAAGCGGGAGAGAAGAAAGAAGCAAGCTTCTC
TGGAATTCACTCGTCTTTTGCGAAGTGGTTAGTAATGTGCCGCATTCTTAGCTCAGTTGGATAGA
GCAACAACCTTCTAAGTTGAAGGTCACAGGTTCAAATCCTGTAGAATGCGTAAAGTGCGCAATGA
ATAATATATACCAACGGTACGTCCTTCTACTTGTTTGATTAGTCT
Found at i:20886 original size:17 final size:17
Alignment explanation
Indices: 20864--20898 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
20854 ATGTGCGATA
20864 CATACTAATAACGCTAT
1 CATACTAATAACGCTAT
20881 CATACTAATAACGCTAT
1 CATACTAATAACGCTAT
20898 C
1 C
20899 TCGTGCGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.26, G:0.06, T:0.29
Consensus pattern (17 bp):
CATACTAATAACGCTAT
Left flanking sequence: Indices 20364 -- 20863
GTAGAATATAGGTGCATATTTTAAGCATAAAGAAGACGAGATCGAGTTATCACGATCAAAAAAAC
GTATGGAGGGGATACGTGCAAACGAACGTATTAAGCAAACAGAGTTGGGTTTTAAGCAACAGGAA
CGAGATTTCAATCTATTTGATTCGTTAAGACAGCACGAAAATACAAGGGATGCCCAGGAATACCC
AAAACTCTTGGAAGAGAGCTACGCCGACATGAAGAAAGGTGGTCCTGTAAAGCCGAAGAAGTCGT
CTCCCTCGCTAAGACTACCGGTGAAGGCATGATGCTGAGCGAATCGTTGCGCTTTGGAAGAAAAA
CTTATAATCAAACAAATGAGTTTTTGATTTCATAACTCCTCGACTACGTTACTACTTGGGTACCC
ACCACTGCGTTCCTCTGGCAAATCGGTAAATTTACTCGTTCTTTTCGAAATAAAAATAAATAAAA
AATATGTCCATCCATTTAATCTTCTTCATCTTCCAATGTGCGATA
Right flanking sequence: Indices 20899 -- 21398
TCGTGCGGAGAAGCGAGAGGTTCATGGCCGCCGTCTCCGGTGGTCCCCTTCCCTTGTACTAGCAT
CGTACCTTCTAAAACCACTCCGGTTGGTTACCACATTGGCTGGCCCGAAAAATATGCTAGCCCGG
CTACCAAGAAGAGTATCCCGAGTTCGCCATCAATGTAATGTGCCATTCATTCCGCACAATATGCA
GTTGCTAAAGCAGGATAAAAAGCTTGTCTGCCGGCGGGGGTTGGATGAGATCCGTGTTCGTGGAC
GAGCATCCTCCATTAAGTACGTCCAGACTTAGCTAATCTTCTTCTTTGCGCGAGACTTGGGAGGA
GTCGGGGATGACGATCTGTTCCGACGCTAACCTCCTATTCTTCAGTGCGAAATGCTTCCGACCTT
CGAGCGGCGATGGAGGAGATACTTTTTCACTCGCCTATCGGCGTCGTATGTTCAAAAGACGGCCT
CAGTGTGACTTGAAAGAGAAGTGGCGAGCCGGCTGGTGTTTAACG
Found at i:35556 original size:24 final size:25
Alignment explanation
Indices: 35512--35558 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
35502 TCCGATGAAT
* *
35512 GATACTTTAATAATGCGATTACAAC
1 GATACTTGAATAATGCAATTACAAC
35537 GATACTTGAA-AATGCAATTACA
1 GATACTTGAATAATGCAATTACA
35559 TAATAAATCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.30
Consensus pattern (25 bp):
GATACTTGAATAATGCAATTACAAC
Left flanking sequence: Indices 35012 -- 35511
CAAGGGCCCCAAAGCCGACCGGGGACTGTCAGATGGAAAAGGGAAAAAAAAACTGACGGAAAAAA
CAAAAATAGGACACGAGCTGAAATGGCTGAGAAGGAAGGCACGTAGTACTTCAATCTACAGGCCC
GAACACGCTCCCCGCGCACTCCGTGCCTATGGGTCCGGAGGTGCGTAAGCACTTTCAGACAGGAT
ACTTCTTTACGGAAGAAGGACCTGAAGGGCACGAGACTCTAAGGAGAGGTGCTACGCACGGCCCA
AAGGGCCGAAGGTTTCGGGTTTTACTTCTTCATCGGTCCCTTATCGCCTCTTATTACCACCATAT
TTATCTATGAGGATTCATCGGATTCAGCCTTTATTTATCCATGCCTCTCTATTCATCTATAATGA
TTCCTCATTCCTCTATGCTTATTCGAGGCTGGGGACGGAAACGAGCTATTCATCATGGAATTACA
TAGTTAATGGCATAACTGGAAAATTCATCGTATATTCCGATGAAT
Right flanking sequence: Indices 35559 -- 36058
TAATAAATCGCATTTTTAAGCAAATCAATGAGGCGGACAATGACCGACTCGGACTCTTACGGACT
TGAGCGAACGTATAAAGGCTGAAGAACTAATACACGTCCGTGAGGCCAAAAATCTCTTTCTTTTT
TCTTAGCCTTTCCCATTAATGCTGATCAATCAAATCCTAAGCATTAATATAATATTCTTTGGGGG
AGCCAAGGTGTAGCGCAATCTGGTAGCGCGTCTGCCTTGGGCGCAGAAAGTTACAGGTTCAAATC
CTGTCACCTTGAATCAAAATCGGAGTCAACTAAAAAGATGAAAATAAATCGACCGTTATCACCTC
ACCTTACCATCTATAAGCCACAGCTTACTTCGACGTTTTCTATTTTCCATAGAATATCCGGGGCG
TTCTTGGCCACTATGGTTTTGTTTAGTATTTTTTCTTTCAAAATAGGTGATCTCAGCCTCACGTT
TTATCATTTTTACCAGTATTTCTTCTTTCTCACTTTCTATTTGAA
Found at i:37176 original size:21 final size:21
Alignment explanation
Indices: 37151--37196 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
37141 AAATGATAAG
37151 AAGTATGAGCTGGAGAAAGAA
1 AAGTATGAGCTGGAGAAAGAA
* *
37172 AAGTATGAGCTGGATAAGGAA
1 AAGTATGAGCTGGAGAAAGAA
37193 AAGT
1 AAGT
37197 TCGAGTACGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.33, T:0.17
Consensus pattern (21 bp):
AAGTATGAGCTGGAGAAAGAA
Left flanking sequence: Indices 36651 -- 37150
ACTCGTAAGTGTTTTAGCAAAAATAGTAACTGTGTTTATAATAATCTACTATCGATTAAGACGCA
ATTTTTTGGTGTTTCAAATCACCGAAAATTCACAAAAAATAATAACGTGGGATTTTATATTGAGT
CAGCTCCGGGGGGGTGCTCGTCAGCAACAGTCGGCCGGCTACAAGGATAATATTGAAGAGTTTAT
AGGGCCTTTTTTTGTAAATAAACTATCAAACAAATCCTCAGTCAGTGACCTTACCGTTTTTTACA
AGGCCTTATTATGCTTCAGTTGCAAGAGAAGCACCCGGTAATTCTGACGCTGGGGCCGCCGGTAA
ATCCGCGGGACAATGAGCAACTGATTGGGTCTATTAAGATTCTGGGGAAACCCGTCTATTGCTGT
CATTGTAGGCGGGGTTTTTCGGTTATAAAATATATGGCAATGAGCGTGGAAACGCTCGAAAAGAC
CAAGCCCTGGACCAGAAAGATGAAGAGCTCGCCCAAAATGATAAG
Right flanking sequence: Indices 37197 -- 37696
TCGAGTACGAAAAGTTGAAAAAAAAGGGAGGCCATGTAAGTAAGATCTTAACGCCCCGACTCCGG
AGGATCCACAGTCGGAATTTATTCAAAAGCATGGAGGGCTTTCAGGGGAGCTCGTAACAAAGGCC
TTTTTGAGCCTACGTTTAATATCTTCGATTTCTTTTTTTCACTTTCCCAAGAGCAGCGCTACGCG
CCCGGCTTTGTTGTTTTAGCCAAAACTAATCCTATTTTAGCTATTACCCTGTCTATTACTATGTT
TTCATACGCAGGAATACCCCCATTAGCTGGATTTTGTAGCAAATTCTATTTGTTTTTTGCCGCTT
TAGGCTGTGGGGCCTACTTACTAGCCCTAATAGGAGTAGTTACTAGCGTTATCAGTCGTTTTTAT
TATATACGCTTTGTGAAAATAATGTATTTTGATACACCCGAAACATGGATTTTATATAAACCCAT
GGATCGTGAAAAATCGTTACTACTAGCAATCACTGTCTTTTTTAT
Found at i:40096 original size:2 final size:2
Alignment explanation
Indices: 40083--40128 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
40073 CCGGAAAGAA
* *
40083 AT AT AT AA AT AT AT AT AT -T A- AC AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
40123 AT AT AT
1 AT AT AT
40129 GCTGCGCCCG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Left flanking sequence: Indices 39583 -- 40082
TCTCAGATTGGATGTGACCGACACGGTACGGTATGCGGTTTGCTCCCTGTTAGGCCTTTGGATCT
CTAGCTATGAAAAAAAGCGAACAGGCGGACAAAGCGGCGTTGAAAGTCCTCTAGCTTCTCTATCA
AGCTATAGGGGACGGCGCAGCACAAAATAGTTTTAATTCACTTGGTCCACCTGCCCCGGCTCCCC
TGGCGGAACTTGCCAAGGATGCTCGAACTCTGCAAGGCGATAAGTATAAACTCTGGAATCGTTAA
AAAAGCAGAGCAACCCGACAAATACGAGAGATCATTCTATGCCCTGTCTTGCGTGGCTCCACTCA
AGGGGCTGTTCAGCACTACAAAGGCTCCCCGCTCTCTGCGCATCGACGGAGAGCGCGGAATGGAA
TCATGCTTTTGATACGACGAAGAAACCTATTCCGTTTATTCGGAGATACCACCCGGAGGCCCATG
AGGAAACCCTAGAGGAGATAATCGGTTTTCGAAAACCGGAAAGAA
Right flanking sequence: Indices 40129 -- 40628
GCTGCGCCCGTAGTGAAAGAGGGACCAAAGTAAGTAGAGTTAGTGAGCCGTGTAATGGGCAACTA
TTTCGCACGGTTCGGAGGGCACTTCAGTAAGCCCTACATGGGCTGAAGTCTTGACCCCTATTCCT
TTTGATGATGCCAGAAGTCGTTTCGATATACGATTTTATCTTGTTTCTATTTTATTTATTATATC
CGATTCGGAAGTCACCTTTTTATTTCCTTGGGCAGTTTCTCTTAACAAGATTGGTTCGTTTGGAT
TCTGGTCTATGATGGTATTTTTATTTATTTCGACGATTGGATTTGTATATGAATGGAAAAAGGGC
GCTTTAGATTGGGAGTAACTCTTCATTCGCTTTCGCGAATGGAGTGGAAAGAAAAAATATAGGCC
CGTAGGGCTGAAGCTCTCATCGCTCTCTTTCTCCCTCTCCGGACACTTTTTTGGTCCAAAGGACA
CGAGACCTTAGGGTATCGTGTGCGTCGTCAAGCCATATCCGGCCC
Found at i:41981 original size:29 final size:30
Alignment explanation
Indices: 41927--41984 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
41917 CCATGAAAAA
41927 AAGACAAAGGGATAATATGCTAATACCTCG
1 AAGACAAAGGGATAATATGCTAATACCTCG
* *
41957 AAGA-AAAGGGATAATATTCTCATACCTC
1 AAGACAAAGGGATAATATGCTAATACCTC
41985 TATTGACGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.22
Consensus pattern (30 bp):
AAGACAAAGGGATAATATGCTAATACCTCG
Left flanking sequence: Indices 41427 -- 41926
ACCAAATGAGAGGATTACGAGATGGAACCCCCCCCCGTAAATGTGATCCAATTGTGAAAATCAAT
CCGCCGCGAACGTGACGATGTGACAGATAGATTGATATATAGAAAAATAAAATGAGCGGCCGGGG
AGGCTAGTTACCGGGCGGGGACCGAAATGCGCAACGGTGACGAATTATCGCGAATGTGACGGAGA
TATTAGGAAGTAATAATAATAACAATTGTTTCATATTATTACTATTACTACCAATAATGGATAAG
GCTTATCCATACAATATGCCCTTATTGGAACTAATAGGGCCCGGCTTCCTAAACGGTGCCGTCTA
TCAAAATATCTCGGCGGGACCACAAGCCGTCCCCGCCGGTCGACTAAAAACCCCAGTATAAGGAT
TTGGAACCAGAAAAAGCCATTGAAGTCCTTGGACGGGCCCATGTATCTTACGGAGTGTTGGTCAA
ATCAAAAACAATTTTTGATTTGACCATGAATTTGGCCATGAAAAA
Right flanking sequence: Indices 41985 -- 42484
TATTGACGGGCACGGGGTGCTGTCCAATTCCAATGTGGCGTGGTGCTGAGCACCATTCCCCGAGG
AACCATTCTCGGCGGCGGGCACCCGACACGAAATGGGCCGTAGGGGTCCAGATTATTAAAGGCTC
CGGTGTATAGATAATCAAATATATACAATATTTATCCCGGTCGGGAGTGACTGGACAGCGCTTTA
CAGCTCCTCCGTGTACCATACGGGGGGTGATGATACAGCCCCATAATTGCGCGTAGCGCACCGAT
TCAATTATTTCTATCAACATCGAAGATTTTGTATTTGTCGCCCGAGGACGATTCATCTTTTTTTT
AGTAGTTCATTCATATATCTTTTTTTTCGGTGGTTCATCCATATAGAAATAGATGATATTTATTC
CTACGATGGTTTAGCGACGACCCACTCTTAGATGCCCTTATATATCAATGATAAGAAATATATAA
GGGCATCTAACTGTCATATTGGCCCGAAGAGCGTAAATGCTAGTC
Found at i:42345 original size:28 final size:27
Alignment explanation
Indices: 42299--42354 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
42289 AGGACGATTC
*
42299 ATCTTTTTTTTAGTAGTTCATTCATAT
1 ATCTTTTTTTTAGTAGTTCATCCATAT
* *
42326 ATCTTTTTTTTCGGTGGTTCATCCATAT
1 ATCTTTTTTTT-AGTAGTTCATCCATAT
42354 A
1 A
42355 GAAATAGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 11 0.44
28 14 0.56
ACGTcount: A:0.20, C:0.14, G:0.11, T:0.55
Consensus pattern (27 bp):
ATCTTTTTTTTAGTAGTTCATCCATAT
Left flanking sequence: Indices 41799 -- 42298
AAACCCCAGTATAAGGATTTGGAACCAGAAAAAGCCATTGAAGTCCTTGGACGGGCCCATGTATC
TTACGGAGTGTTGGTCAAATCAAAAACAATTTTTGATTTGACCATGAATTTGGCCATGAAAAAAA
GACAAAGGGATAATATGCTAATACCTCGAAGAAAAGGGATAATATTCTCATACCTCTATTGACGG
GCACGGGGTGCTGTCCAATTCCAATGTGGCGTGGTGCTGAGCACCATTCCCCGAGGAACCATTCT
CGGCGGCGGGCACCCGACACGAAATGGGCCGTAGGGGTCCAGATTATTAAAGGCTCCGGTGTATA
GATAATCAAATATATACAATATTTATCCCGGTCGGGAGTGACTGGACAGCGCTTTACAGCTCCTC
CGTGTACCATACGGGGGGTGATGATACAGCCCCATAATTGCGCGTAGCGCACCGATTCAATTATT
TCTATCAACATCGAAGATTTTGTATTTGTCGCCCGAGGACGATTC
Right flanking sequence: Indices 42355 -- 42854
GAAATAGATGATATTTATTCCTACGATGGTTTAGCGACGACCCACTCTTAGATGCCCTTATATAT
CAATGATAAGAAATATATAAGGGCATCTAACTGTCATATTGGCCCGAAGAGCGTAAATGCTAGTC
GCTATAAAGCGACGAAGCAAATACGCTTCGCGTATCCTTAGTTCGGGGGCCGACGGTATAACGTG
TCATTTCATAAAGGCAAGAGTACCCCCCGTCCTGGCATCTGGCAAGTAGATGGATCGAACCGCCG
CCGGTCGAGCCCTCAGAGATCGAGAATGATTTCCTCTCACCCGGGTACCGAGTGAAAAGATAATA
AAAATAAAATAGATATCGGCCATCATCCCGTCCCTGTTAGTAATGGAGACGCTACGCTTCTCAAG
TACTAGGTTCCCGCCGCCGGCACCACGTCTACGACGGCGGCCGACGCATCGCGGAAGGCGAAGGT
ATCGTTTCCCGTCTGTCCGTCGTAGACGGCTAATTGTTTACGACG
Found at i:59864 original size:53 final size:53
Alignment explanation
Indices: 59774--59885 Score: 163
Period size: 53 Copynumber: 2.1 Consensus size: 53
59764 CCTTGGTCCC
* * *
59774 AAGGGCCGAAGGCCGGAAATGGCTTGACGATTTCCGCACACGATACTGGGAAG
1 AAGGACCGAAGGCCGGAAATGGCTGGACGATTCCCGCACACGATACTGGGAAG
* *
59827 AAGGACCGAAGGCCGGAAATGGCTGGTA-GATTCCCGCACACGATATTGGGGAG
1 AAGGACCGAAGGCCGGAAATGGCTGG-ACGATTCCCGCACACGATACTGGGAAG
59880 AAGGAC
1 AAGGAC
59886 ACGAGACCCA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
53 52 0.98
54 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.35, T:0.14
Consensus pattern (53 bp):
AAGGACCGAAGGCCGGAAATGGCTGGACGATTCCCGCACACGATACTGGGAAG
Left flanking sequence: Indices 59274 -- 59773
TTCGTCTATGGGCATTGTAGAAAGAATCGAATATGACCCAAATCGTTCGTCTTGGATTGCTTTAG
TACGATGGATCGAAGGGGTTCTACGCCCTGGGAAGCACCCGGCTTTTTCTAGAGCGAATAGTCGA
AGAGAAAAAAATATGTTCTTTTTCGGCCTCTTATTCTCGTTCTCTTCGCTGCCTAGACAAGCTCG
GGGAATAAAATACGAAAAAACGAGGCCCGGAGGCGGGCAGATACTGGAAAGTTCCTGGGTCTTAA
GGACACGAGACCTTAGGGCCAAAAAAGTGGCCTTAAGACCTTTGGGTCTTGGTTTACCCGGCGTA
GCAGTAGCTGGGGCAAAGCCCGCTTTCTTCGCTTTTCGAGGCCCTTCCTCCCTAACGGGAAGAGA
GCGCCTGTCGGCCCTCAGGGAAGAAAATACGTTTTCTCGAAGCGAAGGCCAAAGGTGGAGAACGC
ATAGCGGGGCGCCGAGAATAAAAAGCCTAGTACTCCCTTGGTCCC
Right flanking sequence: Indices 59886 -- 60385
ACGAGACCCAAGGGAGAGGCACGTAGTGCTCGACCCTTCTTTCTACAAGCCCGAACACGCTCCCC
GCGCACTCCGTGCCGTCGGGCCTTCGGGTTCGGGTCGAGTGCTACGCACCTCCGAGCCTTTCACT
TATATATTAGCCAGTGAAAAATTGGAAGCAGGCAAGACGGTGATGAATTTTCATTGGTCTAAACC
TTCGACCCCGTTAAACTACCATCAACCTTCCCAGAAAGCTAATGACCCTTCGGGCCTTAGGGTGG
AGACCGCGCGGCGGGATAGCCAAGCTTGGCTACACGGAGACTACGCTTCTAGTGAGAATAAATAC
ATACTTGATTCATATTATAAAATGGTCGGAAATTGCATACCATTAGCCAAAATACCTATAGGCAC
GTGGGTACATAATATTGAAAGGAACCCAGGTCAAGGCGCAAAGTTTACTCGAGCTGCGGGAACCT
TTGCTCAAATAATTAAGAAAGTTGAGAATACACCACAATGTATTG
Found at i:68274 original size:27 final size:27
Alignment explanation
Indices: 68244--68299 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
68234 ATAAACACTC
* *
68244 ATGCAAGAAAAGCACGGTATTACTAAT
1 ATGCAAAAAAAACACGGTATTACTAAT
* *
68271 ATGCAAAAAAAACACTGTATTACTTAT
1 ATGCAAAAAAAACACGGTATTACTAAT
68298 AT
1 AT
68300 TCAATCAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.27
Consensus pattern (27 bp):
ATGCAAAAAAAACACGGTATTACTAAT
Left flanking sequence: Indices 67744 -- 68243
AAAATAAATCATGTCATATATTTTAGGAACCAATCTAAATTCCAATAAACAGGTGAAAATTGCCT
TAACTCGAATCTTTGGAATTGGGCCTAAAAAGGCAATTCAAGTTTGTGATCGATTAGGCCTCAGC
GATAAAATTAAGGTTAATAAGTTAACTAAGTATCAATTTGACCAAATTCTAGAAATAATAAGTCA
AAATTATTTAGTCGATTCGGAATTGGAGAGAGTCATTCAGAGAGACATCAAACGATTAATTAGTA
TTGGTTGTTATCGCGGGTTTCGCCATAATGCAGGATTGCCCTTACGCGGCCAACGGACTCATACT
AATGCTAAGACTTCTCGCAAATTGAGATACATTTCGATCAGAAGTTGAGAAAAGTTTTTTTCGTT
TTTTTCCAGTTCGTACAAAATATCTTTGTAATTAGTGAACGGATTGGATGGATCATAAAAAAACG
GAATCGATGGTATCGAGCAACACCAAAAACATTCAATAAACACTC
Right flanking sequence: Indices 68300 -- 68799
TCAATCAACTTTTGGTAATACAATTATTACTTTAACGGATTATGACGGAAATACAAAAACTTGGT
CCTCCTCGGGTTCAGTGGGGTTTAAGGGATCTCGTCGCTCAACCAATTATGCTGCTCAAGCAACT
GCAGAAAATGCCGCGCGAGCTGCCATTCAACTTGGATTTAAGTTTGTTGAAGTGAGAATCAAAGG
ATTGGGTTATGGAAAGGAATCTTCGCTACGTGGTTTAAAACTAGGAGGTCTTATTATTACCAAAA
TTCGCGATGTAACCCCAACGCCACATAATGGATGCCGACCCCCTAAAAAACGTCGTGTTTAAATA
TCATCATAAAGTGCTATGTCATCATAAAATGGTAAATTGAGGTTCAAGAGTAGAAAAAATTTTTT
TAGGGAGGGAGACTACTTCTTTGGCTTCACAGGGCTTAACCCTTCCTTCGTAAAGGCGAAGAAGG
AAATCTACAAGCCATGTCTGGCCTTCGGCCCTTCGGACCCACAAA
Found at i:92742 original size:15 final size:15
Alignment explanation
Indices: 92722--92753 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
92712 ACTTGTTTCT
92722 ATGATAGCATATGCC
1 ATGATAGCATATGCC
92737 ATGATAGCATATGCC
1 ATGATAGCATATGCC
92752 AT
1 AT
92754 TACGTCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (15 bp):
ATGATAGCATATGCC
Left flanking sequence: Indices 92222 -- 92721
AAAGGCGACTAATGGGTAATATGTTGGGCTTGGGAGGGGCATTCGAAATGGCCGAGAAAGTCCTT
CGGAAATACTTATTTGGCTGGGTCCTCTGGCCGACTCGACGATTTCCGCCCCGAAATCCTGCCGG
CCTTGGGCTTTCGGCAGAGGGCCTTGGCCTTCGGCGGCTTCGGCCTTGGGCCTTAGGCCTGCTGC
TTGTGGCCCTAGCCGGCCTAAGGCATGTAGCCAGCCGAAGGCTGCCCCTGAATGGGGTTTTAAGG
GTTACAAGCCCTCCAGCATTTTAAGTAAGCTCGCCAGAAGTTGATATTTTCATCTGAAATAAAAG
CCAAAAAAGACGGCAAGCATGGTTTTATATTTAATAGATCACCGGGTAAACAAACACGGATTCCG
CTTTTTTGTCCTTTTGCAAAACTAGATTCTTTCAATACTATTTGTATTATTGCCTTCGGCTGTAG
GAATGGTTACGGGACAACTATTACGGGAGATTTCTACTTGTTTCT
Right flanking sequence: Indices 92754 -- 93253
TACGTCTTTATTTGTTGAACTCGGGGAACGAAATGAAGTTATTCATATATATAGCATCAGTTTAC
TATATAAGACTCAGGTATAAAATTCTGAATGATAATCAACTCCAATTTTATAGAGCTTATAAGGA
TTCTTGGGGCGCAGGCGGTTTGAACGATGCCAACCGCACCCTTTAAAATCGTTCGGATTTAAATG
GCAACCGGATACCCAAACGTAACATGGGGCGCTGTGGGCTAGCAAACGCAGCGCCCAAACATGCC
CCATTGCCAGCCGCTACGGGTACGGGCAGACTAGCCACAGTTGTGGCTGGAGGGGCGGTCGGCAT
TGCAACCACTAAGATGATCGCGGACCCGAACGGAGAAATCCAGAAGTCAAAAATGGCGCTGACGG
AAAACAGAATTTGGCCAATATGGCGTGGCATTGGAGCTTAAAATGAACCCGTCCAAGCACACGGG
GACAAGTTCTCAGAATTTGCTTGAGGACGCACGGGCAGAGTTGGA
Found at i:94376 original size:2 final size:2
Alignment explanation
Indices: 94369--94404 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
94359 ATAAATTCAA
94369 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94405 TTGTGTATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Left flanking sequence: Indices 93869 -- 94368
TCAAACGCTGCGTCGTTTCGGGCAATAAATTAAGTAATGACCTAGTAGACGACCGCGAACAAATA
ATAACAGAAGTTGTTTCCAATCAGATTCAAAAAGAGCCAAGCTATCCCAGCCCGCCGTAAAATTG
CTTCCAATAGATATAGTACCCGAAATCTCCCCGCTAACATGAAGGAAGCATTGCTAAATGACTAA
ATTTCGCTAATATGACTAAATCCCGAGGATTTGTAGAGAAATATATATAATTAATACTCCGGAAT
CCTCATCGCTAATGACACCTTCGCTAAATGACGCATATTTAGCTAATATGACTAAACCTGTTGGG
GATCTGTAGTATAATACGGAGAGGAATACCCCTTAATTAATATGGAATTAAAGGGTCAGGAAGGG
AATATATAATAGGAATCTCTATGGGATATGGAAGAATTCCATAGAATTGGGAAGAGTTAATCAAT
TGAATTAGAATAAATAGAATGGATTAAGAAATAAAATAAATTCAA
Right flanking sequence: Indices 94405 -- 94904
TTGTGTATAACGGAGGAAATGCATAAATAAAATAGATTCTATTATTTATAGGAGAGACTATTAAA
TTCATGTTTATTCTTCGCCCATCTTCCAAAAGAAAATGAGCTCCTATTTTTCTTCTTCGAGAGAG
AGGATGAGCTGCAATAGATATATCTATATATATCTATATATATAGATATATATAGATAATTTATA
GGTCAGGGGAGATAGCCTCGACCTCTAACCTTTGAAGATACTGAGGGCCTGGATCTTCCCTACTT
GGGTTACCACGTTCTTGAGATCTGTTACATAGGCCTCTAGTTTTCCCTCGGGAACGCCCAGAGAC
TTCCATCGTGGAAGTGACATAGGAACTCCTCCTCCGGGCGGGGATCATGGCACTTCTCATAGAAC
CTTAGGGACGCTTTTTCGCTAGGAGCCCAAACTGGACTGAAGATAGGAAGCATAGATCGGGGGGG
GGAACGTATTTTCGGTCACGCGGTACGTACGGCCTGTAGGTCCCG
Found at i:94567 original size:10 final size:10
Alignment explanation
Indices: 94552--94587 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
94542 GCTGCAATAG
94552 ATATATCTAT
1 ATATATCTAT
94562 ATATATCTAT
1 ATATATCTAT
**
94572 ATATATAGAT
1 ATATATCTAT
94582 ATATAT
1 ATATAT
94588 AGATAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (10 bp):
ATATATCTAT
Left flanking sequence: Indices 94052 -- 94551
CTAAATGACTAAATTTCGCTAATATGACTAAATCCCGAGGATTTGTAGAGAAATATATATAATTA
ATACTCCGGAATCCTCATCGCTAATGACACCTTCGCTAAATGACGCATATTTAGCTAATATGACT
AAACCTGTTGGGGATCTGTAGTATAATACGGAGAGGAATACCCCTTAATTAATATGGAATTAAAG
GGTCAGGAAGGGAATATATAATAGGAATCTCTATGGGATATGGAAGAATTCCATAGAATTGGGAA
GAGTTAATCAATTGAATTAGAATAAATAGAATGGATTAAGAAATAAAATAAATTCAAATATATAT
ATATATATATATATATATATATATATATTTGTGTATAACGGAGGAAATGCATAAATAAAATAGAT
TCTATTATTTATAGGAGAGACTATTAAATTCATGTTTATTCTTCGCCCATCTTCCAAAAGAAAAT
GAGCTCCTATTTTTCTTCTTCGAGAGAGAGGATGAGCTGCAATAG
Right flanking sequence: Indices 94588 -- 95087
AGATAATTTATAGGTCAGGGGAGATAGCCTCGACCTCTAACCTTTGAAGATACTGAGGGCCTGGA
TCTTCCCTACTTGGGTTACCACGTTCTTGAGATCTGTTACATAGGCCTCTAGTTTTCCCTCGGGA
ACGCCCAGAGACTTCCATCGTGGAAGTGACATAGGAACTCCTCCTCCGGGCGGGGATCATGGCAC
TTCTCATAGAACCTTAGGGACGCTTTTTCGCTAGGAGCCCAAACTGGACTGAAGATAGGAAGCAT
AGATCGGGGGGGGGAACGTATTTTCGGTCACGCGGTACGTACGGCCTGTAGGTCCCGTAAGCATC
TCGTCCTTATGGAGTTTGTAAACGGTGTCCGCTATATTCCGAAGATCAGGAATTATATTTGGTTG
TTGGTTGCAGGGCGGGGGACTTGGTTTTGTCGGACACCACAAAACCGAAAAACTGTCCGACAAAA
CAAAGGGCACTTACGACCAACTCTGCCTCGGAATACCTTTCAGTA
Found at i:106290 original size:2 final size:2
Alignment explanation
Indices: 106234--106274 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
106224 AATTTTTCAA
106234 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
106275 AATGGAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Left flanking sequence: Indices 105734 -- 106233
CAGCCATTCCCTACACGCGATATGGTCAAATAAAGCTACCCGACACGAAACCGCTAACCAAAAAC
TGGCAACCGGGCCAATTCATTGCCCGCCAAAACCGGGGAAACGCTTAGAGGCATACGATTGTTTA
TAACCACGGGTAAACTTGAGTCGGAGAGCCAGGTGATGGCTAATCATCCCAGCACTTGATGATAT
CGTGAGAGTGCACGGGGAAAGGCTCCGCAATTGAACTCTTTATTCTATGTATTCTGTTGTCCCCG
AGAAAGAAGTAATTACGATGATAAAAAGAAGAAGATTTTTTAATCCCGCAGGATACATACTTCTT
CGGCGAGACTTCTTTGGCTTTACGAAAGAAGCGCCGAAGGCCAGGGTCCGTAAAAAGAGGAGACT
CTCTCCTACGCGCTGCCTTCGTTCAGTGAAAGCCAGTGATATGAAAAGGGGGCCGCTTTTCACCT
ATCAGGTTGAAGGCGCTTAAAAATTGATATATATCAATTTTTCAA
Right flanking sequence: Indices 106275 -- 106774
AATGGAAAAAATATATCTACCGGTTTTACGAAAAAAAAGAGACGATTTATGCATAACCAATTGTT
TTTCAAATCTCTGATAGCCACTTTACCGAAATGGATACATAAATGTCAAACATCGAAACATGAAA
ATATATTATATACCAACCCGAACAGTCTATTTCAATTATTATATTTTCTGAAGTATCATACCAAT
ACGCGTTTTAAAGTTTTGATTGATATTCGTGGAGTTGATCATCCCTCTCGAAAACGAAGATTCGA
AGTAGTTTATAATTTACTTAGTATTGACTATAATACGCGCATACGTATATTAACAGGTGTAGATG
AAATCACTCCAATTTGTTCGGTAGTCGGTATATTCCCATCGGCCGGCTGGTGGGAACGAGAAACT
TGGGATATGTTTGGTGTGTATTTCTCCAATCATCCCGATTTACGACGTATATTAACAGATTATGG
TTTTGAGGGTCATCCATTAAGAAAAGACTTTCCTTTAAGTGGATA
Found at i:118513 original size:29 final size:27
Alignment explanation
Indices: 118468--118521 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 27
118458 TTTCCTGCTG
118468 TGTTTGTTTCTTCGGTGAAAGGTAGCCCT
1 TGTTTGTTTCTTCGGTG--AGGTAGCCCT
118497 TGTTTG-TTCTTCTGGTGAGGTAGCC
1 TGTTTGTTTCTTC-GGTGAGGTAGCC
118522 TGCGGTTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 8 0.33
28 6 0.25
29 10 0.42
ACGTcount: A:0.11, C:0.17, G:0.30, T:0.43
Consensus pattern (27 bp):
TGTTTGTTTCTTCGGTGAGGTAGCCCT
Left flanking sequence: Indices 117968 -- 118467
CTTTATGAGTACGTCGCGACTTTGTATTAATAGTTGTTTCGTCATAAAAGCTGAAATGGATATTT
TGCCCGCTTTCTTTACAGCTACTAGGAGAGCTTCGTAGGTTTTACCACACCCCGGTGGAGCTGTA
ATTAATGCGACCTTGGCCTTTTCATAGTATTCAGAAAGGGTTGAATTATCCGCGGCGGGGAAACT
ATCTTCCTGTTCCTCCATGGCGGCGGCATTGTGCGATGGTTAGAAATAGTCGAAATTTCTGAATG
AAACATGCGGTACTTGTTCCGACAATAGGCATGTTTGCACTCCGATATAGGTGTAGAATGAGGTG
GTTGTAAACCCAAATAAACTTGCCGTATTATCTTCGCGAAAGATACAAGGGCCTATGAACTCTGT
ATTAGAGTTTCTTCCGGTATAAGTGTGAATTGAAACCGAGTGTTTAACCATTTCGCTATTTCCGA
CATTATAGCGGAGGCCCTTGATACAACCCAGCGAGTTTCCTGCTG
Right flanking sequence: Indices 118522 -- 119021
TGCGGTTGTTCTTCCGGTAAAATAGGGATAGCCGGCCAATCTATATTAGCAAAATATGTGCCTTC
AACCCTGTATCGCACGTTTGGGGTTCCATCTTTTTTTTTTTTAGTAACTAAAACCCGTGAAACTC
TTACTTTTTCATTTTGATACTAGAAGTGCCGGGATCAATAAAAAGCTTAAAGCCCCTAAATCCAT
AAACCGTGTAACACCCCCATAACGTCTTGCGTTCACGCGGACGGGTGTTTTGACGTTTTCTGGCG
AGTCTATGTCCATGCATATCATCCGAGTCGCATCTCCGCACGAAGCAAACAAACTAGTGGGTATA
GTCCAGGTTTTTTTATAAATCTCAACTGAGATTTTGGATTTTCACGAACCTTTTTTACATCTTTG
AATAATTCCTCTCCCCGCAAAACCCAAAAGCTTTTATCAACAAATCCATGAGCTTCTTTTATTAG
AGGAAGACAGTCGGGCCTTCGTGATCCAATAACAAATCAGGATAT
Found at i:120949 original size:21 final size:21
Alignment explanation
Indices: 120896--120956 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
120886 CCACTGGTTT
* *
120896 AGATGTGGCTCCTGGGTCTTC
1 AGATGTGGTTCCTGGTTCTTC
*
120917 AGATGCGGTTCCTGGTTCTTC
1 AGATGTGGTTCCTGGTTCTTC
*
120938 AGATGTGATTCCTGGTTCT
1 AGATGTGGTTCCTGGTTCT
120957 GTGACTCCTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.11, C:0.21, G:0.30, T:0.38
Consensus pattern (21 bp):
AGATGTGGTTCCTGGTTCTTC
Left flanking sequence: Indices 120396 -- 120895
AGAGGCATCAATCGTACATACTTTTGACCAGGGGGCTAAAATAATGCGTTACATCTTTTTGACAG
TCCGGGGGGGGGGCCTTCAAGTGTTTCGCTATTGGAGGTATAAATCGTTTCCACTAAGGGTAAAC
AGTAGATTTTGACAAAACTTTTACCTTAGAGCTATACTTGCCTGTGTTATAACCCACCAGCATTA
TTTGATTTTTAACCAAAATGGTGGCTAGCCTCTCTACTTGATTCTGCATCTTTCTCATACTTTCT
TTATTACGTTTAAAGGTTTCTAAAGTATACCTTTTCTTCTTATTTACGCCAACTAAAAAATAATT
ACAGAAGCACTCGATATCGAAATAGACTATGCGGTCACATAGCTTTTGGAAGTTCGCTAGTCCCT
TCCATTGAGAATAATTCTTCGTTCTCATTCTTCTCATATGTAAACTGAAAGCATTCTTCATTCGT
GGCTTCAGCCGCTGGCTCTGGCACAGCGGCTGAAACCACTGGTTT
Right flanking sequence: Indices 120957 -- 121456
GTGACTCCTGGTTCCAAGAACTCGACATCTGGAGTATGATGAGGAAGAACAGACATGGCGTACCT
TTTTAATTCAATTTGGGTAGGGTGAATTTCTATAAAAACATCCCTCCGGGGCTTATGACTACTAT
TATGTTTGACAAATCCCAATATTTTATTTTTCAAGTGCAGCAGCTCCAGGTGCTTTGGATAAGAT
TGAGCTGGTAAATTTATAAACCAATTTTTCTTTTTGATCCAAAAAACTCGCGATACAACCCAATA
TATGTAGTATATTTAGATTCCTTATATATGATTAATCCGATGATTCCGATTCCCTATTTTGGCAA
GTGCAACAGGCTGAAGCCCCTTCTTGCCCTTGCTCTGGGATAGTCTGGTGCCCTTTTCGGTTCTT
TCAAGGGCCCGAGCCGATTTCCGCGGACTGCCTAGGAAAGGCCTGCTGCTTGTTGACCTGGCCCT
TTAGTGGTGAGGAGCCGAAGGCAAGGCCATGATGGGTAACACTAT
Found at i:120965 original size:15 final size:15
Alignment explanation
Indices: 120941--120970 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
120931 GTTCTTCAGA
*
120941 TGTGATTCCTGGTTC
1 TGTGACTCCTGGTTC
120956 TGTGACTCCTGGTTC
1 TGTGACTCCTGGTTC
120971 CAAGAACTCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.23, G:0.27, T:0.43
Consensus pattern (15 bp):
TGTGACTCCTGGTTC
Left flanking sequence: Indices 120441 -- 120940
GCGTTACATCTTTTTGACAGTCCGGGGGGGGGGCCTTCAAGTGTTTCGCTATTGGAGGTATAAAT
CGTTTCCACTAAGGGTAAACAGTAGATTTTGACAAAACTTTTACCTTAGAGCTATACTTGCCTGT
GTTATAACCCACCAGCATTATTTGATTTTTAACCAAAATGGTGGCTAGCCTCTCTACTTGATTCT
GCATCTTTCTCATACTTTCTTTATTACGTTTAAAGGTTTCTAAAGTATACCTTTTCTTCTTATTT
ACGCCAACTAAAAAATAATTACAGAAGCACTCGATATCGAAATAGACTATGCGGTCACATAGCTT
TTGGAAGTTCGCTAGTCCCTTCCATTGAGAATAATTCTTCGTTCTCATTCTTCTCATATGTAAAC
TGAAAGCATTCTTCATTCGTGGCTTCAGCCGCTGGCTCTGGCACAGCGGCTGAAACCACTGGTTT
AGATGTGGCTCCTGGGTCTTCAGATGCGGTTCCTGGTTCTTCAGA
Right flanking sequence: Indices 120971 -- 121470
CAAGAACTCGACATCTGGAGTATGATGAGGAAGAACAGACATGGCGTACCTTTTTAATTCAATTT
GGGTAGGGTGAATTTCTATAAAAACATCCCTCCGGGGCTTATGACTACTATTATGTTTGACAAAT
CCCAATATTTTATTTTTCAAGTGCAGCAGCTCCAGGTGCTTTGGATAAGATTGAGCTGGTAAATT
TATAAACCAATTTTTCTTTTTGATCCAAAAAACTCGCGATACAACCCAATATATGTAGTATATTT
AGATTCCTTATATATGATTAATCCGATGATTCCGATTCCCTATTTTGGCAAGTGCAACAGGCTGA
AGCCCCTTCTTGCCCTTGCTCTGGGATAGTCTGGTGCCCTTTTCGGTTCTTTCAAGGGCCCGAGC
CGATTTCCGCGGACTGCCTAGGAAAGGCCTGCTGCTTGTTGACCTGGCCCTTTAGTGGTGAGGAG
CCGAAGGCAAGGCCATGATGGGTAACACTATAGTACATAGGCCGC
Found at i:122250 original size:21 final size:22
Alignment explanation
Indices: 122218--122259 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
122208 TTAGAGTAAG
122218 AAAAACCACTAC-AAAGAAACA
1 AAAAACCACTACTAAAGAAACA
*
122239 AAAAATCC-CTACTACAGAAAC
1 AAAAA-CCACTACTAAAGAAAC
122260 GTATGAGCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.60, C:0.26, G:0.05, T:0.10
Consensus pattern (22 bp):
AAAAACCACTACTAAAGAAACA
Left flanking sequence: Indices 121718 -- 122217
TCGTACTCCTTCTATAAATATCCCCCCCAGCTTTCCCTGCCTTAGTAATAACTGAAAACTCTTCT
TCCAATCCATGCCCGTATACCTTCCGCTATGCGCCTTTGGGACGGTTCACCCGAGTTTTCAAAGA
TAAAGATGTAATAGATACATAAAATATGACATTGTCATCAAATATACAAATAGAACTCGAAGGAA
TGCCAAAAAATACAGGAAGGGGGGGGGTAGGCGCCAGCCAGGAGGGCCTGGCGGCGGCTCGGTCA
AGTCCCTAACTTTCGGGGGGGCGGGCTCCGCCCTATAAGGACTAGGTCTGTATAGGGCGGAGCGG
ATCGGTGCTTAAGTTGCACAAATTGCTGAGACGTCTAAATGCTTTCCTTGATAGCTGGAAGTTCT
TCAAAAGTATGAAATGCCGGAGGGCTTGGGACCATCCATTCAAGTGTCGTTGAATTCTGTTCAAC
AGCCCAAGGACTTGGAGCACACTTGTTTTCACTAGTTAGAGTAAG
Right flanking sequence: Indices 122260 -- 122759
GTATGAGCCAAAACTACTAAAGGCATTCCATCCAGCGTAAGCATCTGGATAATCAGGAATGCGAC
GTGGCATACCTGCAAGCGGTTTTTTCCTTATTTATCAAATGTTAATGGATTGTGACTAAATATTT
TTCCTTTGTAAACTTCATCTGGAATTAGTCTTTCAGACGTTTCAGTGTGTTTAAATCCCAATGTT
GAATCAGTTCTTTTATTGGTATTAAGAACTGGTTCATAAAGATCGAAATAGTACTGTTCTCGAGT
TAAATAATCCTTTTCAGTAATAGTACCTGTTGAACCACATGACTCAATAATAACTAAAATTGTCA
TGACCATATTTCCAAATGGAATTATAAATATATCTGTTATCAGAGAATTTAGAAGGATGATAGTA
TTCAGCAAGTCTATCGCTTAATTTATAACCACTACCTACATATTGTTTCCCATTAACTGAATTAT
GCCAAAGATAGATTCCAGTTTCCGTTAGATAATCAGAAACGATTT
Found at i:141051 original size:24 final size:24
Alignment explanation
Indices: 141014--141069 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
141004 TCATCGCCTT
141014 TTATTTATCTATGATGATTCATCA
1 TTATTTATCTATGATGATTCATCA
**
141038 TTATTTAT-TAATGATTCTTCATCA
1 TTATTTATCT-ATGATGATTCATCA
141062 TTATTTAT
1 TTATTTAT
141070 GATAATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 1 0.03
24 28 0.97
ACGTcount: A:0.29, C:0.11, G:0.05, T:0.55
Consensus pattern (24 bp):
TTATTTATCTATGATGATTCATCA
Left flanking sequence: Indices 140514 -- 141013
TAACCATATAAACAGTGAAGAAATAACACACTTGATTTTCGGTGAGCAATTATTATATAATGATA
CATAAAAGGTAATATAATAAATACCATAATACGTAATACAAAAAATGATATAAAGCACGCATAAC
CGAACGAATTGTGTCAAATACGTAAAGTGATCTAGTTTAGGCCGAAGATGTAGGACGTTAGTTCT
ACATAACATTTTTTTTCTCCCTGCAAGAGAAATGGAAAGAATTGGAATATGAGCGACTTCTATAG
AATTTTTGAAAATATGGGCTAAAGCCCCAGGCGGGAGAGGGAATCAGAAAAGTTATATCTAGAAC
CGGACCTCGTGTTTTGTGGGTTGCTCCCTTCTCGCATTTTTTTGTTTTCTCACCCGTTTTTGGCG
GGAGTCGGATTCGAACCCACAACATTCAGATTATGAGCCTGACGAGTTACCAATTACTCTATCCC
GCGAACAGCCAACGAAAGAAGAGATATATTTTTGTTCATCGCCTT
Right flanking sequence: Indices 141070 -- 141569
GATAATTTATTACTAATGAGGATTCATCATTATTTATCTACGATAATTCATCCAGATTTTCTATT
AGGAATTATACTAGGTTCAAACCAGATTTGTCTAGGTTCAAAAAAAGGGGCGCGCCGCAGCCCGC
GCTAGCCCACTGGGTTGAAGTGACGGATACAATTTTGGTGTTTACCCAACCAAAGCGATTGGCTG
GAGACAAACCCAGCTCCCCCACAGGCCATGAATTAGGGGTGTTATGGAGGCACGTAGATTACCTT
AGGCAACGGTCCCGCAATCGGTAACATAATGAAAAAGTACACAGGCACTACGTGCTTCTTTGCTG
GGACATACTTCTTCTAGTTTTTGGCCGGAGCGATAATTTTCTGGAATACAGGAAGCGAGAAGGAA
GCGGGAAAGTTTATAGAAGGGATTGAGCTACGGGTTTTCAACCCCTCCTATATTAGCTCGTTCGG
AGGAGTCTGTGACCCCTAAACCAGCTTGCCGAGAAGACCTTACAC
Found at i:152385 original size:20 final size:20
Alignment explanation
Indices: 152340--152386 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
152330 TTTTTCATAT
*
152340 TTCATCCCTTATATATGATAA
1 TTCAT-CCTTATACATGATAA
* *
152361 CTCATCCTTATACATGATTA
1 TTCATCCTTATACATGATAA
152381 TTCATC
1 TTCATC
152387 AAACTTCGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.30, C:0.23, G:0.04, T:0.43
Consensus pattern (20 bp):
TTCATCCTTATACATGATAA
Left flanking sequence: Indices 151840 -- 152339
CCTATTTAATGACCAGTACAAGAAAAGCTAGCACTCATGGACCCTGACGGGCCAGGGGTCGGTAA
CGACTACAAATGAGAGGCATAATATACCCTTAAATAACGGAAGTTCTTCACGCTTATATAGCTGA
CTTACCTTACAGAACCAGTGAAGCCTAGCCAAACCTTAACATTACGGCATAATTCTGCATAAAAA
CTATCCAAATAATTATACCAAGTGCAAAATAAGCTTGAGAAAGCTCTCTGGATATGACCATACAA
AGTTTTCATGCGGTACTGTGGAATTACTACACAAGTCTTTATCTCTACGAGACTAACGTCTTTGT
ACCAAATTCGGGTCTAATGATATTTCGAATGCCTGACTCACGAATTGAACAATTTTATGGCAATC
TGTTTTACCGTAAATGAAAAAGTAGATGCTTTTTCACCCTTTCTATAAGTAACTTTCAGTGTATC
CAATGGAAAAATTTTTTGTACGCAAACCCAACCTCTTTTTCATAT
Right flanking sequence: Indices 152387 -- 152886
AAACTTCGTCTCCCCATCACATTGTCTAACGTATCCCTATGAACTTGTACCCAATCTTCCGTGGG
TATCCTTAAACACATAACAATTGGGTGTCAGGTGAAGTTGACATAACCTTTTCATCAAAAACTAA
AGCCAAACCTTTGAAATCAGGATCAAGCGCTCTAAGAACGTTTACTATCTCAAAACTCTTTAATA
GTTAAAAATATAAATTTGTATTCGATTGTTTGACGACTTTTATTTCTAATAAAGTTTGTATCCAT
TTCACTCGAACCCTCCCCCCATTTCTCTTCAACCGCCGTGACCGCTCGATTTTTGAACTACTATT
AAAGCTATAAACATATTTATCAAAATCTGCAAGCGATTTGAAATTATGAATCTCGAACGGCTATG
TTTTAACAGATCTATTGATAGAAGTTTTCATATTGAAGACGTTCTCCCAGCAAATAATTCACACC
ATTTAAACTATTTCCCGTCGATTTAATCTTATCAATTCGACGCTT
Done.