Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005794.1 Hibiscus syriacus cultivar Beakdansim tig00013582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 201817
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 2 of 2
Found at i:140308 original size:31 final size:32
Alignment explanation
Indices: 140273--140339 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
140263 TTTATAATAA
140273 GTATAAAATATAA-T-AAATTTAATGATTATTT
1 GTATAAAAT-TAATTAAAATTTAATGATTATTT
*
140304 GTAT-AAATTAATTAAAATTTTATGATTATTT
1 GTATAAAATTAATTAAAATTTAATGATTATTT
140335 -TATAA
1 GTATAA
140340 TATTTTGTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 3 0.09
30 8 0.25
31 21 0.66
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (32 bp):
GTATAAAATTAATTAAAATTTAATGATTATTT
Found at i:145692 original size:20 final size:20
Alignment explanation
Indices: 145669--145761 Score: 125
Period size: 20 Copynumber: 4.7 Consensus size: 20
145659 GTTTCCAGAT
145669 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
145689 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
* * * *
145709 TCGCAATGCGAATATGTA-AA
1 TCGCAACGCGATTCTG-ACTA
145729 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
*
145749 TCGCAATGCGATT
1 TCGCAACGCGATT
145762 TTCAAAGCGC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
19 1 0.02
20 60 0.97
21 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTA
Found at i:146372 original size:20 final size:20
Alignment explanation
Indices: 146319--146374 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
146309 GATAGTTTAA
* **
146319 TTCGAGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
*
146339 TTCGTGTTGTGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
146359 TTCGTGTTGCGATTTT
1 TTCGTGTTGCGATTTT
146375 AAGTTTCAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.12, C:0.12, G:0.23, T:0.52
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:146381 original size:20 final size:20
Alignment explanation
Indices: 146338--146381 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
146328 CGATAGTCAT
* * *
146338 TTTCGTGTTGTGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
146358 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
146378 TTTC
1 TTTC
146382 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.11, G:0.20, T:0.57
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:148305 original size:20 final size:20
Alignment explanation
Indices: 148280--148405 Score: 113
Period size: 20 Copynumber: 6.7 Consensus size: 20
148270 AAACTTAAAA
148280 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
148300 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
148320 ATTGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
148340 ATCGCAACG-G--AAT-A--
1 ATCGCAACGCGAAAATGACT
* * **
148354 ATCGCAATGCG-AAATAAAA
1 ATCGCAACGCGAAAATGACT
*
148373 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
148393 ATCGCAACACGAA
1 ATCGCAACGCGAA
148406 TTTAGTTTCG
Statistics
Matches: 86, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
14 8 0.09
15 1 0.01
16 4 0.05
17 2 0.02
19 12 0.14
20 59 0.69
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:148433 original size:19 final size:20
Alignment explanation
Indices: 148406--148444 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
148396 GCAACACGAA
*
148406 TTTAGTTTCGCGTTGCGATT
1 TTTAGTTTCGCATTGCGATT
148426 TTTA-TTTCGCATTGCGATT
1 TTTAGTTTCGCATTGCGATT
148445 ATCCCGTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.13, C:0.15, G:0.21, T:0.51
Consensus pattern (20 bp):
TTTAGTTTCGCATTGCGATT
Found at i:148478 original size:20 final size:20
Alignment explanation
Indices: 148449--148497 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
148439 GCGATTATCC
*
148449 CGTTGTGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
148469 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCG
148489 CGTTGCGAT
1 CGTTGCGAT
148498 TTAAGTTTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.14, C:0.20, G:0.27, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:148512 original size:19 final size:20
Alignment explanation
Indices: 148484--148526 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
148474 CGATAGTCAT
148484 TTTCGCGTTGCGA-TTTAAG
1 TTTCGCGTTGCGATTTTAAG
*
148503 TTTCGTGTTGCGATTTTAAG
1 TTTCGCGTTGCGATTTTAAG
148523 TTTC
1 TTTC
148527 AGAAACTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.49
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTAAG
Found at i:149097 original size:21 final size:20
Alignment explanation
Indices: 149001--149099 Score: 83
Period size: 21 Copynumber: 4.8 Consensus size: 20
148991 GACTCACCTG
*
149001 TCATCGTTCAAGAGGCCTCT
1 TCATCGTTCAAGAGGCCCCT
*
149021 CCTATCGTTCAAGAGGCCCCT
1 TC-ATCGTTCAAGAGGCCCCT
* ** *
149042 ATAATCCCTCAAGAGTCCCCT
1 -TCATCGTTCAAGAGGCCCCT
149063 TC-TACTGTTCAAGAGGCCCCT
1 TCAT-C-GTTCAAGAGGCCCCT
*
149084 GTCATCGTTGAAGAGG
1 -TCATCGTTCAAGAGG
149100 TCTCTCCCAC
Statistics
Matches: 61, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
19 1 0.02
20 3 0.05
21 53 0.87
22 3 0.05
23 1 0.02
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.26
Consensus pattern (20 bp):
TCATCGTTCAAGAGGCCCCT
Found at i:149098 original size:42 final size:42
Alignment explanation
Indices: 148997--149099 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 42
148987 GCCCGACTCA
*
148997 CCTGTCATCGTTCAAGAGGCCTCTCCTATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCCCCTCCTATCGTTCAAGAGGCC
* * ** * *
149039 CCTATAATCCCTCAAGAGTCCCCTTCTA-CTGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCCCCTCCTATC-GTTCAAGAGGCC
*
149081 CCTGTCATCGTTGAAGAGG
1 CCTGTCATCGTTCAAGAGG
149100 TCTCTCCCAC
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
41 1 0.02
42 46 0.98
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.26
Consensus pattern (42 bp):
CCTGTCATCGTTCAAGAGGCCCCTCCTATCGTTCAAGAGGCC
Found at i:150548 original size:72 final size:65
Alignment explanation
Indices: 150420--150595 Score: 180
Period size: 65 Copynumber: 2.6 Consensus size: 65
150410 GGGGTACACT
150420 TTTTTTGA-TTGTTTAATTGATTCT-TAAAAGTCTGATTTGTTTAATTGATGAGGTAAATAAGAA
1 TTTTTT-ACTTGTTTAATTGATT-TGTAAAAGT-TGATTTGTTTAATTGATGAGGTAAAT---AA
150483 TTATTAGCA
60 TTATT---A
* *
150492 TTTTTTACTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATATTGATG-TGTAAATAATTCT
1 TTTTTTACTTGTTTAATTGATTTGTAAAAGTTGATTTGTTT-A-ATTGATGAGGTAAATAATTAT
150556 TA
64 TA
* * *
150558 -TTTGTGCTTGTTTAATTGATTTGTAAAGGTTGATTTGT
1 TTTTTTACTTGTTTAATTGATTTGTAAAAGTTGATTTGT
150596 AAAAGTTGCT
Statistics
Matches: 95, Mismatches: 5, Indels: 15
0.83 0.04 0.13
Matches are distributed among these distances:
65 35 0.37
66 1 0.01
69 6 0.06
71 12 0.13
72 34 0.36
73 7 0.07
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.52
Consensus pattern (65 bp):
TTTTTTACTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGTAAATAATTATTA
Found at i:150592 original size:14 final size:14
Alignment explanation
Indices: 150573--150609 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
150563 GCTTGTTTAA
*
150573 TTGATTTGTAAAGG
1 TTGATTTGTAAAAG
150587 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
*
150601 TTGCTTTGT
1 TTGATTTGT
150610 TTAATTGATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:150609 original size:79 final size:77
Alignment explanation
Indices: 150508--150651 Score: 252
Period size: 77 Copynumber: 1.8 Consensus size: 77
150498 ACTTGTTTAA
*
150508 TTGATTTGTAAAAGTTGATTTGTTTAATATTGATGTGTAAATAATTCTTATTTGTGCTTGTTTAA
1 TTGATTTGTAAAAGTTGATTTGTTT-A-ATTGATGTGTAAATAATTCTTATTTGTGCTTATTTAA
150573 TTGATTTGTAAAGG
64 TTGATTTGTAAAGG
*
150587 TTGATTTGTAAAAGTTGCTTTGTTTAATTGATGTGTAAATAATTCTTATTTGTGCTTATTTAATT
1 TTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTGTGCTTATTTAATT
150652 CATTGAAATG
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
77 38 0.60
78 1 0.02
79 24 0.38
ACGTcount: A:0.27, C:0.03, G:0.17, T:0.52
Consensus pattern (77 bp):
TTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTGTGCTTATTTAATT
GATTTGTAAAGG
Found at i:150754 original size:20 final size:20
Alignment explanation
Indices: 150729--150797 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
150719 AGGTACACTT
*
150729 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCAAAACTCAAAA
* *
150749 TCGCAATGCAAAAGTCAAAA
1 TCGCAACGCAAAACTCAAAA
* * *
150769 TCGCAATGCGAGAGC-CAAAA
1 TCGCAACGC-AAAACTCAAAA
150789 TCGCAACGC
1 TCGCAACGC
150798 GAAAGTCATT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 39 0.95
21 2 0.05
ACGTcount: A:0.42, C:0.28, G:0.17, T:0.13
Consensus pattern (20 bp):
TCGCAACGCAAAACTCAAAA
Found at i:150773 original size:40 final size:40
Alignment explanation
Indices: 150729--150805 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
150719 AGGTACACTT
* *
150729 TCGCAACGCTA-AACTCAAAATCGCAATGCAAAAGTCAAAA
1 TCGCAACGCGAGAAC-CAAAATCGCAACGCAAAAGTCAAAA
* * *
150769 TCGCAATGCGAGAGCCAAAATCGCAACGCGAAAGTCA
1 TCGCAACGCGAGAACCAAAATCGCAACGCAAAAGTCA
150806 TTTCGCGTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 29 0.94
41 2 0.06
ACGTcount: A:0.43, C:0.26, G:0.18, T:0.13
Consensus pattern (40 bp):
TCGCAACGCGAGAACCAAAATCGCAACGCAAAAGTCAAAA
Found at i:150799 original size:20 final size:20
Alignment explanation
Indices: 150744--150802 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
150734 ACGCTAAACT
* *
150744 CAAAATCGCAATGCAAAAGT
1 CAAAATCGCAATGCGAAAGC
*
150764 CAAAATCGCAATGCGAGAGC
1 CAAAATCGCAATGCGAAAGC
*
150784 CAAAATCGCAACGCGAAAG
1 CAAAATCGCAATGCGAAAG
150803 TCATTTCGCG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.10
Consensus pattern (20 bp):
CAAAATCGCAATGCGAAAGC
Found at i:150871 original size:34 final size:34
Alignment explanation
Indices: 150813--150907 Score: 111
Period size: 34 Copynumber: 2.8 Consensus size: 34
150803 TCATTTCGCG
* * * *
150813 TTGCAATAGTCTAATACGCTTTGCGATTTTCT-CA
1 TTGCGATAGTCAAATTCGCGTTGCGATTTT-TGCA
* *
150847 TTGCGATAGTCAAATTCGTGTTGCGATTTTTGCG
1 TTGCGATAGTCAAATTCGCGTTGCGATTTTTGCA
*
150881 TTGCGATAGTCATATTCGCGTTGCGAT
1 TTGCGATAGTCAAATTCGCGTTGCGAT
150908 AGTCAAATTC
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 1 0.02
34 51 0.98
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (34 bp):
TTGCGATAGTCAAATTCGCGTTGCGATTTTTGCA
Found at i:150872 original size:20 final size:20
Alignment explanation
Indices: 150847--150935 Score: 91
Period size: 20 Copynumber: 4.8 Consensus size: 20
150837 GATTTTCTCA
*
150847 TTGCGATAGTCAAATTCGTG
1 TTGCGATAGTCAAATTCGCG
*
150867 TTGCGAT--T----TTTGCG
1 TTGCGATAGTCAAATTCGCG
*
150881 TTGCGATAGTCATATTCGCG
1 TTGCGATAGTCAAATTCGCG
*
150901 TTGCGATAGTCAAATTCGTG
1 TTGCGATAGTCAAATTCGCG
*
150921 TTGCGATATTCAAAT
1 TTGCGATAGTCAAAT
150936 GAATGTGTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
14 11 0.19
16 1 0.02
18 1 0.02
20 44 0.77
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCG
Found at i:151158 original size:140 final size:140
Alignment explanation
Indices: 150906--151188 Score: 548
Period size: 140 Copynumber: 2.0 Consensus size: 140
150896 TCGCGTTGCG
*
150906 ATAGTCAAATTCGTGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
150971 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
151036 AATACACATA
131 AATACACATA
*
151046 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
151111 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
151176 AATACACATA
131 AATACACATA
151186 ATA
1 ATA
151189 CAACGTTTGC
Statistics
Matches: 141, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 141 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:153127 original size:695 final size:695
Alignment explanation
Indices: 151798--153188 Score: 2773
Period size: 695 Copynumber: 2.0 Consensus size: 695
151788 GACGTTGACT
151798 TTACAACACGTTTCGTTATCTTTTTTTCAATCCATGGTGTAACACGATGTTCCAATGTTCCTGTA
1 TTACAACACGTTTCGTTATCTTTTTTTCAATCCATGGTGTAACACGATGTTCCAATGTTCCTGTA
151863 AATTTAAATAAATAATACTTAGTAAAGTATATGATAAGTTATGAATTTAAAGAAATAATACCTGC
66 AATTTAAATAAATAATACTTAGTAAAGTATATGATAAGTTATGAATTTAAAGAAATAATACCTGC
151928 ATGGTTTCTTTTCTTGTAGTACCATTATTGAATATAGGCTCGAAAAAACTCCATTAACATAGTAA
131 ATGGTTTCTTTTCTTGTAGTACCATTATTGAATATAGGCTCGAAAAAACTCCATTAACATAGTAA
151993 TGGGTAATTTTCGGGAATGACGACTTAGAGCGTTGATTGATTCTGCACTATTAGACGTCATGAAA
196 TGGGTAATTTTCGGGAATGACGACTTAGAGCGTTGATTGATTCTGCACTATTAGACGTCATGAAA
152058 CCATATCTTGCTCCAAGTTGATGTACTCTTGACCATCTTTCAAACCCGACATCTAGTGTTTGAGC
261 CCATATCTTGCTCCAAGTTGATGTACTCTTGACCATCTTTCAAACCCGACATCTAGTGTTTGAGC
152123 ACACTGAGGCAAAACACGTCTTAAACAATTTATATGCTTATTAAAATCCACTTCCCGATAAGCTT
326 ACACTGAGGCAAAACACGTCTTAAACAATTTATATGCTTATTAAAATCCACTTCCCGATAAGCTT
152188 TTACAGCCTTCCAGTATGTCCATTTGTGATTTTTTATACCAGTAGACCTTGATTTTAGATTTCTA
391 TTACAGCCTTCCAGTATGTCCATTTGTGATTTTTTATACCAGTAGACCTTGATTTTAGATTTCTA
*
152253 TACAAATGAACACCACAAAGTCCATGAAAAGTATCTGGGAAACACCTTCTAACAGCATTGTCAAT
456 TACAAATGAACACCACAAAGTCCATGAAAAGTATATGGGAAACACCTTCTAACAGCATTGTCAAT
152318 TGAGTTTGCCCTATCGGATATGATTGTCAGATTGCTAATAGGACCTATGCAATCCCTAAGATGCC
521 TGAGTTTGCCCTATCGGATATGATTGTCAGATTGCTAATAGGACCTATGCAATCCCTAAGATGCC
152383 CCATAAACCATGTCCATGAATCAAAGGTTTCAGATTTGCCAACCCCGTAAGCTATTGGCAGTATC
586 CCATAAACCATGTCCATGAATCAAAGGTTTCAGATTTGCCAACCCCGTAAGCTATTGGCAGTATC
152448 TCATTGTTAGCATCCATGGCTACTGTTAATAAGTTTAGTCCAAGG
651 TCATTGTTAGCATCCATGGCTACTGTTAATAAGTTTAGTCCAAGG
152493 TTACAACACGTTTCGTTATCTTTTTTTCAATCCATGGTGTAACACGATGTTCCAATGTTCCTGTA
1 TTACAACACGTTTCGTTATCTTTTTTTCAATCCATGGTGTAACACGATGTTCCAATGTTCCTGTA
152558 AATTTAAATAAATAATACTTAGTAAAGTATATGATAAGTTATGAATTTAAAGAAATAATACCTGC
66 AATTTAAATAAATAATACTTAGTAAAGTATATGATAAGTTATGAATTTAAAGAAATAATACCTGC
152623 ATGGTTTCTTTTCTTGTAGTACCATTATTGAATATAGGCTCGAAAAAACTCCATTAACATAGTAA
131 ATGGTTTCTTTTCTTGTAGTACCATTATTGAATATAGGCTCGAAAAAACTCCATTAACATAGTAA
152688 TGGGTAATTTTCGGGAATGACGACTTAGAGCGTTGATTGATTCTGCACTATTAGACGTCATGAAA
196 TGGGTAATTTTCGGGAATGACGACTTAGAGCGTTGATTGATTCTGCACTATTAGACGTCATGAAA
152753 CCATATCTTGCTCCAAGTTGATGTACTCTTGACCATCTTTCAAACCCGACATCTAGTGTTTGAGC
261 CCATATCTTGCTCCAAGTTGATGTACTCTTGACCATCTTTCAAACCCGACATCTAGTGTTTGAGC
152818 ACACTGAGGCAAAACACGTCTTAAACAATTTATATGCTTATTAAAATCCACTTCCCGATAAGCTT
326 ACACTGAGGCAAAACACGTCTTAAACAATTTATATGCTTATTAAAATCCACTTCCCGATAAGCTT
152883 TTACAGCCTTCCAGTATGTCCATTTGTGATTTTTTATACCAGTAGACCTTGATTTTAGATTTCTA
391 TTACAGCCTTCCAGTATGTCCATTTGTGATTTTTTATACCAGTAGACCTTGATTTTAGATTTCTA
152948 TACAAATGAACACCACAAAGTCCATGAAAAGTATATGGGAAACACCTTCTAACAGCATTGTCAAT
456 TACAAATGAACACCACAAAGTCCATGAAAAGTATATGGGAAACACCTTCTAACAGCATTGTCAAT
153013 TGAGTTTGCCCTATCGGATATGATTGTCAGATTGCTAATAGGACCTATGCAATCCCTAAGATGCC
521 TGAGTTTGCCCTATCGGATATGATTGTCAGATTGCTAATAGGACCTATGCAATCCCTAAGATGCC
153078 CCATAAACCATGTCCATGAATCAAAGGTTTCAGATTTGCCAACCCCGTAAGCTATTGGCAGTATC
586 CCATAAACCATGTCCATGAATCAAAGGTTTCAGATTTGCCAACCCCGTAAGCTATTGGCAGTATC
153143 TCATTGTTAGCATCCATGGCTACTGTTAATAAGTTTAGTCCAAGG
651 TCATTGTTAGCATCCATGGCTACTGTTAATAAGTTTAGTCCAAGG
153188 T
1 T
153189 ATCAACCTTT
Statistics
Matches: 695, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
695 695 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (695 bp):
TTACAACACGTTTCGTTATCTTTTTTTCAATCCATGGTGTAACACGATGTTCCAATGTTCCTGTA
AATTTAAATAAATAATACTTAGTAAAGTATATGATAAGTTATGAATTTAAAGAAATAATACCTGC
ATGGTTTCTTTTCTTGTAGTACCATTATTGAATATAGGCTCGAAAAAACTCCATTAACATAGTAA
TGGGTAATTTTCGGGAATGACGACTTAGAGCGTTGATTGATTCTGCACTATTAGACGTCATGAAA
CCATATCTTGCTCCAAGTTGATGTACTCTTGACCATCTTTCAAACCCGACATCTAGTGTTTGAGC
ACACTGAGGCAAAACACGTCTTAAACAATTTATATGCTTATTAAAATCCACTTCCCGATAAGCTT
TTACAGCCTTCCAGTATGTCCATTTGTGATTTTTTATACCAGTAGACCTTGATTTTAGATTTCTA
TACAAATGAACACCACAAAGTCCATGAAAAGTATATGGGAAACACCTTCTAACAGCATTGTCAAT
TGAGTTTGCCCTATCGGATATGATTGTCAGATTGCTAATAGGACCTATGCAATCCCTAAGATGCC
CCATAAACCATGTCCATGAATCAAAGGTTTCAGATTTGCCAACCCCGTAAGCTATTGGCAGTATC
TCATTGTTAGCATCCATGGCTACTGTTAATAAGTTTAGTCCAAGG
Found at i:154244 original size:24 final size:24
Alignment explanation
Indices: 154210--154272 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
154200 CTGAAACATC
154210 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
154234 ATCAAAGTCCGGGTATTGACCATG
1 ATCAAAATCCGAGTATTGACCAAG
* *
154258 ATCAAATTTCGAGTA
1 ATCAAAATCCGAGTA
154273 CCGACTAGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:155103 original size:20 final size:20
Alignment explanation
Indices: 155078--155126 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
155068 TTGAAATTCA
155078 GCGTTGCGACAGTCAGAATC
1 GCGTTGCGACAGTCAGAATC
* * *
155098 GCGTTGTGATAGTTAGAATC
1 GCGTTGCGACAGTCAGAATC
155118 GCGTTGCGA
1 GCGTTGCGA
155127 TTTACATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (20 bp):
GCGTTGCGACAGTCAGAATC
Found at i:155167 original size:21 final size:21
Alignment explanation
Indices: 155143--155183 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
155133 TATTCGCATT
* *
155143 GCGATTTTCTAAAATCGCAAC
1 GCGAATTTCGAAAATCGCAAC
*
155164 GCGAATTTGGAAAATCGCAA
1 GCGAATTTCGAAAATCGCAA
155184 TACGATAGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (21 bp):
GCGAATTTCGAAAATCGCAAC
Found at i:155246 original size:20 final size:19
Alignment explanation
Indices: 155223--155268 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
155213 GGAAACTGAT
* *
155223 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
155243 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
155262 TTGCGAT
1 TTGCGAT
155269 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:155258 original size:19 final size:19
Alignment explanation
Indices: 155234--155270 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
155224 TGCGATACTG
*
155234 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
155253 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
155271 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:157346 original size:19 final size:17
Alignment explanation
Indices: 157309--157361 Score: 88
Period size: 17 Copynumber: 3.0 Consensus size: 17
157299 TATTTATTTA
157309 AAAAATATAGTAAATTG
1 AAAAATATAGTAAATTG
157326 AAAAATATAGTAAATAATG
1 AAAAATATAGTAAAT--TG
157345 AAAAATATAGTAAATTG
1 AAAAATATAGTAAATTG
157362 CATTTATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 17 0.50
19 17 0.50
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.28
Consensus pattern (17 bp):
AAAAATATAGTAAATTG
Found at i:157387 original size:2 final size:2
Alignment explanation
Indices: 157382--157444 Score: 53
Period size: 2 Copynumber: 32.5 Consensus size: 2
157372 AAAAAATAAA
*
157382 AT AT AT AT AT AT AT A- AT AT A- AGT TT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
* *
157422 AT AT AA ACT AT AT TT AT AT -T AT A
1 AT AT AT A-T AT AT AT AT AT AT AT A
157445 AACTATATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
1 4 0.08
2 44 0.90
3 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:157435 original size:18 final size:18
Alignment explanation
Indices: 157410--157554 Score: 71
Period size: 18 Copynumber: 8.3 Consensus size: 18
157400 TAAGTTTATA
157410 TATATATTATATATATAAAC
1 TATAT-TTATAT-TATAAAC
157430 TATATTTATATTATAAAC
1 TATATTTATATTATAAAC
* *
157448 TATA-TAATTATTAT-AAG
1 TATATTTA-TATTATAAAC
* * ** *
157465 T-TATATAAAAAATACA-
1 TATATTTATATTATAAAC
157481 TAATATTTATTATGTAT-AA-
1 T-ATATTTA-TAT-TATAAAC
157500 TATAAGTTTATA-TATAAA-
1 TAT-A-TTTATATTATAAAC
157518 T-TA--TATA-TATAAAC
1 TATATTTATATTATAAAC
157532 TATATTTATATTATAAAC
1 TATATTTATATTATAAAC
157550 TATAT
1 TATAT
157555 AATTATTATA
Statistics
Matches: 97, Mismatches: 13, Indels: 32
0.68 0.09 0.23
Matches are distributed among these distances:
13 10 0.10
14 1 0.01
15 2 0.02
16 7 0.07
17 15 0.15
18 39 0.40
19 12 0.12
20 11 0.11
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (18 bp):
TATATTTATATTATAAAC
Found at i:157506 original size:102 final size:99
Alignment explanation
Indices: 157372--157573 Score: 350
Period size: 102 Copynumber: 2.0 Consensus size: 99
157362 CATTTATTTA
*
157372 AAAAAATAAAATATATATATATATAATATAAGTTTATATATATATTATATATATAAACTATATTT
1 AAAAAATAAAATATATATATATATAATATAAGTTTATATATAAATTATATATATAAACTATATTT
157437 ATATTATAAACTATATAATTATTATAAGTTATAT
66 ATATTATAAACTATATAATTATTATAAGTTATAT
* *
157471 AAAAAATACATAATATTTATTATGTATAATATAAGTTTATATATAAATTATATATATAAACTATA
1 AAAAAATA-A-AATATATA-TATATATAATATAAGTTTATATATAAATTATATATATAAACTATA
157536 TTTATATTATAAACTATATAATTATTATAAGTTATAT
63 TTTATATTATAAACTATATAATTATTATAAGTTATAT
157573 A
1 A
157574 TATAAATTAT
Statistics
Matches: 97, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
99 8 0.08
100 1 0.01
101 7 0.07
102 81 0.84
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (99 bp):
AAAAAATAAAATATATATATATATAATATAAGTTTATATATAAATTATATATATAAACTATATTT
ATATTATAAACTATATAATTATTATAAGTTATAT
Found at i:157561 original size:18 final size:18
Alignment explanation
Indices: 157519--157577 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
157509 ATATATAAAT
157519 TATATA-TATAAACTATA
1 TATATATTATAAACTATA
*
157536 TTTATATTATAAACTATA
1 TATATATTATAAACTATA
**
157554 TA-ATTATTATAAGTTATA
1 TATA-TATTATAAACTATA
157572 TATATA
1 TATATA
157578 AATTATGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 6 0.17
18 28 0.80
19 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (18 bp):
TATATATTATAAACTATA
Found at i:157627 original size:13 final size:13
Alignment explanation
Indices: 157382--157627 Score: 92
Period size: 13 Copynumber: 19.2 Consensus size: 13
157372 AAAAAATAAA
*
157382 ATATATATATA-T
1 ATATATATAAATT
*
157394 ATA-ATATAAGTT
1 ATATATATAAATT
*
157406 -TATATATATATT
1 ATATATATAAATT
*
157418 ATATATATAAACT
1 ATATATATAAATT
*
157431 ATAT-T-TATATT
1 ATATATATAAATT
*
157442 ATAAACTATATAA-T
1 ATATA-TATA-AATT
*
157456 -TAT-TATAAGTT
1 ATATATATAAATT
*
157467 ATATA-A-AAAAT
1 ATATATATAAATT
* **
157478 ACATAATATTTATT
1 ATAT-ATATAAATT
*
157492 ATGTATAATATAAGTT
1 A--TAT-ATATAAATT
157508 -TATATATAAATT
1 ATATATATAAATT
*
157520 ATATATATAAACT
1 ATATATATAAATT
*
157533 ATAT-T-TATATT
1 ATATATATAAATT
*
157544 ATAAACTATATAA-T
1 ATATA-TATA-AATT
*
157558 -TAT-TATAAGTT
1 ATATATATAAATT
157569 ATATATATAAATT
1 ATATATATAAATT
* * *
157582 ATGTTTATATGAACT
1 A--TATATATAAATT
157597 ATATATATAAACTAT
1 ATATATATAAA-T-T
*
157612 ATATGTATAAATT
1 ATATATATAAATT
157625 ATA
1 ATA
157628 AAAAGTATAT
Statistics
Matches: 169, Mismatches: 38, Indels: 53
0.65 0.15 0.20
Matches are distributed among these distances:
10 2 0.01
11 37 0.22
12 29 0.17
13 59 0.35
14 10 0.06
15 23 0.14
16 9 0.05
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (13 bp):
ATATATATAAATT
Found at i:157915 original size:8 final size:8
Alignment explanation
Indices: 157902--158124 Score: 329
Period size: 8 Copynumber: 27.9 Consensus size: 8
157892 AATTTTCTAC
157902 TATGTATG
1 TATGTATG
157910 TATGTATG
1 TATGTATG
157918 TATGTATG
1 TATGTATG
157926 TATGTATG
1 TATGTATG
157934 TATGTATG
1 TATGTATG
157942 TATGTATG
1 TATGTATG
157950 TATGTATG
1 TATGTATG
157958 TATGTATG
1 TATGTATG
157966 TATGTATG
1 TATGTATG
157974 TATGTATG
1 TATGTATG
157982 TATGTATG
1 TATGTATG
157990 TATGTATG
1 TATGTATG
157998 TATGTATG
1 TATGTATG
158006 TATGTATG
1 TATGTATG
158014 TATGTATG
1 TATGTATG
*
158022 CATGTATG
1 TATGTATG
*
158030 AATGTATG
1 TATGTATG
*
158038 CATGTATG
1 TATGTATG
*
158046 CATGTATG
1 TATGTATG
*
158054 CATGTATG
1 TATGTATG
*
158062 CATGTATG
1 TATGTATG
*
158070 CATGTATG
1 TATGTATG
*
158078 CATGTATG
1 TATGTATG
*
158086 CATGTATG
1 TATGTATG
*
158094 CATGTATG
1 TATGTATG
* *
158102 CATGCATG
1 TATGTATG
*
158110 CATGTATG
1 TATGTATG
158118 TATGTAT
1 TATGTAT
158125 ATATTAATAT
Statistics
Matches: 209, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 209 1.00
ACGTcount: A:0.26, C:0.05, G:0.25, T:0.44
Consensus pattern (8 bp):
TATGTATG
Found at i:158136 original size:2 final size:2
Alignment explanation
Indices: 158122--158271 Score: 106
Period size: 2 Copynumber: 78.0 Consensus size: 2
158112 TGTATGTATG
* * * *
158122 TA TA TA T- TA -A TA TA TA GTT TA TA AA TA TA TA GTT TA TA AA T-
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA
* *
158163 TA TA -A TT TA TA T- TA -A TA TA GTA TA TA TG TA TA TA TA -A CTA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA
* *
158203 -A TA TA -A GTA -A TC TA TA GA T- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
158242 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
158272 GAAATACTAT
Statistics
Matches: 116, Mismatches: 16, Indels: 32
0.71 0.10 0.20
Matches are distributed among these distances:
1 11 0.09
2 99 0.85
3 6 0.05
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:158181 original size:15 final size:15
Alignment explanation
Indices: 158130--158173 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
158120 TGTATATATT
158130 AATATATAGTTTATA
1 AATATATAGTTTATA
158145 AATATATAGTTTATA
1 AATATATAGTTTATA
*
158160 AAT-TATAATTTATA
1 AATATATAGTTTATA
158174 TTAATATAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (15 bp):
AATATATAGTTTATA
Found at i:158339 original size:7 final size:7
Alignment explanation
Indices: 158324--158409 Score: 55
Period size: 7 Copynumber: 12.3 Consensus size: 7
158314 TTTATCAAAA
158324 AAACCCT
1 AAACCCT
*
158331 AAACTCT
1 AAACCCT
*
158338 AAACCTT
1 AAACCCT
* *
158345 AAATCAT
1 AAACCCT
*
158352 AAATCCT
1 AAACCCT
**
158359 AAACTTT
1 AAACCCT
*
158366 AAACCAT
1 AAACCCT
* *
158373 ACACACT
1 AAACCCT
*
158380 AAACACT
1 AAACCCT
*
158387 AAATCCT
1 AAACCCT
*
158394 AAACCAT
1 AAACCCT
158401 AAACCCT
1 AAACCCT
158408 AA
1 AA
158410 TATAAATAGA
Statistics
Matches: 59, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
7 59 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (7 bp):
AAACCCT
Found at i:158382 original size:28 final size:28
Alignment explanation
Indices: 158328--158403 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 28
158318 TCAAAAAAAC
*
158328 CCTAAACTCTAAACCTTAAATCATAAAT
1 CCTAAACTCTAAACCATAAATCATAAAT
* *
158356 CCTAAACTTTAAACCATACA-CACTAAA-
1 CCTAAACTCTAAACCATAAATCA-TAAAT
158383 CACTAAA-TCCTAAACCATAAA
1 C-CTAAACT-CTAAACCATAAA
158404 CCCTAATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 4 0.10
28 36 0.90
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.24
Consensus pattern (28 bp):
CCTAAACTCTAAACCATAAATCATAAAT
Found at i:158914 original size:21 final size:21
Alignment explanation
Indices: 158877--158944 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
158867 TAGTTTATAG
*
158877 AAACCTTAAAC-CTTAAATCAT
1 AAACCATAAACAC-TAAATCAT
* * * *
158898 AAACTATACACCCTAAA-CTTT
1 AAACCATAAACACTAAATC-AT
158919 AAACCATAAACACTAAATCAT
1 AAACCATAAACACTAAATCAT
158940 AAACC
1 AAACC
158945 TTAATGTAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
20 1 0.03
21 33 0.92
22 2 0.06
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (21 bp):
AAACCATAAACACTAAATCAT
Found at i:158928 original size:14 final size:14
Alignment explanation
Indices: 158877--158948 Score: 58
Period size: 14 Copynumber: 5.1 Consensus size: 14
158867 TAGTTTATAG
*
158877 AAACCTTAAACCTT
1 AAACCATAAACCTT
*
158891 AAATCATAAA-CTAT
1 AAACCATAAACCT-T
* * *
158905 ACACCCTAAACTTT
1 AAACCATAAACCTT
158919 AAACCATAAACAC-T
1 AAACCATAAAC-CTT
*
158933 AAATCATAAACCTT
1 AAACCATAAACCTT
158947 AA
1 AA
158949 TGTAAATGTA
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
13 3 0.07
14 40 0.91
15 1 0.02
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (14 bp):
AAACCATAAACCTT
Found at i:159281 original size:14 final size:14
Alignment explanation
Indices: 159248--159291 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
159238 TTAATCATGT
* *
159248 TTTATATAATTTACA
1 TTTAAATAATTT-TA
159263 TTTAAATAATTTTA
1 TTTAAATAATTTTA
159277 TTTAAATAATTTTA
1 TTTAAATAATTTTA
159291 T
1 T
159292 ATAATATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAAATAATTTTA
Found at i:159432 original size:4 final size:4
Alignment explanation
Indices: 159425--159463 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
159415 GCGCTATATA
159425 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
159464 ATAAACTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:159887 original size:9 final size:9
Alignment explanation
Indices: 159875--160005 Score: 61
Period size: 9 Copynumber: 14.0 Consensus size: 9
159865 ATGTATAGTA
159875 TATATAAAC
1 TATATAAAC
*
159884 TATATATA-
1 TATATAAAC
*
159892 TATATAACC
1 TATATAAAC
*
159901 TATATATATATA
1 TATATA-A-A-C
159913 TATATAAAC
1 TATATAAAC
*
159922 TATATAAAG
1 TATATAAAC
* *
159931 TAAAT-TAC
1 TATATAAAC
* *
159939 TTATATAGAT
1 -TATATAAAC
*
159949 TATAGAATTAC
1 TATATAA--AC
159960 TATGCATAAAC
1 TAT--ATAAAC
*
159971 TATATAAAG
1 TATATAAAC
*
159980 TA-ATAAAA
1 TATATAAAC
159988 TATATAAAC
1 TATATAAAC
*
159997 TATAGAAAC
1 TATATAAAC
160006 CCTAAATCCT
Statistics
Matches: 90, Mismatches: 21, Indels: 22
0.68 0.16 0.17
Matches are distributed among these distances:
8 14 0.16
9 54 0.60
10 3 0.03
11 10 0.11
12 6 0.07
13 3 0.03
ACGTcount: A:0.52, C:0.08, G:0.05, T:0.36
Consensus pattern (9 bp):
TATATAAAC
Found at i:159908 original size:21 final size:21
Alignment explanation
Indices: 159884--159927 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
159874 ATATATAAAC
*
159884 TATATATATATATAACCTATA
1 TATATATATATATAAACTATA
159905 TATATATATATATAAACTATA
1 TATATATATATATAAACTATA
159926 TA
1 TA
159928 AAGTAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (21 bp):
TATATATATATATAAACTATA
Found at i:159927 original size:2 final size:2
Alignment explanation
Indices: 159868--159918 Score: 50
Period size: 2 Copynumber: 25.0 Consensus size: 2
159858 ATAAACCATG
* **
159868 TA TA GTA TA TA TA AA CTA TA TA TA TA TA TA -A CC TA TA TA TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
159911 TA TA TA TA
1 TA TA TA TA
159919 AACTATATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
1 1 0.02
2 37 0.90
3 3 0.07
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (2 bp):
TA
Found at i:159927 original size:17 final size:17
Alignment explanation
Indices: 159868--159914 Score: 76
Period size: 17 Copynumber: 2.7 Consensus size: 17
159858 ATAAACCATG
159868 TATAGTATATATAAACTA
1 TATA-TATATATAAACTA
*
159886 TATATATATATAACCTA
1 TATATATATATAAACTA
159903 TATATATATATA
1 TATATATATATA
159915 TATAAACTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 24 0.86
18 4 0.14
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (17 bp):
TATATATATATAAACTA
Found at i:160037 original size:20 final size:19
Alignment explanation
Indices: 160008--160066 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
159998 ATAGAAACCC
160008 TAAATCCTAAACCCTAATCA
1 TAAA-CCTAAACCCTAATCA
**
160028 TAAACTCTAAACCCTAAATTT
1 TAAAC-CTAAACCCT-AATCA
160049 TAAACCATAAACCCTAAT
1 TAAACC-TAAACCCTAAT
160067 GTAAATAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 1 0.03
20 17 0.50
21 16 0.47
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (19 bp):
TAAACCTAAACCCTAATCA
Found at i:160250 original size:14 final size:14
Alignment explanation
Indices: 160231--160277 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
160221 ATTTTTTCTT
160231 TATATAAATTAAAC
1 TATATAAATTAAAC
160245 TATAT-AATT----
1 TATATAAATTAAAC
160254 TATATAAATTAAAC
1 TATATAAATTAAAC
*
160268 TATATTAATT
1 TATATAAATT
160278 TTTCTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:160256 original size:23 final size:24
Alignment explanation
Indices: 160229--160278 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
160219 TTATTTTTTC
160229 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
160252 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
160276 TTT
1 TTT
160279 TTCTTTGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:161069 original size:309 final size:309
Alignment explanation
Indices: 160503--161113 Score: 981
Period size: 309 Copynumber: 2.0 Consensus size: 309
160493 AGTCAGTTAA
* * *
160503 ATATCAAATCAGGTTGAAAACATGTCAGGTTTAAAACAAGTCGGGTAATACCAGTTATTTACCAA
1 ATATCAAATCAGGTTAAAAACAGGTCAGGTTGAAAACAAGTCGGGTAATACCAGTTATTTACCAA
* * *
160568 GTCAATCTCGGTTTCGGGTTCATATCAGTCGGATACAGGTCGGGTTCGGATCTACAATTTCTAGG
66 ATCAATCTCGGTTTCGGGTTCATATCAGTCGGATACAAGTCGGGTTCGGATCCACAATTTCTAGG
* * * *
160633 TCCAACTCGGATTCAGGTAAACACCAGTTCTGACTCGAATCGGGTTCGGATCGCTACAGTGCATG
131 TCCAACTCGGATTCAGGTAAACACCAGTTCCGACTCGAATCGAGTTCAGATCGCTACAGTGCATA
* * * * *
160698 TTAAAAACAATTTTGACTCGAGTCAGTTCCAGTCAGTTTTGTAGGTCGAATCAACTTTTTACACC
196 TTAAAAACAATTTTAACTCGAATCAGTTCCAATCAATTTTATAGGTCGAATCAACTTTTTACACC
* *
160763 CCTAGTATTAGAGTTATATATTATATCTACAAAGGTTGGTGATTTTTTC
261 CCTAATATTAGAGTTATATATTATATATACAAAGGTTGGTGATTTTTTC
*
160812 ATATCAGATCAGGTTAAAAACAGGTCAGGTTGAAAACAAGTCGGGTAATACCAGTTATTTACCAA
1 ATATCAAATCAGGTTAAAAACAGGTCAGGTTGAAAACAAGTCGGGTAATACCAGTTATTTACCAA
160877 ATCAATCTCGGTTTCGGGTTCATATCAGTCGGATACAAGTCGGGTTCGGATCCACAATTT-TCAG
66 ATCAATCTCGGTTTCGGGTTCATATCAGTCGGATACAAGTCGGGTTCGGATCCACAATTTCT-AG
*
160941 GTCCAACTCGGATTCAGGTAAACACCAGTTCCGACTCGAATCGATTTCAGATCGCTACAGTGCAT
130 GTCCAACTCGGATTCAGGTAAACACCAGTTCCGACTCGAATCGAGTTCAGATCGCTACAGTGCAT
* * * ** *
161006 ATTAAAAACAGTTTTAACTCGAATCGGTTTCAATCAATTTTATAGGTCGGGTCAGCTTTTTACAC
195 ATTAAAAACAATTTTAACTCGAATCAGTTCCAATCAATTTTATAGGTCGAATCAACTTTTTACAC
161071 CCCTAATATTAGAGTTATATATTATATATACAAAGGTTGGTGA
260 CCCTAATATTAGAGTTATATATTATATATACAAAGGTTGGTGA
161114 AGTCTTCATC
Statistics
Matches: 276, Mismatches: 25, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
308 1 0.00
309 275 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (309 bp):
ATATCAAATCAGGTTAAAAACAGGTCAGGTTGAAAACAAGTCGGGTAATACCAGTTATTTACCAA
ATCAATCTCGGTTTCGGGTTCATATCAGTCGGATACAAGTCGGGTTCGGATCCACAATTTCTAGG
TCCAACTCGGATTCAGGTAAACACCAGTTCCGACTCGAATCGAGTTCAGATCGCTACAGTGCATA
TTAAAAACAATTTTAACTCGAATCAGTTCCAATCAATTTTATAGGTCGAATCAACTTTTTACACC
CCTAATATTAGAGTTATATATTATATATACAAAGGTTGGTGATTTTTTC
Found at i:164165 original size:32 final size:32
Alignment explanation
Indices: 164124--164189 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
164114 GGAAATACTG
164124 AAAATGGCAAAATGTTGAAGGCCAAAACAAGC
1 AAAATGGCAAAATGTTGAAGGCCAAAACAAGC
164156 AAAATGGCAAAATGTTGAAGGCCAAAACAAGC
1 AAAATGGCAAAATGTTGAAGGCCAAAACAAGC
164188 AA
1 AA
164190 TCACCATACG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.52, C:0.15, G:0.21, T:0.12
Consensus pattern (32 bp):
AAAATGGCAAAATGTTGAAGGCCAAAACAAGC
Found at i:164958 original size:25 final size:25
Alignment explanation
Indices: 164925--164975 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
164915 CTTAGAAGAA
*
164925 TGGATTCATCACTTACTATGAACTT
1 TGGACTCATCACTTACTATGAACTT
164950 TGGACTCATCACTTACTATGAACTT
1 TGGACTCATCACTTACTATGAACTT
164975 T
1 T
164976 AGCAGAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (25 bp):
TGGACTCATCACTTACTATGAACTT
Found at i:167653 original size:13 final size:13
Alignment explanation
Indices: 167634--167694 Score: 59
Period size: 13 Copynumber: 4.3 Consensus size: 13
167624 AACCCGACCC
167634 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
167647 TACCCGACCAGTT
1 GACCCGACCCGTT
167660 GACCCGACCCGACCCGTT
1 G-----ACCCGACCCGTT
167678 GACCCGACCCGTT
1 GACCCGACCCGTT
167691 GACC
1 GACC
167695 GTTGACTCGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
13 27 0.69
18 12 0.31
ACGTcount: A:0.18, C:0.46, G:0.21, T:0.15
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:167653 original size:18 final size:18
Alignment explanation
Indices: 167629--167688 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
167619 GTCATAACCC
167629 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
*
167647 TACCCGA-CC-A---GTT
1 GACCCGACCCGACCCGTT
167660 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
167678 GACCCGACCCG
1 GACCCGACCCG
167689 TTGACCGTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
13 9 0.26
14 2 0.06
15 1 0.03
16 1 0.03
17 2 0.06
18 20 0.57
ACGTcount: A:0.18, C:0.48, G:0.22, T:0.12
Consensus pattern (18 bp):
GACCCGACCCGACCCGTT
Found at i:167664 original size:31 final size:31
Alignment explanation
Indices: 167629--167694 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
167619 GTCATAACCC
*
167629 GACCCGACCCGACCCGTTTACCCGACCAGTT
1 GACCCGACCCGACCCGTTGACCCGACCAGTT
*
167660 GACCCGACCCGACCCGTTGACCCGACCCGTT
1 GACCCGACCCGACCCGTTGACCCGACCAGTT
167691 GACC
1 GACC
167695 GTTGACTCGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.18, C:0.47, G:0.21, T:0.14
Consensus pattern (31 bp):
GACCCGACCCGACCCGTTGACCCGACCAGTT
Found at i:167681 original size:8 final size:8
Alignment explanation
Indices: 167670--167716 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
167660 GACCCGACCC
167670 GACCCGTT
1 GACCCGTT
167678 GACCC---
1 GACCCGTT
167683 GACCCGTT
1 GACCCGTT
167691 GA-CCGTT
1 GACCCGTT
*
167698 GACTCGTT
1 GACCCGTT
167706 GA-CCGTT
1 GACCCGTT
167713 GACC
1 GACC
167717 GGAGTTGACC
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
5 5 0.16
7 13 0.41
8 14 0.44
ACGTcount: A:0.15, C:0.36, G:0.26, T:0.23
Consensus pattern (8 bp):
GACCCGTT
Found at i:167698 original size:7 final size:7
Alignment explanation
Indices: 167686--167717 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
167676 TTGACCCGAC
167686 CCGTTGA
1 CCGTTGA
167693 CCGTTGA
1 CCGTTGA
167700 CTCGTTGA
1 C-CGTTGA
167708 CCGTTGA
1 CCGTTGA
167715 CCG
1 CCG
167718 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.31, G:0.28, T:0.28
Consensus pattern (7 bp):
CCGTTGA
Found at i:167707 original size:15 final size:15
Alignment explanation
Indices: 167687--167715 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
167677 TGACCCGACC
167687 CGTTGACCGTTGACT
1 CGTTGACCGTTGACT
167702 CGTTGACCGTTGAC
1 CGTTGACCGTTGAC
167716 CGGAGTTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.28, G:0.28, T:0.31
Consensus pattern (15 bp):
CGTTGACCGTTGACT
Found at i:169039 original size:18 final size:18
Alignment explanation
Indices: 169013--169048 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
169003 TCGAAAGGAC
*
169013 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
169031 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
169049 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:170219 original size:23 final size:23
Alignment explanation
Indices: 170193--170275 Score: 96
Period size: 23 Copynumber: 3.6 Consensus size: 23
170183 TCCGACTTGA
* *
170193 ATTCTGTTATGATCCTGACCTGG
1 ATTCTGATATGATCATGACCTGG
* *
170216 ATTCTGATCTGAT-ATTGACATGG
1 ATTCTGATATGATCA-TGACCTGG
*
170239 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATATGAT-CATGACCTGG
170263 ATTCTGATATGAT
1 ATTCTGATATGAT
170276 ACTTGACTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 31 0.61
24 19 0.37
25 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (23 bp):
ATTCTGATATGATCATGACCTGG
Found at i:170263 original size:24 final size:24
Alignment explanation
Indices: 170208--170282 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
170198 GTTATGATCC
170208 TGACCTGGATTCTGATCTGATA-T
1 TGACCTGGATTCTGATCTGATACT
* *
170231 TGACATGGATTCTGATCTGATACA
1 TGACCTGGATTCTGATCTGATACT
*
170255 TGACCTGGATTCTGATATGATACT
1 TGACCTGGATTCTGATCTGATACT
170279 TGAC
1 TGAC
170283 TTGAATTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGATACT
Found at i:172460 original size:13 final size:13
Alignment explanation
Indices: 172441--172516 Score: 89
Period size: 13 Copynumber: 5.5 Consensus size: 13
172431 AACCCGACCC
172441 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
172454 TACCCGACCAGTT
1 GACCCGACCCGTT
172467 GACCCGACCCGACCCGTT
1 G-----ACCCGACCCGTT
172485 GACCCGACCCGTT
1 GACCCGACCCGTT
172498 GACCCGACCCGTT
1 GACCCGACCCGTT
172511 GACCCG
1 GACCCG
172517 TTGACCGTTG
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
13 42 0.78
18 12 0.22
ACGTcount: A:0.17, C:0.46, G:0.22, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:172471 original size:31 final size:31
Alignment explanation
Indices: 172436--172522 Score: 129
Period size: 31 Copynumber: 2.7 Consensus size: 31
172426 GTCATAACCC
*
172436 GACCCGACCCGACCCGTTTACCCGACCAGTT
1 GACCCGACCCGACCCGTTGACCCGACCAGTT
*
172467 GACCCGACCCGACCCGTTGACCCGACCCGTT
1 GACCCGACCCGACCCGTTGACCCGACCAGTT
172498 GACCCGACCCGTTGACCCGTTGACC
1 GACCCGACCC---GACCCGTTGACC
172523 GTTGACTCGT
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
31 39 0.76
34 12 0.24
ACGTcount: A:0.17, C:0.46, G:0.22, T:0.15
Consensus pattern (31 bp):
GACCCGACCCGACCCGTTGACCCGACCAGTT
Found at i:172488 original size:8 final size:8
Alignment explanation
Indices: 172477--172544 Score: 71
Period size: 8 Copynumber: 9.5 Consensus size: 8
172467 GACCCGACCC
172477 GACCCGTT
1 GACCCGTT
172485 GACCC---
1 GACCCGTT
172490 GACCCGTT
1 GACCCGTT
172498 GACCC---
1 GACCCGTT
172503 GACCCGTT
1 GACCCGTT
172511 GACCCGTT
1 GACCCGTT
172519 GA-CCGTT
1 GACCCGTT
*
172526 GACTCGTT
1 GACCCGTT
172534 GA-CCGTT
1 GACCCGTT
172541 GACC
1 GACC
172545 GGAGTTGACC
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
5 10 0.20
7 13 0.26
8 27 0.54
ACGTcount: A:0.15, C:0.38, G:0.25, T:0.22
Consensus pattern (8 bp):
GACCCGTT
Found at i:172508 original size:18 final size:18
Alignment explanation
Indices: 172436--172495 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
172426 GTCATAACCC
172436 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
*
172454 TACCCGA-CC-A---GTT
1 GACCCGACCCGACCCGTT
172467 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
172485 GACCCGACCCG
1 GACCCGACCCG
172496 TTGACCCGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
13 9 0.26
14 2 0.06
15 1 0.03
16 1 0.03
17 2 0.06
18 20 0.57
ACGTcount: A:0.18, C:0.48, G:0.22, T:0.12
Consensus pattern (18 bp):
GACCCGACCCGACCCGTT
Found at i:172526 original size:7 final size:7
Alignment explanation
Indices: 172506--172545 Score: 62
Period size: 7 Copynumber: 5.4 Consensus size: 7
172496 TTGACCCGAC
172506 CCGTTGA
1 CCGTTGA
172513 CCCGTTGA
1 -CCGTTGA
172521 CCGTTGA
1 CCGTTGA
172528 CTCGTTGA
1 C-CGTTGA
172536 CCGTTGA
1 CCGTTGA
172543 CCG
1 CCG
172546 GAGTTGACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 17 0.55
8 14 0.45
ACGTcount: A:0.12, C:0.33, G:0.28, T:0.28
Consensus pattern (7 bp):
CCGTTGA
Found at i:172526 original size:15 final size:15
Alignment explanation
Indices: 172506--172544 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
172496 TTGACCCGAC
172506 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
*
172521 CCGTTGACTCGTTGA
1 CCGTTGACCCGTTGA
172536 CCGTTGACC
1 CCGTTGACC
172545 GGAGTTGACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.13, C:0.33, G:0.26, T:0.28
Consensus pattern (15 bp):
CCGTTGACCCGTTGA
Found at i:173867 original size:18 final size:18
Alignment explanation
Indices: 173841--173876 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
173831 TCGAAAGGAC
*
173841 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
173859 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
173877 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:175044 original size:23 final size:23
Alignment explanation
Indices: 175018--175100 Score: 96
Period size: 23 Copynumber: 3.6 Consensus size: 23
175008 TCCGACTTGA
* *
175018 ATTCTGTTATGATCCTGACCTGG
1 ATTCTGATATGATCATGACCTGG
* *
175041 ATTCTGATCTGAT-ATTGACATGG
1 ATTCTGATATGATCA-TGACCTGG
*
175064 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATATGAT-CATGACCTGG
175088 ATTCTGATATGAT
1 ATTCTGATATGAT
175101 ACTTGACTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 31 0.61
24 19 0.37
25 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (23 bp):
ATTCTGATATGATCATGACCTGG
Found at i:175088 original size:24 final size:24
Alignment explanation
Indices: 175033--175107 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
175023 GTTATGATCC
175033 TGACCTGGATTCTGATCTGATA-T
1 TGACCTGGATTCTGATCTGATACT
* *
175056 TGACATGGATTCTGATCTGATACA
1 TGACCTGGATTCTGATCTGATACT
*
175080 TGACCTGGATTCTGATATGATACT
1 TGACCTGGATTCTGATCTGATACT
175104 TGAC
1 TGAC
175108 TTGAATTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGATACT
Found at i:177836 original size:28 final size:25
Alignment explanation
Indices: 177805--177856 Score: 59
Period size: 28 Copynumber: 2.0 Consensus size: 25
177795 ATTTCAAAAT
177805 TATAATTATGAGAAAAAAATAATTTATA
1 TATAATTAT-A-AAAAAAAT-ATTTATA
* *
177833 TATATTTATAAATAAAATATTTAT
1 TATAATTATAAAAAAAATATTTAT
177857 TTATTTAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 6 0.27
26 7 0.32
27 1 0.05
28 8 0.36
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (25 bp):
TATAATTATAAAAAAAATATTTATA
Found at i:177863 original size:23 final size:26
Alignment explanation
Indices: 177815--177869 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 26
177805 TATAATTATG
177815 AGAAA-AAAATAATTTATATATATTT
1 AGAAATAAAATAATTTATATATATTT
*
177840 ATAAATAAAAT-ATTTAT-T-TATTT
1 AGAAATAAAATAATTTATATATATTT
177863 AGAAATA
1 AGAAATA
177870 TCAGAAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 11 0.41
24 1 0.04
25 10 0.37
26 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (26 bp):
AGAAATAAAATAATTTATATATATTT
Found at i:178099 original size:2 final size:2
Alignment explanation
Indices: 178092--178151 Score: 79
Period size: 2 Copynumber: 30.0 Consensus size: 2
178082 TATTATTTAT
*
178092 TA TA TA TA TA TT TA TA TGA CTA TA TA -A TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA T-A -TA TA TA TA TA TA TA TA TA TA TA TA
178134 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
178152 AACAAGTAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
1 2 0.04
2 47 0.90
3 2 0.04
4 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:179532 original size:21 final size:21
Alignment explanation
Indices: 179506--179582 Score: 66
Period size: 21 Copynumber: 3.5 Consensus size: 21
179496 TTGGGCCTGT
179506 AATAATATTTATTAATTATAA
1 AATAATATTTATTAATTATAA
* *
179527 AATAATAATAATT-ATTATAA
1 AATAATATTTATTAATTATAA
* * *
179547 TAATAATAATAATAATAATAATATA
1 -AATAAT-AT-TTATTAATTATA-A
179572 AATAATATTTA
1 AATAATATTTA
179583 AATGAAAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
20 7 0.16
21 17 0.40
22 3 0.07
23 4 0.09
24 11 0.26
25 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AATAATATTTATTAATTATAA
Found at i:179535 original size:3 final size:3
Alignment explanation
Indices: 179518--179578 Score: 72
Period size: 3 Copynumber: 20.7 Consensus size: 3
179508 TAATATTTAT
* * *
179518 TAA TTA TAA -AA TAA TAA TAA TTA TTA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
179565 TAA T-A TAAA TAA TA
1 TAA TAA T-AA TAA TA
179579 TTTAAATGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
2 4 0.08
3 45 0.88
4 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:179535 original size:24 final size:24
Alignment explanation
Indices: 179505--179562 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
179495 TTTGGGCCTG
* *
179505 TAATAATATTTATTAATTATAA-AA
1 TAATAATAATTATT-ATAATAATAA
179529 TAATAATAATTATTATAATAATAA
1 TAATAATAATTATTATAATAATAA
179553 TAATAATAAT
1 TAATAATAAT
179563 AATAATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 6 0.19
24 25 0.81
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TAATAATAATTATTATAATAATAA
Found at i:179934 original size:124 final size:122
Alignment explanation
Indices: 179713--179995 Score: 353
Period size: 124 Copynumber: 2.3 Consensus size: 122
179703 GTTGAATAAA
* * *
179713 TTCTTCTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCACTGGGGATGATGTTGACCTA
1 TTCTT-TCTTT-TTCAGATGAGTTCTTCTCATTATGAACTTTCCACTGAGGATGATGCTAACCTA
* * *
179778 TTTCCTTCTGTGATAAAGTCATTCAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTC
64 TCTCCTTCTGTGATAAAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTC
* * *
179837 TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTT-CTCTAGAAAGGTTGATGCTAATCT
1 TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCCACT-G--AGGATGATGCTAACCT
* * *
179901 ATCTGCTTCTGTGATAGAA-TTATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTC
63 ATCTCCTTCTGTGATA-AAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTC
*
179961 TTC-TTC---CTCAGATGAGTTCTTCTCATTATGAACTT
1 TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTT
179996 CTTCTTCTTC
Statistics
Matches: 142, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
120 28 0.20
121 3 0.02
122 31 0.22
123 8 0.06
124 70 0.49
125 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.42
Consensus pattern (122 bp):
TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCCACTGAGGATGATGCTAACCTATC
TCCTTCTGTGATAAAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTC
Found at i:179982 original size:36 final size:36
Alignment explanation
Indices: 179942--180067 Score: 225
Period size: 36 Copynumber: 3.5 Consensus size: 36
179932 TTGAACAAGC
* *
179942 TCTTCTCATTGTGAACTTCTTCTTCCTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
179978 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
*
180014 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGC
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
180050 TCTTCTCATTATGAACTT
1 TCTTCTCATTATGAACTT
180068 TCTCTGGAAA
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 87 1.00
ACGTcount: A:0.19, C:0.24, G:0.11, T:0.46
Consensus pattern (36 bp):
TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
Found at i:180002 original size:20 final size:20
Alignment explanation
Indices: 179977--180039 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
179967 CTCAGATGAG
179977 TTCTTCTCATTATGAACTTC
1 TTCTTCTCATTATGAACTTC
* *
179997 TTCTTCTTCA-GATG-A---G
1 TTCTTC-TCATTATGAACTTC
180013 TTCTTCTCATTATGAACTTC
1 TTCTTCTCATTATGAACTTC
180033 TTCTTCT
1 TTCTTCT
180040 TCAGATGAGC
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
15 3 0.09
16 9 0.27
17 1 0.03
19 1 0.03
20 16 0.48
21 3 0.09
ACGTcount: A:0.17, C:0.24, G:0.08, T:0.51
Consensus pattern (20 bp):
TTCTTCTCATTATGAACTTC
Found at i:180144 original size:17 final size:17
Alignment explanation
Indices: 180122--180210 Score: 60
Period size: 17 Copynumber: 5.1 Consensus size: 17
180112 GTTGAACAAA
*
180122 TTCTTCTCATTATGAAT
1 TTCTTCTCATTATGAAC
* *
180139 TTCTTCTTTCA-GATG-AG
1 TTCTTC--TCATTATGAAC
180156 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
*
180173 TTCTTCTTC-TTCA-GATGAG
1 TTCTTC-TCATT-ATGA--AC
180192 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
180209 TT
1 TT
180211 TCTCTGGAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 20
0.68 0.07 0.24
Matches are distributed among these distances:
15 3 0.05
16 3 0.05
17 27 0.48
18 9 0.16
19 14 0.25
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.49
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:180165 original size:34 final size:36
Alignment explanation
Indices: 180122--180213 Score: 152
Period size: 36 Copynumber: 2.6 Consensus size: 36
180112 GTTGAACAAA
180122 TTCTTCTCATTATGAATTTCTTC-T-TTCAGATGAG
1 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAG
*
180156 TTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAG
1 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAG
180192 TTCTTCTCATTATGAACTTTCT
1 TTCTTCTCATTATGAA-TTTCT
180214 CTGGAAAAGC
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
34 22 0.42
35 1 0.02
36 26 0.49
37 4 0.08
ACGTcount: A:0.20, C:0.21, G:0.10, T:0.50
Consensus pattern (36 bp):
TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAG
Found at i:180174 original size:143 final size:145
Alignment explanation
Indices: 179977--180466 Score: 862
Period size: 143 Copynumber: 3.4 Consensus size: 145
179967 CTCAGATGAG
*
179977 TTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCTTC
1 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCTTC
* * *
180042 AGATGAGCTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCTATCAAGTGATGGATTTGAAC
66 AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGTTTTGAAC
*
180107 AAAAGGTTGAACAAA
131 AAAAAGTTGAACAAA
180122 TTCTTCTCATTATGAATTTCTTC-T-TTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCTTC
1 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCTTC
180185 AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGTTTTGAAC
66 AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGTTTTGAAC
180250 AAAAAGTTGAACAAA
131 AAAAAGTTGAACAAA
180265 TTCTTCTCATTATGAATTTCTTC-T-TTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCTTC
1 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCTTC
180328 AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGTTTTGAAC
66 AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGTTTTGAAC
*
180393 AAAAAGTTGAACAAG
131 AAAAAGTTGAACAAA
180408 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT
1 TTCTTCTCATTATGAA--T-TTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTT
180467 TCCCTGGCAA
Statistics
Matches: 333, Mismatches: 6, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
143 273 0.82
144 1 0.00
145 23 0.07
146 5 0.02
147 1 0.00
148 1 0.00
149 29 0.09
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (145 bp):
TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCTTC
AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGTTTTGAAC
AAAAAGTTGAACAAA
Found at i:180279 original size:73 final size:73
Alignment explanation
Indices: 180190--180426 Score: 204
Period size: 73 Copynumber: 3.3 Consensus size: 73
180180 TCTTCAGATG
180190 AGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGTTTTGAACAAAAA
1 AGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGTTTTGAACAAAAA
180255 GTTGAACA
66 GTTGAACA
* * ** * ** * ** ***
180263 AATTCTTCTCATTATGAA-TTTCTTCTTTCAGATGAGTTCTTCTCAT-TA-TGA-ACTTCTTCTT
1 AGTTCTTCTCATTATGAACTTTC-TC--T-GGAAAAGCTGATC-CATCAAGTGATGGTT-TTGAA
*** *
180324 C-TTCAGATG----
60 CAAAAAGTTGAACA
180333 AGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGTTTTGAACAAAAA
1 AGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGTTTTGAACAAAAA
180398 GTTGAACA
66 GTTGAACA
180406 AGTTCTTCTCATTATGAACTT
1 AGTTCTTCTCATTATGAACTT
180427 CTTCTTCCTT
Statistics
Matches: 115, Mismatches: 34, Indels: 30
0.64 0.19 0.17
Matches are distributed among these distances:
66 3 0.03
67 8 0.07
68 7 0.06
69 6 0.05
70 19 0.17
71 4 0.03
72 4 0.03
73 40 0.35
74 6 0.05
75 7 0.06
76 8 0.07
77 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.39
Consensus pattern (73 bp):
AGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGTTTTGAACAAAAA
GTTGAACA
Found at i:180287 original size:17 final size:17
Alignment explanation
Indices: 180265--180353 Score: 60
Period size: 17 Copynumber: 5.1 Consensus size: 17
180255 GTTGAACAAA
*
180265 TTCTTCTCATTATGAAT
1 TTCTTCTCATTATGAAC
* *
180282 TTCTTCTTTCA-GATG-AG
1 TTCTTC--TCATTATGAAC
180299 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
*
180316 TTCTTCTTC-TTCA-GATGAG
1 TTCTTC-TCATT-ATGA--AC
180335 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
180352 TT
1 TT
180354 TCTCTGGAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 20
0.68 0.07 0.24
Matches are distributed among these distances:
15 3 0.05
16 3 0.05
17 27 0.48
18 9 0.16
19 14 0.25
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.49
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:180308 original size:34 final size:36
Alignment explanation
Indices: 180265--180356 Score: 152
Period size: 36 Copynumber: 2.6 Consensus size: 36
180255 GTTGAACAAA
180265 TTCTTCTCATTATGAATTTCTTC-T-TTCAGATGAG
1 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAG
*
180299 TTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAG
1 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAG
180335 TTCTTCTCATTATGAACTTTCT
1 TTCTTCTCATTATGAA-TTTCT
180357 CTGGAAAAGC
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
34 22 0.42
35 1 0.02
36 26 0.49
37 4 0.08
ACGTcount: A:0.20, C:0.21, G:0.10, T:0.50
Consensus pattern (36 bp):
TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAG
Found at i:180496 original size:113 final size:111
Alignment explanation
Indices: 180297--180539 Score: 373
Period size: 113 Copynumber: 2.2 Consensus size: 111
180287 CTTTCAGATG
*
180297 AGTTCTTCTCATTATGAA--CTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 AGTTCTTCTCATTATGAACTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCCTG
* ** **
180360 GAAAAGCTGATCCATCAAGTGATGGTTTTGAACAAAAAGTTGAACA
66 GAAAAGCTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACA
180406 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCC
1 AGTTCTTCTCATTATGAAC-TCTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCC
* * *
180471 TGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACA
64 TGGAAAAGCTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACA
180519 AGTTCTTCTCATTATGAACTC
1 AGTTCTTCTCATTATGAACTC
180540 GAACTGGAAA
Statistics
Matches: 121, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
109 18 0.15
112 8 0.07
113 95 0.79
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (111 bp):
AGTTCTTCTCATTATGAACTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCCTG
GAAAAGCTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACA
Found at i:181468 original size:114 final size:115
Alignment explanation
Indices: 181268--181723 Score: 772
Period size: 115 Copynumber: 4.0 Consensus size: 115
181258 CATGTAGTTC
* * * * *
181268 ATCTTTTAATTCCAATGATTGG-TTCTGTGGTTCCTACCAAACCATATCAGATAACTCAAAGAAC
1 ATCTTTCAAATCCAATGATTGGTTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAAC
181332 ACTTCCAGAAGATGCTATTGGGTATTCTTATTTCTACTATGAGCACATTT
66 ACTTCCAGAAGATGCTATTGGGTATTCTTATTTCTACTATGAGCACATTT
* *
181382 ATCTTTCAAATCCAATGATTGG-TTCTGTGGTTCCTACCAAACCAGATCAGATAACTCAAAGAAC
1 ATCTTTCAAATCCAATGATTGGTTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAAC
* *
181446 ACTTCCAGAAGATGCTATTGGGTCTTCTTATTTATACTATGAGCACATTT
66 ACTTCCAGAAGATGCTATTGGGTATTCTTATTTCTACTATGAGCACATTT
*
181496 ATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAAC
1 ATCTTTCAAATCCAATGATTGGTTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAAC
**
181561 ACTTCCAGAAGATGCTATTGGGTCCTCTTATTTCTACTATGAGCACATTT
66 ACTTCCAGAAGATGCTATTGGGTATTCTTATTTCTACTATGAGCACATTT
* *
181611 ATCTTTCAAACCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAAC
1 ATCTTTCAAATCCAATGATTGGTTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAAC
181676 ACTTCCAGAAGATGCTATTGGGTATTCTTATTTCTACTATGAGCACAT
66 ACTTCCAGAAGATGCTATTGGGTATTCTTATTTCTACTATGAGCACAT
181724 GGCACTTGCT
Statistics
Matches: 328, Mismatches: 13, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
114 131 0.40
115 197 0.60
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.34
Consensus pattern (115 bp):
ATCTTTCAAATCCAATGATTGGTTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAAC
ACTTCCAGAAGATGCTATTGGGTATTCTTATTTCTACTATGAGCACATTT
Found at i:183014 original size:17 final size:18
Alignment explanation
Indices: 182994--183038 Score: 67
Period size: 16 Copynumber: 2.6 Consensus size: 18
182984 TCTTGACCCC
182994 CTTTTTTTCTTTTCT-TT
1 CTTTTTTTCTTTTCTGTT
*
183011 C-TTTTTTCTTTTTTGTT
1 CTTTTTTTCTTTTCTGTT
183028 CTTTTTTTCTT
1 CTTTTTTTCTT
183039 CAAGCATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 12 0.48
17 4 0.16
18 9 0.36
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (18 bp):
CTTTTTTTCTTTTCTGTT
Found at i:183019 original size:11 final size:10
Alignment explanation
Indices: 182997--183035 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
182987 TGACCCCCTT
182997 TTTTTCTTTTC
1 TTTTT-TTTTC
183008 TTTCTTTTTTC
1 TTT-TTTTTTC
*
183019 TTTTTTGTTC
1 TTTTTTTTTC
183029 TTTTTTT
1 TTTTTTT
183036 CTTCAAGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 12 0.48
11 11 0.44
12 2 0.08
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.85
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:186583 original size:18 final size:19
Alignment explanation
Indices: 186557--186593 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
186547 ATTTATGAAA
*
186557 TAAATAAATGTAAA-AATG
1 TAAAAAAATGTAAAGAATG
186575 TAAAAAAATGTAAAGAATG
1 TAAAAAAATGTAAAGAATG
186594 ATTGCCATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (19 bp):
TAAAAAAATGTAAAGAATG
Found at i:193092 original size:25 final size:23
Alignment explanation
Indices: 193056--193105 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
193046 TAAAGAACAA
* *
193056 AAAGAAATAAATTAGTTTACATAAT
1 AAAGAAA-AAAATAATTTA-ATAAT
193081 AAAGAAAAAAATAATTTAATAAT
1 AAAGAAAAAAATAATTTAATAAT
193104 AA
1 AA
193106 TGTCTACCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 7 0.30
24 9 0.39
25 7 0.30
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (23 bp):
AAAGAAAAAAATAATTTAATAAT
Found at i:194243 original size:28 final size:25
Alignment explanation
Indices: 194212--194263 Score: 59
Period size: 28 Copynumber: 2.0 Consensus size: 25
194202 ATTTCAAAAT
194212 TATAATTATGAGAAAAAAATAATTTATA
1 TATAATTAT-A-AAAAAAAT-ATTTATA
* *
194240 TATATTTATAAATAAAATATTTAT
1 TATAATTATAAAAAAAATATTTAT
194264 TTATTTAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 6 0.27
26 7 0.32
27 1 0.05
28 8 0.36
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (25 bp):
TATAATTATAAAAAAAATATTTATA
Found at i:194270 original size:23 final size:26
Alignment explanation
Indices: 194222--194276 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 26
194212 TATAATTATG
194222 AGAAA-AAAATAATTTATATATATTT
1 AGAAATAAAATAATTTATATATATTT
*
194247 ATAAATAAAAT-ATTTAT-T-TATTT
1 AGAAATAAAATAATTTATATATATTT
194270 AGAAATA
1 AGAAATA
194277 TCAGAAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 11 0.41
24 1 0.04
25 10 0.37
26 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (26 bp):
AGAAATAAAATAATTTATATATATTT
Found at i:195932 original size:3 final size:3
Alignment explanation
Indices: 195914--195977 Score: 69
Period size: 3 Copynumber: 21.7 Consensus size: 3
195904 ATTGGGCCTG
* * * *
195914 TAA TAA TAT TAT TAA TAA TAA -AA TAA TAA TAA TTA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
195961 TAA TAA T-A TAAA TAA TA
1 TAA TAA TAA T-AA TAA TA
195978 TTTAAATGAA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
2 4 0.07
3 48 0.89
4 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:196360 original size:111 final size:112
Alignment explanation
Indices: 196151--196438 Score: 497
Period size: 111 Copynumber: 2.6 Consensus size: 112
196141 TTGTCAGTTT
* * * * *
196151 GTGTCGATACTTTATAAAAATATATTGATCAATAACAATATAACAAGTAAAAAAAATGACAAAAT
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAAATGACAAAAC
*
196216 CGGTCTATAAATGACAAAACAGGTAAAGTGCTACCGGATATATTGAAA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
196264 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
196328 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGTATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
196375 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAAC
196439 AGGTAAAGCG
Statistics
Matches: 167, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
111 108 0.65
112 15 0.09
113 44 0.26
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:196493 original size:92 final size:91
Alignment explanation
Indices: 196335--196529 Score: 345
Period size: 92 Copynumber: 2.1 Consensus size: 91
196325 ACCGGTCTAT
* *
196335 AAATGACAAAACAGGTAAAGCGCTACCGTATATATTGAAAGTGTCGATACTTTATAAAAATGTAT
1 AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATATAT
196400 CGATCCATAACAATATAACAGGTAAAA
66 CGATCCATAAC-ATATAACAGGTAAAA
* *
196427 AAATGACAAAACAGGTAAAGCGCTATCGGATATATTGAAAGTGTTGATACTTTATAAAAATATAT
1 AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATATAT
196492 CGATCCATAACATATAACAGGTAAAA
66 CGATCCATAACATATAACAGGTAAAA
196518 AAATGACAAAAC
1 AAATGACAAAAC
196530 CGGTCTATAA
Statistics
Matches: 99, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 27 0.27
92 72 0.73
ACGTcount: A:0.47, C:0.13, G:0.15, T:0.25
Consensus pattern (91 bp):
AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATATAT
CGATCCATAACATATAACAGGTAAAA
Found at i:196573 original size:203 final size:207
Alignment explanation
Indices: 196222--196815 Score: 892
Period size: 203 Copynumber: 2.8 Consensus size: 207
196212 AAATCGGTCT
*
196222 ATAAATGACAAAACAGGTAAAGTGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATGT
1 ATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATGT
196287 ATCGATCCATAACAATATAACAGGT-AAAAAATGACAAAACCGGTCTATAAATGACAAAACAGGT
66 ATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAACAGGT
*
196351 AAAGCGCTACCGTATATATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAT
131 AAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAT
196416 AACAGGT-AAA-
196 AACAGGTAAAAC
* * *
196426 A-AAATGACAAAACAGGTAAAGCGCTATCGGATATATTGAAAGTGTTGATACTTTATAAAAATAT
1 ATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATGT
*
196490 ATCGATCCATAAC-ATATAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGAAAAAACAGGT
66 ATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAACAGGT
196554 AAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAT
131 AAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAT
196619 AACAGGTAAAAAAAGACAAAACCGGTC
196 AACAGGT----------AAAA-----C
* *
196646 TATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATATTTTATAAAAATG
1 -ATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATG
** *
196711 TATTAATCCATAACAATATAACAGGTAAACAAATGACAAAACCGGTCTATAAATGACAAAACAGG
65 TATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAACAGG
* *
196776 TAAAGCGCTACCGGATATGTTGATAGTGTCGATACTTTAT
130 TAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAT
196816 TATAAGTATC
Statistics
Matches: 352, Mismatches: 17, Indels: 23
0.90 0.04 0.06
Matches are distributed among these distances:
202 11 0.03
203 181 0.51
204 1 0.00
214 3 0.01
221 1 0.00
222 69 0.20
223 86 0.24
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (207 bp):
ATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATGT
ATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAACAGGT
AAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAT
AACAGGTAAAAC
Found at i:196808 original size:112 final size:111
Alignment explanation
Indices: 196427--196815 Score: 654
Period size: 111 Copynumber: 3.5 Consensus size: 111
196417 ACAGGTAAAA
* * *
196427 AAATGACAAAACAGGTAAAGCGCTATCGGATATATTGAAAGTGTTGATACTTTATAAAAATATAT
1 AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATGTAT
196492 CGATCCATAAC-ATATAACAGGTAAAAAAATGACAAAACCGGTCTAT
66 CGATCCATAACAATATAACAGGT-AAAAAATGACAAAACCGGTCTAT
*
196538 AAATGAAAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATGTAT
1 AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATGTAT
*
196603 CGATCCATAACAATATAACAGGTAAAAAAAGACAAAACCGGTCTAT
66 CGATCCATAACAATATAACAGGTAAAAAATGACAAAACCGGTCTAT
* *
196649 AAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATATTTTATAAAAATGTAT
1 AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATGTAT
**
196714 TAATCCATAACAATATAACAGGTAAACAAATGACAAAACCGGTCTAT
66 CGATCCATAACAATATAACAGGTAAA-AAATGACAAAACCGGTCTAT
* *
196761 AAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGATAGTGTCGATACTTTAT
1 AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAT
196816 TATAAGTATC
Statistics
Matches: 261, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
111 180 0.69
112 81 0.31
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (111 bp):
AAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATGTAT
CGATCCATAACAATATAACAGGTAAAAAATGACAAAACCGGTCTAT
Found at i:197006 original size:179 final size:179
Alignment explanation
Indices: 196686--197138 Score: 683
Period size: 179 Copynumber: 2.5 Consensus size: 179
196676 AGATATATTG
* **
196686 AAAGTGTCGATATTTTATAAAAATGTATTAATCCATAACAATATAACAGGTAAACAA-ATGACAA
1 AAAGTGTCGATA-CTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAA-AATATGACAA
* * * *
196750 AACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGATAGTGTCGATACTTTA
64 AACCGGTC--GAAATGACAAAACAGGTAAAGAGCTACCGGATATGTTGAAAGTGTAGATACTTTA
* *
196815 TTATAAGTATCGACACTTTTGAAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
127 TTATAAGTATCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
196868 AAAGTGTCGATACTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAA
1 AAAGTGTCGATACTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAA
* *
196933 CCGGTCGAAATGACAAAACTGGTAAAGAGCTATCGGATATGTTGAAAGTGTAGATACTTTATTAT
66 CCGGTCGAAATGACAAAACAGGTAAAGAGCTACCGGATATGTTGAAAGTGTAGATACTTTATTAT
* *
196998 AAGTATCGACGCTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
131 AAGTATCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
* *
197047 AAAGTGTCGATACTTTATAAAAATTTATCGATCCATAACAATATAACAAGTAAAAATATGACAAA
1 AAAGTGTCGATAC-TTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* *
197112 ATCGGTCTCGAAATGACAAAACCGGTA
65 ACCGG--TCGAAATGACAAAACAGGTA
197139 GTAAAAAGTG
Statistics
Matches: 250, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
179 111 0.44
180 55 0.22
181 53 0.21
182 31 0.12
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (179 bp):
AAAGTGTCGATACTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAA
CCGGTCGAAATGACAAAACAGGTAAAGAGCTACCGGATATGTTGAAAGTGTAGATACTTTATTAT
AAGTATCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
Found at i:200107 original size:21 final size:21
Alignment explanation
Indices: 200079--200132 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
200069 TCGCAGTCGT
*
200079 TTTC-GATGCCACCGTAACCA
1 TTTCAGATGCCACCGCAACCA
200099 TTTCAGATGCCACCGCAACCA
1 TTTCAGATGCCACCGCAACCA
200120 TTTCAGATGCCAC
1 TTTCAGATGCCAC
200133 TACCGCAGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 4 0.12
21 28 0.88
ACGTcount: A:0.26, C:0.35, G:0.15, T:0.24
Consensus pattern (21 bp):
TTTCAGATGCCACCGCAACCA
Found at i:200562 original size:20 final size:20
Alignment explanation
Indices: 200539--200604 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
200529 CTTATTTTTA
200539 TTATTTGTTTCTTAATGTTT
1 TTATTTGTTTCTTAATGTTT
** * *
200559 TTATTTAATT-TAAACTTTTT
1 TTATTTGTTTCTTAA-TGTTT
200579 TTATTTTGTTTCTTAATG-TT
1 TTA-TTTGTTTCTTAATGTTT
200599 TTATTT
1 TTATTT
200605 AATTATGGAC
Statistics
Matches: 35, Mismatches: 8, Indels: 7
0.70 0.16 0.14
Matches are distributed among these distances:
19 6 0.17
20 20 0.57
21 6 0.17
22 3 0.09
ACGTcount: A:0.20, C:0.05, G:0.06, T:0.70
Consensus pattern (20 bp):
TTATTTGTTTCTTAATGTTT
Found at i:200590 original size:41 final size:41
Alignment explanation
Indices: 200533--200738 Score: 183
Period size: 41 Copynumber: 4.9 Consensus size: 41
200523 GATAGACTTA
200533 TTTTTATTATTTGTTTCTTAATGTTTTTATTTAATTTA-AAC
1 TTTTT-TTATTTGTTTCTTAATGTTTTTATTTAATTTAGAAC
*
200574 TTTTTTTATTTTGTTTCTTAATG-TTTTATTTAA-TTATGGAC
1 TTTTTTTA-TTTGTTTCTTAATGTTTTTATTTAATTTA-GAAC
* *
200615 TCCTTATTTATTTGTTTCTTAATATTTTTATTATTTAA-TTAGAAC
1 T--TTTTTTATTTGTTTCTT-A-ATGTTT-TTATTTAATTTAGAAC
*
200660 TTTTTATTTATTTTGTTTCTTAA-GTTTTTATATTAA-TTATG-AT
1 -TTTT-TTTA-TTTGTTTCTTAATGTTTTTAT-TTAATTTA-GAAC
* *
200703 TTTTTTTATTTATTTCTTAATTTTTATTATTTAATT
1 TTTTTTTATTTGTTTCTTAATGTTT-TTATTTAATT
200739 GTTTTAATTG
Statistics
Matches: 139, Mismatches: 9, Indels: 33
0.77 0.05 0.18
Matches are distributed among these distances:
39 3 0.02
40 24 0.17
41 33 0.24
42 23 0.17
43 18 0.13
44 6 0.04
45 10 0.07
46 22 0.16
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (41 bp):
TTTTTTTATTTGTTTCTTAATGTTTTTATTTAATTTAGAAC
Found at i:200711 original size:86 final size:81
Alignment explanation
Indices: 200532--200738 Score: 258
Period size: 86 Copynumber: 2.5 Consensus size: 81
200522 CGATAGACTT
* *
200532 ATTTTTATTATTTGTTTCTTAATGTTT-TTATTTAATTTAAACTTTTTTTATTTTGTTTCTTAAT
1 ATTTTTTTTATTTGTTTCTTAATTTTTATTATTTAA-TTAAACTTTTTTTATTTTGTTTCTTAAT
200596 GTTTTATTTAATTATGG
65 GTTTTATTTAATTATGG
* *
200613 ACTCCTTATTTATTTGTTTCTTAATATTTTTATTATTTAATTAGAACTTTTTATTTATTTTGTTT
1 A-T-TTTTTTTATTTGTTTCTT-A-ATTTTTATTATTTAATTA-AAC-TTTT-TTTATTTTGTTT
200678 CTTAA-GTTTTTATATTAATTAT-G
59 CTTAATG-TTTTAT-TTAATTATGG
*
200701 ATTTTTTTTATTTATTTCTTAATTTTTATTATTTAATT
1 ATTTTTTTTATTTGTTTCTTAATTTTTATTATTTAATT
200739 GTTTTAATTG
Statistics
Matches: 109, Mismatches: 7, Indels: 17
0.82 0.05 0.13
Matches are distributed among these distances:
81 1 0.01
82 1 0.01
83 15 0.14
84 18 0.17
85 9 0.08
86 26 0.24
87 6 0.06
88 25 0.23
89 8 0.07
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (81 bp):
ATTTTTTTTATTTGTTTCTTAATTTTTATTATTTAATTAAACTTTTTTTATTTTGTTTCTTAATG
TTTTATTTAATTATGG
Done.