Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 102 of 328
Found at i:28421478 original size:17 final size:17
Alignment explanation
Indices: 28421456--28421488 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
28421446 TAGTTTGAAT
*
28421456 GTTGATGAGGCACTAGC
1 GTTGATAAGGCACTAGC
28421473 GTTGATAAGGCACTAG
1 GTTGATAAGGCACTAG
28421489 ATGATTCAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.24
Consensus pattern (17 bp):
GTTGATAAGGCACTAGC
Found at i:28426199 original size:17 final size:17
Alignment explanation
Indices: 28426160--28426206 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
28426150 CTTCACCCCA
* *
28426160 TCCTTTCTTTTCCACTTT
1 TCCTTTCTATT-CTCTTT
*
28426178 T-CTTTCTCTTCTCTTT
1 TCCTTTCTATTCTCTTT
28426194 TCCTTTCTATTCT
1 TCCTTTCTATTCT
28426207 ATTCTTCTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 6 0.24
17 18 0.72
18 1 0.04
ACGTcount: A:0.04, C:0.32, G:0.00, T:0.64
Consensus pattern (17 bp):
TCCTTTCTATTCTCTTT
Found at i:28432449 original size:17 final size:17
Alignment explanation
Indices: 28432424--28432459 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
28432414 TAGAATTGGG
* *
28432424 TTGAGAAAATTATTTAA
1 TTGACAAAATTAATTAA
28432441 TTGACAAAATTAATTAA
1 TTGACAAAATTAATTAA
28432458 TT
1 TT
28432460 AAAATTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (17 bp):
TTGACAAAATTAATTAA
Found at i:28434258 original size:27 final size:26
Alignment explanation
Indices: 28434221--28434335 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
28434211 AGCATGGCTG
* *
28434221 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
28434247 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
28434275 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
** * *
28434302 CCAGATTAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
28434329 CCAGAAC
1 CCAGAAC
28434336 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.06
27 56 0.72
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:28434280 original size:54 final size:54
Alignment explanation
Indices: 28434221--28434335 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
28434211 AGCATGGCTG
*
28434221 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * * *
28434275 CCAGAACAGATATATGTGGCAGAGCCACCAGATTAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
28434329 CCAGAAC
1 CCAGAAC
28434336 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:28434482 original size:26 final size:27
Alignment explanation
Indices: 28434436--28434511 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 27
28434426 CAAAATTAAC
**
28434436 CCTAGGGGTATAACGGTAATTTT-ACA
1 CCTAGGGGTATAATAGTAATTTTCACA
* *
28434462 CCTAGGGGTATAATAGCAATTTTCCATA
1 CCTAGGGGTATAATAGTAATTTT-CACA
* *
28434490 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAATAGTAATTT
28434512 AGATACTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 20 0.49
28 21 0.51
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (27 bp):
CCTAGGGGTATAATAGTAATTTTCACA
Found at i:28435986 original size:26 final size:26
Alignment explanation
Indices: 28435950--28436059 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
28435940 CATGAAATTC
28435950 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
28435976 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
28436002 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
28436028 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
28436054 TTATCA
1 TTATCA
28436060 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:28440079 original size:26 final size:26
Alignment explanation
Indices: 28439988--28440101 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
28439978 AGCATGGCTG
* *
28439988 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
28440014 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
28440042 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
28440069 -CAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
28440095 CCAGAAC
1 CCAGAAC
28440102 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
26 28 0.36
27 33 0.42
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:28440094 original size:53 final size:54
Alignment explanation
Indices: 28439988--28440101 Score: 160
Period size: 53 Copynumber: 2.1 Consensus size: 54
28439978 AGCATGGCTG
*
28439988 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * * *
28440042 CCAGAACAGATATATGTGGCAGAGCCA-CAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
28440095 CCAGAAC
1 CCAGAAC
28440102 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
53 25 0.46
54 17 0.31
55 12 0.22
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:28441746 original size:26 final size:26
Alignment explanation
Indices: 28441710--28441819 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
28441700 CATGAAATTC
28441710 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
28441736 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
28441762 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
28441788 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
28441814 TTATCA
1 TTATCA
28441820 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:28447617 original size:11 final size:12
Alignment explanation
Indices: 28447589--28447619 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
28447579 AGCAAAACAA
28447589 GTTTTTAACGGT
1 GTTTTTAACGGT
28447601 GTTTTTAACGGT
1 GTTTTTAACGGT
28447613 GTTTTTA
1 GTTTTTA
28447620 GCGACGCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.16, C:0.06, G:0.23, T:0.55
Consensus pattern (12 bp):
GTTTTTAACGGT
Found at i:28447743 original size:40 final size:40
Alignment explanation
Indices: 28447634--28447804 Score: 182
Period size: 40 Copynumber: 4.3 Consensus size: 40
28447624 CGCTTGGACA
* * * * *
28447634 AAAAACGCCGCTATAGATTGAGTATTAGTGATGCTTTCTA
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGTGCTTTCTG
* * * *
28447674 AAAAACGCCGCTATAGGTCAACCATTAGCGGCGCTTTCTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGTGCTTTCTG
* * *
28447714 AAAAACGCCGCTATAGATCGAGCACTAGCGGTGCTTTTTC
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGTGCTTTCTG
* * * *
28447754 AAAAACACTGCTATAGATCGAGCTTTAGCGGTGCTTTGTAG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGTGCTTTCT-G
28447795 AAAAA-GCCGC
1 AAAAACGCCGC
28447805 AAAACATTTT
Statistics
Matches: 106, Mismatches: 24, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
40 101 0.95
41 5 0.05
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATCGAGCATTAGCGGTGCTTTCTG
Found at i:28448160 original size:15 final size:14
Alignment explanation
Indices: 28448136--28448169 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
28448126 CTATTTTAAT
*
28448136 GTTTATGGATTATGG
1 GTTTAGGGATTAT-G
28448151 GTTTAGGGATTATG
1 GTTTAGGGATTATG
28448165 GTTTA
1 GTTTA
28448170 TAGTTTACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (14 bp):
GTTTAGGGATTATG
Found at i:28448231 original size:21 final size:21
Alignment explanation
Indices: 28448205--28448249 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
28448195 CTAGGTTTAG
28448205 GGGTT-AGTAGTTAGGAGTTAA
1 GGGTTAAG-AGTTAGGAGTTAA
* *
28448226 GGGTTAAGGGTTAGGAGTTTA
1 GGGTTAAGAGTTAGGAGTTAA
28448247 GGG
1 GGG
28448250 GTTTAGGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.31
Consensus pattern (21 bp):
GGGTTAAGAGTTAGGAGTTAA
Found at i:28448235 original size:29 final size:29
Alignment explanation
Indices: 28448205--28448260 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
28448195 CTAGGTTTAG
*
28448205 GGGTTAGTAG-TTAGGAGTTAAGGGTTAA
1 GGGTTAGGAGTTTAGGAGTTAAGGGTTAA
* *
28448233 GGGTTAGGAGTTTAGGGGTTTAGGGTTA
1 GGGTTAGGAGTTTAGGAGTTAAGGGTTA
28448261 TATTTTATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.23, C:0.00, G:0.43, T:0.34
Consensus pattern (29 bp):
GGGTTAGGAGTTTAGGAGTTAAGGGTTAA
Found at i:28453326 original size:69 final size:69
Alignment explanation
Indices: 28453253--28453398 Score: 186
Period size: 69 Copynumber: 2.1 Consensus size: 69
28453243 TTGTGAACCC
* * * *
28453253 TAAAATGAT-GATTAAGAGCTTTTAACTCTCACTAATTGTTTGGGGCTATAGTGTTTAACCTGCA
1 TAAAATGATAG-TTAAGAGCTTTTAACTATCACTAACTATTTGAGGCTATAGTGTTTAACCTGCA
28453317 AGCCA
65 AGCCA
* * * * * *
28453322 TAAAATTATAGTTGATAGCTTTTAACTATCGCTAACTATTTGAGGCTGTAGTGTTTAACCTGCGA
1 TAAAATGATAGTTAAGAGCTTTTAACTATCACTAACTATTTGAGGCTATAGTGTTTAACCTGCAA
28453387 GCCA
66 GCCA
28453391 TAAAATGA
1 TAAAATGA
28453399 CACTCGCTAA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
69 64 0.98
70 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (69 bp):
TAAAATGATAGTTAAGAGCTTTTAACTATCACTAACTATTTGAGGCTATAGTGTTTAACCTGCAA
GCCA
Found at i:28453463 original size:121 final size:121
Alignment explanation
Indices: 28453304--28453521 Score: 312
Period size: 121 Copynumber: 1.8 Consensus size: 121
28453294 GGGGCTATAG
* * *
28453304 TGTTTAACCTGCAAGCCATAAAATTATAGTTGATAGCTTTTAACTATCGCTAACTATTTGAGGCT
1 TGTTTAACCTGCAAGCCATAAAATTATAGTTGAGAGCTTTTAACTATCACTAACTATTTAAGGCT
* * *
28453369 GTAGTGTTTAACCTGCGAGCCATAAAATGACACTCGCTAATTGTTTAGGGTTGCAC
66 GCAGTGTTCAACCTACGAGCCATAAAATGACACTCGCTAATTGTTTAGGGTTGCAC
* * * * *
28453425 TGTTTAACTTGCAAGTCATAAAATTATAGCTTG-GAGCTTTTAACTCTCACTAATTATTTAAGGT
1 TGTTTAACCTGCAAGCCATAAAATTATAG-TTGAGAGCTTTTAACTATCACTAACTATTTAAGGC
*
28453489 TGCCGTGTTCAACCTACGAGCCATAAAATGACA
65 TGCAGTGTTCAACCTACGAGCCATAAAATGACA
28453522 GCTAGGAGCT
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
121 81 0.96
122 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (121 bp):
TGTTTAACCTGCAAGCCATAAAATTATAGTTGAGAGCTTTTAACTATCACTAACTATTTAAGGCT
GCAGTGTTCAACCTACGAGCCATAAAATGACACTCGCTAATTGTTTAGGGTTGCAC
Found at i:28453530 original size:69 final size:69
Alignment explanation
Indices: 28453405--28453690 Score: 299
Period size: 69 Copynumber: 4.1 Consensus size: 69
28453395 ATGACACTCG
* * * * * *
28453405 CTAATTGTTTAGGGTTGCAC-TGTTTAACTTGCAAGTCATAAAATTATAGCTTGGAGCTTTTAAC
1 CTAATTGTTTAGGGTTGC-CGTGTTTAACCTACAAGCCATAAAATGACAGCTAGGAGCTTTTAAC
28453469 TCTCA
65 TCTCA
* * * *
28453474 CTAATTATTTAAGGTTGCCGTGTTCAACCTACGAGCCATAAAATGACAGCTAGGAGCTTTTAACT
1 CTAATTGTTTAGGGTTGCCGTGTTTAACCTACAAGCCATAAAATGACAGCTAGGAGCTTTTAACT
28453539 CTCA
66 CTCA
* * * * * * * * *
28453543 CTAATTGTTTGGGGCTACGGTGTTTAACCTGCAAGCCATGAAATGACAGTTGGGAGTTTTTAACT
1 CTAATTGTTTAGGGTTGCCGTGTTTAACCTACAAGCCATAAAATGACAGCTAGGAGCTTTTAACT
*
28453608 ATCA
66 CTCA
* * * *
28453612 CAAATTGTTTAGGGTTG-CGATGTTTAACCTATAAGCCATAAAATGATAGTTTA-GAGCTTTTAA
1 CTAATTGTTTAGGGTTGCCG-TGTTTAACCTACAAGCCATAAAATGACAG-CTAGGAGCTTTTAA
28453675 CTCTCA
64 CTCTCA
*
28453681 CTAACTGTTT
1 CTAATTGTTT
28453691 TGTTTTTTAA
Statistics
Matches: 176, Mismatches: 38, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
68 2 0.01
69 172 0.98
70 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (69 bp):
CTAATTGTTTAGGGTTGCCGTGTTTAACCTACAAGCCATAAAATGACAGCTAGGAGCTTTTAACT
CTCA
Found at i:28453669 original size:138 final size:138
Alignment explanation
Indices: 28453425--28453690 Score: 340
Period size: 138 Copynumber: 1.9 Consensus size: 138
28453415 AGGGTTGCAC
* * * * * *
28453425 TGTTTAACTTGCAAGTCATAAAATTATAGCTTGGAGCTTTTAACTCTCACTAATTATTTAAGGTT
1 TGTTTAACCTGCAAGCCATAAAATGACAGCTTGGAGCTTTTAACTATCACAAATTATTTAAGGTT
* *
28453490 GCCGTGTTCAACCTACGAGCCATAAAATGACAGCTAGGAGCTTTTAACTCTCACTAATTGTTTGG
66 GCCGTGTTCAACCTACAAGCCATAAAATGACAGCTAGGAGCTTTTAACTCTCACTAACTGTTTGG
28453555 GGCTACGG
131 GGCTACGG
* * * *
28453563 TGTTTAACCTGCAAGCCATGAAATGACAG-TTGGGAGTTTTTAACTATCACAAATTGTTTAGGGT
1 TGTTTAACCTGCAAGCCATAAAATGACAGCTT-GGAGCTTTTAACTATCACAAATTATTTAAGGT
* * * *
28453627 TG-CGATGTTTAACCTATAAGCCATAAAATGATAGTTTA-GAGCTTTTAACTCTCACTAACTGTT
65 TGCCG-TGTTCAACCTACAAGCCATAAAATGACAG-CTAGGAGCTTTTAACTCTCACTAACTGTT
28453690 T
128 T
28453691 TGTTTTTTAA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
137 4 0.04
138 103 0.94
139 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (138 bp):
TGTTTAACCTGCAAGCCATAAAATGACAGCTTGGAGCTTTTAACTATCACAAATTATTTAAGGTT
GCCGTGTTCAACCTACAAGCCATAAAATGACAGCTAGGAGCTTTTAACTCTCACTAACTGTTTGG
GGCTACGG
Found at i:28455720 original size:41 final size:40
Alignment explanation
Indices: 28455675--28455764 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 40
28455665 AAACAGGTTT
* *
28455675 TTAGCGGCGTTTGAATGAAAAACGCCACTATAGATCGAGCA
1 TTAGCGGCGTTTGAAT-AAAAACGCCACTAAAGAACGAGCA
* *** * *
28455716 TTAGCGGTGTTTTTCTTAAAACGCCATTAAAGAACGAGCA
1 TTAGCGGCGTTTGAATAAAAACGCCACTAAAGAACGAGCA
28455756 TTAGCGGCG
1 TTAGCGGCG
28455765 CTTTTTAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
40 28 0.70
41 12 0.30
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (40 bp):
TTAGCGGCGTTTGAATAAAAACGCCACTAAAGAACGAGCA
Found at i:28455777 original size:40 final size:40
Alignment explanation
Indices: 28455692--28455777 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 40
28455682 CGTTTGAATG
* * * *
28455692 AAAAACGCCACTATAGATCGAGCATTAGCGGTGTTTTTCT
1 AAAAACGCCACTAAAGAACGAGCATTAGCGGCGTTTTTCA
* *
28455732 TAAAACGCCATTAAAGAACGAGCATTAGCGGCGCTTTTT-A
1 AAAAACGCCACTAAAGAACGAGCATTAGCGGCG-TTTTTCA
28455772 AAAAAC
1 AAAAAC
28455778 ACTGTTATAG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 33 0.87
41 5 0.13
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.26
Consensus pattern (40 bp):
AAAAACGCCACTAAAGAACGAGCATTAGCGGCGTTTTTCA
Found at i:28456071 original size:40 final size:38
Alignment explanation
Indices: 28455997--28456087 Score: 94
Period size: 40 Copynumber: 2.3 Consensus size: 38
28455987 CTTTAGTGGC
* * *
28455997 GCTTTTTAAAAAATGCCGCTATAAATTCACCTTTAGCTG
1 GCTTTTTAAAAAACGCCGCTATAAACTCACCTTTAAC-G
* *
28456036 TGCTTTTTAAAAAACGCCGCTA-ATACTCAATCTTTAACG
1 -GCTTTTTAAAAAACGCCGCTATAAACTC-ACCTTTAACG
28456075 GCGTTTTTAAAAA
1 GC-TTTTTAAAAA
28456088 CTCCACAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
38 2 0.05
39 15 0.34
40 27 0.61
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (38 bp):
GCTTTTTAAAAAACGCCGCTATAAACTCACCTTTAACG
Found at i:28457158 original size:17 final size:18
Alignment explanation
Indices: 28457130--28457164 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
28457120 AATGAATAAT
*
28457130 ATTTTCCATAATCTTTAA
1 ATTTTCCATAATATTTAA
28457148 ATTTT-CATAATATTTAA
1 ATTTTCCATAATATTTAA
28457165 TTATTTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTTCCATAATATTTAA
Found at i:28460221 original size:22 final size:22
Alignment explanation
Indices: 28460194--28460237 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
28460184 GATTAATATT
*
28460194 TTATATTTAATATTTATAAATA
1 TTATATATAATATTTATAAATA
* *
28460216 TTATATATAATTTTTTTAAATA
1 TTATATATAATATTTATAAATA
28460238 AAAATAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATATATAATATTTATAAATA
Found at i:28461463 original size:43 final size:43
Alignment explanation
Indices: 28461410--28461559 Score: 228
Period size: 43 Copynumber: 3.5 Consensus size: 43
28461400 TAAAAATTTT
* ** *
28461410 ATGACCTTTAGCGGCGTTTTTAAGAGAAGCGTTGTTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGTTGTTAAAGGTC
* *
28461453 ATGATCTTTAGCGGCGTTTGTGGGAAAAGCGCTGTTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGTTGTTAAAGGTC
*
28461496 ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGTTGCTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGTTGTTAAAGGTC
*
28461539 ATGACCTTTAGCGACGTTTGT
1 ATGACCTTTAGCGGCGTTTGT
28461560 AGCGACCTTT
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 97 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.31
Consensus pattern (43 bp):
ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGTTGTTAAAGGTC
Found at i:28467912 original size:3 final size:3
Alignment explanation
Indices: 28467904--28467929 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
28467894 TACTCAACAT
28467904 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
28467930 TTAAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:28485088 original size:29 final size:28
Alignment explanation
Indices: 28485044--28485100 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 28
28485034 AAAGATATCC
28485044 TCCTCGAGGATTGAAGCTTTATTATTGA
1 TCCTCGAGGATTGAAGCTTTATTATTGA
28485072 TCCTCGAGGGATTGAAGCTTTATTATTGA
1 TCCTCGA-GGATTGAAGCTTTATTATTGA
28485101 AGGACTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 7 0.25
29 21 0.75
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.39
Consensus pattern (28 bp):
TCCTCGAGGATTGAAGCTTTATTATTGA
Found at i:28490525 original size:2 final size:2
Alignment explanation
Indices: 28490518--28490542 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
28490508 AGGGTCCACG
28490518 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
28490543 ACCTTTGCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:28500502 original size:4 final size:4
Alignment explanation
Indices: 28500493--28500519 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
28500483 TTCCGTTGAG
28500493 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
28500520 CTACACCTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:28516337 original size:41 final size:40
Alignment explanation
Indices: 28516294--28516469 Score: 205
Period size: 40 Copynumber: 4.4 Consensus size: 40
28516284 TATTATAATC
*
28516294 TCGCACACTAAGTGCCTTT-CATAGCCGAAGCTATCTC-AGT
1 TCGCACACTAAGTG-CTTTATATAGCCGAAGCTATCTCGA-T
** *
28516334 CTCGCACACTAAGTGCCATATATAGCTGAAGCTAT-TCCGAT
1 -TCGCACACTAAGTGCTTTATATAGCCGAAGCTATCT-CGAT
* *
28516375 TCGTACACTAAGTGCTTTATATAGCCGAAGCTATTTCGAT
1 TCGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCGAT
* *
28516415 TTGCACACTAAGTGCTTTATATAGCCAAAGCTATCTCGAT
1 TCGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCGAT
* *
28516455 ACGCACATTAAGTGC
1 TCGCACACTAAGTGC
28516470 CAAACATAAC
Statistics
Matches: 116, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
40 85 0.73
41 30 0.26
42 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (40 bp):
TCGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCGAT
Found at i:28516402 original size:81 final size:82
Alignment explanation
Indices: 28516249--28516448 Score: 212
Period size: 80 Copynumber: 2.5 Consensus size: 82
28516239 AATACTCAAT
* * *
28516249 ATCTCGCACACTAAGTGCCAAAGCAT-GACTGAAGCTATTATAATCTCGCACACTAAGTGCCTTT
1 ATCTCGCACACTAAGTGCCATA-TATAG-CTGAAGCTATTACAATCTCGCACACTAAGTGCCTTT
28516313 CATAGCCGAAGCTATCTC-
64 CATAGCCGAAGCTATCTCG
* * *
28516331 AGTCTCGCACACTAAGTGCCATATATAGCTGAAGCTATTCCGAT-TCGTACACTAAGTG-CTTTA
1 A-TCTCGCACACTAAGTGCCATATATAGCTGAAGCTATTACAATCTCGCACACTAAGTGCCTTT-
* *
28516394 TATAGCCGAAGCTATTTCG
64 CATAGCCGAAGCTATCTCG
* ** **
28516413 AT-TTGCACACTAAGTGCTTTATATAGCCAAAGCTAT
1 ATCTCGCACACTAAGTGCCATATATAGCTGAAGCTAT
28516449 CTCGATACGC
Statistics
Matches: 101, Mismatches: 13, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
80 33 0.33
81 30 0.30
82 17 0.17
83 21 0.21
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (82 bp):
ATCTCGCACACTAAGTGCCATATATAGCTGAAGCTATTACAATCTCGCACACTAAGTGCCTTTCA
TAGCCGAAGCTATCTCG
Found at i:28518023 original size:14 final size:14
Alignment explanation
Indices: 28518004--28518044 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
28517994 AAAGAAAGAA
28518004 AAACAAATAGAAAG
1 AAACAAATAGAAAG
*
28518018 AAACAAA-AGCAA-
1 AAACAAATAGAAAG
28518030 AAACGAAATAGAAAG
1 AAAC-AAATAGAAAG
28518045 GGAAAGGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
12 4 0.18
13 7 0.32
14 11 0.50
ACGTcount: A:0.71, C:0.10, G:0.15, T:0.05
Consensus pattern (14 bp):
AAACAAATAGAAAG
Found at i:28519049 original size:40 final size:39
Alignment explanation
Indices: 28518942--28519076 Score: 130
Period size: 40 Copynumber: 3.4 Consensus size: 39
28518932 GACTTCGAGT
* *
28518942 CGATGAGACACTGGGTGTCAATTTATTACTTCAGATTAATT
1 CGATGAGACACTGGGTGTCAA-TTATTACTTCGGATTAA-C
* * * *
28518983 CGATAAGACATTGGGTGCCAA-T-TTACTTCGGTTTAAC
1 CGATGAGACACTGGGTGTCAATTATTACTTCGGATTAAC
* * *
28519020 CGATGAGACACTGGGCGTCAATCTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAAT-TATTACTTCGGATTAAC
* *
28519060 CGATGAGGCACTAGGTG
1 CGATGAGACACTGGGTG
28519077 CCAAATTGGT
Statistics
Matches: 75, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
37 17 0.23
38 12 0.16
39 2 0.03
40 26 0.35
41 18 0.24
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTATTACTTCGGATTAAC
Found at i:28522327 original size:46 final size:46
Alignment explanation
Indices: 28522260--28522533 Score: 388
Period size: 46 Copynumber: 6.0 Consensus size: 46
28522250 AGTGTGCTCT
**
28522260 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
**
28522306 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
28522352 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
28522398 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * *
28522444 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGACAGC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
28522490 GTGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
28522534 TCATGTCAAA
Statistics
Matches: 212, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 211 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:28522840 original size:16 final size:17
Alignment explanation
Indices: 28522819--28522851 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
28522809 ATGGTAGAGC
28522819 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
28522835 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
28522852 TACTCAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:28535315 original size:16 final size:17
Alignment explanation
Indices: 28535296--28535329 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
28535286 CTTCGAGAAG
28535296 CTCAAGCT-TGTTCTGA
1 CTCAAGCTCTGTTCTGA
28535312 CTCAAGCTCCTGTTCTGA
1 CTCAAGCT-CTGTTCTGA
28535330 TGCAGCCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (17 bp):
CTCAAGCTCTGTTCTGA
Found at i:28537280 original size:30 final size:30
Alignment explanation
Indices: 28537244--28537303 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
28537234 TTCTTTTAGG
**
28537244 GGGTAGAGTTATAACGTCCTGAATAATTTA
1 GGGTAGAGTTATAACACCCTGAATAATTTA
28537274 GGGTAGAGTTATAACACCCTGAATAATTTA
1 GGGTAGAGTTATAACACCCTGAATAATTTA
28537304 TTCCTATTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.32
Consensus pattern (30 bp):
GGGTAGAGTTATAACACCCTGAATAATTTA
Found at i:28538561 original size:11 final size:11
Alignment explanation
Indices: 28538547--28538587 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
28538537 TATTTTCTCC
28538547 CTATTTTACTA
1 CTATTTTACTA
28538558 CTATTTTACTA
1 CTATTTTACTA
* * *
28538569 TTATGTTGCTA
1 CTATTTTACTA
28538580 CTATTTTA
1 CTATTTTA
28538588 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.24, C:0.15, G:0.05, T:0.56
Consensus pattern (11 bp):
CTATTTTACTA
Found at i:28538802 original size:12 final size:12
Alignment explanation
Indices: 28538781--28538814 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
28538771 TATATATTTT
*
28538781 AAAATTATATAA
1 AAAATAATATAA
28538793 AAAATAATATAA
1 AAAATAATATAA
*
28538805 AAATTAATAT
1 AAAATAATAT
28538815 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:28540266 original size:21 final size:23
Alignment explanation
Indices: 28540242--28540284 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
28540232 ATAAATATTT
28540242 TATT-AATTAA-ATAAGATTTAA
1 TATTAAATTAATATAAGATTTAA
*
28540263 TATTAAATTAATATAATATTTA
1 TATTAAATTAATATAAGATTTA
28540285 TCAAGTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 6 0.32
23 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TATTAAATTAATATAAGATTTAA
Found at i:28541142 original size:20 final size:21
Alignment explanation
Indices: 28541103--28541143 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
28541093 GTCCTACTTA
*
28541103 AAAATTTTGTAATAAAAATAC
1 AAAATTTTCTAATAAAAATAC
*
28541124 AAAATTTTCT-ATCAAAATAC
1 AAAATTTTCTAATAAAAATAC
28541144 TCAGAATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (21 bp):
AAAATTTTCTAATAAAAATAC
Found at i:28541697 original size:100 final size:100
Alignment explanation
Indices: 28541524--28541723 Score: 400
Period size: 100 Copynumber: 2.0 Consensus size: 100
28541514 ATACTCATTT
28541524 AGCCAATGCTTTTAAAGACAACAACTTACATTTTGAATAGAGTACCTACTAAAACAGCTGCAAAA
1 AGCCAATGCTTTTAAAGACAACAACTTACATTTTGAATAGAGTACCTACTAAAACAGCTGCAAAA
28541589 ACACCTTATGAGCTTTGGACAAGTCAAAAGCCTAG
66 ACACCTTATGAGCTTTGGACAAGTCAAAAGCCTAG
28541624 AGCCAATGCTTTTAAAGACAACAACTTACATTTTGAATAGAGTACCTACTAAAACAGCTGCAAAA
1 AGCCAATGCTTTTAAAGACAACAACTTACATTTTGAATAGAGTACCTACTAAAACAGCTGCAAAA
28541689 ACACCTTATGAGCTTTGGACAAGTCAAAAGCCTAG
66 ACACCTTATGAGCTTTGGACAAGTCAAAAGCCTAG
28541724 CCTAAAGCAC
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (100 bp):
AGCCAATGCTTTTAAAGACAACAACTTACATTTTGAATAGAGTACCTACTAAAACAGCTGCAAAA
ACACCTTATGAGCTTTGGACAAGTCAAAAGCCTAG
Found at i:28551961 original size:23 final size:24
Alignment explanation
Indices: 28551935--28551979 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
28551925 TTCAATCAAA
28551935 AAATAAAAATAGT-AATTTTTTAC
1 AAATAAAAATAGTCAATTTTTTAC
* **
28551958 AAATTATTATAGTCAATTTTTT
1 AAATAAAAATAGTCAATTTTTT
28551980 TAATGTTAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (24 bp):
AAATAAAAATAGTCAATTTTTTAC
Found at i:28553487 original size:20 final size:20
Alignment explanation
Indices: 28553462--28553501 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
28553452 ACTTTAAAAT
28553462 CAAGTTAAAATAATTTTAAC
1 CAAGTTAAAATAATTTTAAC
*
28553482 CAAGTTAAAATGATTTTAAC
1 CAAGTTAAAATAATTTTAAC
28553502 GAATCAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (20 bp):
CAAGTTAAAATAATTTTAAC
Found at i:28554524 original size:2 final size:2
Alignment explanation
Indices: 28554517--28554569 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
28554507 GTTGAACCAC
28554517 TA TA TA TA TA TA 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 TA TA TA TA TA TA
28554559 TA TA TA TA TA T
1 TA TA TA TA TA T
28554570 GTGTGTGTGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:28555916 original size:27 final size:27
Alignment explanation
Indices: 28555868--28555919 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
28555858 AATAATGACA
* *
28555868 ATATTAATAATGAAAAATAATAATAAT
1 ATATTAATAATAAAAAAAAATAATAAT
28555895 ATATTAATAA-AAATAAAAAATAATA
1 ATATTAATAATAAA-AAAAAATAATA
28555920 CGTTAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (27 bp):
ATATTAATAATAAAAAAAAATAATAAT
Found at i:28555929 original size:27 final size:25
Alignment explanation
Indices: 28555867--28555931 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
28555857 AAATAATGAC
*
28555867 AATATTAATAATGAAAAATAATAAT
1 AATATTAATAATGAAAAATAAAAAT
*
28555892 AATA-TATTAAT-AAAAATAAAAAAT
1 AATATTAATAATGAAAAAT-AAAAAT
28555916 AATACGTTAATAATGA
1 AATA--TTAATAATGA
28555932 TATTAATGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
23 6 0.19
24 15 0.47
25 4 0.12
27 6 0.19
28 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (25 bp):
AATATTAATAATGAAAAATAAAAAT
Found at i:28556096 original size:3 final size:3
Alignment explanation
Indices: 28556080--28556394 Score: 80
Period size: 3 Copynumber: 105.7 Consensus size: 3
28556070 TTAATTAATT
* * ** *
28556080 TAA TAA T-A TGA TAA TAA TAG TAA TAA TAA -AA TAA TGC TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * ** * ** * *
28556126 TCA TAA -ATA TAA TAG TAA CGA TAA AAA TAA TAA TAA CGA CAA CAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
28556171 -AA TAGA -AGA TAA TAA TAA TAA T-A TAT TAA TAA -ACT TAA TAA T-A
1 TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
** * * * * * *
28556214 TGC TAA TAA TAA AAA TAA AAA TAA AAA TAA AAA GTTAA TAA TGA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA --TAA TAA TAA TAA
* * * * * * * * *
28556261 TAC TGA TAG TAC TGA T-A TGAA -AA AAA TAG TAA TGA TAA T-A TAT
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
28556304 TAA TAA TAA TAG TAGA AAA TAA TAA TAAA TAA TAA TAA TAA TAA TGA
1 TAA TAA TAA TAA TA-A TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
* * * *
28556351 TAG TTA TAA TGAA -CA TAA TAA TAC TAA TAA TAAA TAA T-A TAA TA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA
28556395 GTAAATACAA
Statistics
Matches: 220, Mismatches: 69, Indels: 46
0.66 0.21 0.14
Matches are distributed among these distances:
2 21 0.10
3 183 0.83
4 14 0.06
5 2 0.01
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:28558024 original size:44 final size:43
Alignment explanation
Indices: 28557976--28558555 Score: 153
Period size: 44 Copynumber: 13.2 Consensus size: 43
28557966 TACCTTGGGA
28557976 AGATAAGATTCACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCA-CGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * ** * * * *
28558020 AGATATGATCTGTA-ATCTTCAGCCTGCTTCACTGCTTCTCAGGG
1 AGATAAGAT-T-CACGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * * * *
28558064 ATATAAGGCTAATGGCTTAAATTTGCTTCCCCACTAC--CTT-GGG
1 AGATAAGATTCACGTCTTCAATCTGC-T--CCACTACTGCTTAGGG
* *
28558107 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 -AGATAAGATTC-ACGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * *
28558152 AGATATGATCTGCA-ATCTTCAACCTGCTCCACTGCTGCTCAGGG
1 AGATAAGAT-T-CACGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * * *
28558196 AGGTAAAATT-A-GTGGCTTAAATCTGCTTCTCTACTACCTCAGGA
1 AGATAAGATTCACGT--CTTCAATCTGCTCCACTACT-GCTTAGGG
* * * * * *
28558240 AGATAAGATTCGCCATCTTCGATCCGCTCCACCATTGCTTAGGG
1 AGATAAGATTC-ACGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * **
28558284 AGATAAGATCTGTA-ATCTTCAGTTTGCTCCACTGTTGCTTAGGG
1 AGATAAGAT-T-CACGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * ** * *
28558328 AGATAAGACTAATGGCTTAAATCTGCTTCC-CTA-TTATCTCGGA
1 AGATAAGATTCACGTCTTCAATCTGC-TCCACTACTGCT-TAGGG
** *
28558371 AGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGA-TTCACGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * *
28558415 AGATATGATCTGCA-ATCTTCAGCCTACTCCACTGCTGCTCAGGG
1 AGATAAGAT-T-CACGTCTTCAATCTGCTCCACTACTGCTTAGGG
** * * * * * *
28558459 AGATAAGGCT-A-GTGGCTTAAATCTGCTTCC-CCACTACCTCGGAA
1 AGATAAGATTCACGT--CTTCAATCTGC-TCCACTACTGCTTAGG-G
** * *
28558503 AGATAAGATTTGTCGTCTTCGATCTGCTCCATTACTGCTTAGGG
1 AGATAAGA-TTCACGTCTTCAATCTGCTCCACTACTGCTTAGGG
28558547 AGATAAGAT
1 AGATAAGAT
28558556 CTGTGAATTC
Statistics
Matches: 367, Mismatches: 132, Indels: 75
0.64 0.23 0.13
Matches are distributed among these distances:
41 4 0.01
42 11 0.03
43 68 0.19
44 227 0.62
45 47 0.13
46 7 0.02
47 3 0.01
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (43 bp):
AGATAAGATTCACGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:28558040 original size:132 final size:132
Alignment explanation
Indices: 28557844--28558558 Score: 825
Period size: 132 Copynumber: 5.4 Consensus size: 132
28557834 TGCTTCATGG
* * * * * * *
28557844 AGATAAGATTCGCCATCTTTGATCTGCTCCACTGCTACTCAGGGAGATAAGATCTACAACCTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
* * * * *
28557909 GCTTGC-CCTACTGCTACTTAGGGAGATAAAGCTAGTGACTTAAATCTATGC-CCCTGCTACCTT
66 GCCTGCTCC-ACTGCTGCTCAGGGAGATAAAGCTAGTGGCTTAAATCT-TGCTCCCTACTACCTT
28557972 GGGA
129 GGGA
* * * *
28557976 AGATAAGATTCACCGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATATGATCTGTAATCTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
* * * * * *
28558041 GCCTGCTTCACTGCTTCTCAGGGATATAAGGCTAATGGCTTAAAT-TTGCTTCCCCACTACCTTG
66 GCCTGCTCCACTGCTGCTCAGGGAGATAAAGCTAGTGGCTTAAATCTTGC-TCCCTACTACCTTG
28558105 GGA
130 GGA
*
28558108 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATATGATCTGCAATCTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
* * ** * **
28558173 ACCTGCTCCACTGCTGCTCAGGGAGGTAAAATTAGTGGCTTAAATC-TGCTTCTCTACTACCTCA
66 GCCTGCTCCACTGCTGCTCAGGGAGATAAAGCTAGTGGCTTAAATCTTGC-TCCCTACTACCTTG
28558237 GGA
130 GGA
* * * * *
28558240 AGATAAGATTCGCCATCTTCGATCCGCTCCACCATTGCTTAGGGAGATAAGATCTGTAATCTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
** * * * * *
28558305 GTTTGCTCCACTGTTGCTTAGGGAGAT-AAGACTAATGGCTTAAATC-TGCTTCCCTATTATC-T
66 GCCTGCTCCACTGCTGCTCAGGGAGATAAAG-CTAGTGGCTTAAATCTTGC-TCCCTACTACCTT
*
28558367 CGGA
129 GGGA
* * *
28558371 AGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATATGATCTGCAATCTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
* * * *
28558436 GCCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATC-TGCTTCCCCACTACCTCG
66 GCCTGCTCCACTGCTGCTCAGGGAGATAAAGCTAGTGGCTTAAATCTTGC-TCCCTACTACCTTG
*
28558500 GAA
130 GGA
* * *
28558503 AGATAAGATTTGTCGTCTTCGATCTGCTCCATTACTGCTTAGGGAGATAAGATCTG
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
28558559 TGAATTCACC
Statistics
Matches: 496, Mismatches: 80, Indels: 14
0.84 0.14 0.02
Matches are distributed among these distances:
130 3 0.01
131 111 0.22
132 381 0.77
133 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (132 bp):
AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
GCCTGCTCCACTGCTGCTCAGGGAGATAAAGCTAGTGGCTTAAATCTTGCTCCCTACTACCTTGG
GA
Found at i:28558282 original size:264 final size:262
Alignment explanation
Indices: 28557844--28558559 Score: 927
Period size: 264 Copynumber: 2.7 Consensus size: 262
28557834 TGCTTCATGG
* * * * * * * *
28557844 AGATAAGATTCGCCATCTTTGATCTGCTCCACTGCTACTCAGGGAGATAAGATCTACAACCTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATATGATCTGCAATCTTCA
* * * * *
28557909 GCTTGC-CCTACTGCTACTTAGGGAGATAAAGCTAGTGACTTAAATCTATGC--CCCTGCTACCT
66 GCCTGCTCC-ACTGCTGCTCAGGGAGATAAAGCTAGTGGCTTAAATC--TGCTTCCCTACTACC-
* * * *
28557971 TGGGAAGATAAGATTCACCGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATATGATCTGTAAT
127 TCGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
* * * *
28558036 CTTCAGCCTGCTTCACTGCTT-CTCAGGGATATAAGGCTAATGGCTTAAATTTGCTTCCCCACTA
192 CTTCAGCCTGCTCCACTG-TTGCTCAGGGAGATAAGACTAATGGCTTAAATCTGCTTCCCCACTA
*
28558100 CCTTGGGA
256 CC-TCGGA
28558108 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATATGATCTGCAATCTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATATGATCTGCAATCTTCA
* * ** *
28558173 ACCTGCTCCACTGCTGCTCAGGGAGGTAAAATTAGTGGCTTAAATCTGCTTCTCTACTACCTCAG
66 GCCTGCTCCACTGCTGCTCAGGGAGATAAAGCTAGTGGCTTAAATCTGCTTCCCTACTACCTC-G
* * * *
28558238 GAAGATAAGATTCGCCATCTTCGATCCGCTCCACCATTGCTTAGGGAGATAAGATCTGTAATCTT
130 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTT
** * * * *
28558303 CAGTTTGCTCCACTGTTGCTTAGGGAGATAAGACTAATGGCTTAAATCTGCTTCCCTATTATCTC
195 CAGCCTGCTCCACTGTTGCTCAGGGAGATAAGACTAATGGCTTAAATCTGCTTCCCCACTACCTC
28558368 GGA
260 GGA
* *
28558371 AGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATATGATCTGCAATCTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATATGATCTGCAATCTTCA
* * *
28558436 GCCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCCACTACCTCGG
66 GCCTGCTCCACTGCTGCTCAGGGAGATAAAGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGG
* * *
28558501 AAAGATAAGATTTGTCGTCTTCGATCTGCTCCATTACTGCTTAGGGAGATAAGATCTGT
131 -AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
28558560 GAATTCACCG
Statistics
Matches: 392, Mismatches: 54, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
262 5 0.01
263 176 0.45
264 209 0.53
265 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (262 bp):
AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATATGATCTGCAATCTTCA
GCCTGCTCCACTGCTGCTCAGGGAGATAAAGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGG
AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTC
AGCCTGCTCCACTGTTGCTCAGGGAGATAAGACTAATGGCTTAAATCTGCTTCCCCACTACCTCG
GA
Found at i:28561582 original size:53 final size:53
Alignment explanation
Indices: 28561441--28561591 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
28561431 ACAAGTGTGC
* **
28561441 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
28561494 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
28561547 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
28561592 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:28573092 original size:15 final size:15
Alignment explanation
Indices: 28573072--28573101 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
28573062 TTCTACTATA
28573072 ATTATATTTCTATTT
1 ATTATATTTCTATTT
*
28573087 ATTATATTTTTATTT
1 ATTATATTTCTATTT
28573102 CTATTTATAT
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:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTATATTTCTATTT
Found at i:28573201 original size:23 final size:23
Alignment explanation
Indices: 28573175--28573228 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
28573165 TTAACATTCT
*
28573175 ATTTATTTATT-TATTTATTTTAC
1 ATTT-TTTATTATATCTATTTTAC
*
28573198 ATTTTTTGTTATATCTATTTTA-
1 ATTTTTTATTATATCTATTTTAC
*
28573220 ACTTTTTAT
1 ATTTTTTAT
28573229 ATAATGCTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.69
Consensus pattern (23 bp):
ATTTTTTATTATATCTATTTTAC
Found at i:28573299 original size:25 final size:24
Alignment explanation
Indices: 28573238--28573299 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
28573228 TATAATGCTC
* *
28573238 ATTTCAAATTTTTATACATTATTT
1 ATTTCAAATTTTCATACATTATGT
*
28573262 ACTTT-AATATTTTCATATATTATGT
1 A-TTTCAA-ATTTTCATACATTATGT
28573287 ATTTCAAACTTTT
1 ATTTCAAA-TTTT
28573300 TTCCACACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 7 0.23
25 24 0.77
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (24 bp):
ATTTCAAATTTTCATACATTATGT
Found at i:28580327 original size:178 final size:178
Alignment explanation
Indices: 28580021--28580766 Score: 1093
Period size: 178 Copynumber: 4.2 Consensus size: 178
28580011 TGGTGAATTC
* * *
28580021 ACAAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATTACAAATCTTATCTCCATATA
1 ACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTA
* * * * *
28580086 TCGGCTATAGAGCAGATC-GAAAATGGCGAGTCTTATCTCCATGTATCGATTATGGAGCAGATTT
66 TCAGCTATGGAGCAGATCAG-AAATGGCGAGTCTTATCTCCATGTATCGGTTATAGAGCAAATTT
*
28580150 TAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAAGTTGAAGAT
130 TAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
* * *
28580199 ACAGGTATTATCTTCCTGAGGTAGCAAGGAAGCAGGCTGAAAATTACAGATCTTATCTCCATGTA
1 ACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTA
* * *
28580264 TCAGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCCCCATGTATCGGCTATAGAGCAGATTTT
66 TCAGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGTTATAGAGCAAATTTT
* *
28580329 AGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAAAGCAGGCTGAAGAT
131 AGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
* * *
28580377 ACAAGTCTTATCTTTCTGATGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCTATGTA
1 ACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTA
* *
28580442 TC-GACTATGGAGCAGATCGGAAATGGCGAGTCTTATCTCCATGTATCGGTTATAGAGTAAATTT
66 TCAG-CTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGTTATAGAGCAAATTT
* * *
28580506 TAGCCACTAGCTTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAGAT
130 TAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
** * * *
28580555 ACAAGTCTTATCTTTTTAAGGTAGCAAGGAAGCAGACTGAAAATTACAGATTTTATATCCATGTA
1 ACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTA
* * * * * *
28580620 T-AGGCTATGGAGTAGATCAAAAATGGCAAGTCTTATCTCCATGTATCGGTAATGGAGAAAATTT
66 TCA-GCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGTTATAGAGCAAATTT
* * *
28580684 TAGCCACCGGCCTTATATCTCTGAGGTAGCAAGAGAGCAGGTCGAAGAT
130 TAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
28580733 ACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCA
1 ACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCA
28580767 AATTAAACAT
Statistics
Matches: 511, Mismatches: 53, Indels: 8
0.89 0.09 0.01
Matches are distributed among these distances:
177 1 0.00
178 508 0.99
179 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (178 bp):
ACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTA
TCAGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGTTATAGAGCAAATTTT
AGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
Found at i:28580387 original size:44 final size:45
Alignment explanation
Indices: 28580339--28580436 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 45
28580329 AGCCACCAGC
* *
28580339 CTTATCTCTCTGAGGTAGCAAGAAAGCAGGCTGAAGA-TACA-AGT
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAAATTACAGA-T
* * *
28580383 CTTATCTTTCTGATGTAGCAAGGAAGCAGACTGAAAATTACAGAT
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAAATTACAGAT
28580428 CTTATCTCT
1 CTTATCTCT
28580437 ATGTATCGAC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 32 0.70
45 13 0.28
46 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (45 bp):
CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAAATTACAGAT
Found at i:28580830 original size:44 final size:44
Alignment explanation
Indices: 28580782--28580935 Score: 134
Period size: 44 Copynumber: 3.5 Consensus size: 44
28580772 AACATTTCAA
28580782 ATCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAAAATTACAG
1 ATCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAAAATTACAG
* * * * * ***
28580826 ATCTTATCTCCCTAAGCAGTAGCGG-AGCAGATCGAAGACGGTA-AG
1 ATCTTAACCCCCTAAGCAGTAG-GGTAACAGGT-TAA-AAATTACAG
* * **
28580871 -CCTTAACCCCCTAAGCAATAGGGTAACAGGTTGCAAATTACAG
1 ATCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAAAATTACAG
* *
28580914 ATCTTATCTCCCTAAGCAGTAG
1 ATCTTAACCCCCTAAGCAGTAG
28580936 TGGAGTAAAT
Statistics
Matches: 80, Mismatches: 24, Indels: 12
0.69 0.21 0.10
Matches are distributed among these distances:
42 3 0.04
43 4 0.05
44 64 0.80
45 6 0.08
46 3 0.04
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (44 bp):
ATCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAAAATTACAG
Found at i:28580886 original size:88 final size:88
Alignment explanation
Indices: 28580784--28581280 Score: 373
Period size: 88 Copynumber: 5.8 Consensus size: 88
28580774 CATTTCAAAT
*
28580784 CTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGC
1 CTTAACCCCCTAAGCAATAGGGTAACAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGC
*
28580849 GGAGCAGATCGAAGACGGTAAGC
66 GGAGCAAATCGAAGACGGTAAGC
** *
28580872 CTTAACCCCCTAAGCAATAGGGTAACAGGTTGCAAATTACAGATCTTATCTCCCTAAGCAGTAGT
1 CTTAACCCCCTAAGCAATAGGGTAACAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGC
*
28580937 GGAGTAAATCGAAGAAC--T---C
66 GGAGCAAATCGAAG-ACGGTAAGC
* * ** * * * * * ** * ** *
28580956 CCTAA-GCAGTAGGGTAATAGGCTGGAA-A--TTACAGA-T-CTTATC-TCTCTAAGC--AGTAG
1 CTTAACCCCCTA-AGCAATAGG--GTAACAGGTTAAAAATTACAGATCTTATCT-CCCTAAGCAG
* * * * * *
28581012 TAGA--A-TAGATCAAAAATGGTAAGC
62 TAGCGGAGCAAATCGAAGACGGTAAGC
* * * ** * * * *
28581036 CTTAACCCCCTAAGCAGTAGGGTAATAGGCTGGAAATTACAGATCTTATCTCCCAAAGTAATAGT
1 CTTAACCCCCTAAGCAATAGGGTAACAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGC
* * *
28581101 GGAACAGATCGAAGACGGTGAGC
66 GGAGCAAATCGAAGACGGTAAGC
****
28581124 CTTAACCCCCTAAGCAATAGGGTAACAGGCCGGAAATTACAGATCTTATCTCCCTAAGCAGTAGC
1 CTTAACCCCCTAAGCAATAGGGTAACAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGC
* *
28581189 GGAGCAGATCGAAGACGGTGAGC
66 GGAGCAAATCGAAGACGGTAAGC
* * *
28581212 CTTAACCCCCTAAG-AAGTAGGGTAACAGGCTAAAAATTACGGATCTTATCACCCTAAGCAGTAG
1 CTTAACCCCCTAAGCAA-TAGGGTAACAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGTAG
*
28581276 TGGAG
65 CGGAG
28581281 TAGACTGAAG
Statistics
Matches: 322, Mismatches: 64, Indels: 46
0.75 0.15 0.11
Matches are distributed among these distances:
75 1 0.00
76 7 0.02
77 2 0.01
78 3 0.01
79 8 0.02
80 15 0.05
81 11 0.03
82 2 0.01
83 13 0.04
84 16 0.05
85 8 0.02
86 3 0.01
87 4 0.01
88 227 0.70
89 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (88 bp):
CTTAACCCCCTAAGCAATAGGGTAACAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGC
GGAGCAAATCGAAGACGGTAAGC
Found at i:28581267 original size:44 final size:44
Alignment explanation
Indices: 28581219--28581323 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 44
28581209 AGCCTTAACC
* * *
28581219 CCCTAAGAAGTAG-GGTAACAGGCTAAAAATTACGGATCTTATCA
1 CCCTAAGCAGTAGTGG-AACAGACTAAAAATTACAGATCTTATCA
** * * *
28581263 CCCTAAGCAGTAGTGGAGTAGACTGAAGATTACAGATCTTATCT
1 CCCTAAGCAGTAGTGGAACAGACTAAAAATTACAGATCTTATCA
28581307 CCCTAAGCAGTAGTGGA
1 CCCTAAGCAGTAGTGGA
28581324 GCAAATCGAA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 50 0.96
45 2 0.04
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (44 bp):
CCCTAAGCAGTAGTGGAACAGACTAAAAATTACAGATCTTATCA
Found at i:28581291 original size:88 final size:88
Alignment explanation
Indices: 28580955--28581279 Score: 445
Period size: 88 Copynumber: 3.7 Consensus size: 88
28580945 TCGAAGAACT
* * * * *
28580955 CCCTAAGCAGTAGGGTAATAGGCTGGAAATTACAGATCTTATCTCTCTAAGCAGTAGTAGAATAG
1 CCCTAAGAAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAACAG
* * * *
28581020 ATCAAAAATGGTAAGCCTTAACC
66 ATCGAAGACGGTGAGCCTTAACC
* * * * *
28581043 CCCTAAGCAGTAGGGTAATAGGCTGGAAATTACAGATCTTATCTCCCAAAGTAATAGTGGAACAG
1 CCCTAAGAAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAACAG
28581108 ATCGAAGACGGTGAGCCTTAACC
66 ATCGAAGACGGTGAGCCTTAACC
* * *
28581131 CCCTAAGCAA-TAGGGTAACAGGCCGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCA
1 CCCTAAG-AAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAACA
28581195 GATCGAAGACGGTGAGCCTTAACC
65 GATCGAAGACGGTGAGCCTTAACC
** * *
28581219 CCCTAAGAAGTAGGGTAACAGGCTAAAAATTACGGATCTTATCACCCTAAGCAGTAGTGGA
1 CCCTAAGAAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
28581280 GTAGACTGAA
Statistics
Matches: 211, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
87 2 0.01
88 208 0.99
89 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (88 bp):
CCCTAAGAAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAACAG
ATCGAAGACGGTGAGCCTTAACC
Found at i:28581335 original size:44 final size:44
Alignment explanation
Indices: 28581247--28581336 Score: 128
Period size: 44 Copynumber: 2.0 Consensus size: 44
28581237 CAGGCTAAAA
* * *
28581247 ATTACGGATCTTATCACCCTAAGCAGTAGTGGAGTAGACTGAAG
1 ATTACAGATCTTATCACCCTAAGCAGTAGTGGAGCAAACTGAAG
*
28581291 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAA-TCGAAG
1 ATTACAGATCTTATCACCCTAAGCAGTAGTGGAGCAAACT-GAAG
28581335 AT
1 AT
28581337 AGTGAGCCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 1 0.02
44 40 0.98
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (44 bp):
ATTACAGATCTTATCACCCTAAGCAGTAGTGGAGCAAACTGAAG
Found at i:28582186 original size:21 final size:23
Alignment explanation
Indices: 28582139--28582192 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
28582129 CATTCAAGAT
**
28582139 AAAATAATATATAAAACTTTTTA
1 AAAATAATATATAAAACTAATTA
*
28582162 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
28582183 AAAAT-ATATA
1 AAAATAATATA
28582193 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:28582230 original size:25 final size:23
Alignment explanation
Indices: 28582202--28582263 Score: 54
Period size: 25 Copynumber: 2.5 Consensus size: 23
28582192 AATGTGTAAA
*
28582202 AAAAGTTTGAAATATATAATATAT
1 AAAA-TTTGAAATAAATAATATAT
*
28582226 GAAAATATT-AAAGTAAATAATGTAT
1 -AAAAT-TTGAAA-TAAATAATATAT
28582251 AAAAATTTGAAAT
1 -AAAATTTGAAAT
28582264 GAGCGTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 7 0.23
25 24 0.77
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (23 bp):
AAAATTTGAAATAAATAATATAT
Found at i:28582373 original size:12 final size:12
Alignment explanation
Indices: 28582356--28582382 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
28582346 TGAAACATAT
28582356 ATAAGAAAAATA
1 ATAAGAAAAATA
28582368 ATAAGAAAAATA
1 ATAAGAAAAATA
28582380 ATA
1 ATA
28582383 TTAGTATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (12 bp):
ATAAGAAAAATA
Found at i:28582422 original size:15 final size:15
Alignment explanation
Indices: 28582398--28582443 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
28582388 ATATAAATAG
*
28582398 AAATAAAAATATAAT
1 AAATAGAAATATAAT
28582413 AAATAGAAATATAAT
1 AAATAGAAATATAAT
28582428 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
28582444 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:28582431 original size:29 final size:28
Alignment explanation
Indices: 28582363--28582461 Score: 69
Period size: 29 Copynumber: 3.4 Consensus size: 28
28582353 TATATAAGAA
* * * * *
28582363 AAATAATAAGAAAAATAATATTAGTATAT
1 AAATAATAATAGAAA-AATATAAATAGAT
28582392 AAATAGA-AATA-AAAATATAATAAATAGA-
1 AAATA-ATAATAGAAAA-AT-ATAAATAGAT
*
28582420 AATATAATAATAGTAGAAATATAAATAGAT
1 AA-ATAATAATAG-AAAAATATAAATAGAT
28582450 AAATAATAATAG
1 AAATAATAATAG
28582462 TATTAGAATA
Statistics
Matches: 57, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
27 1 0.02
28 8 0.14
29 40 0.70
30 5 0.09
31 3 0.05
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (28 bp):
AAATAATAATAGAAAAATATAAATAGAT
Found at i:28582443 original size:14 final size:15
Alignment explanation
Indices: 28582423--28582463 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
28582413 AAATAGAAAT
28582423 ATAATAATAGTAGAA
1 ATAATAATAGTAGAA
*
28582438 AT-ATAAATAG-ATAA
1 ATAAT-AATAGTAGAA
28582452 ATAATAATAGTA
1 ATAATAATAGTA
28582464 TTAGAATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (15 bp):
ATAATAATAGTAGAA
Found at i:28582458 original size:15 final size:14
Alignment explanation
Indices: 28582398--28582458 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 14
28582388 ATATAAATAG
*
28582398 AAATAAAAATATAAT
1 AAATAGAAA-ATAAT
28582413 AAATAGAAATATAAT
1 AAATAGAAA-ATAAT
28582428 -AATAGTAGAAAT-AT
1 AAATAG-A-AAATAAT
28582442 AAATAGATAAATAAT
1 AAATAGA-AAATAAT
28582457 AA
1 AA
28582459 TAGTATTAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 12 0.30
15 26 0.65
16 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
AAATAGAAAATAAT
Found at i:28586664 original size:44 final size:44
Alignment explanation
Indices: 28586616--28586753 Score: 99
Period size: 42 Copynumber: 3.2 Consensus size: 44
28586606 TCGATCTGCT
28586616 CTACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCTATTACC
1 CTACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCTATTACC
* *** * * * * * *
28586660 CTACTGCT-TAGGGGGTTAAG-GCTCGCTGTCTTC-G-ATA-TGCTC
1 CTACTACTGTTTAGGGATAAGATCT-G-TATTTTCAGCCTATTAC-C
*
28586702 C-ACTACTGTTTAGGGATAAGATCTGTATTTTCCAGCCTGTTACC
1 CTACTACTGTTTAGGGATAAGATCTGTATTTT-CAGCCTATTACC
28586746 CTACTACT
1 CTACTACT
28586754 TAGGGGTTAA
Statistics
Matches: 63, Mismatches: 21, Indels: 19
0.61 0.20 0.18
Matches are distributed among these distances:
41 11 0.17
42 16 0.25
43 13 0.21
44 15 0.24
45 8 0.13
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (44 bp):
CTACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCTATTACC
Found at i:28586690 original size:85 final size:85
Alignment explanation
Indices: 28586503--28587110 Score: 815
Period size: 85 Copynumber: 7.1 Consensus size: 85
28586493 TTACCCTACT
* * * * * * **
28586503 GTTAAGGCTCACTGTCCTCGATCTACTCTATTACTGCTTAGGGAGATAAGATCTGTA-ACTCAGC
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTA-GG-GATAAGATCTGTATTTTCAGC
* * * *
28586567 ATGTTACCTTATTGTTTAGGGG
64 CTGTTACCCTACTGCTTAGGGG
* *
28586589 GTTAAGGCTCACTGTCTTCGATCTGCTCTACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCT
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCT
*
28586654 ATTACCCTACTGCTTAGGGG
66 GTTACCCTACTGCTTAGGGG
*
28586674 GTTAAGGCTCGCTGTCTTCGATATGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCCAGCC
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTT-CAGCC
*
28586739 TGTTACCCTACTACTTA-GGG
65 TGTTACCCTACTGCTTAGGGG
* * *
28586759 GTTAAGGCTCACCGTCTTCGATCTGCTCCACTATTGTTTAGGGATAAGATCTGTATTTTCCAGCC
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTT-CAGCC
* * *
28586824 TATTACCTTACTGCTTAGAGG
65 TGTTACCCTACTGCTTAGGGG
* * * * * * *
28586845 GTTAAGGCTTGCTATCTTCAATCTGCTCCACTATTGTTTAGGGATAAGATCTATATTTCCATCCT
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCT
28586910 GTTACCCTACTGCTTAGGGG
66 GTTACCCTACTGCTTAGGGG
* * * * *
28586930 GTTAAGGCTCGTTGTCTTCAATCTGTTCCACTACTGTTTAGGGATAAGATCTGTATTTTTAGCTT
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCT
*
28586995 GTTACCCTATTGCTTAGGGG
66 GTTACCCTACTGCTTAGGGG
* *
28587015 GTTAAGGCTCGCTGTCTTCGATCTGTTCCACTACTGTTTAGGGATAAGATCTGTATTTTTAGCCT
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCT
*
28587080 GTTACCCTACTGTTTAGGGG
66 GTTACCCTACTGCTTAGGGG
28587100 GTTAAGGCTCG
1 GTTAAGGCTCG
28587111 TATCTTCAGC
Statistics
Matches: 468, Mismatches: 51, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
84 13 0.03
85 345 0.74
86 110 0.24
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (85 bp):
GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCT
GTTACCCTACTGCTTAGGGG
Found at i:28586962 original size:256 final size:255
Alignment explanation
Indices: 28586503--28587118 Score: 851
Period size: 256 Copynumber: 2.4 Consensus size: 255
28586493 TTACCCTACT
* * * * * **
28586503 GTTAAGGCTCACTGTCCTCGATCTACTCTATTACTGCTTAGGGAGATAAGATCTGTA-ACTCAGC
1 GTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTA-GG-GATAAGATCTGTATTTTCAGC
* * * * * *
28586567 ATGTTACCTTATTGTTTAGGGGGTTAAGGCTCACTGTCTTCGATCTGCTCTACTACTGTTTAGGG
64 CTGTTACCTTACTGTTTAGGGGGTTAAGGCTCGCTATCTTCAATCTGCTCCACTACTGTTTAGGG
* * *
28586632 ATAAGATCTGTATTTTCAGCCTATTACCCTACTGCTTAGGGGGTTAAGGCTCGCTGTCTTCGATA
129 ATAAGATCTATATTTCCAGCCTATTACCCTACTGCTTAGGGGGTTAAGGCTCGCTGTCTTCAATA
28586697 TGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCCAGCCTGTTACCCTACTACTTA-GGG
194 TGCTCCACTACTGTTTAGGGATAAGATCTGTATTTT-CAGCCTGTTACCCTACTACTTAGGGG
* *
28586759 GTTAAGGCTCACCGTCTTCGATCTGCTCCACTATTGTTTAGGGATAAGATCTGTATTTTCCAGCC
1 GTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTT-CAGCC
* * * * *
28586824 TATTACCTTACTGCTTAGAGGGTTAAGGCTTGCTATCTTCAATCTGCTCCACTATTGTTTAGGGA
65 TGTTACCTTACTGTTTAGGGGGTTAAGGCTCGCTATCTTCAATCTGCTCCACTACTGTTTAGGGA
* * * *
28586889 TAAGATCTATATTTCCATCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGTTGTCTTCAATCT
130 TAAGATCTATATTTCCAGCCTATTACCCTACTGCTTAGGGGGTTAAGGCTCGCTGTCTTCAATAT
* * * * *
28586954 GTTCCACTACTGTTTAGGGATAAGATCTGTATTTTTAGCTTGTTACCCTATTGCTTAGGGG
195 GCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCTGTTACCCTACTACTTAGGGG
* * *
28587015 GTTAAGGCTCGCTGTCTTCGATCTGTTCCACTACTGTTTAGGGATAAGATCTGTATTTTTAGCCT
1 GTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCT
*
28587080 GTTACCCTACTGTTTAGGGGGTTAAGGCTCG-TATCTTCA
66 GTTACCTTACTGTTTAGGGGGTTAAGGCTCGCTATCTTCA
28587119 GCTTGCTCTC
Statistics
Matches: 315, Mismatches: 42, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
254 21 0.07
255 52 0.17
256 242 0.77
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.37
Consensus pattern (255 bp):
GTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCT
GTTACCTTACTGTTTAGGGGGTTAAGGCTCGCTATCTTCAATCTGCTCCACTACTGTTTAGGGAT
AAGATCTATATTTCCAGCCTATTACCCTACTGCTTAGGGGGTTAAGGCTCGCTGTCTTCAATATG
CTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCTGTTACCCTACTACTTAGGGG
Found at i:28586964 original size:44 final size:44
Alignment explanation
Indices: 28586832--28587057 Score: 125
Period size: 44 Copynumber: 5.3 Consensus size: 44
28586822 CCTATTACCT
* * * *
28586832 TACTGCTTAGAGGGTTAAGGCTTGCTATCTTCAATCTGCTCCAC
1 TACTGCTTAGGGGGTTAAGGCTCGTTATCTTCAATCTGTTCCAC
* * * * *
28586876 TATTGTTTA--GGGATAA-GATC-TATAT-TTCCATCCTGTTACC-C
1 TACTGCTTAGGGGGTTAAGGCTCGT-TATCTTCAAT-CTGTT-CCAC
*
28586917 TACTGCTTAGGGGGTTAAGGCTCGTTGTCTTCAATCTGTTCCAC
1 TACTGCTTAGGGGGTTAAGGCTCGTTATCTTCAATCTGTTCCAC
* * * ** *
28586961 TACTGTTTA--GGGATAA-GATC-TGTAT-TTTTAGCTTGTTACC-C
1 TACTGCTTAGGGGGTTAAGGCTCGT-TATCTTCAATC-TGTT-CCAC
* * * *
28587002 TATTGCTTAGGGGGTTAAGGCTCGCTGTCTTCGATCTGTTCCAC
1 TACTGCTTAGGGGGTTAAGGCTCGTTATCTTCAATCTGTTCCAC
*
28587046 TACTGTTTAGGG
1 TACTGCTTAGGG
28587058 ATAAGATCTG
Statistics
Matches: 132, Mismatches: 32, Indels: 36
0.66 0.16 0.18
Matches are distributed among these distances:
40 10 0.08
41 34 0.26
42 16 0.12
43 16 0.12
44 46 0.35
45 10 0.08
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.38
Consensus pattern (44 bp):
TACTGCTTAGGGGGTTAAGGCTCGTTATCTTCAATCTGTTCCAC
Found at i:28587090 original size:41 final size:41
Alignment explanation
Indices: 28586952--28587098 Score: 122
Period size: 41 Copynumber: 3.5 Consensus size: 41
28586942 TGTCTTCAAT
28586952 CTGTTCCACTACTGTTTAGGGATAAGATCTGTATTTTTAGC
1 CTGTTCCACTACTGTTTAGGGATAAGATCTGTATTTTTAGC
* * * * * * * * *
28586993 TTGTTACC-CTATTGCTTAGGGGGTTAAG-GCTCGCT-GTCTTCGAT
1 CTGTT-CCACTACTGTTTA--GGGATAAGATCT-G-TATTTTTAG-C
28587037 CTGTTCCACTACTGTTTAGGGATAAGATCTGTATTTTTAGC
1 CTGTTCCACTACTGTTTAGGGATAAGATCTGTATTTTTAGC
28587078 CTGTTACC-CTACTGTTTAGGG
1 CTGTT-CCACTACTGTTTAGGG
28587099 GGTTAAGGCT
Statistics
Matches: 78, Mismatches: 18, Indels: 20
0.67 0.16 0.17
Matches are distributed among these distances:
41 31 0.40
42 18 0.23
43 16 0.21
44 13 0.17
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.40
Consensus pattern (41 bp):
CTGTTCCACTACTGTTTAGGGATAAGATCTGTATTTTTAGC
Found at i:28587543 original size:33 final size:33
Alignment explanation
Indices: 28587505--28587570 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
28587495 AATGTCATGA
28587505 GAATGATTTTTAAAATCTTAAAGTGTCATCACT
1 GAATGATTTTTAAAATCTTAAAGTGTCATCACT
28587538 GAATGATTTTTAAAATCTTAAAGTGTCATCACT
1 GAATGATTTTTAAAATCTTAAAGTGTCATCACT
28587571 CGTTATCCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (33 bp):
GAATGATTTTTAAAATCTTAAAGTGTCATCACT
Found at i:28593618 original size:21 final size:23
Alignment explanation
Indices: 28593571--28593624 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
28593561 CATTCAAGAT
**
28593571 AAAATAATATATAAAACTTTTTA
1 AAAATAATATATAAAACTAATTA
*
28593594 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
28593615 AAAAT-ATATA
1 AAAATAATATA
28593625 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:28593853 original size:21 final size:21
Alignment explanation
Indices: 28593824--28593876 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
28593814 ATATTAGTAT
28593824 ATAAATAGAAATAAAAATATA
1 ATAAATAGAAATAAAAATATA
* * *
28593845 ATAAGTAGAAATATAAATA-G
1 ATAAATAGAAATAAAAATATA
*
28593865 ATAAATAAAAAT
1 ATAAATAGAAAT
28593877 TAGACAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.25
Consensus pattern (21 bp):
ATAAATAGAAATAAAAATATA
Found at i:28594476 original size:5 final size:5
Alignment explanation
Indices: 28594468--28594494 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
28594458 ATAATTTAAT
28594468 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
28594495 ATCATATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:28594998 original size:19 final size:20
Alignment explanation
Indices: 28594974--28595020 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
28594964 TTGTAAAATT
* *
28594974 TAATGCACATG-ATGTGATG
1 TAATGCAAATGCATGAGATG
28594993 TAATGCAAATGCATGAGATG
1 TAATGCAAATGCATGAGATG
28595013 -AATGCAAA
1 TAATGCAAA
28595021 ACTAAAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGAGATG
Found at i:28598740 original size:20 final size:20
Alignment explanation
Indices: 28598703--28598741 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
28598693 AATAATGAAA
*
28598703 ATATTAATAATGAAAAAAAT
1 ATATTAATAATAAAAAAAAT
28598723 ATATTAATAA-AAATAAAAA
1 ATATTAATAATAAA-AAAAA
28598742 AATAATACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (20 bp):
ATATTAATAATAAAAAAAAT
Found at i:28598822 original size:3 final size:3
Alignment explanation
Indices: 28598816--28599188 Score: 82
Period size: 3 Copynumber: 125.7 Consensus size: 3
28598806 AGTATGTAGG
* ** *
28598816 TAA TAA TAA TAA -AA TAA TAA TAG TAA TAA TAA TCG TAG TAA -ATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * *
28598860 TAA AAA GAA -AA TATA TAA GGTAA TGAA -AA TAA TACA GAA TTAA TTAA
1 TAA TAA TAA TAA TA-A TAA --TAA T-AA TAA TAA TA-A TAA -TAA -TAA
* * ** *
28598907 T-T TAA TAA T-A TAA TAA TAA TAG TAA TAA TAA -AA TAA TGC TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * ** * * *
28598952 TAA TCA TAA -ATA TAA TAG TAA CGA TAA AAA TAA TAA TAA CAA CAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
28598997 CAA -AA TAGA -AGA TAA TAA TAA TAA T-A TAT TAA TAA -ACT TAA TAA
1 TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
** * * * * ***
28599041 T-A TGC TAA TAA TAA AAA TAA AAA TAA AAA TAA AAA TAA -AA GGT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * *
28599087 TAA TGA TAG TAC TGA T-A TAGA -AA AAA TAG TAA TCA TAA T-A TAT
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
28599130 TAA TAA TAA TAA TTA CAG TTA TAA TGAA -AA TAA TAA TAC TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
28599175 TAAA TAA T-A TAA TA
1 T-AA TAA TAA TAA TA
28599189 GTAAATACAA
Statistics
Matches: 264, Mismatches: 74, Indels: 64
0.66 0.18 0.16
Matches are distributed among these distances:
2 31 0.12
3 206 0.78
4 24 0.09
5 3 0.01
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:28598923 original size:20 final size:21
Alignment explanation
Indices: 28598900--28598943 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
28598890 AATACAGAAT
* *
28598900 TAATTAAT-TTAATAATATAA
1 TAATTAATAGTAATAATAAAA
28598920 TAA-TAATAGTAATAATAAAA
1 TAATTAATAGTAATAATAAAA
28598940 TAAT
1 TAAT
28598944 GCTAACAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TAATTAATAGTAATAATAAAA
Found at i:28599187 original size:15 final size:16
Alignment explanation
Indices: 28599161--28599195 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
28599151 TAATGAAAAT
28599161 AATAATACTAATAATA
1 AATAATACTAATAATA
*
28599177 AATAATA-TAATAGTA
1 AATAATACTAATAATA
28599192 AATA
1 AATA
28599196 CAAAACTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (16 bp):
AATAATACTAATAATA
Found at i:28603346 original size:13 final size:13
Alignment explanation
Indices: 28603312--28603346 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
28603302 TTCTGTGAAA
28603312 AAGTACTTTTGAG
1 AAGTACTTTTGAG
*
28603325 AAATACTTTTGAG
1 AAGTACTTTTGAG
*
28603338 AAGTGCTTT
1 AAGTACTTT
28603347 GGAAAAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (13 bp):
AAGTACTTTTGAG
Found at i:28611700 original size:40 final size:39
Alignment explanation
Indices: 28611616--28611842 Score: 154
Period size: 40 Copynumber: 5.7 Consensus size: 39
28611606 ATTGAATGAT
* * * * * *
28611616 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGT-ACTAA
* *
28611656 ATCCGGGTTAAGACCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGT-ACTAA
* * * **
28611696 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TACTAA
* * *
28611736 ATCCGGACTAAGATCCGAAGGC-TTTCGAGCGAGCTACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTT-GTGCGAG-TACTAA
* * * *
28611776 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTGTA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TACT-AA
* * *
28611817 A-CCGGGCTATGTCCCAAAGGCATTTG
1 ATCCGGGCTAAGACCCGAAGGCATTTG
28611843 AATGTGTAGC
Statistics
Matches: 149, Mismatches: 32, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
39 7 0.05
40 132 0.89
41 10 0.07
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTACTAA
Found at i:28611754 original size:80 final size:80
Alignment explanation
Indices: 28611664--28611813 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 80
28611654 ATATCCGGGT
* *
28611664 TAAGACCCGAAGGCTTT-GTGCTAAG-TGACTAAATCCGGACTAAGAT-CCGACGGCATACGTGC
1 TAAGACCCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGACTAAG-TCCCGAAGGCATACGTGC
28611726 GAGTTACTAAATCCGGAC
63 GAGTTACTAAATCCGGAC
* * ** *
28611744 TAAGATCCGAAGGCTTTCGAGCGAGCTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG
1 TAAGACCCGAAGGCTTTCGAGCAAGCTACTAAATCCGGACTAAGTCCCGAAGGCATACGTGCGAG
28611809 TTACT
66 TTACT
28611814 GTAACCGGGC
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
79 1 0.02
80 55 0.92
81 4 0.07
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (80 bp):
TAAGACCCGAAGGCTTTCGAGCAAGCTACTAAATCCGGACTAAGTCCCGAAGGCATACGTGCGAG
TTACTAAATCCGGAC
Found at i:28619902 original size:39 final size:39
Alignment explanation
Indices: 28619818--28619970 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
28619808 TATGGTAACC
** * *
28619818 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * *
28619858 TGCACAATTGCCTTCGGGCTCAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
28619897 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
28619936 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
28619971 TCGAACATTC
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 86 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:28619942 original size:78 final size:78
Alignment explanation
Indices: 28619787--28619969 Score: 260
Period size: 78 Copynumber: 2.3 Consensus size: 78
28619777 TCGTTCAAAC
* **
28619787 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-C-TAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
28619852 ACAATTTGCACAATT
64 ACAATTTGCACAATT
* ** *
28619867 GCCTTCGGGCTCAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGCT-AGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
28619931 CAATTTGCACAATT
65 CAATTTGCACAATT
28619945 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGC-TAGCCCGGATATCA
28619970 CTCGAACATT
Statistics
Matches: 94, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.24
Consensus pattern (78 bp):
GCCTTCGGGCTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCAC
AATTTGCACAATT
Found at i:28623838 original size:40 final size:39
Alignment explanation
Indices: 28623793--28624000 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
28623783 CGGAATACAA
*
28623793 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
28623833 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
28623873 CCGGATTTAACAACTTGCACGAAGGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
28623913 CCGGATGTAGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
28623953 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
28623993 CCGGATAT
1 CCGGATAT
28624001 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 135 0.96
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:28626594 original size:20 final size:20
Alignment explanation
Indices: 28626569--28626613 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
28626559 TATTATAAAA
28626569 ATGTTGTTATATAAATAGAT
1 ATGTTGTTATATAAATAGAT
**
28626589 ATGTTGTTATATATTTAGAT
1 ATGTTGTTATATAAATAGAT
28626609 ATGTT
1 ATGTT
28626614 ATATATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (20 bp):
ATGTTGTTATATAAATAGAT
Found at i:28626631 original size:24 final size:23
Alignment explanation
Indices: 28626575--28626632 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 23
28626565 AAAAATGTTG
*
28626575 TTATATAAATAGATATGTTGTTA
1 TTATATAAATAGATATGTTATTA
*
28626598 -TATAT--TTAGATATGTTATATA
1 TTATATAAATAGATATGTTAT-TA
28626619 TTATATAAATAGAT
1 TTATATAAATAGAT
28626633 TTCGGAACCG
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
20 11 0.39
21 2 0.07
22 10 0.36
24 5 0.18
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (23 bp):
TTATATAAATAGATATGTTATTA
Found at i:28626771 original size:43 final size:40
Alignment explanation
Indices: 28626721--28626822 Score: 116
Period size: 40 Copynumber: 2.5 Consensus size: 40
28626711 TATTGAAATT
* *
28626721 CCAACTTTGTAACCAGATACTTTGTA-ATTGTGCGTAGGTGTAC
1 CCAACTTTGTAACCAAATAC-TTGTATA-TATGCGT--GTGTAC
* *
28626764 CCAACTTTATAACCAAATACTTGTTTATATGCGTGTGTAC
1 CCAACTTTGTAACCAAATACTTGTATATATGCGTGTGTAC
*
28626804 CCAACTTTGTAATCAAATA
1 CCAACTTTGTAACCAAATA
28626823 TTAAATTTCT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
40 23 0.44
42 10 0.19
43 19 0.37
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (40 bp):
CCAACTTTGTAACCAAATACTTGTATATATGCGTGTGTAC
Found at i:28628031 original size:6 final size:6
Alignment explanation
Indices: 28628020--28628053 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
28628010 TTTATATTCT
28628020 TCTCAA TCTCAA TCTCAA TCTCAA TCTCAA TCTC
1 TCTCAA TCTCAA TCTCAA TCTCAA TCTCAA TCTC
28628054 TAGTGATGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (6 bp):
TCTCAA
Found at i:28628605 original size:18 final size:17
Alignment explanation
Indices: 28628584--28628617 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
28628574 ACAAGTTGTG
28628584 ATAATTATACATTTAAAA
1 ATAATTATA-ATTTAAAA
28628602 ATAATTATAATTTAAA
1 ATAATTATAATTTAAA
28628618 TTTACAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAATTATAATTTAAAA
Found at i:28637434 original size:24 final size:24
Alignment explanation
Indices: 28637407--28637454 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
28637397 CTTTATAGAA
28637407 AATATCAAAAAAATAATTAAATAT
1 AATATCAAAAAAATAATTAAATAT
***
28637431 AATATTTTAAAAATAATTAAATAT
1 AATATCAAAAAAATAATTAAATAT
28637455 TAAACAGGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
AATATCAAAAAAATAATTAAATAT
Found at i:28637801 original size:22 final size:24
Alignment explanation
Indices: 28637764--28637809 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
28637754 TTTTTTTAAT
28637764 TTTTAATTAAATAAATATAATTTA
1 TTTTAATTAAATAAATATAATTTA
*
28637788 TTTT-ATT-AATAAATATATTTTA
1 TTTTAATTAAATAAATATAATTTA
28637810 AAAATCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
23 3 0.14
24 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTTAATTAAATAAATATAATTTA
Found at i:28644896 original size:23 final size:23
Alignment explanation
Indices: 28644870--28644914 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
28644860 ATTAACATTT
28644870 TAATTAAGATT-TTATTTAAAAAA
1 TAATT-AGATTCTTATTTAAAAAA
* *
28644893 TAATTCGATTCTTTTTTAAAAA
1 TAATTAGATTCTTATTTAAAAA
28644915 TTGATGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (23 bp):
TAATTAGATTCTTATTTAAAAAA
Found at i:28650422 original size:21 final size:21
Alignment explanation
Indices: 28650371--28650422 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
28650361 TCAACCACGT
*
28650371 TAGTTTTTAATAATACAAAAGA
1 TAGTTTTT-TTAATACAAAAGA
*** *
28650393 TACAATTTTTAATAGAAAAGA
1 TAGTTTTTTTAATACAAAAGA
28650414 TAGTTTTTT
1 TAGTTTTTT
28650423 GATCTAACAC
Statistics
Matches: 22, Mismatches: 8, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (21 bp):
TAGTTTTTTTAATACAAAAGA
Found at i:28650664 original size:16 final size:16
Alignment explanation
Indices: 28650645--28650699 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
28650635 GTTTGGTTCA
*
28650645 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
28650661 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
28650677 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
28650693 CTATAAT
1 CTGTAAT
28650700 AAGTAATTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:28650964 original size:16 final size:16
Alignment explanation
Indices: 28650945--28650978 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
28650935 AATTATTATT
28650945 AAATATAATTTAATAA
1 AAATATAATTTAATAA
*
28650961 AAATATAATTTATTAA
1 AAATATAATTTAATAA
28650977 AA
1 AA
28650979 TTCTTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATAATTTAATAA
Found at i:28654561 original size:13 final size:13
Alignment explanation
Indices: 28654543--28654569 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
28654533 TTAATTTACA
28654543 TTTGTCATTATAC
1 TTTGTCATTATAC
28654556 TTTGTCATTATAC
1 TTTGTCATTATAC
28654569 T
1 T
28654570 CTGAGAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.07, T:0.56
Consensus pattern (13 bp):
TTTGTCATTATAC
Found at i:28656682 original size:41 final size:41
Alignment explanation
Indices: 28656607--28656684 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
28656597 ATAGTGATAT
*
28656607 TCGGGCTTTAAGCCTAGCAAGGATTGTGCTGGTGAATGTAA
1 TCGGGCTTTAAGCCTAGCAAGGATTGTGCCGGTGAATGTAA
* * *
28656648 TCGGGCTTTATGCCTAGC-AGGCTTATTGCCGGTGAAT
1 TCGGGCTTTAAGCCTAGCAAGGATT-GTGCCGGTGAAT
28656685 ATAAAATCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 5 0.16
41 27 0.84
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.31
Consensus pattern (41 bp):
TCGGGCTTTAAGCCTAGCAAGGATTGTGCCGGTGAATGTAA
Found at i:28658353 original size:38 final size:38
Alignment explanation
Indices: 28658308--28658384 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
28658298 TTCGAATGTG
28658308 TTTAAATGTTATGACGTAAGTCCGGTAATGCCTCGAAC
1 TTTAAATGTTATGACGTAAGTCCGGTAATGCCTCGAAC
28658346 TTTAAATGTTATGACGTAAGTCCGGTAATGCCTCGAAC
1 TTTAAATGTTATGACGTAAGTCCGGTAATGCCTCGAAC
28658384 T
1 T
28658385 CTGATCCGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (38 bp):
TTTAAATGTTATGACGTAAGTCCGGTAATGCCTCGAAC
Found at i:28658664 original size:17 final size:18
Alignment explanation
Indices: 28658642--28658682 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
28658632 AAAATAAAAC
* *
28658642 ATTAAAAA-TATGTTTTA
1 ATTAAAAATTATCTTTAA
28658659 ATTAAAAATTATCTTTAA
1 ATTAAAAATTATCTTTAA
28658677 ATTAAA
1 ATTAAA
28658683 TAGAGAGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
ATTAAAAATTATCTTTAA
Found at i:28661136 original size:12 final size:12
Alignment explanation
Indices: 28661119--28661150 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
28661109 AAGAAATGGG
28661119 AAAAAGAACGAA
1 AAAAAGAACGAA
28661131 AAAAAGAACGAA
1 AAAAAGAACGAA
28661143 AAAAAGAA
1 AAAAAGAA
28661151 GAGGCTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.78, C:0.06, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAGAACGAA
Found at i:28662116 original size:20 final size:20
Alignment explanation
Indices: 28662093--28662131 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
28662083 CATGAAAAAA
28662093 GAGAAAATTCAAAAAATTAT
1 GAGAAAATTCAAAAAATTAT
28662113 GAGAAAATTCAAAAAATTA
1 GAGAAAATTCAAAAAATTA
28662132 ACAATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.23
Consensus pattern (20 bp):
GAGAAAATTCAAAAAATTAT
Found at i:28663374 original size:22 final size:22
Alignment explanation
Indices: 28663346--28663403 Score: 116
Period size: 22 Copynumber: 2.6 Consensus size: 22
28663336 ACACAGGGAC
28663346 ACACGCCCGTGTGAGACGGGCA
1 ACACGCCCGTGTGAGACGGGCA
28663368 ACACGCCCGTGTGAGACGGGCA
1 ACACGCCCGTGTGAGACGGGCA
28663390 ACACGCCCGTGTGA
1 ACACGCCCGTGTGA
28663404 CCATTTAGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.22, C:0.33, G:0.34, T:0.10
Consensus pattern (22 bp):
ACACGCCCGTGTGAGACGGGCA
Found at i:28669160 original size:30 final size:30
Alignment explanation
Indices: 28669124--28669184 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
28669114 TCCTTAATTC
*
28669124 AAACTTTTTCAAAATTACAATTTTACCCCT
1 AAACTTTTGCAAAATTACAATTTTACCCCT
* * * *
28669154 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTACCCCT
28669184 A
1 A
28669185 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTACCCCT
Found at i:28675308 original size:6 final size:7
Alignment explanation
Indices: 28675280--28675307 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
28675270 AGAAGAGAGC
28675280 ATAAAAA
1 ATAAAAA
28675287 ATAAAAA
1 ATAAAAA
28675294 ATAAAAA
1 ATAAAAA
28675301 ATAAAAA
1 ATAAAAA
28675308 TGATTCAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
ATAAAAA
Found at i:28676771 original size:21 final size:20
Alignment explanation
Indices: 28676732--28676784 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
28676722 TTGTATTTAC
*
28676732 TTGAAAAT-TTTATAGTTTT
1 TTGAAAATATTTATAATTTT
28676751 TTGAAAATATTTATGAATTTT
1 TTGAAAATATTTAT-AATTTT
* *
28676772 TTTAAAAAATTTA
1 TTGAAAATATTTA
28676785 CTAAATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 8 0.28
20 5 0.17
21 16 0.55
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.53
Consensus pattern (20 bp):
TTGAAAATATTTATAATTTT
Found at i:28676961 original size:2 final size:2
Alignment explanation
Indices: 28676956--28676991 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
28676946 AAACGTGTGA
28676956 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
28676992 CAAATTTTAC
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
Found at i:28679633 original size:135 final size:136
Alignment explanation
Indices: 28679479--28679750 Score: 528
Period size: 135 Copynumber: 2.0 Consensus size: 136
28679469 GGTCCGAGTT
28679479 TTTTTGGGCAACTTAGGGTTTTCAAGGAAATACCATGGACTAATTTTGGCAAAAAAAGTTTAGAT
1 TTTTTGGGCAACTTAGGGTTTTCAAGGAAATACCATGGACTAATTTTGGCAAAAAAAGTTTAGAT
28679544 CCTAATGTGGGAACAATTACCAAGTTTAAGGACTAATTTGGAC-AAAAAAAATCTAATCTCAATA
66 CCTAATGTGGGAACAATTACCAAGTTTAAGGACTAATTTGGACAAAAAAAAATCTAATCTCAATA
28679608 TGAGAG
131 TGAGAG
*
28679614 TTTTTGGGCAACTTAGGGTTTTCAAGGAAATACCATGGACTAGTTTTGGCAAAAAAAGTTTAGAT
1 TTTTTGGGCAACTTAGGGTTTTCAAGGAAATACCATGGACTAATTTTGGCAAAAAAAGTTTAGAT
28679679 CCTAATGTGGGAACAATTACCAAGTTTAAGGACTAATTTGGACAAAAAAAAATCTAATCTCAATA
66 CCTAATGTGGGAACAATTACCAAGTTTAAGGACTAATTTGGACAAAAAAAAATCTAATCTCAATA
28679744 TGAGAG
131 TGAGAG
28679750 T
1 T
28679751 AGTTGCTAAG
Statistics
Matches: 135, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
135 107 0.79
136 28 0.21
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.30
Consensus pattern (136 bp):
TTTTTGGGCAACTTAGGGTTTTCAAGGAAATACCATGGACTAATTTTGGCAAAAAAAGTTTAGAT
CCTAATGTGGGAACAATTACCAAGTTTAAGGACTAATTTGGACAAAAAAAAATCTAATCTCAATA
TGAGAG
Found at i:28680804 original size:4 final size:5
Alignment explanation
Indices: 28680777--28680824 Score: 50
Period size: 5 Copynumber: 10.4 Consensus size: 5
28680767 TGTTATTACA
* *
28680777 TGTTT GGTTT TGTTT TGTTT TG-TT TGTTT T-TTT T-TTT T-TTT GGTTT
1 TGTTT TGTTT TGTTT TGTTT TGTTT TGTTT TGTTT TGTTT TGTTT TGTTT
28680823 TG
1 TG
28680825 AACATTGAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 15 0.41
5 22 0.59
ACGTcount: A:0.00, C:0.00, G:0.21, T:0.79
Consensus pattern (5 bp):
TGTTT
Found at i:28681195 original size:27 final size:27
Alignment explanation
Indices: 28681165--28681239 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
28681155 GACTAATCGA
* * *
28681165 GCCTTTCTCTGAGGCGCAAATGGTTGT
1 GCCTATCTCAGAGGCGCAAATAGTTGT
28681192 GCCTATCTCAGAGGCGCAAATAGTTGT
1 GCCTATCTCAGAGGCGCAAATAGTTGT
* * *
28681219 GCCTATCCCAGATGTGCAAAT
1 GCCTATCTCAGAGGCGCAAAT
28681240 GGTGGGGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (27 bp):
GCCTATCTCAGAGGCGCAAATAGTTGT
Found at i:28684685 original size:33 final size:33
Alignment explanation
Indices: 28684642--28684726 Score: 98
Period size: 33 Copynumber: 2.6 Consensus size: 33
28684632 ATGAACTTGA
* * * * *
28684642 GCCGGCAGGAGTAGAGTACGGCGATTGATACGG
1 GCCGGAAGGAGTGGAGTACGACGATAGATACAG
* *
28684675 GCCGGGAGGAGTGGAGTACGACGGTAGATACAG
1 GCCGGAAGGAGTGGAGTACGACGATAGATACAG
*
28684708 GCCGGAAAGAGTGGAGTAC
1 GCCGGAAGGAGTGGAGTAC
28684727 TGAGGTGGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.27, C:0.16, G:0.44, T:0.13
Consensus pattern (33 bp):
GCCGGAAGGAGTGGAGTACGACGATAGATACAG
Found at i:28684738 original size:33 final size:32
Alignment explanation
Indices: 28684668--28684767 Score: 94
Period size: 33 Copynumber: 3.0 Consensus size: 32
28684658 TACGGCGATT
* * *
28684668 GATACGGGCCGGGAGGAGTGGAGTAC-GACGGTA
1 GATACAGGCC-GGAAGAGTGGAGTACTGA-GGTG
28684701 GATACAGGCCGGAAAGAGTGGAGTACTGAGGTG
1 GATACAGGCCGG-AAGAGTGGAGTACTGAGGTG
* * * *
28684734 GATACAAGCCAGGATGACTGGAGTACTGATGTG
1 GATACAGGCC-GGAAGAGTGGAGTACTGAGGTG
28684767 G
1 G
28684768 TAGTGGGCTG
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
32 2 0.04
33 51 0.89
34 4 0.07
ACGTcount: A:0.28, C:0.14, G:0.42, T:0.16
Consensus pattern (32 bp):
GATACAGGCCGGAAGAGTGGAGTACTGAGGTG
Found at i:28686506 original size:24 final size:25
Alignment explanation
Indices: 28686458--28686511 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
28686448 TTAAACCCTT
28686458 AAAAGTTGGTTTATTAGACCAAAAA
1 AAAAGTTGGTTTATTAGACCAAAAA
28686483 AAAAGTTGGTTTATTAGACCAAAAA
1 AAAAGTTGGTTTATTAGACCAAAAA
28686508 AAAA
1 AAAA
28686512 ATTGTTCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.52, C:0.07, G:0.15, T:0.26
Consensus pattern (25 bp):
AAAAGTTGGTTTATTAGACCAAAAA
Found at i:28694185 original size:11 final size:11
Alignment explanation
Indices: 28694169--28694194 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
28694159 CATGACGCAC
28694169 AAAATAAAACT
1 AAAATAAAACT
28694180 AAAATAAAACT
1 AAAATAAAACT
28694191 AAAA
1 AAAA
28694195 AGCGAAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATAAAACT
Found at i:28695702 original size:99 final size:99
Alignment explanation
Indices: 28695531--28695728 Score: 387
Period size: 99 Copynumber: 2.0 Consensus size: 99
28695521 CTCCAAGTCC
28695531 CCAAATCAAGGCTCACCTGCAAGGTTAAGAAAAGGGGTGAGTTTGGAAACTCAGTGTGCAACAAG
1 CCAAATCAAGGCTCACCTGCAAGGTTAAGAAAAGGGGTGAGTTTGGAAACTCAGTGTGCAACAAG
28695596 CCCCTTTCAGAACCCAAAACAATATCAGCCTGCT
66 CCCCTTTCAGAACCCAAAACAATATCAGCCTGCT
*
28695630 CCAAATCAAGGCTCACCTGCAAGGTTAATAAAAGGGGTGAGTTTGGAAACTCAGTGTGCAACAAG
1 CCAAATCAAGGCTCACCTGCAAGGTTAAGAAAAGGGGTGAGTTTGGAAACTCAGTGTGCAACAAG
28695695 CCCCTTTCAGAACCCAAAACAATATCAGCCTGCT
66 CCCCTTTCAGAACCCAAAACAATATCAGCCTGCT
28695729 GGGCCTAAGC
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 98 1.00
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (99 bp):
CCAAATCAAGGCTCACCTGCAAGGTTAAGAAAAGGGGTGAGTTTGGAAACTCAGTGTGCAACAAG
CCCCTTTCAGAACCCAAAACAATATCAGCCTGCT
Found at i:28695791 original size:30 final size:31
Alignment explanation
Indices: 28695755--28695838 Score: 136
Period size: 30 Copynumber: 2.7 Consensus size: 31
28695745 TCAATCTCAG
28695755 CATATACTGGGCCGAAGCCTTTAT-ATTATT
1 CATATACTGGGCCGAAGCCTTTATCATTATT
*
28695785 CATATACTGGGCCGAAG-CTTTTTCATTATT
1 CATATACTGGGCCGAAGCCTTTATCATTATT
28695815 CATATCACTGGGCCGAAGCCTTTA
1 CATAT-ACTGGGCCGAAGCCTTTA
28695839 CTGCAGCAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
29 5 0.10
30 28 0.57
31 12 0.24
32 4 0.08
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.35
Consensus pattern (31 bp):
CATATACTGGGCCGAAGCCTTTATCATTATT
Done.