Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 240 of 240
Found at i:72920386 original size:20 final size:20
Alignment explanation
Indices: 72920361--72920410 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
72920351 TGGCTTAAAA
72920361 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
72920381 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
72920398 GTGGTAGTGGATT
1 TTGGTAGTGGATT
72920411 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:72924392 original size:29 final size:29
Alignment explanation
Indices: 72924350--72924408 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
72924340 TTTAGTTCGT
72924350 TGCATTTATGTAGACAGATCCGTAATTGA
1 TGCATTTATGTAGACAGATCCGTAATTGA
72924379 TGCATTTATGTAGACAGATCCGTAATTGA
1 TGCATTTATGTAGACAGATCCGTAATTGA
72924408 T
1 T
72924409 CCAAAGGCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.36
Consensus pattern (29 bp):
TGCATTTATGTAGACAGATCCGTAATTGA
Found at i:72925171 original size:34 final size:35
Alignment explanation
Indices: 72925105--72925171 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
72925095 CAAACACCAG
72925105 AAAATATTTTCCAGTAAACCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAACCATTTTACAGAAAAGT
* * *
72925140 AAAATATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAACCATTTTACAGAAAA
72925172 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAACCATTTTACAGAAAAGT
Found at i:72932770 original size:75 final size:75
Alignment explanation
Indices: 72932647--72932797 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
72932637 TCAACAAACC
72932647 AGCAATAAGAGAATTGAATCTTCAAAATCTGTGCGGTATATGAAATATCACAGATGTTGAAGGAC
1 AGCAATAAGAGAATTGAATCTTCAAAATCTGTGCGGTATATGAAATATCACAGATGTTGAAGGAC
72932712 TATTATGCAA
66 TATTATGCAA
72932722 AGCAATAAGAGAATTGAATCTTCAAAATCTGTGCGGTATATGAAATATCACAGATGTTGAAGGAC
1 AGCAATAAGAGAATTGAATCTTCAAAATCTGTGCGGTATATGAAATATCACAGATGTTGAAGGAC
72932787 TATTATGCAA
66 TATTATGCAA
72932797 A
1 A
72932798 TAAAATTTGG
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (75 bp):
AGCAATAAGAGAATTGAATCTTCAAAATCTGTGCGGTATATGAAATATCACAGATGTTGAAGGAC
TATTATGCAA
Found at i:72939716 original size:4 final size:4
Alignment explanation
Indices: 72939707--72939741 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
72939697 GTGTTGGCTT
72939707 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
72939742 AAATTAGTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:72940931 original size:24 final size:25
Alignment explanation
Indices: 72940890--72940938 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
72940880 GTATGATTAA
* *
72940890 TATTTTTTTTTATAATGGGTTGAAT
1 TATTTTTTGTTATAATGGGTAGAAT
72940915 TATTTTTTGTTAT-ATGGGTAGAAT
1 TATTTTTTGTTATAATGGGTAGAAT
72940939 ATAAAGATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.57
Consensus pattern (25 bp):
TATTTTTTGTTATAATGGGTAGAAT
Found at i:72942650 original size:11 final size:11
Alignment explanation
Indices: 72942634--72942659 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
72942624 TATTTTTTAA
72942634 TTTTAAAATAC
1 TTTTAAAATAC
72942645 TTTTAAAATAC
1 TTTTAAAATAC
72942656 TTTT
1 TTTT
72942660 TTTAAATTTT
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:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:72942670 original size:40 final size:40
Alignment explanation
Indices: 72942625--72942728 Score: 147
Period size: 40 Copynumber: 2.6 Consensus size: 40
72942615 AAATATTTTT
*
72942625 ATTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAA
1 ATTTTTTAATTTTAAAATAATTTTAAAATACTTTTTTTAA
** **
72942665 ATTTTTTAAATTTT-AAATTTTTTTAAAATACTTTTTTTTT
1 ATTTTTT-AATTTTAAAATAATTTTAAAATACTTTTTTTAA
72942705 ATTTTTTAATTTTAAAATAATTTT
1 ATTTTTTAATTTTAAAATAATTTT
72942729 TTAATTTTTG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
39 6 0.11
40 44 0.79
41 6 0.11
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (40 bp):
ATTTTTTAATTTTAAAATAATTTTAAAATACTTTTTTTAA
Found at i:72942717 original size:29 final size:30
Alignment explanation
Indices: 72942685--72942762 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 30
72942675 TTTTAAATTT
*
72942685 TTTTAAAATACTTTTTT-TTTATT-TTTTAA
1 TTTTAAAATAATTTTTTATTT-TTGTTTTAA
72942714 TTTTAAAATAATTTTTTAATTTTTGTTTTAA
1 TTTTAAAATAATTTTTT-ATTTTTGTTTTAA
* *
72942745 TTTTTTAAATAAATTTTT
1 -TTTTAAAATAATTTTTT
72942763 GGTATTTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
29 16 0.38
30 2 0.05
31 9 0.21
32 15 0.36
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (30 bp):
TTTTAAAATAATTTTTTATTTTTGTTTTAA
Found at i:72942750 original size:40 final size:39
Alignment explanation
Indices: 72942626--72942750 Score: 114
Period size: 40 Copynumber: 3.1 Consensus size: 39
72942616 AATATTTTTA
** *
72942626 TTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAAAT
1 TTTTTTAATTTTAAAATA-TTTTTTAATA-TTTTTTTTAAT
* *
72942667 TTTTTAAATTTT-AAAT-TTTTTTAAAATACTTTTTTTTTA-
1 TTTTTTAATTTTAAAATATTTTTT--AATA-TTTTTTTTAAT
72942706 TTTTTTAATTTTAAAATAATTTTTTAAT-TTTTGTTTTAAT
1 TTTTTTAATTTTAAAAT-ATTTTTTAATATTTT-TTTTAAT
72942746 TTTTT
1 TTTTT
72942751 AAATAAATTT
Statistics
Matches: 70, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
38 8 0.11
39 16 0.23
40 29 0.41
41 11 0.16
42 6 0.09
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (39 bp):
TTTTTTAATTTTAAAATATTTTTTAATATTTTTTTTAAT
Found at i:72945032 original size:30 final size:31
Alignment explanation
Indices: 72944996--72945062 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
72944986 ATTTTTCGAT
*
72944996 AATTTT-ATTTCAC-CCTTAAATAATTTTAAA
1 AATTTTAATTTCACTCCTCAAA-AATTTTAAA
* *
72945026 AATTTTAATTTGACTCCTCAAAAATTTTGAA
1 AATTTTAATTTCACTCCTCAAAAATTTTAAA
72945057 AATTTT
1 AATTTT
72945063 TATTAATTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 6 0.19
31 20 0.62
32 6 0.19
ACGTcount: A:0.39, C:0.12, G:0.03, T:0.46
Consensus pattern (31 bp):
AATTTTAATTTCACTCCTCAAAAATTTTAAA
Found at i:72945128 original size:30 final size:29
Alignment explanation
Indices: 72945009--72945120 Score: 98
Period size: 31 Copynumber: 3.7 Consensus size: 29
72944999 TTTATTTCAC
* *
72945009 CCTTAAATAATTTTAAAAATTTTAATTTGACT
1 CCTTAAAT-ATTTTGAAAATTTTAA-TT-AAT
* * *
72945041 CCTCAAAAATTTTGAAAATTTTTATTAAT
1 CCTTAAATATTTTGAAAATTTTAATTAAT
* * *
72945070 TCTTAAATTTTTTAAAAATATTTAATTAAT
1 CCTTAAATATTTTGAAAAT-TTTAATTAAT
*
72945100 CCTATCAATATTTTGAAAATT
1 CCT-TAAATATTTTGAAAATT
72945121 CTCATTAAAT
Statistics
Matches: 63, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
29 16 0.25
30 14 0.22
31 27 0.43
32 6 0.10
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (29 bp):
CCTTAAATATTTTGAAAATTTTAATTAAT
Found at i:72946896 original size:19 final size:20
Alignment explanation
Indices: 72946860--72946898 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
72946850 AGTAAATAAA
**
72946860 AAAATATTTTAAGTATATTT
1 AAAATATTTTAAAAATATTT
72946880 AAAAT-TTTTAAAAATATTT
1 AAAATATTTTAAAAATATTT
72946899 TTATTACTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
AAAATATTTTAAAAATATTT
Found at i:72954081 original size:34 final size:34
Alignment explanation
Indices: 72954038--72954105 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
72954028 CCTTAAACTT
72954038 ATCTTGCAGACATGTTATAGGTAAATGTATTATG
1 ATCTTGCAGACATGTTATAGGTAAATGTATTATG
72954072 ATCTTGCAGACATGTTATAGGTAAATGTATTATG
1 ATCTTGCAGACATGTTATAGGTAAATGTATTATG
72954106 GAGGTTTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (34 bp):
ATCTTGCAGACATGTTATAGGTAAATGTATTATG
Found at i:72955190 original size:31 final size:31
Alignment explanation
Indices: 72955155--72955215 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
72955145 ATCCAACGAC
*
72955155 TTAAATAAAAATTTTCGAATAATTTAATGAT
1 TTAAATAAAAATTTTCAAATAATTTAATGAT
* *
72955186 TTAAATTAAAATTTTTAAATAATTTAATGA
1 TTAAATAAAAATTTTCAAATAATTTAATGA
72955216 CTATTTTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (31 bp):
TTAAATAAAAATTTTCAAATAATTTAATGAT
Found at i:72956105 original size:37 final size:37
Alignment explanation
Indices: 72956064--72956137 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 37
72956054 AAAGTTTATA
* * *
72956064 CCTTCTATTAAAT-TGGTTCTAATTTAACAAATTTAGC
1 CCTTCTATT-AATCTGATTCCAATCTAACAAATTTAGC
* *
72956101 CCTTCTGTTAATCTGATTCCAATCTAATAAATTTAGC
1 CCTTCTATTAATCTGATTCCAATCTAACAAATTTAGC
72956138 TGCAGCAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
36 3 0.10
37 28 0.90
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (37 bp):
CCTTCTATTAATCTGATTCCAATCTAACAAATTTAGC
Found at i:72957408 original size:182 final size:182
Alignment explanation
Indices: 72957068--72957539 Score: 721
Period size: 182 Copynumber: 2.6 Consensus size: 182
72957058 GTATACATTT
* **
72957068 GAGTTACGCTACAATGGTTAGATGATCATGCCATGTAACTTGGTTTGTCAACTTTATGAGTTGAG
1 GAGTTAAGCTACAATGACTAGATGATCATGCCATGTAACTTGGTTTGTCAACTTTATGAGTTGAG
* * * * * **
72957133 CTTAATTAAA-TGATGTAGCATTAGTTTAAAATATAATGTAACGTGTTATATTCACTTGAATAGT
66 C-AAATAAAACAG-TGTGGCATTAGTTTAAAATATAATGTAACGCGCCATATTCACTTGAATAGT
*
72957197 TGCATGTAATCAGTGAATGGAGTATGAATCAAGTCAGGTCAAATGTAACTACTC
129 TGCATATAATCAGTGAATGGAGTATGAATCAAGTCAGGTCAAATGTAACTACTC
* *
72957251 GAGTTAAGCTACAATGACCAGATGATCATGCCATATAACTTGGTTTGTCAACTTTATGAGTTGAG
1 GAGTTAAGCTACAATGACTAGATGATCATGCCATGTAACTTGGTTTGTCAACTTTATGAGTTGAG
*
72957316 CAAATAAAACAGTGTGGCATTAGTTTAAAATATAATGTAACGCGCCATATTTACTTGAATAGTTG
66 CAAATAAAACAGTGTGGCATTAGTTTAAAATATAATGTAACGCGCCATATTCACTTGAATAGTTG
* * ** *
72957381 TATATAATCAGTGAATGGGGTATGAATCGGGTCGGGTCAAATGTAACTACTC
131 CATATAATCAGTGAATGGAGTATGAATCAAGTCAGGTCAAATGTAACTACTC
*
72957433 GAGTTAAGCTACAATGACTAGATGATCATGCCATGTAACTTGGCTTGTCAACTTTATGAGTTGAG
1 GAGTTAAGCTACAATGACTAGATGATCATGCCATGTAACTTGGTTTGTCAACTTTATGAGTTGAG
* *
72957498 CAAATAAAACAATTTGGCATTAGTTTAAAATATAATGTAACG
66 CAAATAAAACAGTGTGGCATTAGTTTAAAATATAATGTAACG
72957540 TGTCTTATTC
Statistics
Matches: 264, Mismatches: 24, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
182 202 0.77
183 62 0.23
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (182 bp):
GAGTTAAGCTACAATGACTAGATGATCATGCCATGTAACTTGGTTTGTCAACTTTATGAGTTGAG
CAAATAAAACAGTGTGGCATTAGTTTAAAATATAATGTAACGCGCCATATTCACTTGAATAGTTG
CATATAATCAGTGAATGGAGTATGAATCAAGTCAGGTCAAATGTAACTACTC
Found at i:72957780 original size:207 final size:203
Alignment explanation
Indices: 72957368--72957898 Score: 643
Period size: 207 Copynumber: 2.6 Consensus size: 203
72957358 CGCCATATTT
* * * * * * *
72957368 ACTTGAATAGTTGTATATAATCAGTGAATGGGGTATGAATCGGGTCGGGTCAAATGTAACTACTC
1 ACTTGAATAGTTGCATATAATCGGTGAATGGGGTATGAATCTGGTCGGATTAAATGTAACAATTC
** * *
72957433 GAGTTAAGCTACAATGACTAGATGATCATGCCATGTAACTTGGCTTGTCAACTTTATGAGTTGAG
66 GAGTTAAGCTACAATGGTTAGATGATCATGCCATGTAACTTGGTTTGTTAACTTTATGAGTTGAG
* * * * *
72957498 CAAATAAAACAATTTGGCATTAGTTTAAAATATAATGTAACGTGTCTTATTCACTCGGCCCACTA
131 CAAATAAAACAATGTGGCATTAGTTTAAAATATAATGTAACGTGTCATATTCACTAGACACACTA
72957563 GAGTTTTA
196 GAGTTTTA
* **
72957571 ACTTGAATAGTTGCATGTAATCGGTGAATGGGGTATGAGATCTGGTTAGATTAAATGTAACAATT
1 ACTTGAATAGTTGCATATAATCGGTGAATGGGGTATGA-ATCTGGTCGGATTAAATGTAACAATT
* *
72957636 CGAGTTAATAAGCTACAATGGTTAGATGATCATACCATGTAACTGGGTTTGTTAACTTTATGAGT
65 CGAG-T--TAAGCTACAATGGTTAGATGATCATGCCATGTAACTTGGTTTGTTAACTTTATGAGT
* ** ** * ** *
72957701 TGAGCTTAATTTAATGATGTGGTATTTTTTTAAAATATAATGTAACGTGTCATATTCATTAGACA
127 TGAGC-AAATAAAACAATGTGGCATTAGTTTAAAATATAATGTAACGTGTCATATTCACTAGACA
72957766 CACTAGAG-TTTA
191 CACTAGAGTTTTA
* *
72957778 ACTTGAATAGTTGCATATAACCGGTGAATGGGGTATGATAT-TGGGTCGGATTAAATGTAACGAT
1 ACTTGAATAGTTGCATATAATCGGTGAATGGGGTATGA-ATCT-GGTCGGATTAAATGTAACAAT
* * * * *
72957842 TCGGGTTAAGCTAGAATGGTGAGATGATCCTGTCATGTAAACTTGGTTTGTTAACTT
64 TCGAGTTAAGCTACAATGGTTAGATGATCATGCCATGT-AACTTGGTTTGTTAACTT
72957899 GTTTCACCTT
Statistics
Matches: 278, Mismatches: 43, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
203 35 0.13
204 50 0.18
205 18 0.06
206 2 0.01
207 120 0.43
208 53 0.19
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (203 bp):
ACTTGAATAGTTGCATATAATCGGTGAATGGGGTATGAATCTGGTCGGATTAAATGTAACAATTC
GAGTTAAGCTACAATGGTTAGATGATCATGCCATGTAACTTGGTTTGTTAACTTTATGAGTTGAG
CAAATAAAACAATGTGGCATTAGTTTAAAATATAATGTAACGTGTCATATTCACTAGACACACTA
GAGTTTTA
Found at i:72961864 original size:52 final size:47
Alignment explanation
Indices: 72961845--72962138 Score: 420
Period size: 46 Copynumber: 6.3 Consensus size: 47
72961835 TGACAAGTGG
* *
72961845 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
*
72961891 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
*
72961937 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A
72961985 GTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTG--A
1 ----AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
* *
72962034 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
** *
72962080 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC-
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
72962126 AAAGTGATAAGTG
1 AAAGTGATAAGTG
72962139 GCTACACTTA
Statistics
Matches: 231, Mismatches: 9, Indels: 16
0.90 0.04 0.06
Matches are distributed among these distances:
45 42 0.18
46 145 0.63
49 1 0.00
52 43 0.19
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (47 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
Found at i:72961901 original size:98 final size:93
Alignment explanation
Indices: 72961779--72962138 Score: 485
Period size: 98 Copynumber: 3.8 Consensus size: 93
72961769 TTTGAGTACT
* * *
72961779 TCTGATCAAGTGACAAAGTTATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-A---
*
72961844 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
62 -AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
72961877 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-AAAG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAAG
* *
72961941 TGATAAGTGATAGCTTCAGCTACACTTA
66 TGATAAGTGATAGCTTCGGCTATACTTA
*
72961969 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTG-
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
72962033 -AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * *
72962066 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC-AAAG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAAG
72962130 TGATAAGTG
66 TGATAAGTG
72962139 GCTACACTTA
Statistics
Matches: 238, Mismatches: 15, Indels: 24
0.86 0.05 0.09
Matches are distributed among these distances:
91 41 0.17
92 56 0.24
97 43 0.18
98 98 0.41
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (93 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAAG
TGATAAGTGATAGCTTCGGCTATACTTA
Found at i:72962138 original size:144 final size:144
Alignment explanation
Indices: 72961779--72962127 Score: 628
Period size: 144 Copynumber: 2.4 Consensus size: 144
72961769 TTTGAGTACT
* *
72961779 TCTGATCAAGTGACAAAGTTATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
72961844 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGC
66 GAAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGC
72961909 TTCGGCTATACTTA
131 TTCGGCTATACTTA
*
72961923 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
72961988 GAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA-AAAGTGATAAGTGATAGC
66 GAAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGC
72962052 TTCGGCTATACTTA
131 TTCGGCTATACTTA
* *
72962066 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAA
72962128 AGTGATAAGT
Statistics
Matches: 197, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
143 91 0.46
144 106 0.54
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.29
Consensus pattern (144 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGC
TTCGGCTATACTTA
Found at i:72962146 original size:37 final size:37
Alignment explanation
Indices: 72962102--72962358 Score: 455
Period size: 37 Copynumber: 7.0 Consensus size: 37
72962092 GATAGCTTTA
72962102 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
72962139 GCTACACTTATTTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
72962176 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
72962213 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
72962250 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
72962287 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
72962324 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
72962359 ATCATACGTA
Statistics
Matches: 211, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 11 0.05
36 4 0.02
37 196 0.93
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:72964619 original size:168 final size:168
Alignment explanation
Indices: 72964324--72964661 Score: 405
Period size: 168 Copynumber: 2.0 Consensus size: 168
72964314 CAAAATGGGT
* * * *
72964324 TTTTGATCTCAGGTAATTTAAAACTCTTATTTACGTAATGGTGTAATTTTGAGTTTCACTGGAAA
1 TTTTGATCTCAGATAATTTAAAACTCTTATTTACGTAATGGTGTAAGTCTGAATTTCACTGGAAA
* * *
72964389 CTTTAATTTGTTATAACTTGATCCTCTTAATTTGCAAAAATTGGAAATTTGATCCTGTTTTTGGC
66 CTTTAATTTGTTATAACTTCATCCTCTTAATTTACAAAAATTGAAAATTTGATCCTGTTTTTGGC
* * ** *
72964454 GCATACATGCACTTGAACAGTTGGTTTTTGCTAATTTG
131 GAATACATGAACTTGAACAGTTAATTTGTGCTAATTTG
* * *
72964492 TTTTGATCTCCGATAGTTTAAAACTCTTATTTAC-TCAATGGTGTAAGTCTGAATTTCATTGGAA
1 TTTTGATCTCAGATAATTTAAAACTCTTATTTACGT-AATGGTGTAAGTCTGAATTTCACTGGAA
* * * *
72964556 GCTTTACTTTGTTA-GACTTCCATCCTCTTATTTTACAAAAATTGAAAATTT-AGT-CTGGTTTT
65 ACTTTAATTTGTTATAACTT-CATCCTCTTAATTTACAAAAATTGAAAATTTGA-TCCT-GTTTT
* * **
72964618 TGGTGAATATATGAACTTGAATTGTTAATTTGTGCTAATTTG
127 TGGCGAATACATGAACTTGAACAGTTAATTTGTGCTAATTTG
72964660 TT
1 TT
72964662 GCATATAAAA
Statistics
Matches: 143, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
167 8 0.06
168 135 0.94
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (168 bp):
TTTTGATCTCAGATAATTTAAAACTCTTATTTACGTAATGGTGTAAGTCTGAATTTCACTGGAAA
CTTTAATTTGTTATAACTTCATCCTCTTAATTTACAAAAATTGAAAATTTGATCCTGTTTTTGGC
GAATACATGAACTTGAACAGTTAATTTGTGCTAATTTG
Found at i:72965255 original size:85 final size:85
Alignment explanation
Indices: 72964963--72965294 Score: 389
Period size: 86 Copynumber: 3.9 Consensus size: 85
72964953 TCCTTCTACT
* * * * * ** *
72964963 TTATAAAAGTTGAAAATTTGGTCTGGTTGTTGGTGAATGCACGAACTTGAACTGTTGATTTTTTC
1 TTATAAAA-TTGAAAATTTAGTCTGATTGTTGGTAAATACATGAACTTGAACCATTGATTTTTGC
*
72965028 TAATTTGTTGCACATAAGTTG
65 TAATTTGTTGCATATAAGTTG
* * *
72965049 TTATAAAAATTGAAAATTTAGTCTGGTTGTTGGTAAATGCATGAACTTGAACCATTTATTTTTGC
1 TTAT-AAAATTGAAAATTTAGTCTGATTGTTGGTAAATACATGAACTTGAACCATTGATTTTTGC
72965114 TAATTTGTTGCATATAAGTTG
65 TAATTTGTTGCATATAAGTTG
* *
72965135 TTATAAATATTGAAAAATTAGTCTGATTTTTGGTAAATACATGAACTTGAACCATTGATTTTTG-
1 TTATAAA-ATTGAAAATTTAGTCTGATTGTTGGTAAATACATGAACTTGAACCATTGATTTTTGC
* *
72965199 TAATTTGTTGCATATAAATCG
65 TAATTTGTTGCATATAAGTTG
* * * * * * *
72965220 TTATAGAAATTGAAGATTTAGCCTTATTGTCGGTAAATATATGAACCATGAA-TAGTTGATTTTT
1 TTATA-AAATTGAAAATTTAGTCTGATTGTTGGTAAATACATGAA-CTTGAACCA-TTGATTTTT
72965284 GCTAATTTGTT
63 GCTAATTTGTT
72965295 TCACATTAAC
Statistics
Matches: 216, Mismatches: 24, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
85 58 0.27
86 145 0.67
87 13 0.06
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.42
Consensus pattern (85 bp):
TTATAAAATTGAAAATTTAGTCTGATTGTTGGTAAATACATGAACTTGAACCATTGATTTTTGCT
AATTTGTTGCATATAAGTTG
Found at i:72965359 original size:40 final size:40
Alignment explanation
Indices: 72965315--72965399 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
72965305 TGTTGTAAGA
* * * *
72965315 TTGATTTTTGTTAATTTCTTGCATA-TAAATTATTGAAATG
1 TTGATTTTTGATAATTCCTTACATATTAAA-TACTGAAATG
*
72965355 TTGATTTTTGATAATTCCTTACATATTAAATACTGAAGTG
1 TTGATTTTTGATAATTCCTTACATATTAAATACTGAAATG
72965395 TTGAT
1 TTGAT
72965400 ATTCAAGCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 35 0.90
41 4 0.10
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.49
Consensus pattern (40 bp):
TTGATTTTTGATAATTCCTTACATATTAAATACTGAAATG
Found at i:72965868 original size:28 final size:29
Alignment explanation
Indices: 72965821--72965891 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 29
72965811 ATTGGAAAAT
* * * *
72965821 GGACT-ATTTGATTCTTTTTATAGGATAG
1 GGACTAATTTGATCCATTTAATAGGAGAG
*
72965849 GGACTGAA-TTGATCCATTTAATAGTAGAG
1 GGACT-AATTTGATCCATTTAATAGGAGAG
72965878 GGACTAATTTGATC
1 GGACTAATTTGATC
72965892 ATGTCCCTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 7 0.20
29 27 0.77
30 1 0.03
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.38
Consensus pattern (29 bp):
GGACTAATTTGATCCATTTAATAGGAGAG
Found at i:72978914 original size:22 final size:22
Alignment explanation
Indices: 72978889--72978931 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
72978879 TAATAAAAAG
72978889 AATATCTACAAAATATTCCTAA
1 AATATCTACAAAATATTCCTAA
* *
72978911 AATATTTACAGAATATTCCTA
1 AATATCTACAAAATATTCCTA
72978932 CACTCCCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATCTACAAAATATTCCTAA
Found at i:72982646 original size:22 final size:22
Alignment explanation
Indices: 72982621--72982665 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
72982611 TTTAATAAAA
72982621 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
72982643 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
72982665 A
1 A
72982666 CAGTAAACGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:72991965 original size:8 final size:8
Alignment explanation
Indices: 72991952--72992007 Score: 53
Period size: 8 Copynumber: 6.8 Consensus size: 8
72991942 TTTTTTTAAG
72991952 TATATTAT
1 TATATTAT
72991960 TATATTAT
1 TATATTAT
72991968 TATATTGTAAAT
1 TATA-T-T--AT
*
72991980 TATATTAA
1 TATATTAT
72991988 T-TA-TAT
1 TATATTAT
72991994 TATATTAT
1 TATATTAT
72992002 TATATT
1 TATATT
72992008 TCAAATAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
6 3 0.08
7 4 0.10
8 23 0.57
9 1 0.03
10 2 0.05
11 1 0.03
12 6 0.15
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (8 bp):
TATATTAT
Found at i:72997021 original size:14 final size:14
Alignment explanation
Indices: 72996980--72997029 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
72996970 CTTTGAATCT
72996980 CTTCTTTT-TATTTC
1 CTTCTTTTCT-TTTC
72996994 CTTCATTTTC-TTTC
1 CTTC-TTTTCTTTTC
72997008 CTTCTTTTCTTTT-
1 CTTCTTTTCTTTTC
72997021 CTT-TTTTCT
1 CTTCTTTTCT
72997030 CTTATTTTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 6 0.18
13 8 0.24
14 15 0.45
15 4 0.12
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.72
Consensus pattern (14 bp):
CTTCTTTTCTTTTC
Found at i:72997845 original size:192 final size:194
Alignment explanation
Indices: 72997461--72997846 Score: 453
Period size: 192 Copynumber: 2.0 Consensus size: 194
72997451 GCCGCTTTAG
* *** *
72997461 TTAAATGGTAAAATTTTGATTTTAGTCCCTTCCAAATACAATAATTTAATGTAACCCTTTTCTTG
1 TTAAATGATAAAATTGCAATTTCAGTCCCTTCCAAATACAATAATTTAATGTAACCCTTTTCTTG
* *
72997526 CCTCATTGTTAGATGAAAAGTGGCCTTTCTCAAAAGTTGAAAATTTCGATTTAAACCATTTTAAT
66 CCTCATTGTTAGATGAAAAGT---CTTTCTCAAAAGATGAAAATTTCAATTTAAACCATTTTAAT
* * *
72997591 ACAAAATTTGTAGATTTGGTTGGCCAGAAAATTTGGGTACCCGAAAACCAAGAATTTTCTCCTTT
128 ACAAAATTTGTAGATTTGGTTGGCCACAAAAATGGGGTACCCGAAAACCAAGAATTTTCTCCTTT
72997656 GA
193 GA
** * *
72997658 TTAAATGATAAAATTGCAATTTCAGTCCCTTTTAAATATAATAATTTAATGTAA-CCTTTTTTTG
1 TTAAATGATAAAATTGCAATTTCAGTCCCTTCCAAATACAATAATTTAATGTAACCCTTTTCTTG
* * * *
72997722 CCTCCTTGTTA-AGTGAAAA-T-TATTCTCCAAAA-ATGAGATTTTCAATTTAAGCCATTTTAAT
66 CCTCATTGTTAGA-TGAAAAGTCT-TTCT-CAAAAGATGAAAATTTCAATTTAAACCATTTTAAT
* * * *
72997783 ACAAAATTTTTAGCTCTT-GTTGGCTACAAAAATGGGGTA-CCGAAAAACCTAGAATTTTCTCCT
128 ACAAAATTTGTAGAT-TTGGTTGGCCACAAAAATGGGGTACCCG-AAAACCAAGAATTTTCTCCT
72997846 T
191 T
72997847 CCCGCATAGC
Statistics
Matches: 162, Mismatches: 22, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
191 4 0.02
192 78 0.48
193 7 0.04
195 2 0.01
196 25 0.15
197 46 0.28
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.38
Consensus pattern (194 bp):
TTAAATGATAAAATTGCAATTTCAGTCCCTTCCAAATACAATAATTTAATGTAACCCTTTTCTTG
CCTCATTGTTAGATGAAAAGTCTTTCTCAAAAGATGAAAATTTCAATTTAAACCATTTTAATACA
AAATTTGTAGATTTGGTTGGCCACAAAAATGGGGTACCCGAAAACCAAGAATTTTCTCCTTTGA
Found at i:72999030 original size:30 final size:29
Alignment explanation
Indices: 72998994--72999104 Score: 84
Period size: 30 Copynumber: 3.8 Consensus size: 29
72998984 AAGCCTCCTA
72998994 AAATTTTTGAAAATTTTAATTAAGACTTGT
1 AAATTTTTGAAAATTTTAATTAAGACTT-T
* * * *
72999024 AAATTTTAG-AAATTCTT-ATTTAGCCCTTC
1 AAATTTTTGAAAATT-TTAATTAAG-ACTTT
* ** *
72999053 AAATTTTTAAAAAAATTAATTAA-ACCCTT
1 AAATTTTTGAAAATTTTAATTAAGA-CTTT
72999082 AAAGTTTTTGAAAATTTTAATTA
1 AAA-TTTTTGAAAATTTTAATTA
72999105 GATCCCTAAA
Statistics
Matches: 60, Mismatches: 15, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
29 24 0.40
30 36 0.60
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.44
Consensus pattern (29 bp):
AAATTTTTGAAAATTTTAATTAAGACTTT
Found at i:72999115 original size:30 final size:32
Alignment explanation
Indices: 72999068--72999130 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 32
72999058 TTTAAAAAAA
72999068 TTAATTAAACCCTTAAAG-TT-TTTGAAAATT
1 TTAATTAAACCCTTAAAGCTTATTTGAAAATT
*
72999098 TTAATTAGATCCC-TAAAGCTTAATTTGAAAATT
1 TTAATTA-AACCCTTAAAGCTT-ATTTGAAAATT
72999131 GCAGGTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
30 12 0.43
31 6 0.21
33 10 0.36
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (32 bp):
TTAATTAAACCCTTAAAGCTTATTTGAAAATT
Found at i:73010615 original size:30 final size:30
Alignment explanation
Indices: 73010572--73010637 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
73010562 TAAGGATTGT
*
73010572 ATCAAATTAGTCTCTATATTATTAAAAAAG
1 ATCAAATTAGTCTCTATACTATTAAAAAAG
* * *
73010602 ATCAATTTTGTCTCTGTACTATTAAAAATA-
1 ATCAAATTAGTCTCTATACTATTAAAAA-AG
73010632 ATCAAA
1 ATCAAA
73010638 AAAGTCTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (30 bp):
ATCAAATTAGTCTCTATACTATTAAAAAAG
Found at i:73019593 original size:12 final size:12
Alignment explanation
Indices: 73019549--73019595 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
73019539 AAATTAATAC
73019549 ATAA-TAAATTT
1 ATAATTAAATTT
* *
73019560 ATACTTTAATTT
1 ATAATTAAATTT
**
73019572 ATAAAAAAATTT
1 ATAATTAAATTT
73019584 ATAATTAAATTT
1 ATAATTAAATTT
73019596 TGATGCTGCT
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
11 3 0.11
12 24 0.89
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (12 bp):
ATAATTAAATTT
Found at i:73022787 original size:68 final size:67
Alignment explanation
Indices: 73022629--73022959 Score: 236
Period size: 69 Copynumber: 5.0 Consensus size: 67
73022619 ATTTTAATCC
* * * *
73022629 TTGACTAGAAAATACGCTCATAACTAACTT-TTCCACTATTTTTATTAAAAAGTTAATTTTAATA
1 TTGACTAGGAAATACTCTCATAACTCACTTCTT-CACTATTTTCATT-AAAA-TTAATTTTAAT-
*
73022693 GT-ACA
62 CTCACA
* * *
73022698 TCGACTA-GAGAATATTAC-CATAACTCACTTCTTTACTATTTTCATTGAAAATTAATTTTAATC
1 TTGACTAGGA-AATACT-CTCATAACTCACTTCTTCACTATTTTCATT-AAAATTAATTTTAATC
*
73022761 TCATA
63 TCACA
* * * * * *
73022766 TTGACTAGGAAATACTCCCATAATTTACTTCTTCACTA-----A--AAAGTTAATTTTGATCCCA
1 TTGACTAGGAAATACTCTCATAACTCACTTCTTCACTATTTTCATTAAAATTAATTTTAATCTCA
*
73022824 TA
66 CA
* * * * * * *
73022826 TTGACTA-GAGAATACTCTTATAGCCCACTTCTTCATTATTTTTAATAAAATATTAGTTTTAATC
1 TTGACTAGGA-AATACTCTCATAACTCACTTCTTCACTA-TTTTCATTAAA-ATTAATTTTAATC
*
73022890 CCACA
63 TCACA
* * *
73022895 TTGACTAGCAAATACTATCATAATTCACTTCTTCACTATTTTCATTAAACATTAATTTTAATCTC
1 TTGACTAGGAAATACTCTCATAACTCACTTCTTCACTATTTTCATTAAA-ATTAATTTTAATCTC
73022960 TTAAATTTAG
Statistics
Matches: 204, Mismatches: 41, Indels: 35
0.73 0.15 0.12
Matches are distributed among these distances:
59 2 0.01
60 46 0.23
63 1 0.00
66 1 0.00
67 2 0.01
68 67 0.33
69 81 0.40
70 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.40
Consensus pattern (67 bp):
TTGACTAGGAAATACTCTCATAACTCACTTCTTCACTATTTTCATTAAAATTAATTTTAATCTCA
CA
Found at i:73030453 original size:10 final size:9
Alignment explanation
Indices: 73030433--73030474 Score: 57
Period size: 10 Copynumber: 4.3 Consensus size: 9
73030423 GTGTAAATGT
73030433 AAAAATGAAA
1 AAAAAT-AAA
73030443 AAAATATAAA
1 AAAA-ATAAA
73030453 AAAAATAATA
1 AAAAATAA-A
73030463 AAAAATAAA
1 AAAAATAAA
73030472 AAA
1 AAA
73030475 TTGTGGGGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
9 8 0.27
10 20 0.67
11 2 0.07
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.14
Consensus pattern (9 bp):
AAAAATAAA
Found at i:73030465 original size:19 final size:20
Alignment explanation
Indices: 73030433--73030474 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
73030423 GTGTAAATGT
*
73030433 AAAAATGAAAAAAATATAAA
1 AAAAATGAAAAAAAAATAAA
*
73030453 AAAAAT-AATAAAAAATAAA
1 AAAAATGAAAAAAAAATAAA
73030472 AAA
1 AAA
73030475 TTGTGGGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.14
Consensus pattern (20 bp):
AAAAATGAAAAAAAAATAAA
Found at i:73031410 original size:14 final size:15
Alignment explanation
Indices: 73031389--73031432 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
73031379 TTTTTAAATA
73031389 TATAATTTTTTATTT
1 TATAATTTTTTATTT
* *
73031404 TAT-ATTTATTA-AT
1 TATAATTTTTTATTT
73031417 TATAATTTTTTATTT
1 TATAATTTTTTATTT
73031432 T
1 T
73031433 GCTAAATTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
13 4 0.17
14 14 0.61
15 5 0.22
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATAATTTTTTATTT
Found at i:73033194 original size:17 final size:16
Alignment explanation
Indices: 73033168--73033213 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
73033158 TAAAGGTGCA
*
73033168 ATTAAAAAATAAATTGT
1 ATTAATAAATAAATT-T
*
73033185 ATTAATAAATATATTT
1 ATTAATAAATAAATTT
*
73033201 TTTAATAAATAAA
1 ATTAATAAATAAA
73033214 AGTACAAGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (16 bp):
ATTAATAAATAAATTT
Found at i:73033669 original size:25 final size:26
Alignment explanation
Indices: 73033615--73033673 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
73033605 ATAAAAAAAA
*
73033615 TATTAAAAAGTAATAAAAAAATTCTT
1 TATTAAAAAGTAATAAAAAAATTCTG
* *
73033641 TATTAAAAA-TAATTAAATATATT-TG
1 TATTAAAAAGTAA-TAAAAAAATTCTG
73033666 TATTAAAA
1 TATTAAAA
73033674 CGTTCAGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 12 0.41
26 17 0.59
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (26 bp):
TATTAAAAAGTAATAAAAAAATTCTG
Found at i:73041530 original size:18 final size:18
Alignment explanation
Indices: 73041503--73041538 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
73041493 GAAAATATCA
* *
73041503 CAAAATAAAACAAAAATC
1 CAAAACAAAAAAAAAATC
73041521 CAAAACAAAAAAAAAATC
1 CAAAACAAAAAAAAAATC
73041539 AAATTACAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.75, C:0.17, G:0.00, T:0.08
Consensus pattern (18 bp):
CAAAACAAAAAAAAAATC
Found at i:73052018 original size:24 final size:24
Alignment explanation
Indices: 73051978--73052024 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
73051968 ATAATTTTGG
* *
73051978 GTGATGAAAATATAAAAA-TAAAT
1 GTGATGAAAAAAAAAAAAGTAAAT
73052001 GTGATTGAAAAAAAAAAAAGTAAA
1 GTGA-TGAAAAAAAAAAAAGTAAA
73052025 ACAAGGAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 12 0.60
25 4 0.20
ACGTcount: A:0.64, C:0.00, G:0.15, T:0.21
Consensus pattern (24 bp):
GTGATGAAAAAAAAAAAAGTAAAT
Found at i:73067545 original size:61 final size:61
Alignment explanation
Indices: 73067475--73067603 Score: 258
Period size: 61 Copynumber: 2.1 Consensus size: 61
73067465 ATTTTGCTAC
73067475 TATTTTAGAGTCATTTGCTTGCTAAGTTGCTATTATCTTAGTGTTATTTAAGTATAACATT
1 TATTTTAGAGTCATTTGCTTGCTAAGTTGCTATTATCTTAGTGTTATTTAAGTATAACATT
73067536 TATTTTAGAGTCATTTGCTTGCTAAGTTGCTATTATCTTAGTGTTATTTAAGTATAACATT
1 TATTTTAGAGTCATTTGCTTGCTAAGTTGCTATTATCTTAGTGTTATTTAAGTATAACATT
73067597 TATTTTA
1 TATTTTA
73067604 ATTTTTTAGT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 68 1.00
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.50
Consensus pattern (61 bp):
TATTTTAGAGTCATTTGCTTGCTAAGTTGCTATTATCTTAGTGTTATTTAAGTATAACATT
Found at i:73069117 original size:19 final size:19
Alignment explanation
Indices: 73069093--73069135 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
73069083 TCTTTTTAAC
73069093 TAGTGATTATAT-ACATACA
1 TAGTGATTATATGA-ATACA
73069112 TAGTGATTATATGAATACA
1 TAGTGATTATATGAATACA
73069131 TAGTG
1 TAGTG
73069136 GCTAATATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 22 0.96
20 1 0.04
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (19 bp):
TAGTGATTATATGAATACA
Found at i:73071205 original size:2 final size:2
Alignment explanation
Indices: 73071198--73071222 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
73071188 ATGTTACTGA
73071198 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
73071223 AAAAAAACAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:73079365 original size:4 final size:4
Alignment explanation
Indices: 73079356--73079380 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
73079346 AATTAAAAGA
73079356 ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT A
73079381 TATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:73089191 original size:7 final size:7
Alignment explanation
Indices: 73089179--73089210 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
73089169 TTTAGTGGAC
73089179 GGTTTAG
1 GGTTTAG
73089186 GGTTTAG
1 GGTTTAG
73089193 GGTTTAG
1 GGTTTAG
73089200 GGTTTAG
1 GGTTTAG
73089207 GGTT
1 GGTT
73089211 AATGTCATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.12, C:0.00, G:0.44, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:73089573 original size:25 final size:25
Alignment explanation
Indices: 73089544--73089594 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
73089534 TTTTAAAATG
73089544 ATGGTTTAAAAACTTAGGAATGGAA
1 ATGGTTTAAAAACTTAGGAATGGAA
73089569 ATGGTTTAAAAACTTAGGAATGGAA
1 ATGGTTTAAAAACTTAGGAATGGAA
73089594 A
1 A
73089595 AAGGATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.04, G:0.24, T:0.27
Consensus pattern (25 bp):
ATGGTTTAAAAACTTAGGAATGGAA
Found at i:73089603 original size:26 final size:25
Alignment explanation
Indices: 73089549--73089604 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
73089539 AAATGATGGT
* *
73089549 TTAAAAACTTAGGAATGGAAATGGT
1 TTAAAAACTTAGGAATGGAAAAGGA
73089574 TTAAAAACTTAGGAATGGAAAAAGGA
1 TTAAAAACTTAGGAATGG-AAAAGGA
73089600 TTAAA
1 TTAAA
73089605 TTGTGAAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.50, C:0.04, G:0.21, T:0.25
Consensus pattern (25 bp):
TTAAAAACTTAGGAATGGAAAAGGA
Found at i:73092407 original size:7 final size:7
Alignment explanation
Indices: 73092395--73092424 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
73092385 CAACAATTAT
73092395 TCCACCA
1 TCCACCA
73092402 TCCACCA
1 TCCACCA
73092409 TCCACCA
1 TCCACCA
73092416 TCCACCA
1 TCCACCA
73092423 TC
1 TC
73092425 TCTTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.57, G:0.00, T:0.17
Consensus pattern (7 bp):
TCCACCA
Found at i:73113588 original size:21 final size:22
Alignment explanation
Indices: 73113564--73113604 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
73113554 GTCTAGAGGT
* *
73113564 GGTGTTGCGACATC-AGAGCTG
1 GGTGTTACAACATCAAGAGCTG
73113585 GGTGTTACAACATCAAGAGC
1 GGTGTTACAACATCAAGAGC
73113605 AATCCATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.22
Consensus pattern (22 bp):
GGTGTTACAACATCAAGAGCTG
Found at i:73117634 original size:30 final size:32
Alignment explanation
Indices: 73117598--73117658 Score: 81
Period size: 30 Copynumber: 1.9 Consensus size: 32
73117588 TATCCATTGC
*
73117598 TTCTCTTCCATAT-AGAA-GTTAGATTTTTGT
1 TTCTCTTCCATATGAAAAGGTTAGATTTTTGT
*
73117628 TTCTCTTTCATATGGAAAAGGTTAGATTTTT
1 TTCTCTTCCATAT-GAAAAGGTTAGATTTTT
73117659 ACTTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 12 0.46
32 3 0.12
33 11 0.42
ACGTcount: A:0.25, C:0.11, G:0.15, T:0.49
Consensus pattern (32 bp):
TTCTCTTCCATATGAAAAGGTTAGATTTTTGT
Found at i:73125564 original size:6 final size:6
Alignment explanation
Indices: 73125553--73125590 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
73125543 GATGGCGTGG
* *
73125553 TTTGCT TTTGCT TTTGCT TTTGCT TTAGCT TTAGCT TT
1 TTTGCT TTTGCT TTTGCT TTTGCT TTTGCT TTTGCT TT
73125591 ACCTTTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.05, C:0.16, G:0.16, T:0.63
Consensus pattern (6 bp):
TTTGCT
Found at i:73126153 original size:12 final size:12
Alignment explanation
Indices: 73126136--73126163 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
73126126 TCTTTATCTT
73126136 TTTCTCTCTTTC
1 TTTCTCTCTTTC
73126148 TTTCTCTCTTTC
1 TTTCTCTCTTTC
73126160 TTTC
1 TTTC
73126164 CTATACTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTCTCTCTTTC
Found at i:73142185 original size:28 final size:28
Alignment explanation
Indices: 73142145--73142201 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
73142135 TGTCCAAGCC
73142145 ACATGTGTATATGTTATAGATGCAAACT
1 ACATGTGTATATGTTATAGATGCAAACT
73142173 ACATGTGTATATGTTATAGATGCAAACT
1 ACATGTGTATATGTTATAGATGCAAACT
73142201 A
1 A
73142202 GTCCTAGCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.35
Consensus pattern (28 bp):
ACATGTGTATATGTTATAGATGCAAACT
Found at i:73146294 original size:21 final size:21
Alignment explanation
Indices: 73146268--73146326 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
73146258 AAGTGATTTA
73146268 ACTTATTTTTTATCTCACGCT
1 ACTTATTTTTTATCTCACGCT
73146289 ACTTA--TTTT-T-T-A-GCT
1 ACTTATTTTTTATCTCACGCT
73146304 ACTTATTTTTTATCTCACGCT
1 ACTTATTTTTTATCTCACGCT
73146325 AC
1 AC
73146327 AATATCATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
15 8 0.25
16 1 0.03
17 5 0.16
18 2 0.06
19 5 0.16
20 1 0.03
21 10 0.31
ACGTcount: A:0.20, C:0.22, G:0.05, T:0.53
Consensus pattern (21 bp):
ACTTATTTTTTATCTCACGCT
Found at i:73146306 original size:15 final size:15
Alignment explanation
Indices: 73146286--73146315 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
73146276 TTTATCTCAC
73146286 GCTACTTATTTTTTA
1 GCTACTTATTTTTTA
73146301 GCTACTTATTTTTTA
1 GCTACTTATTTTTTA
73146316 TCTCACGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.07, T:0.60
Consensus pattern (15 bp):
GCTACTTATTTTTTA
Found at i:73149670 original size:32 final size:32
Alignment explanation
Indices: 73149634--73149695 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
73149624 TTAGCTACCA
73149634 AAAGGTTAACATTTTGCAAATGAATGGTGGCT
1 AAAGGTTAACATTTTGCAAATGAATGGTGGCT
73149666 AAAGGTTAACATTTTGCAAATGAATGGTGG
1 AAAGGTTAACATTTTGCAAATGAATGGTGG
73149696 TGATTATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.31
Consensus pattern (32 bp):
AAAGGTTAACATTTTGCAAATGAATGGTGGCT
Found at i:73149814 original size:28 final size:27
Alignment explanation
Indices: 73149731--73149822 Score: 82
Period size: 28 Copynumber: 3.4 Consensus size: 27
73149721 ACCAAAAGGA
* * *
73149731 TATGACTTTTCTGAACAATATTTAGTGT
1 TATGACCTTTCTAAACAATACTTAGT-T
* * * *
73149759 TTTGACCTTT-TCAA-AATAC-CACTT
1 TATGACCTTTCTAAACAATACTTAGTT
73149783 TATGACCTTTCTAAACAATACTTAGTAT
1 TATGACCTTTCTAAACAATACTTAGT-T
73149811 TATGACCTTTCT
1 TATGACCTTTCT
73149823 GAAATGACAC
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
24 10 0.20
25 5 0.10
26 9 0.18
27 5 0.10
28 21 0.42
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.43
Consensus pattern (27 bp):
TATGACCTTTCTAAACAATACTTAGTT
Found at i:73150775 original size:3 final size:3
Alignment explanation
Indices: 73150767--73150796 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
73150757 CATTGCTTAT
73150767 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
73150797 CCCTCTCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:73162373 original size:16 final size:16
Alignment explanation
Indices: 73162352--73162389 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
73162342 TTTTAATAAA
73162352 ATTAAAACTAATTGTT
1 ATTAAAACTAATTGTT
*
73162368 ATTAAAATTAATTGTT
1 ATTAAAACTAATTGTT
*
73162384 AGTAAA
1 ATTAAA
73162390 TTATCAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (16 bp):
ATTAAAACTAATTGTT
Found at i:73162376 original size:22 final size:23
Alignment explanation
Indices: 73162323--73162378 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
73162313 TTAAATTAAA
* * *
73162323 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
73162346 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
73162368 ATTAAAATTAA
1 ATTAAAATTAA
73162379 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:73162403 original size:26 final size:26
Alignment explanation
Indices: 73162374--73162458 Score: 81
Period size: 26 Copynumber: 3.3 Consensus size: 26
73162364 TGTTATTAAA
73162374 ATTAATTGTTAGTAAATTATCAAATT
1 ATTAATTGTTAGTAAATTATCAAATT
73162400 ATTAATTGTT-GT-AA-TA--AAATCT
1 ATTAATTGTTAGTAAATTATCAAAT-T
** *
73162422 AACATTTGATTAGTAAATTTATCAAATT
1 ATTAATTG-TTAGTAAA-TTATCAAATT
73162450 ATTAATTGT
1 ATTAATTGT
73162459 ATTAATTGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 15
0.68 0.09 0.23
Matches are distributed among these distances:
21 4 0.09
22 6 0.13
23 4 0.09
24 4 0.09
25 4 0.09
26 10 0.22
27 3 0.07
28 6 0.13
29 4 0.09
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (26 bp):
ATTAATTGTTAGTAAATTATCAAATT
Found at i:73162449 original size:50 final size:50
Alignment explanation
Indices: 73162382--73162517 Score: 184
Period size: 59 Copynumber: 2.6 Consensus size: 50
73162372 AAATTAATTG
73162382 TTAGTAAA-TTATCAAATTATTAATTGTTGTAATAAAATCTAACATTTGA
1 TTAGTAAATTTATCAAATTATTAATTGTTGTAATAAAATCTAACATTTGA
73162431 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGA
1 TTAGTAAATTTATC-----A--AA-T-TATTAATTGTTGTAATAAAATCTAACATTTGA
73162490 TTAGTAAATTTATCAAATTATTAATTGT
1 TTAGTAAATTTATCAAATTATTAATTGT
73162518 ATTAATTGTA
Statistics
Matches: 77, Mismatches: 0, Indels: 19
0.80 0.00 0.20
Matches are distributed among these distances:
49 8 0.10
50 15 0.19
51 1 0.01
52 2 0.03
54 1 0.01
55 1 0.01
57 2 0.03
58 1 0.01
59 46 0.60
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (50 bp):
TTAGTAAATTTATCAAATTATTAATTGTTGTAATAAAATCTAACATTTGA
Found at i:73162464 original size:59 final size:59
Alignment explanation
Indices: 73162399--73162526 Score: 256
Period size: 59 Copynumber: 2.2 Consensus size: 59
73162389 ATTATCAAAT
73162399 TATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTG
1 TATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTG
73162458 TATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTG
1 TATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTG
73162517 TATTAATTGT
1 TATTAATTGT
73162527 ATTAATTGTT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 69 1.00
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.47
Consensus pattern (59 bp):
TATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTG
Found at i:73162520 original size:9 final size:9
Alignment explanation
Indices: 73162508--73162535 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
73162498 TTTATCAAAT
73162508 TATTAATTG
1 TATTAATTG
73162517 TATTAATTG
1 TATTAATTG
73162526 TATTAATTG
1 TATTAATTG
73162535 T
1 T
73162536 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:73162673 original size:23 final size:24
Alignment explanation
Indices: 73162632--73162676 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
73162622 AAATAAACTT
* *
73162632 AAAATGAAAAACTATTATATTTTA
1 AAAATAAAAAAATATTATATTTTA
73162656 AAAATAAAAAAATA-TATATTT
1 AAAATAAAAAAATATTATATTT
73162677 AATATTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAAATATTATATTTTA
Found at i:73163893 original size:25 final size:25
Alignment explanation
Indices: 73163852--73163908 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
73163842 ACAATCCATG
** * *
73163852 TAAATCATGTATTTCATGTAACTTT
1 TAAATCATGTAAATCATATAACATT
73163877 TAAATCATGTAAATCATATAACATT
1 TAAATCATGTAAATCATATAACATT
*
73163902 TATATCA
1 TAAATCA
73163909 ATTCTTTCCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (25 bp):
TAAATCATGTAAATCATATAACATT
Found at i:73164177 original size:26 final size:23
Alignment explanation
Indices: 73164169--73164237 Score: 104
Period size: 23 Copynumber: 3.0 Consensus size: 23
73164159 CCGAGCTAAT
73164169 AAACGGTAAGCTCTATCGAGCTG
1 AAACGGTAAGCTCTATCGAGCTG
* *
73164192 AAACGGTAAGCTCCATAGAGCTG
1 AAACGGTAAGCTCTATCGAGCTG
73164215 AAACGGTAAGCTC-ATACGAGCTG
1 AAACGGTAAGCTCTAT-CGAGCTG
73164238 TGGTGAGTCC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
22 2 0.05
23 40 0.95
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (23 bp):
AAACGGTAAGCTCTATCGAGCTG
Found at i:73168034 original size:28 final size:28
Alignment explanation
Indices: 73167987--73168062 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
73167977 GCTAACATTA
* * *
73167987 CTCACATAAGCTGGCTTTTAAGGATTTG
1 CTCACACAAGCTGACATTTAAGGATTTG
* *
73168015 TTCATACAAGCTGACATTTAAGGATTTG
1 CTCACACAAGCTGACATTTAAGGATTTG
*
73168043 CTCACACAAGTTGACATTTA
1 CTCACACAAGCTGACATTTA
73168063 TGAATTGATG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (28 bp):
CTCACACAAGCTGACATTTAAGGATTTG
Found at i:73170774 original size:15 final size:15
Alignment explanation
Indices: 73170754--73170782 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
73170744 TAAACTATTA
73170754 ATAAGTTTAAGTTTG
1 ATAAGTTTAAGTTTG
73170769 ATAAGTTTAAGTTT
1 ATAAGTTTAAGTTT
73170783 TGGTCACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.48
Consensus pattern (15 bp):
ATAAGTTTAAGTTTG
Found at i:73170834 original size:30 final size:30
Alignment explanation
Indices: 73170800--73170866 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
73170790 TTAACTTTAA
*
73170800 AAAGTTACAAA-ATAGTTACTGAACTATTTG
1 AAAGTTACAAATA-AGTCACTGAACTATTTG
* **
73170830 AAAGTTTTCATTTAAGTCACTGAACTATTTG
1 AAAG-TTACAAATAAGTCACTGAACTATTTG
73170861 AAAGTT
1 AAAGTT
73170867 TTTATTTAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
30 6 0.19
31 24 0.77
32 1 0.03
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.37
Consensus pattern (30 bp):
AAAGTTACAAATAAGTCACTGAACTATTTG
Found at i:73170853 original size:31 final size:31
Alignment explanation
Indices: 73170817--73170879 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
73170807 CAAAATAGTT
73170817 ACTGAACTATTTGAAAGTTTTCATTTAAGTC
1 ACTGAACTATTTGAAAGTTTTCATTTAAGTC
*
73170848 ACTGAACTATTTGAAAGTTTTTATTTAAGTC
1 ACTGAACTATTTGAAAGTTTTCATTTAAGTC
73170879 A
1 A
73170880 TTGGTTTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (31 bp):
ACTGAACTATTTGAAAGTTTTCATTTAAGTC
Found at i:73171018 original size:36 final size:36
Alignment explanation
Indices: 73170971--73171044 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
73170961 GATCAATACT
73170971 CATTAATGAGTAGAAGAACATACCTTAGAATAAAGC
1 CATTAATGAGTAGAAGAACATACCTTAGAATAAAGC
*
73171007 CATTAATGAGTAGAAGAACATACCTTAGAATCAAGC
1 CATTAATGAGTAGAAGAACATACCTTAGAATAAAGC
73171043 CA
1 CA
73171045 ATGTGACAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (36 bp):
CATTAATGAGTAGAAGAACATACCTTAGAATAAAGC
Found at i:73175434 original size:11 final size:11
Alignment explanation
Indices: 73175418--73175442 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
73175408 TTAGAGAATT
73175418 TAGCCTATAAA
1 TAGCCTATAAA
73175429 TAGCCTATAAA
1 TAGCCTATAAA
73175440 TAG
1 TAG
73175443 GTTCTTTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (11 bp):
TAGCCTATAAA
Found at i:73183766 original size:2 final size:2
Alignment explanation
Indices: 73183759--73183786 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
73183749 TATGTCTGCT
73183759 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
73183787 AGGGAGAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:73183795 original size:2 final size:2
Alignment explanation
Indices: 73183790--73183814 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
73183780 GTGTGTGAGG
73183790 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
73183815 CAGGTTTTCT
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:73199313 original size:74 final size:75
Alignment explanation
Indices: 73199215--73199356 Score: 225
Period size: 74 Copynumber: 1.9 Consensus size: 75
73199205 TAAAAATTAT
* *
73199215 AAATATTGGTCAGTTAATTTTACTATTATACCAA-AAAAAAATCACATCAACATGATTTAACTTA
1 AAATATTGGTCAGTTAATTTTACTATTATACCAAGAAAAAAATCACATCAACATAATTTAACATA
73199279 TAAAATAAGC
66 TAAAATAAGC
* *
73199289 AAATATTGG-CAGGTTAATTTTACTATTATACCAAGAAAAAAATTACGTCAACATAATTTAACAT
1 AAATATTGGTCA-GTTAATTTTACTATTATACCAAGAAAAAAATCACATCAACATAATTTAACAT
73199353 ATAA
65 ATAA
73199357 GTGACTCGAT
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
73 2 0.03
74 31 0.50
75 29 0.47
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (75 bp):
AAATATTGGTCAGTTAATTTTACTATTATACCAAGAAAAAAATCACATCAACATAATTTAACATA
TAAAATAAGC
Done.