Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 213 of 320
Found at i:71149639 original size:30 final size:30
Alignment explanation
Indices: 71149604--71149683 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
71149594 CAAGGAAACC
*
71149604 GAATAAAGAAATCCAAGATAGAGAAATCCA
1 GAATAAAGAAATCCAAGATAAAGAAATCCA
* *
71149634 GAATAAAGAATTCC-AGAATAAAGAGATCCA
1 GAATAAAGAAATCCAAG-ATAAAGAAATCCA
* *
71149664 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
71149684 TGATACTATG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
29 2 0.05
30 38 0.90
31 2 0.05
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAATCCA
Found at i:71152674 original size:46 final size:46
Alignment explanation
Indices: 71152599--71152773 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
71152589 TGTAACCCGC
*
71152599 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
* *
71152645 CCATGAGTGAACTCGGACTCAACTCAACGAGCTC-GG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGC-A--T
* *** * * * *
71152691 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
* *
71152738 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
71152774 ATGCCCAAAT
Statistics
Matches: 105, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 2 0.02
46 63 0.60
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
Found at i:71152774 original size:93 final size:93
Alignment explanation
Indices: 71152606--71152778 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
71152596 CGCCCATAAG
* * *
71152606 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
71152671 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
71152699 CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
71152764 ATGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
71152779 CAAATATCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:71155552 original size:21 final size:20
Alignment explanation
Indices: 71155524--71155563 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
71155514 AGGCTATCTA
**
71155524 TAATGGTATTGCGATACTAG
1 TAATGGTATCACGATACTAG
71155544 TAATGGGTATCACGATACTA
1 TAAT-GGTATCACGATACTA
71155564 AGACACCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.33
Consensus pattern (20 bp):
TAATGGTATCACGATACTAG
Found at i:71157558 original size:20 final size:21
Alignment explanation
Indices: 71157535--71157583 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
71157525 ATTTATAAAT
*
71157535 ATTTTATAAAATT-TTATGAC
1 ATTTTATAAAATTCTTATAAC
**
71157555 ATTTT-TTTAATTCTTATAAC
1 ATTTTATAAAATTCTTATAAC
71157575 ATTTTATAA
1 ATTTTATAA
71157584 GTATATTTGG
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
19 5 0.23
20 16 0.73
21 1 0.05
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (21 bp):
ATTTTATAAAATTCTTATAAC
Found at i:71157579 original size:40 final size:40
Alignment explanation
Indices: 71157495--71157583 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
71157485 TAAGTTCTTA
* * *
71157495 ATTTCATAAAATTTTATAACCTATATTTTAATTTATAAAT
1 ATTTTATAAAATTTTATAACATATATTTTAATTTATAAAC
* *
71157535 ATTTTATAAAATTTTATGACAT-TTTTTTAATTCT-TATAAC
1 ATTTTATAAAATTTTATAACATATATTTTAATT-TATA-AAC
71157575 ATTTTATAA
1 ATTTTATAA
71157584 GTATATTTGG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 11 0.26
40 31 0.74
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.53
Consensus pattern (40 bp):
ATTTTATAAAATTTTATAACATATATTTTAATTTATAAAC
Found at i:71158844 original size:6 final size:6
Alignment explanation
Indices: 71158835--71158862 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
71158825 GATTTTACTT
71158835 TTTTTC TTTTTC TTTTTC TTTTTC TTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTT
71158863 CCAAGCTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:71159464 original size:15 final size:15
Alignment explanation
Indices: 71159444--71159473 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
71159434 GAGATATGTT
*
71159444 GAAGCAGCTGCTTGG
1 GAAGCAGCGGCTTGG
71159459 GAAGCAGCGGCTTGG
1 GAAGCAGCGGCTTGG
71159474 ATTTCCTTAG
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:0.20, C:0.20, G:0.43, T:0.17
Consensus pattern (15 bp):
GAAGCAGCGGCTTGG
Found at i:71161407 original size:31 final size:31
Alignment explanation
Indices: 71161339--71161399 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
71161329 TTAGGAGCCA
* * *
71161339 AATGACTTAAATAAAAATTTTCGAATAATTC
1 AATGACTGAAATAAAAACTTTCAAATAATTC
71161370 AATGACTGAAATAAAAACTTTCAAATAATT
1 AATGACTGAAATAAAAACTTTCAAATAATT
71161400 TAGTGACTAT
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:0.51, C:0.10, G:0.07, T:0.33
Consensus pattern (31 bp):
AATGACTGAAATAAAAACTTTCAAATAATTC
Found at i:71164407 original size:36 final size:36
Alignment explanation
Indices: 71164365--71164442 Score: 147
Period size: 36 Copynumber: 2.2 Consensus size: 36
71164355 AATTCAAATT
71164365 TGAAATAATAAAATTTAAATATTTAATATTTTAAAA
1 TGAAATAATAAAATTTAAATATTTAATATTTTAAAA
71164401 TGAAATAATAAAATTTAAATATTTAATATTTTAAAA
1 TGAAATAATAAAATTTAAATATTTAATATTTTAAAA
*
71164437 TCAAAT
1 TGAAAT
71164443 TAAATTAGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (36 bp):
TGAAATAATAAAATTTAAATATTTAATATTTTAAAA
Found at i:71164645 original size:2 final size:2
Alignment explanation
Indices: 71164628--71164664 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
71164618 TACAATGAAG
71164628 AT AT A- AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
71164665 AACCAGTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:71165390 original size:18 final size:18
Alignment explanation
Indices: 71165369--71165403 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
71165359 AAACAGAAGA
71165369 TTCCCTTGAAACTCAATC
1 TTCCCTTGAAACTCAATC
* *
71165387 TTCCTTTTAAACTCAAT
1 TTCCCTTGAAACTCAAT
71165404 ATATTCACGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.40
Consensus pattern (18 bp):
TTCCCTTGAAACTCAATC
Found at i:71167529 original size:31 final size:29
Alignment explanation
Indices: 71167494--71167551 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
71167484 AATATTATTT
*
71167494 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAAATTAA-ATTAAA-TGATTATCTTAA
* *
71167525 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTAAATGATTATCTT
71167552 GTAGATAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTAAATGATTATCTTAA
Found at i:71170535 original size:44 final size:41
Alignment explanation
Indices: 71170482--71170644 Score: 155
Period size: 43 Copynumber: 3.8 Consensus size: 41
71170472 TCGATATGTA
71170482 ATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGACTTATG
1 ATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGA-TT-TG
* * * *
71170525 ATTTATGTGTAAGACCATGCCTGGGACATCGGTATCGTATTTG
1 ATTT-CGTGTAAGACCATGTCTGGGACATTGGCATCG-ATTTG
* * *
71170568 ATTTCGTGTAAGACCCTGTCTGAGACAATGGCATCGATATTTG
1 ATTTCGTGTAAGACCATGTCTGGGACATTGGCATCG--ATTTG
* * * * * *
71170611 ATTACATGTAAGACAACGTTTGGGACTTTGGCAT
1 ATTTCGTGTAAGACCATGTCTGGGACATTGGCAT
71170645 TGTATGAGCT
Statistics
Matches: 97, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 25 0.26
43 41 0.42
44 30 0.31
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (41 bp):
ATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATTTG
Found at i:71170609 original size:43 final size:43
Alignment explanation
Indices: 71170472--71170624 Score: 159
Period size: 43 Copynumber: 3.6 Consensus size: 43
71170462 CATAGGATTT
* * *
71170472 TCGATATGTAATTTCGTGTAAGACCATGTCTGGGACATTGGCA
1 TCGATATTTGATTTCGTGTAAGACCATGTCTGGGACAATGGCA
* * * *
71170515 TCGACT-TATGATTTATGTGTAAGACCATGCCTGGGAC-ATCGGTA
1 TCGA-TATTTGATTT-CGTGTAAGACCATGTCTGGGACAAT-GGCA
* *
71170559 TCG-TATTTGATTTCGTGTAAGACCCTGTCTGAGACAATGGCA
1 TCGATATTTGATTTCGTGTAAGACCATGTCTGGGACAATGGCA
* *
71170601 TCGATATTTGATTACATGTAAGAC
1 TCGATATTTGATTTCGTGTAAGAC
71170625 AACGTTTGGG
Statistics
Matches: 90, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
42 25 0.28
43 38 0.42
44 27 0.30
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (43 bp):
TCGATATTTGATTTCGTGTAAGACCATGTCTGGGACAATGGCA
Found at i:71174965 original size:22 final size:22
Alignment explanation
Indices: 71174935--71174984 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
71174925 CTAGGTACAG
*
71174935 AGCCCGAATAACACCGACACAA
1 AGCCTGAATAACACCGACACAA
*
71174957 AGCCTGAATATCACCGACACAA
1 AGCCTGAATAACACCGACACAA
71174979 AGCCTG
1 AGCCTG
71174985 CTAGGCACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.34, G:0.16, T:0.10
Consensus pattern (22 bp):
AGCCTGAATAACACCGACACAA
Found at i:71175016 original size:38 final size:38
Alignment explanation
Indices: 71174950--71175048 Score: 135
Period size: 38 Copynumber: 2.6 Consensus size: 38
71174940 GAATAACACC
* * *
71174950 GACACAAAGCCTGAATATCACCGACACAAAGCCTGCTA
1 GACACATAGCCCGAATATCACCGACACAAAGCCTACTA
* * *
71174988 GGCACATAGCCCGAATATTACCGGCACAAAGCCTACTA
1 GACACATAGCCCGAATATCACCGACACAAAGCCTACTA
*
71175026 GACACATAGCCCAAATATCACCG
1 GACACATAGCCCGAATATCACCG
71175049 CATTTCTATT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.37, C:0.32, G:0.16, T:0.14
Consensus pattern (38 bp):
GACACATAGCCCGAATATCACCGACACAAAGCCTACTA
Found at i:71177406 original size:18 final size:18
Alignment explanation
Indices: 71177366--71177409 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
71177356 TAATAAAATA
*
71177366 AATAATAAAAATAATGAT
1 AATAATAAAAATAACGAT
*
71177384 AATAATAACAATAACGAT
1 AATAATAAAAATAACGAT
*
71177402 GATAATAA
1 AATAATAA
71177410 TAATGACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.25
Consensus pattern (18 bp):
AATAATAAAAATAACGAT
Found at i:71179927 original size:47 final size:46
Alignment explanation
Indices: 71179873--71180095 Score: 182
Period size: 49 Copynumber: 4.7 Consensus size: 46
71179863 TACTTGTGTA
71179873 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGATAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGATAG
** * * * *
71179920 CCAGTGTAAGATGTGTCTGGGACACGCATCGG-CTAAGGGTTG-T-G
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGATAG
* * ** * *
71179964 CTAGTGTAAGACATGTCTGGGACATGCATCAGCACATATAGACGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGC-C-TCGAGATGATAG
* * *
71180012 CTAGTATAAGACCATGTCTGGGACATGGCATCAGCCTCGATGATGATAG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGA-GATGATAG
* * *
71180061 CCACTCTAAGACCATGTCTGAGACATGGCATCGGC
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
71180096 AACATATCCC
Statistics
Matches: 141, Mismatches: 26, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
44 28 0.20
45 1 0.01
46 9 0.06
47 31 0.22
48 13 0.09
49 51 0.36
50 8 0.06
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (46 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGATAG
Found at i:71183584 original size:55 final size:56
Alignment explanation
Indices: 71183518--71183649 Score: 169
Period size: 55 Copynumber: 2.4 Consensus size: 56
71183508 GCACTTAAAA
* * *
71183518 TTTAAAGTCAGTTTTGCT-CACGGACAGGCCACACGGACGTGTGTAATGGTCGTGT
1 TTTAAAGTCAGTATTGCTACACGGACAAGCCACACGGACGTGTGTAATGGCCGTGT
* * ** *
71183573 TTTAAAGTCAGTGTTG-TACACGGGCAAGCCACACGGGTGTGTGTCATGGCCGTGT
1 TTTAAAGTCAGTATTGCTACACGGACAAGCCACACGGACGTGTGTAATGGCCGTGT
71183628 TTTAAAGTCAGTATTGCATACA
1 TTTAAAGTCAGTATTGC-TACA
71183650 TAAGGGCACG
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
54 1 0.02
55 61 0.92
57 4 0.06
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (56 bp):
TTTAAAGTCAGTATTGCTACACGGACAAGCCACACGGACGTGTGTAATGGCCGTGT
Found at i:71200696 original size:30 final size:30
Alignment explanation
Indices: 71200662--71200719 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
71200652 TTTTCAAGCA
*
71200662 TAGGGGCAAAATGGTCATTTTGCCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
71200692 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
71200720 GTGTAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:71201303 original size:99 final size:94
Alignment explanation
Indices: 71201135--71201311 Score: 230
Period size: 99 Copynumber: 1.8 Consensus size: 94
71201125 CGAGACAATT
** * * *
71201135 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCTGTGAGATGTGTCAGTGTAAGACCATGTCTG
1 GCTAGTGTAAGACATGTCCGGGACATGCATCGGCTGTAAGATGTGCCAGTGTAAGACCATGTCTA
71201200 GGACATGGAATCGACACGGTTATGTGAGA
66 GGACATGGAATCGACACGGTTATGTGAGA
*
71201229 GCTAGTGTAAGACCATGTCCGGGACATGACATCGGCCTCG-AAGATGATAGCCATTGTAAGACCA
1 GCTAGTGTAAGA-CATGTCCGGGACATG-CATCGG-CT-GTAAGATG-T-GCCAGTGTAAGACCA
*
71201293 TGTCTAGGACATGGCATCG
60 TGTCTAGGACATGGAATCG
71201312 GCACCTTACC
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
94 12 0.17
95 13 0.19
96 6 0.09
97 7 0.10
98 2 0.03
99 30 0.43
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCCGGGACATGCATCGGCTGTAAGATGTGCCAGTGTAAGACCATGTCTA
GGACATGGAATCGACACGGTTATGTGAGA
Found at i:71204033 original size:85 final size:85
Alignment explanation
Indices: 71203890--71204115 Score: 287
Period size: 85 Copynumber: 2.7 Consensus size: 85
71203880 GTCTGAGACA
* *
71203890 TCGTGTAAGACCATGTCTGGGACACAGGCCTCAATTGAGATTTACGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCATGTCTGGGACACAGGCCTCAATTGAGATTTACATATAAGACCATGTCTAGGA
71203955 CATCGGCATCGTAATC-GATT
66 CATCGGCATCGT-ATCTGATT
* * * *
71203975 TCGTGTAAGACCGTGTTTGGGACACATGCCTCGATTGAGATTTACATATAAGACCATGTCTAGGA
1 TCGTGTAAGACCATGTCTGGGACACAGGCCTCAATTGAGATTTACATATAAGACCATGTCTAGGA
*
71204040 TATCGGCATCGTATCTGATT
66 CATCGGCATCGTATCTGATT
* * * * * *
71204060 TCATGTAAGACCCTATCTGGGACAGAGGCATCGATATTGA-A-TTACATGTAAGACCA
1 TCGTGTAAGACCATGTCTGGGACACAGGCCTC-A-ATTGAGATTTACATATAAGACCA
71204116 CGTCCGAGAC
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
84 3 0.02
85 113 0.93
86 1 0.01
87 5 0.04
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (85 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCCTCAATTGAGATTTACATATAAGACCATGTCTAGGA
CATCGGCATCGTATCTGATT
Found at i:71204060 original size:43 final size:42
Alignment explanation
Indices: 71203893--71204133 Score: 161
Period size: 43 Copynumber: 5.7 Consensus size: 42
71203883 TGAGACATCG
* * *
71203893 TGTAAGACCATGTCTGGGACA-CAGGCCTC-AATTGAGATTTACG
1 TGTAAGACCATGTCTGGGACATC-GGCATCGTATT--GATTTACA
* * *
71203936 TATAAGACCATGTCTGGGACATCGGCATCGTAATCGATTT-CG
1 TGTAAGACCATGTCTGGGACATCGGCATCGT-ATTGATTTACA
* * * *
71203978 TGTAAGACCGTGTTTGGGACA-CATGCCTCG-ATTGAGATTTACA
1 TGTAAGACCATGTCTGGGACATC-GGCATCGTATT--GATTTACA
* * *
71204021 TATAAGACCATGTCTAGGATATCGGCATCGTATCTGATTT-CA
1 TGTAAGACCATGTCTGGGACATCGGCATCGTAT-TGATTTACA
* * ** *
71204063 TGTAAGACCCTATCTGGGACAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACATCGGCATCG-TATTGATTTACA
* * * *
71204106 TGTAAGACCACGTCCGAGACGTCGGCAT
1 TGTAAGACCATGTCTGGGACATCGGCAT
71204134 TGTACTTGTT
Statistics
Matches: 152, Mismatches: 34, Indels: 24
0.72 0.16 0.11
Matches are distributed among these distances:
40 2 0.01
41 1 0.01
42 60 0.39
43 82 0.54
44 4 0.03
45 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATCGGCATCGTATTGATTTACA
Found at i:71213343 original size:46 final size:46
Alignment explanation
Indices: 71213296--71213564 Score: 342
Period size: 46 Copynumber: 5.8 Consensus size: 46
71213286 GCTCTCTGAT
** * *
71213296 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
71213342 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
71213388 ACGAAACGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** ** *
71213434 GGGAAATGAATAAGACCATGGTTGAAAGATACTGTGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
71213480 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
71213526 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
71213565 TCATCTCAAA
Statistics
Matches: 198, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 1 0.01
46 197 0.99
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:71213449 original size:92 final size:92
Alignment explanation
Indices: 71213306--71213564 Score: 392
Period size: 92 Copynumber: 2.8 Consensus size: 92
71213296 ATGAAATGTG
* * * *
71213306 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACCATGGTTGAAAGA
* * *
71213371 TACCATGGCAACGTGATACGAAACGAA
66 TACTATGGCAACGTGACACGAAAAGAA
* *
71213398 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACCATGGTTGAAAGA
* *
71213463 TACTGTGGCAACGTGACATGAAAAGAA
66 TACTATGGCAACGTGACACGAAAAGAA
* *
71213490 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACCATGGTTGAAAGA
*
71213555 CACTATGGCA
66 TACTATGGCA
71213565 TCATCTCAAA
Statistics
Matches: 150, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 150 1.00
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.19
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACCATGGTTGAAAGA
TACTATGGCAACGTGACACGAAAAGAA
Found at i:71213871 original size:16 final size:17
Alignment explanation
Indices: 71213850--71213882 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
71213840 ATGATGAAAC
71213850 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
71213866 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
71213883 TACTTATAAA
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:71215228 original size:83 final size:84
Alignment explanation
Indices: 71215008--71215255 Score: 331
Period size: 85 Copynumber: 3.0 Consensus size: 84
71214998 GTCTGAGACA
71215008 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGA
* *
71215073 CATTGGCATTGTATCTGATT
66 CATCGGCATCGTA-CTGATT
* * *
71215093 TCATGTAAGACTGTGTCTGGGATACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGA
71215158 CATCGGCATCGTA-TGATT
66 CATCGGCATCGTACTGATT
* * * * * *
71215176 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGA-A-TTACATGTAAGACCATGTCCGG
1 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCG--ATTGAGATTTACGTATAAGACCATGTCTGG
* *
71215239 GACGTCGGCATTGTACT
64 GACATCGGCATCGTACT
71215256 TGTTTATGAG
Statistics
Matches: 144, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
83 64 0.44
84 2 0.01
85 78 0.54
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (84 bp):
TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGA
CATCGGCATCGTACTGATT
Found at i:71215241 original size:43 final size:42
Alignment explanation
Indices: 71215009--71215241 Score: 199
Period size: 43 Copynumber: 5.5 Consensus size: 42
71214999 TCTGAGACAT
* *
71215009 CGTGTAAGACCGTGTCTGGGACACAGGCCTCG-ATTGAGATTTA
1 CGTGTAAGACCATGTCTGGGACACAGGCATCGTATTGA-A-TTA
* ** * *
71215052 CGTATAAGACCATGTCTGGGACATTGGCATTGTATCTG-ATTT
1 CGTGTAAGACCATGTCTGGGACACAGGCATCGTAT-TGAATTA
* ** * *
71215094 CATGTAAGACTGTGTCTGGGATACAGGCCTCG-ATTGAGATTTA
1 CGTGTAAGACCATGTCTGGGACACAGGCATCGTATTGA-A-TTA
* *
71215137 CGTATAAGACCATGTCTGGGACATC-GGCATCGTA-TG-ATTT
1 CGTGTAAGACCATGTCTGGGACA-CAGGCATCGTATTGAATTA
* *
71215177 CGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTA
1 CGTGTAAGACCATGTCTGGGACACAGGCATCG-TATTGAATTA
* *
71215220 CATGTAAGACCATGTCCGGGAC
1 CGTGTAAGACCATGTCTGGGAC
71215242 GTCGGCATTG
Statistics
Matches: 148, Mismatches: 31, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
40 32 0.22
41 5 0.03
42 28 0.19
43 77 0.52
44 4 0.03
45 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACACAGGCATCGTATTGAATTA
Found at i:71217803 original size:38 final size:37
Alignment explanation
Indices: 71217739--71217915 Score: 134
Period size: 38 Copynumber: 4.9 Consensus size: 37
71217729 TCAATACACC
* *
71217739 GGCAC-AAGCCTACTAGGCACAAAGCCCGAATAACACT
1 GGCACAAAGCCTGCTAGGCACATAGCCCGAATAACA-T
* * *
71217776 GGTACAAAGCTTGCTAGGCACATAGCCCGAATATCAT
1 GGCACAAAGCCTGCTAGGCACATAGCCCGAATAACAT
* * *
71217813 CAGCACAAAGCCTGCTAGGCACAGAGCTCGAAT-A-AT
1 -GGCACAAAGCCTGCTAGGCACATAGCCCGAATAACAT
* * * * * *
71217849 ---ACCAA-CTTGCTAGACACGTAGCCCGAATATCACC
1 GGCACAAAGCCTGCTAGGCACATAGCCCGAATAACA-T
* *
71217883 GACACAAAGCCTGCTAGGCATATAGCCCGAATA
1 GGCACAAAGCCTGCTAGGCACATAGCCCGAATA
71217916 TCACCACATT
Statistics
Matches: 107, Mismatches: 24, Indels: 17
0.72 0.16 0.11
Matches are distributed among these distances:
31 18 0.17
32 4 0.04
33 1 0.01
36 2 0.02
37 9 0.08
38 73 0.68
ACGTcount: A:0.35, C:0.29, G:0.20, T:0.16
Consensus pattern (37 bp):
GGCACAAAGCCTGCTAGGCACATAGCCCGAATAACAT
Found at i:71217914 original size:69 final size:69
Alignment explanation
Indices: 71217785--71217915 Score: 192
Period size: 69 Copynumber: 1.9 Consensus size: 69
71217775 TGGTACAAAG
* * *
71217785 CTTGCTAGGCACATAGCCCGAATATCATCAGCACAAAGCCTGCTAGGCACAGAGCTCGAATAATA
1 CTTGCTAGACACATAGCCCGAATATCACCAGCACAAAGCCTGCTAGGCACAGAGCCCGAATAATA
71217850 CCAA
66 CCAA
* * *
71217854 CTTGCTAGACACGTAGCCCGAATATCACC-GACACAAAGCCTGCTAGGCATATAGCCCGAATA
1 CTTGCTAGACACATAGCCCGAATATCACCAG-CACAAAGCCTGCTAGGCACAGAGCCCGAATA
71217916 TCACCACATT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 1 0.02
69 54 0.98
ACGTcount: A:0.34, C:0.30, G:0.19, T:0.18
Consensus pattern (69 bp):
CTTGCTAGACACATAGCCCGAATATCACCAGCACAAAGCCTGCTAGGCACAGAGCCCGAATAATA
CCAA
Found at i:71224654 original size:19 final size:21
Alignment explanation
Indices: 71224620--71224665 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
71224610 TAACACAACC
*
71224620 TCAATTATTTTTAATTTT-TT
1 TCAATTATTCTTAATTTTGTT
71224640 TCAATTA-TCTTAATTTTGTT
1 TCAATTATTCTTAATTTTGTT
71224660 T-AATTA
1 TCAATTA
71224666 AGTTATCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (21 bp):
TCAATTATTCTTAATTTTGTT
Found at i:71224859 original size:14 final size:14
Alignment explanation
Indices: 71224833--71224868 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
71224823 AAAATAAATC
71224833 ATAAATATTTATATT
1 ATAAAT-TTTATATT
*
71224848 ATTAATTTTATATT
1 ATAAATTTTATATT
71224862 ATAAATT
1 ATAAATT
71224869 ATAAAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATAAATTTTATATT
Found at i:71226425 original size:15 final size:15
Alignment explanation
Indices: 71226405--71226436 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
71226395 TTTTCGCATG
71226405 GCTAAAGTTATACAT
1 GCTAAAGTTATACAT
71226420 GCTAAAGTTATACAT
1 GCTAAAGTTATACAT
71226435 GC
1 GC
71226437 CAAAAGTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (15 bp):
GCTAAAGTTATACAT
Found at i:71226444 original size:16 final size:15
Alignment explanation
Indices: 71226408--71226444 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
71226398 TCGCATGGCT
*
71226408 AAAGTTATACATGCT
1 AAAGTTATACATGCA
71226423 AAAGTTATACATGCCA
1 AAAGTTATACATG-CA
71226439 AAAGTT
1 AAAGTT
71226445 CAAAGATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.30
Consensus pattern (15 bp):
AAAGTTATACATGCA
Found at i:71230512 original size:14 final size:14
Alignment explanation
Indices: 71230493--71230519 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
71230483 TAAATACTTG
71230493 ATTTGTTCTTAATT
1 ATTTGTTCTTAATT
71230507 ATTTGTTCTTAAT
1 ATTTGTTCTTAAT
71230520 GCTTGAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (14 bp):
ATTTGTTCTTAATT
Found at i:71230967 original size:14 final size:13
Alignment explanation
Indices: 71230948--71230977 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
71230938 TTTAGTTTAA
71230948 TTAGTTAATTAAGT
1 TTAGTTAATT-AGT
71230962 TTAGTTAATTAGT
1 TTAGTTAATTAGT
71230975 TTA
1 TTA
71230978 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:71239188 original size:49 final size:49
Alignment explanation
Indices: 71239129--71239316 Score: 250
Period size: 49 Copynumber: 3.8 Consensus size: 49
71239119 TGAGGTCACG
* **
71239129 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * *
71239178 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCGCA
*
71239229 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* *
71239278 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
71239317 GCTTCGGCTA
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 74 0.62
50 4 0.03
51 41 0.34
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:71239302 original size:100 final size:100
Alignment explanation
Indices: 71239124--71239322 Score: 335
Period size: 100 Copynumber: 2.0 Consensus size: 100
71239114 TATTGTGAGG
**
71239124 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGTTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAATTGGTCGCATGTGTAGTACT
*
71239189 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
* * *
71239224 TCACTTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAATTGGTCGCATGTGTAGTACT
*
71239289 AAGTGCAGGCTACTATGCGTACCAGATAGCTTCG
66 AAGTGCAGGCTACTATGCGTACCAGATAACTTCG
71239323 GCTACAAGTG
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 92 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
Found at i:71242080 original size:16 final size:15
Alignment explanation
Indices: 71242031--71242080 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
71242021 GTGCTATGAA
71242031 TTGGATTT-TTGTATC
1 TTGGATTTCTT-TATC
*
71242046 ATGGATTTCTTTATC
1 TTGGATTTCTTTATC
71242061 TTGGATTTCTTTATTC
1 TTGGATTTCTTTA-TC
71242077 TTGG
1 TTGG
71242081 CTTCTTTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
15 23 0.74
16 8 0.26
ACGTcount: A:0.14, C:0.10, G:0.18, T:0.58
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:71245033 original size:101 final size:100
Alignment explanation
Indices: 71244834--71245034 Score: 321
Period size: 101 Copynumber: 2.0 Consensus size: 100
71244824 TATTGTGAGG
* *
71244834 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTGGTCACATGTGTAGTACT
**
71244899 AAGTGCAGGCTACTATGCGTACTTGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
* * *
71244934 TCACTTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTT-GGTCACATGTGTAGTAC
*
71244999 TAAGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
65 TAAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
71245035 CTACAAGTGT
Statistics
Matches: 92, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
100 44 0.48
101 48 0.52
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
Found at i:71246810 original size:14 final size:13
Alignment explanation
Indices: 71246791--71246820 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
71246781 TTTAGTTTAA
71246791 TTAGTTAATTAAGT
1 TTAGTTAATT-AGT
71246805 TTAGTTAATTAGT
1 TTAGTTAATTAGT
71246818 TTA
1 TTA
71246821 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:71252233 original size:35 final size:35
Alignment explanation
Indices: 71252155--71252225 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
71252145 ATAAATAAGC
*
71252155 TCAATATAAACTCACATGTAACCAAATACACATGT
1 TCAATATAAACTCACATGTAACCAAATACACAAGT
* * *
71252190 TCAATATAAATTCACATGTAACCGAATACTCAAGT
1 TCAATATAAACTCACATGTAACCAAATACACAAGT
71252225 T
1 T
71252226 TGATATAAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (35 bp):
TCAATATAAACTCACATGTAACCAAATACACAAGT
Found at i:71260266 original size:56 final size:56
Alignment explanation
Indices: 71260177--71260286 Score: 193
Period size: 56 Copynumber: 2.0 Consensus size: 56
71260167 TTATATATAT
*
71260177 ATATATATATTCAAGAATTTATTAAAGTGGTGTCACTCTTAATTTGATTGGTCAAC
1 ATATATATATTCAAGAATTTATTAAAGTAGTGTCACTCTTAATTTGATTGGTCAAC
* *
71260233 ATATATATATTTAAGAATTTATTAAGGTAGTGTCACTCTTAATTTGATTGGTCA
1 ATATATATATTCAAGAATTTATTAAAGTAGTGTCACTCTTAATTTGATTGGTCA
71260287 TCAACTCAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.43
Consensus pattern (56 bp):
ATATATATATTCAAGAATTTATTAAAGTAGTGTCACTCTTAATTTGATTGGTCAAC
Found at i:71261665 original size:27 final size:27
Alignment explanation
Indices: 71261630--71261682 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
71261620 AAAAAGTTAA
71261630 TTTTTTTAACGATATTAGCATGACAAT
1 TTTTTTTAACGATATTAGCATGACAAT
71261657 TTTTTTTAACGATATTAGCATGACAA
1 TTTTTTTAACGATATTAGCATGACAA
71261683 CTTATATGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (27 bp):
TTTTTTTAACGATATTAGCATGACAAT
Found at i:71270720 original size:15 final size:15
Alignment explanation
Indices: 71270700--71270730 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
71270690 CCAACCTTCA
71270700 AATTTTACCTCAATT
1 AATTTTACCTCAATT
71270715 AATTTTACCTCAATT
1 AATTTTACCTCAATT
71270730 A
1 A
71270731 TACATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTTACCTCAATT
Found at i:71274515 original size:93 final size:93
Alignment explanation
Indices: 71274405--71274581 Score: 268
Period size: 93 Copynumber: 1.9 Consensus size: 93
71274395 TATAAGAACA
* *
71274405 TTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTATATTTAAT-ATTAATTAT
1 TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTATATGTAATAATT-ATTAT
* *
71274468 TTTAAATTGTATAAATTCATATACCCAAAT
64 TTTAAATTATACAAATTCATATACCCAAAT
* *
71274498 TTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATATGTAATAATTATTATTT
1 TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATATGTAATAATTATTATTT
71274563 TAAATTATACAAATTCATA
66 TAAATTATACAAATTCATA
71274582 AACTATAATC
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
93 71 0.93
94 5 0.07
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.49
Consensus pattern (93 bp):
TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATATGTAATAATTATTATTT
TAAATTATACAAATTCATATACCCAAAT
Found at i:71274629 original size:48 final size:52
Alignment explanation
Indices: 71274559--71274657 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
71274549 AATAATTATT
71274559 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
71274607 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
71274658 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Found at i:71274639 original size:17 final size:17
Alignment explanation
Indices: 71274614--71274647 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
71274604 ATAATTTTAA
*
71274614 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
71274631 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
71274648 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:71274664 original size:17 final size:16
Alignment explanation
Indices: 71274619--71274666 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
71274609 TTTAAATTTT
71274619 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
71274636 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
71274650 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
71274667 TGATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:71274721 original size:54 final size:54
Alignment explanation
Indices: 71274663--71274841 Score: 137
Period size: 54 Copynumber: 3.1 Consensus size: 54
71274653 ATAATCATAT
71274663 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
* * * * * * * *
71274717 ATTATATATTTTAATTATATT-ATATTTAATAATAATTATGTTATTTTA-TATTTTACAGTATCA
1 ATTAT-GA-TTTGAGTAAATTCATA--TAAGAAT-ATTA-ATTA-TTAAGAATTTT--A-T-T-A
71274780 TA
54 -A
*
71274782 TATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 -ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
71274837 ATTAT
1 ATTAT
71274842 ATATTTTAAT
Statistics
Matches: 92, Mismatches: 17, Indels: 32
0.65 0.12 0.23
Matches are distributed among these distances:
54 10 0.11
55 5 0.05
56 10 0.11
57 7 0.08
58 5 0.05
59 9 0.10
60 6 0.07
61 9 0.10
62 5 0.05
63 7 0.08
64 10 0.11
65 4 0.04
66 5 0.05
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (54 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
Found at i:71274724 original size:61 final size:61
Alignment explanation
Indices: 71274659--71274846 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
71274649 AGTTATAATC
71274659 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * * * * *
71274720 ATATATTTTAATTAT-ATTATATTTA-ATAATAATTATGTTATT-TT-A-TATTTTA-CAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAA-TAT-TAATTATTAAGAATTTTATTA-AATT
*
71274779 ATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
71274840 ATATATT
1 ATATATT
71274847 TTAATTAAAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 30 0.32
60 14 0.15
61 38 0.40
62 6 0.06
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:71274738 original size:18 final size:17
Alignment explanation
Indices: 71274707--71274741 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
71274697 ATTATTAAGA
71274707 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
71274724 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
71274742 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:71274780 original size:120 final size:120
Alignment explanation
Indices: 71274656--71274878 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
71274646 ATTAGTTATA
71274656 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
* *
71274721 TATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTTACAGT
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGT
*
71274776 ATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
71274841 TATATTTTAATTAAAATATATTTAATAATAATTATGTT
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTT
71274879 TAAATATGAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (120 bp):
ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
TATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGT
Found at i:71274855 original size:18 final size:17
Alignment explanation
Indices: 71274827--71274861 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
71274817 ATTATTAAGA
*
71274827 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
71274844 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
71274862 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:71274873 original size:54 final size:54
Alignment explanation
Indices: 71274690--71274875 Score: 142
Period size: 54 Copynumber: 3.2 Consensus size: 54
71274680 TTCATATAAG
* *
71274690 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATATTATATTT
1 AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
* * * *
71274744 AATAATAATTATGT--TATTTTATATTTTACAGTATCATATATTATGGTTTGAGTAAATTCATAT
1 AATAATAATTAT-TAAGAATTT-TA--TTA-A--AT--TATA-TAT--TTTAATTAAATT-ATAT
**
71274807 AAG
53 -TT
* *
71274810 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTT
1 AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
71274864 AATAATAATTAT
1 AATAATAATTAT
71274876 GTTTAAATAT
Statistics
Matches: 99, Mismatches: 17, Indels: 32
0.67 0.11 0.22
Matches are distributed among these distances:
53 4 0.04
54 24 0.24
55 5 0.05
56 12 0.12
57 1 0.01
58 3 0.03
59 6 0.06
61 6 0.06
62 3 0.03
63 1 0.01
64 12 0.12
65 5 0.05
66 13 0.13
67 4 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (54 bp):
AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
Found at i:71274982 original size:144 final size:147
Alignment explanation
Indices: 71274815--71275086 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
71274805 ATAAGAATAT
*
71274815 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
71274880 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAA-AATAATTTA
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
71274942 CCAAAACAAATTTCTGC
131 CCAAAACAAATTTCTGC
71274959 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
71275024 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAA
71275087 CAATAATCAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 91 0.75
145 2 0.02
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
CCAAAACAAATTTCTGC
Found at i:71274999 original size:18 final size:17
Alignment explanation
Indices: 71274971--71275005 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
71274961 ATTATTAAGA
*
71274971 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
71274988 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
71275006 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:71275216 original size:44 final size:45
Alignment explanation
Indices: 71275167--71275261 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
71275157 TTACACCTCT
* *
71275167 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
71275211 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
71275256 ATTACA
1 ATTACA
71275262 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:71275261 original size:16 final size:16
Alignment explanation
Indices: 71275240--71275272 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
71275230 TTGATTTGCT
*
71275240 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
71275256 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
71275272 A
1 A
71275273 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:71275282 original size:21 final size:21
Alignment explanation
Indices: 71275253--71275295 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
71275243 ACACCTCTAT
*
71275253 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
71275274 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
71275295 T
1 T
71275296 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:71278357 original size:53 final size:53
Alignment explanation
Indices: 71278280--71278420 Score: 139
Period size: 53 Copynumber: 2.7 Consensus size: 53
71278270 ACATAAGTTC
* * **
71278280 AAAAAAAATTTTGAGGTTTGGGAGAGGTAAAAGTTTTAGGAGAAAGCAA-AAAAG
1 AAAAAAAATATTGAGGTTTGGGAGAAGTAAAAGTTTT--GAGAAAAAAATAAAAG
71278334 AAAAAAAA-ATTGAGGGTTT-GGAGAAGTAAAAGTTTTGAGAAAAAAATAAAAG
1 AAAAAAAATATTGA-GGTTTGGGAGAAGTAAAAGTTTTGAGAAAAAAATAAAAG
* * * *
71278386 AAAAATATTTTTAAGGGTTTGGG-GAA-TAAAAGTTT
1 AAAAAAAATATTGA-GGTTTGGGAGAAGTAAAAGTTT
71278421 CGGGGAAAAT
Statistics
Matches: 75, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
51 8 0.11
52 20 0.27
53 32 0.43
54 15 0.20
ACGTcount: A:0.49, C:0.01, G:0.25, T:0.26
Consensus pattern (53 bp):
AAAAAAAATATTGAGGTTTGGGAGAAGTAAAAGTTTTGAGAAAAAAATAAAAG
Found at i:71278558 original size:18 final size:18
Alignment explanation
Indices: 71278535--71278571 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
71278525 AATGATTTAA
71278535 TATTTGACTTATTCGAAT
1 TATTTGACTTATTCGAAT
* *
71278553 TATTTGAGTTATTTGAAT
1 TATTTGACTTATTCGAAT
71278571 T
1 T
71278572 CAAAAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.54
Consensus pattern (18 bp):
TATTTGACTTATTCGAAT
Found at i:71280019 original size:25 final size:24
Alignment explanation
Indices: 71279991--71280048 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
71279981 ATCAAATACA
71279991 CTAAAAATATT-AAAATAAATGTTTT
1 CTAAAAAT-TTAAAAATAAAT-TTTT
*
71280016 CTAACAATTTAAAAATAAATTTTT
1 CTAAAAATTTAAAAATAAATTTTT
**
71280040 AAAAAAATT
1 CTAAAAATT
71280049 ATACTTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (24 bp):
CTAAAAATTTAAAAATAAATTTTT
Found at i:71280027 original size:24 final size:25
Alignment explanation
Indices: 71279991--71280039 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
71279981 ATCAAATACA
71279991 CTAAAAATATT-AAAATAAATGTTTT
1 CTAAAAATATTAAAAATAAAT-TTTT
*
71280016 CTAACAAT-TTAAAAATAAATTTTT
1 CTAAAAATATTAAAAATAAATTTTT
71280040 AAAAAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (25 bp):
CTAAAAATATTAAAAATAAATTTTT
Found at i:71280190 original size:25 final size:25
Alignment explanation
Indices: 71280144--71280191 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
71280134 TAGAATATCC
*
71280144 AAATAATAACAACAATATAATAATA
1 AAATAATAACAACAATACAATAATA
*
71280169 AAATAATGACAA-AATGACAATAA
1 AAATAATAACAACAAT-ACAATAA
71280192 AACAATTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.67, C:0.08, G:0.04, T:0.21
Consensus pattern (25 bp):
AAATAATAACAACAATACAATAATA
Found at i:71283020 original size:35 final size:35
Alignment explanation
Indices: 71282951--71283022 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
71282941 TTTTAATTTC
* *
71282951 TTACAATTATTAATATGATTATGTTTTATGATATA
1 TTACAATTATTAATACGATTATGTTTAATGATATA
*
71282986 TTACAATTATTAATCCGATTATGTTTAAAT-ATATA
1 TTACAATTATTAATACGATTATGTTT-AATGATATA
71283021 TT
1 TT
71283023 GCTTGTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 31 0.94
36 2 0.06
ACGTcount: A:0.38, C:0.06, G:0.07, T:0.50
Consensus pattern (35 bp):
TTACAATTATTAATACGATTATGTTTAATGATATA
Found at i:71283238 original size:21 final size:22
Alignment explanation
Indices: 71283195--71283238 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
71283185 TAATATACCA
**
71283195 TTTTTATATTTAAATTTGGTTT
1 TTTTTATATTTAAATTTCATTT
*
71283217 TTTTTAT-TTTTAATTTCATTT
1 TTTTTATATTTAAATTTCATTT
71283238 T
1 T
71283239 GGTACTTGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (22 bp):
TTTTTATATTTAAATTTCATTT
Found at i:71284050 original size:8 final size:8
Alignment explanation
Indices: 71284037--71284076 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
71284027 CCCATTATCA
*
71284037 CTCTCTCT
1 CTCTCTAT
*
71284045 CTCTCTCT
1 CTCTCTAT
71284053 CTCTCTAT
1 CTCTCTAT
*
71284061 CTATCTAT
1 CTCTCTAT
71284069 CTCTCTAT
1 CTCTCTAT
71284077 GCTTGTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.10, C:0.40, G:0.00, T:0.50
Consensus pattern (8 bp):
CTCTCTAT
Found at i:71290283 original size:14 final size:14
Alignment explanation
Indices: 71290264--71290294 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
71290254 AGCATCATAG
71290264 AGACCAATGTATTA
1 AGACCAATGTATTA
71290278 AGACCAATGTATTA
1 AGACCAATGTATTA
71290292 AGA
1 AGA
71290295 GTGAGATCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (14 bp):
AGACCAATGTATTA
Found at i:71295903 original size:22 final size:22
Alignment explanation
Indices: 71295876--71295922 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
71295866 TTTTAATGAC
* *
71295876 ATTTTTAATGCATTAAGTTTAA
1 ATTTTTAATGCAATAAGTATAA
*
71295898 ATTTTTCATGCAATAAGTATAA
1 ATTTTTAATGCAATAAGTATAA
71295920 ATT
1 ATT
71295923 AACATGTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (22 bp):
ATTTTTAATGCAATAAGTATAA
Found at i:71297914 original size:15 final size:15
Alignment explanation
Indices: 71297894--71297922 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
71297884 CAGGGGACAT
71297894 ACGACCGTGTAACAC
1 ACGACCGTGTAACAC
71297909 ACGACCGTGTAACA
1 ACGACCGTGTAACA
71297923 TGATAGTGTG
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:0.31, G:0.21, T:0.14
Consensus pattern (15 bp):
ACGACCGTGTAACAC
Found at i:71298877 original size:40 final size:40
Alignment explanation
Indices: 71298812--71298904 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 40
71298802 GATATCTCGT
* *
71298812 ACACTAAGTGTCGTACATAGCCGAAGCTATCTCAAATCGC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGC
* * * * *
71298852 ACACTAAGTGCCATATATAGTCGAAGCTATGTCGATTCGC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGC
71298892 ACACTAAGTGCCA
1 ACACTAAGTGCCA
71298905 CCAATAGCTG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (40 bp):
ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGC
Found at i:71305578 original size:46 final size:46
Alignment explanation
Indices: 71305526--71305753 Score: 323
Period size: 46 Copynumber: 5.0 Consensus size: 46
71305516 AGTGTGCTTT
71305526 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
71305572 CTGATATGAAATGTGTAAGACCATGGTTGAGAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
71305618 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
71305664 ATGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
71305710 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
71305754 TCATGTCAAA
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 168 0.99
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:71311540 original size:31 final size:30
Alignment explanation
Indices: 71311505--71311563 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
71311495 CACCCTTAAA
*
71311505 ATATTTGCACTATT-AGCCCTTCAAATTTTTC
1 ATATTTACACT-TTAAGCCC-TCAAATTTTTC
*
71311536 ATATTTACACTTTAATCCCTCAAATTTT
1 ATATTTACACTTTAAGCCCTCAAATTTT
71311564 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.29, C:0.22, G:0.03, T:0.46
Consensus pattern (30 bp):
ATATTTACACTTTAAGCCCTCAAATTTTTC
Found at i:71311962 original size:28 final size:28
Alignment explanation
Indices: 71311915--71312026 Score: 125
Period size: 28 Copynumber: 4.0 Consensus size: 28
71311905 ATGCAGTTGA
* *
71311915 ATACTCAATGTCTCGCACACTAAGTGTC
1 ATACTCAATATCTCGCACACTAAGTGCC
* * *
71311943 ATACTCAATATTTCGTACACTAAATGCC
1 ATACTCAATATCTCGCACACTAAGTGCC
* * * *
71311971 ACAGTCGATATCTCGCATACTAAGTGCC
1 ATACTCAATATCTCGCACACTAAGTGCC
**
71311999 ATACTTGATATCTCGCACACTAAGTGCC
1 ATACTCAATATCTCGCACACTAAGTGCC
71312027 GTACATAGCC
Statistics
Matches: 68, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 68 1.00
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (28 bp):
ATACTCAATATCTCGCACACTAAGTGCC
Found at i:71312082 original size:40 final size:40
Alignment explanation
Indices: 71312014--71312107 Score: 107
Period size: 40 Copynumber: 2.4 Consensus size: 40
71312004 TGATATCTCG
*
71312014 CACACTAAGTGCCGTACATAGCCAAAGCTATCTCAAATCA
1 CACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATCA
* * * * ** * *
71312054 CACACTAAGTGCCATATATAGTCGAAGCTATGTTGATTCG
1 CACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATCA
71312094 CACACTAAGTGCCA
1 CACACTAAGTGCCA
71312108 CCAATAGCTA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATCA
Found at i:71317003 original size:46 final size:46
Alignment explanation
Indices: 71316944--71317349 Score: 580
Period size: 46 Copynumber: 8.8 Consensus size: 46
71316934 AGTGTGCTCT
*
71316944 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
71316990 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
71317036 GTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
71317082 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
71317128 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
71317174 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
71317220 CTGACATGAAATGAGTAAGACCGTGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** **
71317266 ATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
71317313 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATAC
71317350 TATGACATCA
Statistics
Matches: 333, Mismatches: 26, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 293 0.88
47 40 0.12
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:71324908 original size:41 final size:40
Alignment explanation
Indices: 71324860--71324959 Score: 98
Period size: 38 Copynumber: 2.5 Consensus size: 40
71324850 TCGACCTTGA
* *
71324860 GTCGATGAGACACTGGGTGTCACTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* ** *
71324900 ATTCGATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* *
71324938 GCCGATGAGACATTGGGTGTCA
1 GTCGATGAGACACTGGGTGTCA
71324960 ACTTTGCTTC
Statistics
Matches: 45, Mismatches: 11, Indels: 7
0.71 0.17 0.11
Matches are distributed among these distances:
37 9 0.20
38 18 0.40
39 4 0.09
40 3 0.07
41 11 0.24
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
Found at i:71325207 original size:23 final size:22
Alignment explanation
Indices: 71325180--71325244 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
71325170 GCTTTGTCGA
71325180 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCAC-TTATGTGTCGTATT
* * *
71325203 TCAGGCACCT-CGTGT-GTTTTT
1 TCAGGCACTTATGTGTCG-TATT
71325224 TCAGGCACTTATGTGTCGTAT
1 TCAGGCACTTATGTGTCGTAT
71325245 ACTGATCAGG
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 1 0.03
21 16 0.48
22 7 0.21
23 9 0.27
ACGTcount: A:0.15, C:0.20, G:0.23, T:0.42
Consensus pattern (22 bp):
TCAGGCACTTATGTGTCGTATT
Found at i:71326292 original size:25 final size:25
Alignment explanation
Indices: 71326264--71326312 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
71326254 GCGCGCTATC
* *
71326264 TGATTATTAGTACATTAGTGCTCTT
1 TGATTATTAGCACATTAATGCTCTT
71326289 TGATTATTAGCACATTAATGCTCT
1 TGATTATTAGCACATTAATGCTCT
71326313 CCGTTTAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (25 bp):
TGATTATTAGCACATTAATGCTCTT
Found at i:71327956 original size:21 final size:21
Alignment explanation
Indices: 71327902--71327960 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
71327892 TGATGTTGAT
* *
71327902 GATATTTTATAATTATTAATTA
1 GATATTTTATTATT-TTAATAA
**
71327924 GATA-AATATTATTTTAATAA
1 GATATTTTATTATTTTAATAA
71327944 GATATTTTATTATTTTA
1 GATATTTTATTATTTTA
71327961 TTGTTATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 10 0.33
21 16 0.53
22 4 0.13
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (21 bp):
GATATTTTATTATTTTAATAA
Found at i:71330862 original size:40 final size:40
Alignment explanation
Indices: 71330818--71331079 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
71330808 GCTCCTCGTT
* *
71330818 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
71330858 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
71330898 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
71330937 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
71330976 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
71331015 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
71331056 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
71331080 CATCATTCAA
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 126 0.62
40 64 0.32
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:71347781 original size:40 final size:39
Alignment explanation
Indices: 71347721--71347831 Score: 118
Period size: 40 Copynumber: 2.8 Consensus size: 39
71347711 CTCGGTATCG
*
71347721 CACACTTAGTGCCTCA--TATAGCCGAAGCTATACCATTTCA
1 CACACTTAGTG-CT-ATTTATAGCCGAAGCTATACCA-ATCA
* *** *
71347761 CACACTTAGTGCTATTTATAGCTGAAGCTATTTTGAATCG
1 CACACTTAGTGCTATTTATAGCCGAAGCTA-TACCAATCA
71347801 CACACTTAGTGCTATTTATAGCCGAAGCTAT
1 CACACTTAGTGCTATTTATAGCCGAAGCTAT
71347832 TTTGAATCGC
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
38 1 0.02
39 3 0.05
40 55 0.90
41 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (39 bp):
CACACTTAGTGCTATTTATAGCCGAAGCTATACCAATCA
Found at i:71347832 original size:40 final size:40
Alignment explanation
Indices: 71347761--71347852 Score: 175
Period size: 40 Copynumber: 2.3 Consensus size: 40
71347751 TACCATTTCA
*
71347761 CACACTTAGTGCTATTTATAGCTGAAGCTATTTTGAATCG
1 CACACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCG
71347801 CACACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCG
1 CACACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCG
71347841 CACACTTAGTGC
1 CACACTTAGTGC
71347853 CAAATGCAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (40 bp):
CACACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCG
Found at i:71349952 original size:42 final size:42
Alignment explanation
Indices: 71349878--71350029 Score: 121
Period size: 42 Copynumber: 3.6 Consensus size: 42
71349868 GCCCGAAGGC
* * *
71349878 TGAACAGAAGCTCTTGAGAGCTAAACAAAAACCCATAAGGGT
1 TGAACAGAAGCTCGTAAAAGCTAAACAAAAACCCATAAGGGT
* * *
71349920 TGAACGGAAGCTCGTAAAAGCTGAACAGAAACCCATAAGGGT
1 TGAACAGAAGCTCGTAAAAGCTAAACAAAAACCCATAAGGGT
* ** * * *
71349962 TAAATTGAAGCT--TAAAATAGCTAAACAGAAACTCATATA-AGT
1 TGAACAGAAGCTCGT-AAA-AGCTAAACAAAAACCCATA-AGGGT
* * *
71350004 TAAACAGAAGCTCATGAAAGCTAAAC
1 TGAACAGAAGCTCGTAAAAGCTAAAC
71350030 GGAAAGTAAA
Statistics
Matches: 90, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 82 0.91
43 3 0.03
44 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.18
Consensus pattern (42 bp):
TGAACAGAAGCTCGTAAAAGCTAAACAAAAACCCATAAGGGT
Found at i:71350028 original size:21 final size:21
Alignment explanation
Indices: 71349980--71350034 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
71349970 AGCTTAAAAT
71349980 AGCTAAACAGAAACTCATATA
1 AGCTAAACAGAAACTCATATA
* *
71350001 AGTTAAACAGAAGCTCATGA-A
1 AGCTAAACAGAAACTCAT-ATA
*
71350022 AGCTAAACGGAAA
1 AGCTAAACAGAAA
71350035 GTAAAGACGA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.16
Consensus pattern (21 bp):
AGCTAAACAGAAACTCATATA
Found at i:71358681 original size:184 final size:184
Alignment explanation
Indices: 71358384--71358766 Score: 588
Period size: 184 Copynumber: 2.1 Consensus size: 184
71358374 ATATTTATTT
* * *
71358384 TTATCGTAAAAATTAAAATTAATTATATATTAAATAAAAAATAGAATTCAATTCGTTTTCATGGA
1 TTATCCTAAAAATTAAAATTAATTATATATCAAATAAAAAATAGAATTCAATTCGTTTACATGGA
* ** *
71358449 ATCGCAGTTTTTGAACTTGCATTTCATATACCATCCAAATACTTCGATCGATCTTCGATTTGATT
66 ATCGCAGTTTTTAAACTTAAATTTCATATACCATCCAAACACTTCGATCGATCTTCGATTTGATT
71358514 GAATTTGAAAGTAAG-AAAGATTAAAACATTTTAAAAGAAAATAAATATTAACAG
131 GAATTTGAAAGTAAGAAAAGATTAAAACATTTTAAAAGAAAATAAATATTAA-AG
* *
71358568 TTATCCTAAGAATTAAAATTAATTATATATCAAATAAAAAATAGAATTCGATTCGTTTACATGGA
1 TTATCCTAAAAATTAAAATTAATTATATATCAAATAAAAAATAGAATTCAATTCGTTTACATGGA
* *
71358633 ATCGCAGTTTTTAAACTTAAATTTCATATATCATCCAAACACTTCGATCGATCTTCTATTTGATT
66 ATCGCAGTTTTTAAACTTAAATTTCATATACCATCCAAACACTTCGATCGATCTTCGATTTGATT
** * * * * *
71358698 GGTTTTGAATGTAGGAAAAGATTACAACATTTTGAAAGAAAATAAATATTAATG
131 GAATTTGAAAGTAAGAAAAGATTAAAACATTTTAAAAGAAAATAAATATTAAAG
71358752 TTATCCTAAAAATTA
1 TTATCCTAAAAATTA
71358767 GAAAATAAAT
Statistics
Matches: 179, Mismatches: 19, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
184 145 0.81
185 34 0.19
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (184 bp):
TTATCCTAAAAATTAAAATTAATTATATATCAAATAAAAAATAGAATTCAATTCGTTTACATGGA
ATCGCAGTTTTTAAACTTAAATTTCATATACCATCCAAACACTTCGATCGATCTTCGATTTGATT
GAATTTGAAAGTAAGAAAAGATTAAAACATTTTAAAAGAAAATAAATATTAAAG
Found at i:71361512 original size:19 final size:19
Alignment explanation
Indices: 71361488--71361531 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
71361478 ATTAAAATAA
71361488 ATTTATTATT-TATTTATAT
1 ATTTATTATTATATTT-TAT
71361507 ATTTATTATTATATTTTAT
1 ATTTATTATTATATTTTAT
71361526 -TTTATT
1 ATTTATT
71361532 TAATAATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.25
19 13 0.54
20 5 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTATTATTATATTTTAT
Found at i:71361530 original size:12 final size:13
Alignment explanation
Indices: 71361489--71361530 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
71361479 TTAAAATAAA
71361489 TTTAT-TATTTA-
1 TTTATATATTTAT
71361500 TTTATATATTTAT
1 TTTATATATTTAT
71361513 TATTATAT-TTTAT
1 T-TTATATATTTAT
71361526 TTTAT
1 TTTAT
71361531 TTAATAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 5 0.18
12 10 0.36
13 7 0.25
14 6 0.21
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTATATATTTAT
Found at i:71368523 original size:13 final size:13
Alignment explanation
Indices: 71368507--71368555 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
71368497 ATGTTTAAGA
71368507 AAATTATTTAATC
1 AAATTATTTAATC
* * *
71368520 AAATTCTTTAGTT
1 AAATTATTTAATC
71368533 AAATTATTTAATC
1 AAATTATTTAATC
*
71368546 AAATTTTTTA
1 AAATTATTTA
71368556 GTTGAATAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (13 bp):
AAATTATTTAATC
Found at i:71368529 original size:26 final size:27
Alignment explanation
Indices: 71368500--71368555 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
71368490 AAATTAAATG
71368500 TTTAAG-AAAATTATTTAATCAAATTC
1 TTTAAGTAAAATTATTTAATCAAATTC
* *
71368526 TTT-AGTTAAATTATTTAATCAAATTT
1 TTTAAGTAAAATTATTTAATCAAATTC
71368552 TTTA
1 TTTA
71368556 GTTGAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.50
Consensus pattern (27 bp):
TTTAAGTAAAATTATTTAATCAAATTC
Found at i:71368556 original size:26 final size:26
Alignment explanation
Indices: 71368507--71368558 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
71368497 ATGTTTAAGA
71368507 AAATTATTTAATCAAATTCTTTAGTT
1 AAATTATTTAATCAAATTCTTTAGTT
*
71368533 AAATTATTTAATCAAATTTTTTAGTT
1 AAATTATTTAATCAAATTCTTTAGTT
71368559 GAATAATTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (26 bp):
AAATTATTTAATCAAATTCTTTAGTT
Found at i:71370235 original size:40 final size:40
Alignment explanation
Indices: 71370147--71370284 Score: 107
Period size: 44 Copynumber: 3.4 Consensus size: 40
71370137 GTGTGCGTTT
* * * * *
71370147 CGAGATAGCTTCGGCTATATATAGCACTTAGTGTGTGA-AT
1 CGAGATAGCTTCGG-TTTATGTGGCACTAAGTGTGTGATAC
* * *
71370187 TGAAATAGCTTTGGTTTATGTGGCACTAAGTGTGTGATAC
1 CGAGATAGCTTCGGTTTATGTGGCACTAAGTGTGTGATAC
* * *
71370227 CGAGATAGCTTCGGTTCAATGTGATGGCACTAAGTGTGCGATAT
1 CGAGATAGCTTCGGTT---TATG-TGGCACTAAGTGTGTGATAC
**
71370271 CGTTATAGCTTCGG
1 CGAGATAGCTTCGG
71370285 CTAAACATTT
Statistics
Matches: 77, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
39 19 0.25
40 25 0.32
43 3 0.04
44 30 0.39
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (40 bp):
CGAGATAGCTTCGGTTTATGTGGCACTAAGTGTGTGATAC
Found at i:71372918 original size:46 final size:46
Alignment explanation
Indices: 71372868--71372968 Score: 193
Period size: 46 Copynumber: 2.2 Consensus size: 46
71372858 ATTTTACCTT
71372868 TCGATCTCAAATTTACCAAATTAGACAAATTAATCTAGTTTATCTC
1 TCGATCTCAAATTTACCAAATTAGACAAATTAATCTAGTTTATCTC
*
71372914 TCGATCTCAAATTTACCAAATTAGACAAGTTAATCTAGTTTATCTC
1 TCGATCTCAAATTTACCAAATTAGACAAATTAATCTAGTTTATCTC
71372960 TCGATCTCA
1 TCGATCTCA
71372969 CAGGCTAACC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 54 1.00
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.37
Consensus pattern (46 bp):
TCGATCTCAAATTTACCAAATTAGACAAATTAATCTAGTTTATCTC
Found at i:71377468 original size:22 final size:23
Alignment explanation
Indices: 71377443--71377488 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
71377433 CTATTTAATG
* *
71377443 TTCAGTTTGGTACTT-GAGTTTT
1 TTCAATTTGATACTTCGAGTTTT
*
71377465 TTCAATTTGATATTTCGAGTTTT
1 TTCAATTTGATACTTCGAGTTTT
71377488 T
1 T
71377489 CTTTATACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.17, C:0.09, G:0.17, T:0.57
Consensus pattern (23 bp):
TTCAATTTGATACTTCGAGTTTT
Found at i:71377927 original size:90 final size:92
Alignment explanation
Indices: 71377753--71377936 Score: 266
Period size: 90 Copynumber: 2.0 Consensus size: 92
71377743 AAATCACTAT
* *** *
71377753 TTGGGGCCTAAACTTAGCAACTTTTCCCACATTGGGGCCTGGATTTTTTTTTTTGTTCAAGTTAG
1 TTGGGGCCTAAACTTAGCAACTGTTCCCACATTGGGGCCTGGAACCTTTTTTTTGTCCAAGTTAG
*
71377818 GCCTTGAATTTGGCAATTGTTCCCACA
66 GCCTTGAACTTGGCAATTGTTCCCACA
*
71377845 TTGGGG-CTAAAC-TAGGCAACTGTTCCCACATTGGGG-CTTGAACCTTTTTTTTGTCCAAGTTA
1 TTGGGGCCTAAACTTA-GCAACTGTTCCCACATTGGGGCCTGGAACCTTTTTTTTGTCCAAGTTA
*
71377907 GTCCTTGAACTTGGCAATTGTTCCCACA
65 GGCCTTGAACTTGGCAATTGTTCCCACA
71377935 TT
1 TT
71377937 TCAAGGACTA
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
90 51 0.61
91 26 0.31
92 6 0.07
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.38
Consensus pattern (92 bp):
TTGGGGCCTAAACTTAGCAACTGTTCCCACATTGGGGCCTGGAACCTTTTTTTTGTCCAAGTTAG
GCCTTGAACTTGGCAATTGTTCCCACA
Found at i:71381090 original size:30 final size:30
Alignment explanation
Indices: 71381056--71381115 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
71381046 ATCTGAACAG
*
71381056 TAAGCAAACTATTTATTCAACAAGGATAAA
1 TAAGCAAACTATTTATACAACAAGGATAAA
71381086 TAAGCAAACTATTTATACAACAAGGATAAA
1 TAAGCAAACTATTTATACAACAAGGATAAA
71381116 CTAATTACGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.52, C:0.13, G:0.10, T:0.25
Consensus pattern (30 bp):
TAAGCAAACTATTTATACAACAAGGATAAA
Found at i:71381764 original size:32 final size:30
Alignment explanation
Indices: 71381723--71381782 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 30
71381713 TTTAAAAAAA
71381723 TATTAAATTATTTTAAATTA-TTTTATTTAAAT
1 TATTAAATTA-TTTAAA--AGTTTTATTTAAAT
71381755 TATTAAATTATTTAAAAGTTTTATTTAA
1 TATTAAATTATTTAAAAGTTTTATTTAA
71381783 CTAGATGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 1 0.04
30 10 0.37
31 6 0.22
32 10 0.37
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (30 bp):
TATTAAATTATTTAAAAGTTTTATTTAAAT
Found at i:71389511 original size:7 final size:7
Alignment explanation
Indices: 71389499--71389524 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
71389489 ATCCTTCAGG
71389499 CTTTCCT
1 CTTTCCT
71389506 CTTTCCT
1 CTTTCCT
71389513 CTTTCCT
1 CTTTCCT
71389520 CTTTC
1 CTTTC
71389525 TACCCACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (7 bp):
CTTTCCT
Found at i:71397181 original size:19 final size:19
Alignment explanation
Indices: 71397153--71397200 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
71397143 ATATATATTT
*
71397153 TAAA-TTTATTTATGTAGA
1 TAAATTTTATTTAGGTAGA
71397171 TAAATTTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
71397190 TAAGTTTTATT
1 TAAATTTTATT
71397201 CATATTCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:71401798 original size:19 final size:19
Alignment explanation
Indices: 71401752--71401799 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
71401742 GTATATATTT
*
71401752 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGATAGA
*
71401770 TAAATCTTATTTAGATAGA
1 TAAATTTTATTTAGATAGA
*
71401789 TAAGTTTTATT
1 TAAATTTTATT
71401800 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGATAGA
Found at i:71403027 original size:60 final size:60
Alignment explanation
Indices: 71402961--71403081 Score: 206
Period size: 60 Copynumber: 2.0 Consensus size: 60
71402951 CTCGAAATCG
* * *
71402961 CTTGAGTTTTTTCGGTAAAAGAGAGCACTACACCCTTTAAATCTAGTGTGTGATTTAAAT
1 CTTGAGTTTTTTCAGTAAAAGAGAGCACTACACCCTTTAAATCAAGTGTGTGATTCAAAT
*
71403021 CTTGAGTTTTTTCAGTCAAAGAGAGCACTACACCCTTTAAATCAAGTGTGTGATTCAAAT
1 CTTGAGTTTTTTCAGTAAAAGAGAGCACTACACCCTTTAAATCAAGTGTGTGATTCAAAT
71403081 C
1 C
71403082 ATAATATTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (60 bp):
CTTGAGTTTTTTCAGTAAAAGAGAGCACTACACCCTTTAAATCAAGTGTGTGATTCAAAT
Found at i:71421524 original size:48 final size:48
Alignment explanation
Indices: 71421459--71421555 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
71421449 CATGTATGAG
71421459 TTCAACAATTATTTCAATTCCACGTACATGTAACATCTATACCATGTA
1 TTCAACAATTATTTCAATTCCACGTACATGTAACATCTATACCATGTA
* *
71421507 TTCAACAATTATTTCAATTCTATGTACATGTAACATCTATACCATGTA
1 TTCAACAATTATTTCAATTCCACGTACATGTAACATCTATACCATGTA
71421555 T
1 T
71421556 ATGTATATCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (48 bp):
TTCAACAATTATTTCAATTCCACGTACATGTAACATCTATACCATGTA
Found at i:71430636 original size:5 final size:5
Alignment explanation
Indices: 71430596--71430624 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
71430586 TAAGTAAATA
71430596 TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATA
71430625 ATAATAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:71431918 original size:21 final size:22
Alignment explanation
Indices: 71431893--71431935 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
71431883 AGCTATTTGT
*
71431893 ATAGCAAGT-ATGAGATTTGAA
1 ATAGCAAGTGATGAGAATTGAA
71431914 ATAGCAAGTGATGAGAATTGAA
1 ATAGCAAGTGATGAGAATTGAA
71431936 TATGTTATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.44, C:0.05, G:0.26, T:0.26
Consensus pattern (22 bp):
ATAGCAAGTGATGAGAATTGAA
Found at i:71434792 original size:15 final size:15
Alignment explanation
Indices: 71434767--71434800 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
71434757 TCCTTTCTCC
71434767 CTTTCTTTCATTTT-
1 CTTTCTTTCATTTTA
71434781 CTTTCTTTTCATTTTA
1 CTTTC-TTTCATTTTA
71434797 CTTT
1 CTTT
71434801 AATTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 9 0.50
16 4 0.22
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.71
Consensus pattern (15 bp):
CTTTCTTTCATTTTA
Found at i:71438744 original size:21 final size:22
Alignment explanation
Indices: 71438708--71438749 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
71438698 TTTTATTTGA
*
71438708 TTTAATATATAAAAATAAATTT
1 TTTAATATAAAAAAATAAATTT
*
71438730 TTTAA-ATAAAAAAATTAATT
1 TTTAATATAAAAAAATAAATT
71438750 AGATTCAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTAATATAAAAAAATAAATTT
Found at i:71439548 original size:24 final size:24
Alignment explanation
Indices: 71439521--71439572 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
71439511 TTAGTAAGTC
*
71439521 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
71439545 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
71439569 AAAT
1 AAAT
71439573 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:71441518 original size:24 final size:24
Alignment explanation
Indices: 71441491--71441542 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
71441481 TTAGTAAGTC
*
71441491 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
71441515 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
71441539 AAAT
1 AAAT
71441543 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:71444136 original size:24 final size:24
Alignment explanation
Indices: 71444104--71444155 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
71444094 AACCTAATTG
*
71444104 TAATCAATGCCAAATATATTATGC
1 TAATCAATGCCAAATATATTATAC
*
71444128 TAATCAATGCTAAATATATTATAC
1 TAATCAATGCCAAATATATTATAC
71444152 TAAT
1 TAAT
71444156 AAATACTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (24 bp):
TAATCAATGCCAAATATATTATAC
Found at i:71444164 original size:24 final size:24
Alignment explanation
Indices: 71444115--71444166 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
71444105 AATCAATGCC
* * *
71444115 AAATATATTATGCTAATCAATGCT
1 AAATATATTATACTAATAAATACT
71444139 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATACT
71444163 AAAT
1 AAAT
71444167 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:71448108 original size:18 final size:17
Alignment explanation
Indices: 71448079--71448112 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
71448069 TGAAGACTGA
71448079 ACTTTTAAAAAAATGAT
1 ACTTTTAAAAAAATGAT
71448096 ACTTTTAAAAAAATGAT
1 ACTTTTAAAAAAATGAT
71448113 CAAATTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (17 bp):
ACTTTTAAAAAAATGAT
Found at i:71455146 original size:14 final size:14
Alignment explanation
Indices: 71455127--71455156 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
71455117 TTATATCGAG
71455127 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
71455141 ACCAATCCAATTCA
1 ACCAATCCAAATCA
71455155 AC
1 AC
71455157 ATAATTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:71462888 original size:40 final size:39
Alignment explanation
Indices: 71462790--71462896 Score: 135
Period size: 39 Copynumber: 2.7 Consensus size: 39
71462780 TCCTCGTTCA
* * **
71462790 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCACAC
*
71462829 AATGCCTTCGGGACATAACCCGGATTTAACAACT-AGCATG
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCA-CA-C
*
71462869 AATGCCTTCGGGACTTAACCCGGATTTA
1 AATGCCTTCGGGACATAACCCGGATTTA
71462897 GTATCTCGCA
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.02
39 32 0.53
40 27 0.45
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACATAACCCGGATTTAACAACTCACAC
Found at i:71462916 original size:40 final size:40
Alignment explanation
Indices: 71462788--71462972 Score: 171
Period size: 40 Copynumber: 4.7 Consensus size: 40
71462778 GCTCCTCGTT
* *
71462788 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACT--CA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCA
* * **
71462826 CACAATGCCTTCGGGACATAACCCGGATTTAACAACTAGCA
1 CA-AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCA
** * * *
71462867 TGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCA
* * * * *
71462907 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TAGCA
71462948 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
71462973 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.28
40 71 0.60
41 13 0.11
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCA
Found at i:71462981 original size:41 final size:41
Alignment explanation
Indices: 71462904--71462981 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
71462894 TTAGTATCTC
* * *
71462904 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
71462945 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
71462982 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:71470135 original size:39 final size:40
Alignment explanation
Indices: 71470090--71470221 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
71470080 GCTCCTCGTT
* * *
71470090 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
71470130 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
71470169 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
71470209 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
71470222 ATCTTCGTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 34 0.43
40 46 0.57
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:71470274 original size:40 final size:40
Alignment explanation
Indices: 71470090--71470274 Score: 130
Period size: 40 Copynumber: 4.6 Consensus size: 40
71470080 GCTCCTCGTT
* * * *
71470090 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCA-CA
1 CAAA-GCCTTCGGGACTTAGCCCGGATTTAGTCACTTAGCA
* * * * *
71470130 CAATGCCTTCGGGACATAACCCGGATTTA-ACAAC-TCGCA
1 CAAAGCCTTCGGGACTTAGCCCGGATTTAGTC-ACTTAGCA
* * *
71470169 CGAATGCCTTCGGGACTTAACCCGGATTTAGT-A-TCTCGCA
1 C-AAAGCCTTCGGGACTTAGCCCGGATTTAGTCACT-TAGCA
* * * *
71470209 CAAAGGCCTTC-GGATCTTCGTCCGGATATATTCACTTAGCA
1 CAAA-GCCTTCGGGA-CTTAGCCCGGATTTAGTCACTTAGCA
71470250 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
71470275 CAGCATTCAA
Statistics
Matches: 116, Mismatches: 18, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
39 34 0.29
40 69 0.59
41 12 0.10
42 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTCACTTAGCA
Found at i:71475639 original size:44 final size:45
Alignment explanation
Indices: 71475544--71475658 Score: 142
Period size: 44 Copynumber: 2.6 Consensus size: 45
71475534 ACAGGACAGA
* *
71475544 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGCCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGCCATTGGAG
* * *
71475590 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGCCATTGGAG
* **
71475634 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
71475659 GTCAAAGACA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
44 34 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGCCATTGGAG
Done.