Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 302 of 427
Found at i:87581377 original size:6 final size:6
Alignment explanation
Indices: 87581359--87581392 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
87581349 AAAAATAAAT
*
87581359 TTTATA TTAATA TTTATA TTTATA TTTATA TTTA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTA
87581393 AATAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TTTATA
Found at i:87581784 original size:32 final size:33
Alignment explanation
Indices: 87581712--87581784 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 33
87581702 TTAGGTTTTT
87581712 TAAAATTA-AAATTAAAATAATTATTTTTTTAA
1 TAAAATTATAAATTAAAATAATTATTTTTTTAA
** **
87581744 TATTATTATAAATTTTAA-AATTATTATTTTTAA
1 TAAAATTATAAATTAAAATAATTATT-TTTTTAA
87581777 -AAAATTAT
1 TAAAATTAT
87581785 TTATCTATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
32 19 0.58
33 14 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (33 bp):
TAAAATTATAAATTAAAATAATTATTTTTTTAA
Found at i:87581822 original size:29 final size:30
Alignment explanation
Indices: 87581767--87581827 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
87581757 TTTAAAATTA
*
87581767 TTATTTTTAAAAAATTATTTATCTATT-TT
1 TTATTTTTAAAAAATTATATATCTATTCTT
**
87581796 TTATATTTTAAAATTTTATATAT-TATTCTT
1 TTAT-TTTTAAAAAATTATATATCTATTCTT
87581826 TT
1 TT
87581828 CAAAATTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (30 bp):
TTATTTTTAAAAAATTATATATCTATTCTT
Found at i:87581838 original size:52 final size:53
Alignment explanation
Indices: 87581736--87581863 Score: 138
Period size: 52 Copynumber: 2.4 Consensus size: 53
87581726 AAATAATTAT
87581736 TTTTTTAATATTATTATAAATTTTAAAATTATTATTTTTAAAAAATTATTTATCTA
1 TTTTTT-ATATTATTA-AAATTTTAAAATTATTATTTTTAAAAAATTATTT-TCTA
* ** *
87581792 TTTTTTATATT-TTAAAATTTT-ATA-TATTATTCTTTTCAAAATTATTTTTTA
1 TTTTTTATATTATTAAAATTTTAAAATTATTATT-TTTAAAAAATTATTTTCTA
*
87581843 -TTTTTATATTCTCTAAAATTT
1 TTTTTTATATTAT-TAAAATTT
87581864 ATCATTGTTG
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
50 10 0.15
51 11 0.17
52 23 0.35
53 7 0.11
54 3 0.05
55 5 0.08
56 6 0.09
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (53 bp):
TTTTTTATATTATTAAAATTTTAAAATTATTATTTTTAAAAAATTATTTTCTA
Found at i:87581883 original size:50 final size:52
Alignment explanation
Indices: 87581736--87581888 Score: 129
Period size: 50 Copynumber: 2.9 Consensus size: 52
87581726 AAATAATTAT
* * *
87581736 TTTTTTAATATTATTATAAATTTTA-AAATTATTATTTTTAAAAAATTATTTATCTA
1 TTTTTT-ATATT-TTA-AAATTTTATACATTATT-CTTTT-CAAAATTATTTATCTA
* *
87581792 TTTTTTATATTTTAAAATTTTATATATTATTCTTTTCAAAATTATTT-TTTA
1 TTTTTTATATTTTAAAATTTTATACATTATTCTTTTCAAAATTATTTATCTA
* * *
87581843 -TTTTTATATTCTCTAAAA-TTTAT-CATTGTTGTTTTGAAAA-TATTTA
1 TTTTTTATATT-T-TAAAATTTTATACATTATTCTTTTCAAAATTATTTA
87581889 CGTGTTTTTA
Statistics
Matches: 85, Mismatches: 8, Indels: 14
0.79 0.07 0.13
Matches are distributed among these distances:
49 5 0.06
50 23 0.27
51 9 0.11
52 15 0.18
53 12 0.14
54 10 0.12
55 5 0.06
56 6 0.07
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (52 bp):
TTTTTTATATTTTAAAATTTTATACATTATTCTTTTCAAAATTATTTATCTA
Found at i:87588449 original size:20 final size:20
Alignment explanation
Indices: 87588424--87588462 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
87588414 TCAATACTAT
87588424 ACTTT-GTTAAAGGTATCTAC
1 ACTTTGGTTAAA-GTATCTAC
*
87588444 ACTTTGGTTTAAGTATCTA
1 ACTTTGGTTAAAGTATCTA
87588463 TAATTTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (20 bp):
ACTTTGGTTAAAGTATCTAC
Found at i:87590878 original size:24 final size:24
Alignment explanation
Indices: 87590802--87590879 Score: 95
Period size: 24 Copynumber: 3.2 Consensus size: 24
87590792 GCTATATAAT
* *
87590802 GGGAAGCTCA-AAAGAGCCATAATC
1 GGGAAGTTCACAAAGAACCAT-ATC
*
87590826 GGGAAGTTCACAAAGAACCATATT
1 GGGAAGTTCACAAAGAACCATATC
* *
87590850 AGGAAGTTTACAAAGAACCATATC
1 GGGAAGTTCACAAAGAACCATATC
87590874 GGGAAG
1 GGGAAG
87590880 CTCTGGATAG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
24 37 0.80
25 9 0.20
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.17
Consensus pattern (24 bp):
GGGAAGTTCACAAAGAACCATATC
Found at i:87597152 original size:31 final size:31
Alignment explanation
Indices: 87597061--87597143 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
87597051 TCAGTCTCGA
87597061 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
87597091 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
87597122 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
87597144 ACTGTAAATG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 18 0.35
31 34 0.65
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:87599867 original size:48 final size:48
Alignment explanation
Indices: 87599792--87600367 Score: 992
Period size: 48 Copynumber: 12.0 Consensus size: 48
87599782 CAAGATAAAT
87599792 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
87599840 ATAGGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
87599888 ATAGGTAGATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
87599936 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAACATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
87599984 ATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAACATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
87600032 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAACATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
87600080 ATATGTATATGTGGTAAAACCGAATGACTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
87600128 ATATGTATATGTGATAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
87600176 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
87600224 ATATGTATATGTGATAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
87600272 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
87600320 ATA-GTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
87600367 A
1 A
87600368 CGTTTGTATA
Statistics
Matches: 505, Mismatches: 23, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
47 43 0.09
48 462 0.91
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:87600617 original size:37 final size:37
Alignment explanation
Indices: 87600509--87600617 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
87600499 GGAAATACAT
*
87600509 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
87600546 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * * *
87600583 TCCGGGTAAAACCCGATAACTTCGTGTAGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
87600618 CATCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:87601528 original size:24 final size:25
Alignment explanation
Indices: 87601501--87601578 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
87601491 GCCTAGCCTC
87601501 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
* *
87601525 TTTTGATAAACTGGGGCAAAACCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*** *
87601550 TTTCGGTAAACTGGGGCATAG-CCT
1 TTTTAATAAACTGGGGCAAAGCCCT
87601574 TTTTA
1 TTTTA
87601579 GCACTTCCTC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
24 12 0.27
25 33 0.73
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:87601536 original size:25 final size:25
Alignment explanation
Indices: 87601508--87601577 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
87601498 CTCTTTTAAT
87601508 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* * *
87601533 AACTGGGGCAAAACCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
87601558 AACTGGGGCATAG-CCTTTTT
1 AACTGGGGCAAAGCCCTTTTT
87601578 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
24 6 0.15
25 33 0.85
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:87602553 original size:27 final size:27
Alignment explanation
Indices: 87602505--87602734 Score: 99
Period size: 27 Copynumber: 8.4 Consensus size: 27
87602495 GTAAATCTTC
87602505 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
87602532 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
** *
87602558 AGAAAGTTAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* ** **
87602588 AAATC-AGGTGTATTTTGGTAATTTTAC
1 AAACCAAGG-GTATTTCAGTAATTTTGT
*** * ***
87602615 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTGT
** **
87602642 AAACC-AGTGGTATTTTGGTAATTTTAC
1 AAACCAAG-GGTATTTCAGTAATTTTGT
*** * ***
87602669 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTGT
* *
87602696 AAACCAAAGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* *
87602723 AAATCGAGGGTA
1 AAACCAAGGGTA
87602735 AAACGATAAT
Statistics
Matches: 160, Mismatches: 33, Indels: 20
0.75 0.15 0.09
Matches are distributed among these distances:
26 6 0.04
27 124 0.77
28 12 0.08
29 17 0.11
30 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:87602655 original size:54 final size:54
Alignment explanation
Indices: 87602511--87602734 Score: 227
Period size: 54 Copynumber: 4.1 Consensus size: 54
87602501 CTTCAAACCA
* *** * * *
87602511 AGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTAGAAAGTTA
1 AGGGTATTTCGGTAATTTCACAAACCAATGGTATTT-TGGTAA-TTTTACAAA-TTG
* *** * *
87602567 AGGGTATTTCTGTAATTTTGTAAATC-AGGTGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTCACAAACCAATG-GTATTTTGGTAATTTTACAAATTG
*
87602621 AGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTCACAAACCAATGGTATTTTGGTAATTTTACAAATTG
* * ** *
87602675 AGGGTATTTCGGTAATTTCACAAACCAAAGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTCGGTAATTTCACAAACCAATGGTATTTTGGTAATTTTACAAATTG
87602729 AGGGTA
1 AGGGTA
87602735 AAACGATAAT
Statistics
Matches: 146, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
54 101 0.69
55 12 0.08
56 33 0.23
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTCACAAACCAATGGTATTTTGGTAATTTTACAAATTG
Found at i:87602744 original size:27 final size:27
Alignment explanation
Indices: 87602714--87602869 Score: 224
Period size: 27 Copynumber: 5.8 Consensus size: 27
87602704 GGTATTTTAG
*
87602714 TAATTTTGTAAATCGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGA
*
87602741 TAATTCTGTAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGA
* * *
87602768 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGA
* * *
87602795 TAATTCTATAAATCTAGGGTAAAA-TA
1 TAATTCTGTAAATCGAGGGTAAAACGA
87602821 GTAATTCTGTAAATCGAGGGTAAAACGA
1 -TAATTCTGTAAATCGAGGGTAAAACGA
87602849 TAATTCTGTAAATCGAGGGTA
1 TAATTCTGTAAATCGAGGGTA
87602870 CTTTGGTAAT
Statistics
Matches: 115, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
27 114 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACGA
Found at i:87602877 original size:81 final size:81
Alignment explanation
Indices: 87602704--87602880 Score: 239
Period size: 81 Copynumber: 2.2 Consensus size: 81
87602694 ACAAACCAAA
* * * * * *
87602704 GGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGGT
1 GGTAATTTGGTAATTCTATAAATCGAGGGTAAAAAGATAATTCTGTAAATCGAGGGTAAAACGAT
*
87602769 AATTCTGTAAATTGAG
66 AATTCTGTAAATCGAG
** *
87602785 GGTAAAATGGTAATTCTATAAATCTAGGGTAAAATAG-TAATTCTGTAAATCGAGGGTAAAACGA
1 GGTAATTTGGTAATTCTATAAATCGAGGGTAAAA-AGATAATTCTGTAAATCGAGGGTAAAACGA
87602849 TAATTCTGTAAATCGAG
65 TAATTCTGTAAATCGAG
*
87602866 GGTACTTTGGTAATT
1 GGTAATTTGGTAATT
87602881 TTACAAATTG
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 81 0.99
82 1 0.01
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.33
Consensus pattern (81 bp):
GGTAATTTGGTAATTCTATAAATCGAGGGTAAAAAGATAATTCTGTAAATCGAGGGTAAAACGAT
AATTCTGTAAATCGAG
Found at i:87602914 original size:81 final size:81
Alignment explanation
Indices: 87602741--87602896 Score: 215
Period size: 81 Copynumber: 1.9 Consensus size: 81
87602731 GGTAAAACGA
* * *
87602741 TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATAA
1 TAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTACAA
**
87602806 ATCTAGGGTAAAATAG
66 ATCTAGGACAAAATAG
*** *
87602822 TAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTACTTTGGTAATTTTACAA
1 TAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTACAA
87602887 AT-TGAGGACA
66 ATCT-AGGACA
87602897 TTTTAGTAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
80 1 0.02
81 64 0.98
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (81 bp):
TAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTACAA
ATCTAGGACAAAATAG
Found at i:87609930 original size:3 final size:3
Alignment explanation
Indices: 87609900--87609961 Score: 81
Period size: 3 Copynumber: 20.7 Consensus size: 3
87609890 CCTTCTATCT
* * *
87609900 TTA TTT TTA TTT TTA TTTA TTA TT- TTA TTA TTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
87609945 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
87609962 TTGAAAGACA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
2 2 0.04
3 46 0.90
4 3 0.06
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:87615617 original size:26 final size:26
Alignment explanation
Indices: 87615586--87615693 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
87615576 TGAAATTCCC
*
87615586 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
87615612 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
87615638 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
87615664 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87615690 ATCA
1 ATCA
87615694 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:87623396 original size:29 final size:29
Alignment explanation
Indices: 87623354--87623410 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
87623344 AAATATAAAC
*
87623354 TAGAAACTTTCAAGTTATTCCTCGTCGAG
1 TAGAAACTTTCAAGTTATTCCTCATCGAG
87623383 TAGAAACTTTCAAGTTATTCCTCATCGA
1 TAGAAACTTTCAAGTTATTCCTCATCGA
87623411 CTCTATCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (29 bp):
TAGAAACTTTCAAGTTATTCCTCATCGAG
Found at i:87623951 original size:26 final size:26
Alignment explanation
Indices: 87623921--87623976 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
87623911 AATCCCTAAC
* *
87623921 TTTTC-TCCTTTTCTTTCTCTTTTTCT
1 TTTTCTTCCTTTTC-TTCTCTGTTTCA
*
87623947 TTTTCTTTCTTTTCTTCTCTGTTTCA
1 TTTTCTTCCTTTTCTTCTCTGTTTCA
87623973 TTTT
1 TTTT
87623977 AACTTTGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.73
Consensus pattern (26 bp):
TTTTCTTCCTTTTCTTCTCTGTTTCA
Found at i:87623960 original size:27 final size:27
Alignment explanation
Indices: 87623928--87624007 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
87623918 AACTTTTCTC
87623928 CTTTTCTTTCTCTTTTTCTTTTTCTTT
1 CTTTTCTTTCTCTTTTTCTTTTTCTTT
* *
87623955 CTTTTC-TTCTCTGTTTCATTTTAACTTT
1 CTTTTCTTTCTCTTTTTC-TTTT-TCTTT
* * *
87623983 -GTTTCTTTTTC-TATTCTTTTTCTTT
1 CTTTTCTTTCTCTTTTTCTTTTTCTTT
87624008 TATTTGTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
25 4 0.09
26 14 0.33
27 17 0.40
28 8 0.19
ACGTcount: A:0.05, C:0.20, G:0.03, T:0.72
Consensus pattern (27 bp):
CTTTTCTTTCTCTTTTTCTTTTTCTTT
Found at i:87624118 original size:19 final size:20
Alignment explanation
Indices: 87624096--87624138 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
87624086 ATATTAAGTA
87624096 ATACATATAT-TATTATTTT
1 ATACATATATATATTATTTT
* *
87624115 ATACTTATGTATATTATTTT
1 ATACATATATATATTATTTT
87624135 -TACA
1 ATACA
87624139 CTTGTTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (20 bp):
ATACATATATATATTATTTT
Found at i:87625287 original size:3 final size:3
Alignment explanation
Indices: 87625269--87625317 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
87625259 TTTAATGAAA
*
87625269 TAT T-T TAT TAT T-T TAT TAT TAT T-T CAT TAT TAT T-T TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
87625314 TAT T
1 TAT T
87625318 TAGTATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:87625289 original size:11 final size:11
Alignment explanation
Indices: 87625273--87625311 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
87625263 ATGAAATATT
87625273 TTATTATTTTA
1 TTATTATTTTA
*
87625284 TTATTATTTCA
1 TTATTATTTTA
87625295 TTATTATTTTA
1 TTATTATTTTA
87625306 TTATTA
1 TTATTA
87625312 ATTATTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:87625297 original size:19 final size:19
Alignment explanation
Indices: 87625269--87625310 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
87625259 TTTAATGAAA
*
87625269 TATTTTATTATT-TTATTAT
1 TATTTCATTATTATT-TTAT
87625288 TATTTCATTATTATTTTAT
1 TATTTCATTATTATTTTAT
87625307 TATT
1 TATT
87625311 AATTATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTTCATTATTATTTTAT
Found at i:87626593 original size:27 final size:27
Alignment explanation
Indices: 87626545--87626703 Score: 191
Period size: 27 Copynumber: 5.9 Consensus size: 27
87626535 GCGAGGCTGC
* * *
87626545 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
87626572 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
87626598 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
87626625 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
87626652 CAGATATATGTGGCAGAACCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
87626679 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
87626704 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.09
27 101 0.88
28 4 0.03
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:87626638 original size:54 final size:54
Alignment explanation
Indices: 87626545--87626703 Score: 241
Period size: 54 Copynumber: 3.0 Consensus size: 54
87626535 GCGAGGCTGC
* * * *
87626545 CAGATAT-TGTGACAAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAA
*
87626598 CAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
*
87626652 CAGATATATGTGGCAGAACCACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
87626704 GACGCTTCCT
Statistics
Matches: 97, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
53 12 0.12
54 85 0.88
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
Found at i:87626870 original size:28 final size:26
Alignment explanation
Indices: 87626808--87626881 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 26
87626798 AAATTAACCC
** *
87626808 TAGGGGTATAACGGTAATTTTACACC
1 TAGGGGTATAATAGTAATTTTACACA
*
87626834 TAGGGGTATAATAGTAATTTTCCATACA
1 TAGGGGTATAATAGTAATTTT--ACACA
*
87626862 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAATAGTAATTT
87626882 AGCTGCTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 19 0.46
28 22 0.54
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.36
Consensus pattern (26 bp):
TAGGGGTATAATAGTAATTTTACACA
Found at i:87628355 original size:26 final size:26
Alignment explanation
Indices: 87628324--87628430 Score: 196
Period size: 26 Copynumber: 4.1 Consensus size: 26
87628314 TGAAATGCCC
*
87628324 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
87628350 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
87628376 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
87628402 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87628428 ATC
1 ATC
87628431 GATTTGTACC
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:87630587 original size:23 final size:24
Alignment explanation
Indices: 87630497--87630607 Score: 95
Period size: 23 Copynumber: 4.7 Consensus size: 24
87630487 GCATCTCGAT
*
87630497 ATATGGCTCTTTGTGAGCTTCCCG
1 ATATGGCTCTTTGTGAGCTTCCCA
** *
87630521 ATA-GTGCTCGCT-TGAACTTCCCGA
1 ATATG-GCTCTTTGTGAGCTTCCC-A
* *
87630545 TATATGGCTATTCG-GAGCTTCCCA
1 -ATATGGCTCTTTGTGAGCTTCCCA
*
87630569 ATA-GGCTCTTTGTGAGCTTCCCG
1 ATATGGCTCTTTGTGAGCTTCCCA
*
87630592 ATATGGTTCTTTGTGA
1 ATATGGCTCTTTGTGA
87630608 ACTACCTAAT
Statistics
Matches: 67, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
22 7 0.10
23 25 0.37
24 20 0.30
25 14 0.21
26 1 0.01
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.36
Consensus pattern (24 bp):
ATATGGCTCTTTGTGAGCTTCCCA
Found at i:87630589 original size:48 final size:49
Alignment explanation
Indices: 87630493--87630595 Score: 129
Period size: 48 Copynumber: 2.1 Consensus size: 49
87630483 AAAAGCATCT
* * *
87630493 CGATATATGGCTCTTTGTGAGCTTCCCGATAGTGCTCGCTTGAACTTCC
1 CGATATATGGCTATTCGTGAGCTTCCCAATAGTGCTCGCTTGAACTTCC
** *
87630542 CGATATATGGCTATTCG-GAGCTTCCCAATAG-GCTCTTTGTGAGCTTCC
1 CGATATATGGCTATTCGTGAGCTTCCCAATAGTGCTCGCT-TGAACTTCC
87630590 CGATAT
1 CGATAT
87630596 GGTTCTTTGT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
47 5 0.11
48 27 0.57
49 15 0.32
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.34
Consensus pattern (49 bp):
CGATATATGGCTATTCGTGAGCTTCCCAATAGTGCTCGCTTGAACTTCC
Found at i:87643805 original size:22 final size:23
Alignment explanation
Indices: 87643780--87643825 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
87643770 CAACCAAATC
87643780 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
87643802 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
87643825 A
1 A
87643826 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:87643831 original size:23 final size:23
Alignment explanation
Indices: 87643787--87643831 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
87643777 ATCAATTCAA
*
87643787 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
87643810 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
87643832 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:87651830 original size:26 final size:26
Alignment explanation
Indices: 87651784--87651836 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
87651774 TCAAACATGC
*
87651784 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
87651810 ATTTTGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
87651836 A
1 A
87651837 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.42
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:87653354 original size:26 final size:26
Alignment explanation
Indices: 87653323--87653430 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
87653313 TGAAATTCCC
*
87653323 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
87653349 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
87653375 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
87653401 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87653427 ATCA
1 ATCA
87653431 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:87660228 original size:33 final size:33
Alignment explanation
Indices: 87660186--87660256 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
87660176 CAAACGGCAT
* *
87660186 AATCAATAAATCAACAGGAAAAATTTTATCTTG
1 AATCAATAAATCAACAAGAAAAATTCTATCTTG
87660219 AATCAATAAATCAACAAGAAAAATTCTATCTTG
1 AATCAATAAATCAACAAGAAAAATTCTATCTTG
87660252 AATCA
1 AATCA
87660257 CTAATGGACT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.51, C:0.14, G:0.07, T:0.28
Consensus pattern (33 bp):
AATCAATAAATCAACAAGAAAAATTCTATCTTG
Found at i:87663372 original size:44 final size:44
Alignment explanation
Indices: 87663307--87663395 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
87663297 AAGTAACAGA
87663307 AACAGTATGACACACAAAGTGCCTCATCGACACAAAGTCGAAGT
1 AACAGTATGACACACAAAGTGCCTCATCGACACAAAGTCGAAGT
** * *
87663351 AACAGTATGACACTA-TTAGTGCCTCATCGACTCAAGGTCGAAGT
1 AACAGTATGACAC-ACAAAGTGCCTCATCGACACAAAGTCGAAGT
87663395 A
1 A
87663396 TCCCTGTACA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 39 0.98
45 1 0.03
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (44 bp):
AACAGTATGACACACAAAGTGCCTCATCGACACAAAGTCGAAGT
Found at i:87664291 original size:8 final size:8
Alignment explanation
Indices: 87664278--87664319 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
87664268 TTTTATGTTT
87664278 TATTATTA
1 TATTATTA
87664286 TATTATTA
1 TATTATTA
87664294 -A--ATTA
1 TATTATTA
87664299 TATTATTA
1 TATTATTA
87664307 TATTATTA
1 TATTATTA
87664315 TATTA
1 TATTA
87664320 ATTTCTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 4 0.13
6 1 0.03
7 1 0.03
8 25 0.81
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTATTA
Found at i:87664304 original size:21 final size:21
Alignment explanation
Indices: 87664278--87664319 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
87664268 TTTTATGTTT
87664278 TATTATTATATTATTAAATTA
1 TATTATTATATTATTAAATTA
*
87664299 TATTATTATATTATTATATTA
1 TATTATTATATTATTAAATTA
87664320 ATTTCTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTATTATATTATTAAATTA
Found at i:87664319 original size:13 final size:13
Alignment explanation
Indices: 87664281--87664312 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
87664271 TATGTTTTAT
87664281 TATTATATTATTA
1 TATTATATTATTA
*
87664294 AATTATATTATTA
1 TATTATATTATTA
87664307 TATTAT
1 TATTAT
87664313 TATATTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:87665317 original size:19 final size:20
Alignment explanation
Indices: 87665267--87665321 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
87665257 GACTACTTTA
*
87665267 TTAATATATTATTGTATTTT
1 TTAATATATTCTTGTATTTT
* *
87665287 TCATTATATTCTT-TATTTT
1 TTAATATATTCTTGTATTTT
*
87665306 TTAATATTTTCTTGTA
1 TTAATATATTCTTGTA
87665322 AACTTTTATA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.25, C:0.05, G:0.04, T:0.65
Consensus pattern (20 bp):
TTAATATATTCTTGTATTTT
Found at i:87668663 original size:23 final size:23
Alignment explanation
Indices: 87668623--87668672 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
87668613 ATTAAACTGA
87668623 TTTTTATAATTTATATATTTTTA
1 TTTTTATAATTTATATATTTTTA
*
87668646 TTTTT-TATTTTATAATATTTTT-
1 TTTTTATAATTTAT-ATATTTTTA
87668668 TTTTT
1 TTTTT
87668673 GCTTTGAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTTATAATTTATATATTTTTA
Found at i:87668784 original size:32 final size:32
Alignment explanation
Indices: 87668745--87668805 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
87668735 TTTAACTAAA
*
87668745 TTTTTAGCTCAGTTCAACTAGTCCATATAGAT
1 TTTTTAGCTCAGTCCAACTAGTCCATATAGAT
87668777 TTTTTAGCTCAGTCCAACTAGTCCATATA
1 TTTTTAGCTCAGTCCAACTAGTCCATATA
87668806 AATTCGCAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.39
Consensus pattern (32 bp):
TTTTTAGCTCAGTCCAACTAGTCCATATAGAT
Found at i:87669532 original size:18 final size:18
Alignment explanation
Indices: 87669506--87669545 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
87669496 ATACATAAAA
* *
87669506 TTAATAGAAATTATTAAT
1 TTAACAGAAAATATTAAT
*
87669524 TTAACAGAAAATATTATT
1 TTAACAGAAAATATTAAT
87669542 TTAA
1 TTAA
87669546 ATAACAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (18 bp):
TTAACAGAAAATATTAAT
Found at i:87669955 original size:12 final size:12
Alignment explanation
Indices: 87669938--87669964 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
87669928 CGTTCTATTG
87669938 TATTGACTTCAA
1 TATTGACTTCAA
87669950 TATTGACTTCAA
1 TATTGACTTCAA
87669962 TAT
1 TAT
87669965 ATATATCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.44
Consensus pattern (12 bp):
TATTGACTTCAA
Found at i:87670666 original size:21 final size:21
Alignment explanation
Indices: 87670640--87670684 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
87670630 TATTTTGAAA
87670640 TTAAAGGACAAAAATATAAAC
1 TTAAAGGACAAAAATATAAAC
*
87670661 TTAAAGGATAAAAATATAAAC
1 TTAAAGGACAAAAATATAAAC
87670682 TTA
1 TTA
87670685 TTAATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.60, C:0.07, G:0.09, T:0.24
Consensus pattern (21 bp):
TTAAAGGACAAAAATATAAAC
Found at i:87675152 original size:13 final size:13
Alignment explanation
Indices: 87675123--87675162 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
87675113 GTTTGTTTCA
87675123 CTGAAAATGACTTT
1 CTGAAAATGA-TTT
87675137 CTGAAAATGATTT
1 CTGAAAATGATTT
*
87675150 CTGAAAATTATTT
1 CTGAAAATGATTT
87675163 ACTTTTCTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (13 bp):
CTGAAAATGATTT
Found at i:87675360 original size:19 final size:19
Alignment explanation
Indices: 87675336--87675374 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
87675326 TATTATTAAT
*
87675336 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
87675355 ATATTTATTATTAAAATAA
1 ATATTTATAATTAAAATAA
87675374 A
1 A
87675375 ATTAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:87675419 original size:22 final size:22
Alignment explanation
Indices: 87675375--87675434 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
87675365 TTAAAATAAA
*
87675375 ATTAAAATATTAAA-TA-ATTT
1 ATTAAAATAATAAATTATATTT
87675395 ATTAAAATAATAAATTATATTT
1 ATTAAAATAATAAATTATATTT
* * *
87675417 ATTATATTAATAATTTAT
1 ATTAAAATAATAAATTAT
87675435 TATATGACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.38
21 2 0.06
22 19 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTAAAATAATAAATTATATTT
Found at i:87679935 original size:20 final size:18
Alignment explanation
Indices: 87679888--87679936 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
87679878 ACAAGAAAAC
87679888 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
87679905 ATTAAGA-TAATTACTTTAAT
1 ATTAA-ATTAA-TA-TTTAAT
87679925 ATTAAATTAATA
1 ATTAAATTAATA
87679937 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 4 0.15
20 14 0.52
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:87679952 original size:39 final size:33
Alignment explanation
Indices: 87679903--87679999 Score: 101
Period size: 39 Copynumber: 2.8 Consensus size: 33
87679893 ATTAAATTTA
87679903 ATATTAAGATAATTACTTTAATATTAAATTAATAAAAT
1 ATATTAAGATAATTACTTTAATATTAAA-TAAT----T
*
87679941 ACTATTAAGATAAGTA--TT-ATATTAAATAATT
1 A-TATTAAGATAATTACTTTAATATTAAATAATT
*
87679972 ATATTAAGATAATCACTTTAATATTAAA
1 ATATTAAGATAATTACTTTAATATTAAA
87680000 CAGTATTTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
30 12 0.23
31 2 0.04
32 2 0.04
33 8 0.15
35 4 0.08
36 8 0.15
37 2 0.04
38 1 0.02
39 13 0.25
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (33 bp):
ATATTAAGATAATTACTTTAATATTAAATAATT
Found at i:87679974 original size:13 final size:14
Alignment explanation
Indices: 87679956--87679984 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
87679946 TAAGATAAGT
87679956 ATTATATTAA-ATA
1 ATTATATTAAGATA
87679969 ATTATATTAAGATA
1 ATTATATTAAGATA
87679983 AT
1 AT
87679985 CACTTTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTATATTAAGATA
Found at i:87682353 original size:49 final size:49
Alignment explanation
Indices: 87682296--87682476 Score: 272
Period size: 49 Copynumber: 3.7 Consensus size: 49
87682286 CTGGTATGCA
*
87682296 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* * * * *
87682345 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATCATCTGATACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* *
87682395 TAGTAGCCTACACTTAGTACTACACATGTGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
*
87682444 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
87682477 TGACAGTAGA
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
49 73 0.63
50 43 0.37
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:87682418 original size:26 final size:26
Alignment explanation
Indices: 87682389--87682469 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
87682379 AATCATCTGA
87682389 TACACATAGTAGCCTACACTTAGTAC
1 TACACATAGTAGCCTACACTTAGTAC
*
87682415 TACACAT-GT-GACC-A-A-TTA-TCCAG
1 TACACATAGTAG-CCTACACTTAGT--AC
* *
87682438 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTACACTTAGTAC
87682464 TACACA
1 TACACA
87682470 CGTGACCTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 18
0.64 0.08 0.28
Matches are distributed among these distances:
21 1 0.02
22 3 0.07
23 8 0.20
24 6 0.15
25 5 0.12
26 14 0.34
27 3 0.07
28 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (26 bp):
TACACATAGTAGCCTACACTTAGTAC
Found at i:87682455 original size:99 final size:99
Alignment explanation
Indices: 87682294--87682477 Score: 341
Period size: 99 Copynumber: 1.9 Consensus size: 99
87682284 ATCTGGTATG
* *
87682294 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACT
1 CATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAGTAGCCTGCACT
87682359 TAGTACTACACACGTGACCTAATCATCTGATACA
66 TAGTACTACACACGTGACCTAATCATCTGATACA
*
87682393 CATAGTAGCCTACACTTAGTACTACACATGTGACCAATTATCCAGTACACGTAGTAGCCTGCACT
1 CATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAGTAGCCTGCACT
87682458 TAGTACTACACACGTGACCT
66 TAGTACTACACACGTGACCT
87682478 GACAGTAGAT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 82 1.00
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (99 bp):
CATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAGTAGCCTGCACT
TAGTACTACACACGTGACCTAATCATCTGATACA
Found at i:87687804 original size:2 final size:2
Alignment explanation
Indices: 87687797--87687847 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
87687787 ACCATTGACG
* *
87687797 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
87687839 TA TA -A TA TA
1 TA TA TA TA TA
87687848 CAAAGCCTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:87695241 original size:2 final size:2
Alignment explanation
Indices: 87695234--87695272 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
87695224 ACCATTGACG
*
87695234 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
87695273 CAAAGCTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:87698129 original size:29 final size:29
Alignment explanation
Indices: 87698041--87698169 Score: 143
Period size: 29 Copynumber: 4.4 Consensus size: 29
87698031 TCGATTTCGT
** * *
87698041 ACACTTAGTGCCATGCGATTT-AAGCCCGC
1 ACACTTAGTGCCAT-ATATTTCCAGCACGC
* *** * *
87698070 ACACATAGTGCCATACCCTTCGAGCTCGC
1 ACACTTAGTGCCATATATTTCCAGCACGC
*
87698099 ACACTTAGTGCCATATATTTCCAGCATGC
1 ACACTTAGTGCCATATATTTCCAGCACGC
87698128 ACACTTAGTGCCATATATTTCCAGCACGC
1 ACACTTAGTGCCATATATTTCCAGCACGC
87698157 ACACTTAGTGCCA
1 ACACTTAGTGCCA
87698170 ATCTCGTCAC
Statistics
Matches: 84, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 82 0.98
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
ACACTTAGTGCCATATATTTCCAGCACGC
Found at i:87700765 original size:40 final size:39
Alignment explanation
Indices: 87700706--87700961 Score: 173
Period size: 40 Copynumber: 6.4 Consensus size: 39
87700696 CACTTGCGAA
87700706 AAAAACGCCGCAAAAGATCA-CTATTAACGGCGCTTATCT
1 AAAAACGCCGCAAAAGATCAGC-ATTAACGGCGCTTATCT
* * * *
87700745 AACAAACGCCGTAAATGATCAAGCATTAGCGACG-TT-TCTT
1 AA-AAACGCCGCAAAAGATC-AGCATTAACGGCGCTTATC-T
* * * * * *
87700785 GAAAAACACCGCTATAGGTCAAGCATTAGCGGCACTTATCT
1 -AAAAACGCCGCAAAAGATC-AGCATTAACGGCGCTTATCT
*
87700826 AAAAACGCCGCAAAAGATCA-CTATTAACGGCGCTTATGT
1 AAAAACGCCGCAAAAGATCAGC-ATTAACGGCGCTTATCT
* * * *
87700865 AACAAACGTCGCAAATGATCAAGCATTAGCGACG-TT-TCTT
1 AA-AAACGCCGCAAAAGATC-AGCATTAACGGCGCTTATC-T
* * * * * *
87700905 GAAAAACACCGCTATAGGTCAAGCATTAGCGGCACTTATCT
1 -AAAAACGCCGCAAAAGATC-AGCATTAACGGCGCTTATCT
87700946 AAAAACGCCGCAAAAG
1 AAAAACGCCGCAAAAG
87700962 TGTTGAGTAA
Statistics
Matches: 167, Mismatches: 35, Indels: 29
0.72 0.15 0.13
Matches are distributed among these distances:
38 1 0.01
39 22 0.13
40 110 0.66
41 28 0.17
42 6 0.04
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (39 bp):
AAAAACGCCGCAAAAGATCAGCATTAACGGCGCTTATCT
Found at i:87700842 original size:120 final size:120
Alignment explanation
Indices: 87700706--87700961 Score: 485
Period size: 120 Copynumber: 2.1 Consensus size: 120
87700696 CACTTGCGAA
*
87700706 AAAAACGCCGCAAAAGATCACTATTAACGGCGCTTATCTAACAAACGCCGTAAATGATCAAGCAT
1 AAAAACGCCGCAAAAGATCACTATTAACGGCGCTTATCTAACAAACGCCGCAAATGATCAAGCAT
87700771 TAGCGACGTTTCTTGAAAAACACCGCTATAGGTCAAGCATTAGCGGCACTTATCT
66 TAGCGACGTTTCTTGAAAAACACCGCTATAGGTCAAGCATTAGCGGCACTTATCT
* *
87700826 AAAAACGCCGCAAAAGATCACTATTAACGGCGCTTATGTAACAAACGTCGCAAATGATCAAGCAT
1 AAAAACGCCGCAAAAGATCACTATTAACGGCGCTTATCTAACAAACGCCGCAAATGATCAAGCAT
87700891 TAGCGACGTTTCTTGAAAAACACCGCTATAGGTCAAGCATTAGCGGCACTTATCT
66 TAGCGACGTTTCTTGAAAAACACCGCTATAGGTCAAGCATTAGCGGCACTTATCT
87700946 AAAAACGCCGCAAAAG
1 AAAAACGCCGCAAAAG
87700962 TGTTGAGTAA
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 133 1.00
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (120 bp):
AAAAACGCCGCAAAAGATCACTATTAACGGCGCTTATCTAACAAACGCCGCAAATGATCAAGCAT
TAGCGACGTTTCTTGAAAAACACCGCTATAGGTCAAGCATTAGCGGCACTTATCT
Found at i:87701754 original size:21 final size:21
Alignment explanation
Indices: 87701730--87701769 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
87701720 TGTTTGTGGG
87701730 TTAGGGTTTAGAGTTTAGGAT
1 TTAGGGTTTAGAGTTTAGGAT
*
87701751 TTAGGGTTTCGAGTTTAGG
1 TTAGGGTTTAGAGTTTAGG
87701770 GTATAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.03, G:0.35, T:0.42
Consensus pattern (21 bp):
TTAGGGTTTAGAGTTTAGGAT
Found at i:87704573 original size:9 final size:9
Alignment explanation
Indices: 87704559--87704656 Score: 94
Period size: 9 Copynumber: 10.8 Consensus size: 9
87704549 CTAGCAACTC
87704559 ACATAATTT
1 ACATAATTT
87704568 ACATAA--T
1 ACATAATTT
*
87704575 ACATAACTT
1 ACATAATTT
87704584 ACATAATTT
1 ACATAATTT
*
87704593 AGAGTTCAAATTT
1 ACA--T--AATTT
*
87704606 -CATAACTT
1 ACATAATTT
87704614 ACATAATTT
1 ACATAATTT
*
87704623 ACATAACTT
1 ACATAATTT
87704632 ACATAATTT
1 ACATAATTT
*
87704641 ACATAACTT
1 ACATAATTT
87704650 ACATAAT
1 ACATAAT
87704657 ACATAAATAT
Statistics
Matches: 73, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
7 7 0.10
8 4 0.05
9 54 0.74
10 1 0.01
11 1 0.01
12 1 0.01
13 5 0.07
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.38
Consensus pattern (9 bp):
ACATAATTT
Found at i:87704629 original size:18 final size:18
Alignment explanation
Indices: 87704554--87704656 Score: 113
Period size: 18 Copynumber: 5.7 Consensus size: 18
87704544 GTTCACTAGC
*
87704554 AACTCACATAATTTACAT
1 AACTTACATAATTTACAT
*
87704572 AA--TACATAACTTACAT
1 AACTTACATAATTTACAT
* *
87704588 AATTTAGAGTTCAAATTT-CAT
1 AACTTACA--T--AATTTACAT
87704609 AACTTACATAATTTACAT
1 AACTTACATAATTTACAT
87704627 AACTTACATAATTTACAT
1 AACTTACATAATTTACAT
87704645 AACTTACATAAT
1 AACTTACATAAT
87704657 ACATAAATAT
Statistics
Matches: 72, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
16 14 0.19
17 5 0.07
18 38 0.53
19 1 0.01
20 1 0.01
21 9 0.12
22 4 0.06
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.37
Consensus pattern (18 bp):
AACTTACATAATTTACAT
Found at i:87710224 original size:21 final size:21
Alignment explanation
Indices: 87710186--87710244 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
87710176 AGCAGCGAGG
* *
87710186 GAGGCAGCGGTAGCAGCAAAA
1 GAGGCAGAGGCAGCAGCAAAA
* *
87710207 GAGGCAGAGGCAGTAGCAAGA
1 GAGGCAGAGGCAGCAGCAAAA
* *
87710228 GAGTCAGAGGCAACAGC
1 GAGGCAGAGGCAGCAGC
87710245 GATGGCAAAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.37, C:0.19, G:0.39, T:0.05
Consensus pattern (21 bp):
GAGGCAGAGGCAGCAGCAAAA
Found at i:87710536 original size:31 final size:31
Alignment explanation
Indices: 87710478--87710594 Score: 153
Period size: 31 Copynumber: 3.7 Consensus size: 31
87710468 TTAGATTTAA
* * *
87710478 TGTTTTTGGTTGTATTTTTTATGCTATATTTGT
1 TGTTTTTGGTTGGA--TTTCATGCTATATTTGC
87710511 TGTTTTTGGTTGGATTTCATGCTATATTTGC
1 TGTTTTTGGTTGGATTTCATGCTATATTTGC
*
87710542 TGTTTTTTGTTGGATTTCATGCTATATTTGC
1 TGTTTTTGGTTGGATTTCATGCTATATTTGC
* * *
87710573 TATTTTTTGTTGGATTTAATGC
1 TGTTTTTGGTTGGATTTCATGC
87710595 AGGAAGGGTT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
31 65 0.83
33 13 0.17
ACGTcount: A:0.14, C:0.07, G:0.20, T:0.60
Consensus pattern (31 bp):
TGTTTTTGGTTGGATTTCATGCTATATTTGC
Found at i:87710862 original size:31 final size:31
Alignment explanation
Indices: 87710804--87710920 Score: 153
Period size: 31 Copynumber: 3.7 Consensus size: 31
87710794 TTAGATTTAA
* * *
87710804 TGTTTTTGGTTGTATTTTTTATGCTATATTGGT
1 TGTTTTTGGTTGGA--TTTCATGCTATATTTGT
*
87710837 TGTTTTTGGTTGGATTTCATGCTATATTTGC
1 TGTTTTTGGTTGGATTTCATGCTATATTTGT
*
87710868 TGTTTTTTGTTGGATTTCATGCTATATTTGT
1 TGTTTTTGGTTGGATTTCATGCTATATTTGT
* *
87710899 TGTTTTTTGTTGGATTTAATGC
1 TGTTTTTGGTTGGATTTCATGC
87710921 ATGAAGGGTT
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
31 64 0.83
33 13 0.17
ACGTcount: A:0.13, C:0.06, G:0.21, T:0.60
Consensus pattern (31 bp):
TGTTTTTGGTTGGATTTCATGCTATATTTGT
Found at i:87710929 original size:326 final size:326
Alignment explanation
Indices: 87710328--87710979 Score: 1214
Period size: 326 Copynumber: 2.0 Consensus size: 326
87710318 AGTCGCAAAA
*
87710328 GCCGTTATCTTAGACATTTGTTTTCTCGTTGTAAGACTATTTTTAACATTGTCACATTTAAAATT
1 GCCGTCATCTTAGACATTTGTTTTCTCGTTGTAAGACTATTTTTAACATTGTCACATTTAAAATT
*
87710393 ATTGTAAGAATATTTTGAGTTATACTTTTTTTATTAATTTACATCATATACCTTTCGTTGAATTT
66 ATTGTAAGAATATTTTGAGTTATACTTTATTTATTAATTTACATCATATACCTTTCGTTGAATTT
*
87710458 GAAGTATCATTTAGATTTAATGTTTTTGGTTGTATTTTTTATGCTATATTTGTTGTTTTTGGTTG
131 GAAGTATCATTTAGATTTAATGTTTTTGGTTGTATTTTTTATGCTATATTGGTTGTTTTTGGTTG
87710523 GATTTCATGCTATATTTGCTGTTTTTTGTTGGATTTCATGCTATATTTGCTATTTTTTGTTGGAT
196 GATTTCATGCTATATTTGCTGTTTTTTGTTGGATTTCATGCTATATTTGCTATTTTTTGTTGGAT
* *
87710588 TTAATGCAGGAAGGGTTTGACATTGGTGAAAATGTATATTGCAAATCTGCCAAAATTAGCGGCGT
261 TTAATGCAGGAAGGGTTCGACATTGGTAAAAATGTATATTGCAAATCTGCCAAAATTAGCGGCGT
87710653 T
326 T
87710654 GCCGTCATCTTAGACATTTGTTTTCTCGTTGTAAGACTATTTTTAACATTGTCACATTTAAAATT
1 GCCGTCATCTTAGACATTTGTTTTCTCGTTGTAAGACTATTTTTAACATTGTCACATTTAAAATT
*
87710719 ATTGTAAGAATATTTTGAGTTATACTTTATTTATTAATTTACATCATATATCTTTCGTTGAATTT
66 ATTGTAAGAATATTTTGAGTTATACTTTATTTATTAATTTACATCATATACCTTTCGTTGAATTT
87710784 GAAGTATCATTTAGATTTAATGTTTTTGGTTGTATTTTTTATGCTATATTGGTTGTTTTTGGTTG
131 GAAGTATCATTTAGATTTAATGTTTTTGGTTGTATTTTTTATGCTATATTGGTTGTTTTTGGTTG
* *
87710849 GATTTCATGCTATATTTGCTGTTTTTTGTTGGATTTCATGCTATATTTGTTGTTTTTTGTTGGAT
196 GATTTCATGCTATATTTGCTGTTTTTTGTTGGATTTCATGCTATATTTGCTATTTTTTGTTGGAT
* *
87710914 TTAATGCATGAAGGGTTCGATATTGGTAAAAATGTATATTGCAAATCTGCCAAAATTAGCGGCGT
261 TTAATGCAGGAAGGGTTCGACATTGGTAAAAATGTATATTGCAAATCTGCCAAAATTAGCGGCGT
87710979 T
326 T
87710980 TGTAACAAAA
Statistics
Matches: 316, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
326 316 1.00
ACGTcount: A:0.24, C:0.10, G:0.17, T:0.49
Consensus pattern (326 bp):
GCCGTCATCTTAGACATTTGTTTTCTCGTTGTAAGACTATTTTTAACATTGTCACATTTAAAATT
ATTGTAAGAATATTTTGAGTTATACTTTATTTATTAATTTACATCATATACCTTTCGTTGAATTT
GAAGTATCATTTAGATTTAATGTTTTTGGTTGTATTTTTTATGCTATATTGGTTGTTTTTGGTTG
GATTTCATGCTATATTTGCTGTTTTTTGTTGGATTTCATGCTATATTTGCTATTTTTTGTTGGAT
TTAATGCAGGAAGGGTTCGACATTGGTAAAAATGTATATTGCAAATCTGCCAAAATTAGCGGCGT
T
Found at i:87711087 original size:43 final size:43
Alignment explanation
Indices: 87711039--87711275 Score: 275
Period size: 43 Copynumber: 5.5 Consensus size: 43
87711029 AAAAGCGTCG
87711039 CTAAAGGCCATGACTTTTAGCGGCTCTTCTCCCACAAATC-CCA
1 CTAAAGGCCATGACTTTTAGCGGCTCTTCTCCCACAAA-CGCCA
* * * *
87711082 CTAAAGGCTATCACTTTTAGTGGCGCTTCTCCCACAAACGCCA
1 CTAAAGGCCATGACTTTTAGCGGCTCTTCTCCCACAAACGCCA
* *
87711125 CCAAAAGGCCATGACTTTTAGCGG-TGCTTCTCCCACAAACGCCG
1 -CTAAAGGCCATGACTTTTAGCGGCT-CTTCTCCCACAAACGCCA
* * * * *
87711169 CTAAAGGCTATGACTTTTAGTGGCGCTTCTCCCACAAATG-TA
1 CTAAAGGCCATGACTTTTAGCGGCTCTTCTCCCACAAACGCCA
* * *
87711211 GCTAAAGGTCATGACTTTTAGCGG-TGCTTCTCCTACAAGCGCCA
1 -CTAAAGGCCATGACTTTTAGCGGCT-CTTCTCCCACAAACGCCA
87711255 CTAAAGGCCATGACTTTTAGC
1 CTAAAGGCCATGACTTTTAGC
87711276 TGTACTTTTT
Statistics
Matches: 161, Mismatches: 26, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
42 1 0.01
43 123 0.76
44 37 0.23
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (43 bp):
CTAAAGGCCATGACTTTTAGCGGCTCTTCTCCCACAAACGCCA
Found at i:87711292 original size:87 final size:86
Alignment explanation
Indices: 87711038--87711274 Score: 343
Period size: 87 Copynumber: 2.7 Consensus size: 86
87711028 TAAAAGCGTC
*
87711038 GCTAAAGGCCATGACTTTTAGCGGCT-CTTCTCCCACAAATC-CCACTAAAGGCTATCACTTTTA
1 GCTAAAGGCCATGACTTTTAGCGG-TGCTTCTCCCACAAA-CGCCACTAAAGGCTATGACTTTTA
*
87711101 GTGGCGCTTCTCCCACAAACGCCA
64 GTGGCGCTTCTCCCACAAACG-TA
* * *
87711125 CCAAAAGGCCATGACTTTTAGCGGTGCTTCTCCCACAAACGCCGCTAAAGGCTATGACTTTTAGT
1 GCTAAAGGCCATGACTTTTAGCGGTGCTTCTCCCACAAACGCCACTAAAGGCTATGACTTTTAGT
*
87711190 GGCGCTTCTCCCACAAATGTA
66 GGCGCTTCTCCCACAAACGTA
* * * *
87711211 GCTAAAGGTCATGACTTTTAGCGGTGCTTCTCCTACAAGCGCCACTAAAGGCCATGACTTTTAG
1 GCTAAAGGCCATGACTTTTAGCGGTGCTTCTCCCACAAACGCCACTAAAGGCTATGACTTTTAG
87711275 CTGTACTTTT
Statistics
Matches: 135, Mismatches: 13, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
86 60 0.44
87 75 0.56
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (86 bp):
GCTAAAGGCCATGACTTTTAGCGGTGCTTCTCCCACAAACGCCACTAAAGGCTATGACTTTTAGT
GGCGCTTCTCCCACAAACGTA
Found at i:87711303 original size:130 final size:130
Alignment explanation
Indices: 87711037--87711295 Score: 344
Period size: 130 Copynumber: 2.0 Consensus size: 130
87711027 ATAAAAGCGT
*
87711037 CGCTAAAGGCCATGACTTTTAGCGGCTCTTCTCCCACAAATCCCACTAAAGGCTATCACTTTTAG
1 CGCTAAAGGCCATGACTTTTAGCGGCGCTTCTCCCACAAATCCCACTAAAGGCTATCACTTTTAG
* *
87711102 TGGCGCTTCTCCCACAAACGCCACCAAAAGGCCATGACTTTTAGCGGTGCTTCTCCCACAAACGC
66 CGGCGCTTCTCCCACAAACGCCACCAAAAGGCCATGACTTTTAGCGGTACTTCTCCCACAAACGC
* * ** *
87711167 CGCTAAAGGCTATGACTTTTAGTGGCGCTTCTCCCACAAAT-GTAGCTAAAGG-TCATGACTTTT
1 CGCTAAAGGCCATGACTTTTAGCGGCGCTTCTCCCACAAATCCCA-CTAAAGGCT-ATCACTTTT
* * * * * *
87711230 AGCGGTGCTTCTCCTACAAGCGCCA-CTAAAGGCCATGACTTTTAGCTGTACTTTTTCCCACAAA
64 AGCGGCGCTTCTCCCACAAACGCCACCAAAAGGCCATGACTTTTAGCGGTAC-TTCTCCCACAAA
87711294 CG
128 CG
87711296 TTGCTAAAAG
Statistics
Matches: 112, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
129 25 0.22
130 87 0.78
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (130 bp):
CGCTAAAGGCCATGACTTTTAGCGGCGCTTCTCCCACAAATCCCACTAAAGGCTATCACTTTTAG
CGGCGCTTCTCCCACAAACGCCACCAAAAGGCCATGACTTTTAGCGGTACTTCTCCCACAAACGC
Found at i:87712381 original size:28 final size:26
Alignment explanation
Indices: 87712347--87712397 Score: 93
Period size: 26 Copynumber: 1.9 Consensus size: 26
87712337 AAAGAAAGAA
87712347 AAAAAGAGAAGCAAAATAGAGAGAGAG
1 AAAAA-AGAAGCAAAATAGAGAGAGAG
87712374 AAAAAAGAAGCAAAATAGAGAGAG
1 AAAAAAGAAGCAAAATAGAGAGAG
87712398 GGAAGGAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.65, C:0.04, G:0.27, T:0.04
Consensus pattern (26 bp):
AAAAAAGAAGCAAAATAGAGAGAGAG
Found at i:87712731 original size:16 final size:16
Alignment explanation
Indices: 87712710--87712772 Score: 51
Period size: 16 Copynumber: 4.0 Consensus size: 16
87712700 TTTTATTTTT
87712710 TTATGTAATTTATTTG
1 TTATGTAATTTATTTG
* **
87712726 TTATGT-GTTT-TAGG
1 TTATGTAATTTATTTG
*
87712740 TTGAT-TAGATTTATTTT
1 TT-ATGTA-ATTTATTTG
87712757 TTATGTAATTTATTTG
1 TTATGTAATTTATTTG
87712773 GCATGTTATT
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
14 5 0.15
15 5 0.15
16 19 0.56
17 5 0.15
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (16 bp):
TTATGTAATTTATTTG
Found at i:87715258 original size:31 final size:33
Alignment explanation
Indices: 87715223--87715293 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
87715213 GTACAGGACT
*
87715223 CTTCTCT-G-CCCGTATCCACCACATTACTCCA
1 CTTCTCTCGCCCCATATCCACCACATTACTCCA
* *
87715254 CTTCTCTCGCCCCATATCCACCATATTACTTCA
1 CTTCTCTCGCCCCATATCCACCACATTACTCCA
*
87715287 CTCCTCT
1 CTTCTCT
87715294 TGTTCGTATC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 7 0.21
32 1 0.03
33 26 0.76
ACGTcount: A:0.18, C:0.45, G:0.04, T:0.32
Consensus pattern (33 bp):
CTTCTCTCGCCCCATATCCACCACATTACTCCA
Found at i:87715759 original size:48 final size:48
Alignment explanation
Indices: 87715659--87715751 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
87715649 CAACATTATA
* * *
87715659 ACATTACAACATTAAAACTTGAAATAAACTTTGTAATATAAATTAAAT
1 ACATTACAAAATTAAAACTTGAAACAAACTTTGTAATACAAATTAAAT
*
87715707 ACATTACAAAATTAAAACTTGGAACAAACTTTGTAATACAAATTA
1 ACATTACAAAATTAAAACTTGAAACAAACTTTGTAATACAAATTA
87715752 GGTACATTGG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (48 bp):
ACATTACAAAATTAAAACTTGAAACAAACTTTGTAATACAAATTAAAT
Found at i:87718268 original size:21 final size:21
Alignment explanation
Indices: 87718242--87718284 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
87718232 AAATTGAAAA
87718242 CTTGTAGAAAAGTTTCGAGAT
1 CTTGTAGAAAAGTTTCGAGAT
87718263 CTTGTAGAAAAGTTTCGAGAT
1 CTTGTAGAAAAGTTTCGAGAT
87718284 C
1 C
87718285 CTTCTTCCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.33
Consensus pattern (21 bp):
CTTGTAGAAAAGTTTCGAGAT
Found at i:87721546 original size:2 final size:2
Alignment explanation
Indices: 87721539--87721569 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
87721529 ATTATAACAT
87721539 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
87721570 GTTGTGTGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:87722095 original size:3 final size:3
Alignment explanation
Indices: 87722087--87722123 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
87722077 AAGTCTATTT
*
87722087 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATT ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
87722124 AAGTTTAACC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:87722937 original size:6 final size:6
Alignment explanation
Indices: 87722928--87722957 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
87722918 TTTTTTTGAA
87722928 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
87722958 TAAAATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:87723519 original size:14 final size:14
Alignment explanation
Indices: 87723500--87723529 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
87723490 ATAAAAATAT
87723500 AATAAAAATTTAAA
1 AATAAAAATTTAAA
*
87723514 AATAAATATTTAAA
1 AATAAAAATTTAAA
87723528 AA
1 AA
87723530 AATACATGTC
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAAAAATTTAAA
Found at i:87724985 original size:26 final size:27
Alignment explanation
Indices: 87724955--87725014 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 27
87724945 AAAAATGTAT
87724955 ATATAAAAATCGTAAAAAAAT-AAAAA
1 ATATAAAAATCGTAAAAAAATAAAAAA
* ** *
87724981 CTAT-AAAATTTTATAAAAATAAAAAA
1 ATATAAAAATCGTAAAAAAATAAAAAA
87725007 ATATAAAA
1 ATATAAAA
87725015 TGCATAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
25 13 0.48
26 11 0.41
27 3 0.11
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (27 bp):
ATATAAAAATCGTAAAAAAATAAAAAA
Found at i:87724988 original size:25 final size:26
Alignment explanation
Indices: 87724955--87725026 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 26
87724945 AAAAATGTAT
*
87724955 ATATAAAAATCGTAAAAAAAT-AAAAA
1 ATAT-AAAATCATAAAAAAATAAAAAA
* ** *
87724981 CTATAAAATTTTATAAAAATAAAAAA
1 ATATAAAATCATAAAAAAATAAAAAA
87725007 ATATAAAATGCATAAAAAAA
1 ATATAAAAT-CATAAAAAAA
87725027 ATTTTAACTG
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
25 13 0.36
26 16 0.44
27 7 0.19
ACGTcount: A:0.69, C:0.04, G:0.03, T:0.24
Consensus pattern (26 bp):
ATATAAAATCATAAAAAAATAAAAAA
Found at i:87725107 original size:19 final size:20
Alignment explanation
Indices: 87725056--87725107 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
87725046 AAAGTTAACG
*
87725056 AATTTTTATAATTTTTTTAC
1 AATTTTTATAATTTCTTTAC
* *
87725076 AAATTGTAT-ATTTCTTTAC
1 AATTTTTATAATTTCTTTAC
*
87725095 -TTTTTTATAATTT
1 AATTTTTATAATTT
87725108 TCTTACTACT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
18 5 0.20
19 13 0.52
20 7 0.28
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (20 bp):
AATTTTTATAATTTCTTTAC
Found at i:87725170 original size:9 final size:9
Alignment explanation
Indices: 87725158--87725266 Score: 51
Period size: 9 Copynumber: 11.7 Consensus size: 9
87725148 TTTCTATATA
87725158 TTTTATAATTT
1 TTTTATAA--T
*
87725169 TTTTATGAT
1 TTTTATAAT
*
87725178 TTTTATAAAA
1 TTTTAT-AAT
* *
87725188 TTTTA-CAC
1 TTTTATAAT
*
87725196 TTTTATATT
1 TTTTATAAT
*
87725205 TTTTATATT
1 TTTTATAAT
*
87725214 TTTTCTAAT
1 TTTTATAAT
*
87725223 TTTTATATTT
1 TTTTATA-AT
*
87725233 TTTTATTAAA
1 TTTTA-TAAT
*
87725243 ATTTA-ATAT
1 TTTTATA-AT
*
87725252 TTTTATAAA
1 TTTTATAAT
87725261 TTTTAT
1 TTTTAT
87725267 TGATTTTTGT
Statistics
Matches: 74, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
8 7 0.09
9 41 0.55
10 17 0.23
11 9 0.12
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (9 bp):
TTTTATAAT
Found at i:87725217 original size:18 final size:17
Alignment explanation
Indices: 87725196--87725239 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
87725186 AATTTTACAC
*
87725196 TTTTATATTTTTTATAT
1 TTTTTTATTTTTTATAT
*
87725213 TTTTTCTAATTTTTATAT
1 TTTTT-TATTTTTTATAT
87725231 TTTTTTATT
1 TTTTTTATT
87725240 AAAATTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTTATTTTTTATAT
Found at i:87725225 original size:56 final size:57
Alignment explanation
Indices: 87725138--87725246 Score: 141
Period size: 56 Copynumber: 1.9 Consensus size: 57
87725128 TTGTAAATTT
* *
87725138 CTTTTCTATATTTCTATATATTTTATAATTTTTTTATGATTTTTA-TAAAATTTTACA
1 CTTTTATATATTTCTATATATTTTATAATTTTTATAT-ATTTTTATTAAAATTTTACA
* * * *
87725195 CTTTTATAT-TTTTTATATTTTTTCTAATTTTTATATTTTTTTATTAAAATTT
1 CTTTTATATATTTCTATATATTTTATAATTTTTATATATTTTTATTAAAATTT
87725247 AATATTTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
55 6 0.13
56 31 0.69
57 8 0.18
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.66
Consensus pattern (57 bp):
CTTTTATATATTTCTATATATTTTATAATTTTTATATATTTTTATTAAAATTTTACA
Found at i:87725249 original size:27 final size:27
Alignment explanation
Indices: 87725163--87725254 Score: 64
Period size: 27 Copynumber: 3.3 Consensus size: 27
87725153 ATATATTTTA
* *
87725163 TAATTTTTTTATGATTTTTA-TAAAATTT
1 TAATTTTTATAT-TTTTTTATTAAAA-TT
* **
87725191 TACACTTTTATATTTTTTATATT--TTTT
1 TA-ATTTTTATATTTTTT-TATTAAAATT
87725218 CTAATTTTTATATTTTTTTATTAAAATT
1 -TAATTTTTATATTTTTTTATTAAAATT
87725246 TAATATTTT
1 TAAT-TTTT
87725255 TATAAATTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
26 4 0.08
27 20 0.41
28 14 0.29
29 10 0.20
30 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (27 bp):
TAATTTTTATATTTTTTTATTAAAATT
Found at i:87725265 original size:56 final size:56
Alignment explanation
Indices: 87725138--87725266 Score: 134
Period size: 56 Copynumber: 2.3 Consensus size: 56
87725128 TTGTAAATTT
* * * *
87725138 CTTTTCTATATTTCTATATATTTTATAATTTTTTTATGATTTTTATAAAATTTTACA
1 CTTTTATAAATTT-TATATATTTTATAATTTTTATATGATTTTTATAAAATTTAACA
** * * * *
87725195 CTTTTATATTTTTTATATTTTTTCTAATTTTTATAT-TTTTTTATTAAAATTTAATA
1 CTTTTATAAATTTTATATATTTTATAATTTTTATATGATTTTTA-TAAAATTTAACA
*
87725251 TTTTTATAAATTTTAT
1 CTTTTATAAATTTTAT
87725267 TGATTTTTGT
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
55 6 0.10
56 43 0.72
57 11 0.18
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (56 bp):
CTTTTATAAATTTTATATATTTTATAATTTTTATATGATTTTTATAAAATTTAACA
Found at i:87726031 original size:3 final size:3
Alignment explanation
Indices: 87726025--87726063 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
87726015 TGTTTTAAGC
*
87726025 TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
87726064 ACATATCAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:87726232 original size:22 final size:23
Alignment explanation
Indices: 87726207--87726253 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
87726197 TTAATGAATA
* *
87726207 TATTGTTTTT-AATTTTTTTAAT
1 TATTCTTTTTAAATCTTTTTAAT
87726229 TATTCTTTTTAAATCTTTTTAAT
1 TATTCTTTTTAAATCTTTTTAAT
87726252 TA
1 TA
87726254 ATAACTTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (23 bp):
TATTCTTTTTAAATCTTTTTAAT
Found at i:87735838 original size:40 final size:40
Alignment explanation
Indices: 87735735--87735844 Score: 141
Period size: 40 Copynumber: 2.8 Consensus size: 40
87735725 GGATTTAGCT
* *
87735735 GGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCC
1 GGATATAACAACTCGCACAAATGCCTTCGGGACATAGCCC
* * *
87735775 GAATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCC
1 GGATATAA-CAACTCGCACAAATGCCTTCGGGACATAGCCC
* *
87735815 GGATATAGCAACTCGCACGAATGCCTTCGG
1 GGATATAACAACTCGCACAAATGCCTTCGG
87735845 ATCTTAGTCC
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
39 1 0.02
40 56 0.97
41 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (40 bp):
GGATATAACAACTCGCACAAATGCCTTCGGGACATAGCCC
Found at i:87743646 original size:40 final size:40
Alignment explanation
Indices: 87743591--87743754 Score: 222
Period size: 40 Copynumber: 4.1 Consensus size: 40
87743581 TGGGATTTAT
*
87743591 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
87743631 CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * * *
87743671 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGC
1 CCGGATAT-AGCAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
87743711 CCGGATATAGCAACTGGCACGAATGCCTTCGGATCTTAGT
1 CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
87743751 CCGG
1 CCGG
87743755 TTATCATCCG
Statistics
Matches: 108, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 2 0.02
40 104 0.96
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:87745595 original size:2 final size:2
Alignment explanation
Indices: 87745588--87745612 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
87745578 GGGGTGCCAT
87745588 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
87745613 GTAGCAAGTT
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:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:87745909 original size:18 final size:19
Alignment explanation
Indices: 87745886--87745924 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
87745876 AATTTGAAAC
* *
87745886 AAAACA-GATAATTTTGGA
1 AAAACATGAAAATTTGGGA
87745904 AAAACATGAAAATTTGGGA
1 AAAACATGAAAATTTGGGA
87745923 AA
1 AA
87745925 CAGGGGTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.54, C:0.05, G:0.18, T:0.23
Consensus pattern (19 bp):
AAAACATGAAAATTTGGGA
Found at i:87753032 original size:45 final size:45
Alignment explanation
Indices: 87752968--87753060 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
87752958 ACACTTGCCT
87752968 AAAGGGTTCGATACTTTAATCACAAATTCAGTAGACTCTACAGGC
1 AAAGGGTTCGATACTTTAATCACAAATTCAGTAGACTCTACAGGC
87753013 AAAGGGTTCGATACTTTAATCACAAATTCAGTAGACTCTACAGGC
1 AAAGGGTTCGATACTTTAATCACAAATTCAGTAGACTCTACAGGC
87753058 AAA
1 AAA
87753061 CTCTTACTGG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (45 bp):
AAAGGGTTCGATACTTTAATCACAAATTCAGTAGACTCTACAGGC
Found at i:87757220 original size:66 final size:66
Alignment explanation
Indices: 87757114--87757245 Score: 255
Period size: 66 Copynumber: 2.0 Consensus size: 66
87757104 GTTTATTTAT
*
87757114 ACCAAATTACATATTTAACCTTTACTAAACCATTTAAAATCATCATAATATATGCCCATTTATGA
1 ACCAAATTACATATTTAACCTTTACAAAACCATTTAAAATCATCATAATATATGCCCATTTATGA
87757179 C
66 C
87757180 ACCAAATTACATATTTAACCTTTACAAAACCATTTAAAATCATCATAATATATGCCCATTTATGA
1 ACCAAATTACATATTTAACCTTTACAAAACCATTTAAAATCATCATAATATATGCCCATTTATGA
87757245 C
66 C
87757246 CATTCCCACT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.34
Consensus pattern (66 bp):
ACCAAATTACATATTTAACCTTTACAAAACCATTTAAAATCATCATAATATATGCCCATTTATGA
C
Found at i:87758022 original size:17 final size:17
Alignment explanation
Indices: 87758000--87758033 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
87757990 TTACATTTTC
*
87758000 TCTTTCGTATTCTCAAT
1 TCTTTCATATTCTCAAT
87758017 TCTTTCATATTCTCAAT
1 TCTTTCATATTCTCAAT
87758034 AACATAGTTC
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:0.21, C:0.24, G:0.03, T:0.53
Consensus pattern (17 bp):
TCTTTCATATTCTCAAT
Found at i:87764478 original size:3 final size:3
Alignment explanation
Indices: 87764461--87764515 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
87764451 ATCGAAACTC
* *
87764461 TAT TAT TGT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
87764509 TAT TAT T
1 TAT TAT T
87764516 TGCAAGAACA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:87765824 original size:12 final size:12
Alignment explanation
Indices: 87765807--87765838 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
87765797 CTATTAACAC
87765807 GACTCGGACTCA
1 GACTCGGACTCA
87765819 GACTCGGACTCA
1 GACTCGGACTCA
87765831 GACTCGGA
1 GACTCGGA
87765839 TCCAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.25, C:0.31, G:0.28, T:0.16
Consensus pattern (12 bp):
GACTCGGACTCA
Found at i:87766206 original size:24 final size:24
Alignment explanation
Indices: 87766161--87766207 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
87766151 TATATATATC
87766161 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
87766185 AATTC-ATCATATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
87766208 TCCATTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:87766497 original size:18 final size:18
Alignment explanation
Indices: 87766476--87766515 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
87766466 TTACTTCTCC
87766476 ATTTCTATTCCTTTT-TTT
1 ATTTC-ATTCCTTTTATTT
*
87766494 ATTTCATTTCTTTTATTT
1 ATTTCATTCCTTTTATTT
87766512 ATTT
1 ATTT
87766516 GTTTACTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTCATTCCTTTTATTT
Found at i:87766538 original size:5 final size:5
Alignment explanation
Indices: 87766528--87766586 Score: 100
Period size: 5 Copynumber: 11.8 Consensus size: 5
87766518 TTACTCTTTT
* *
87766528 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TACAA TACAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
87766578 TATAA TATA
1 TATAA TATA
87766587 TATTTAAATA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 52 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.37
Consensus pattern (5 bp):
TATAA
Found at i:87766634 original size:20 final size:19
Alignment explanation
Indices: 87766609--87766656 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
87766599 AAGTATTACA
*
87766609 TATATTATTATATACATATG
1 TATATTATT-TATACACATG
*
87766629 TATATTATTTTTACACATG
1 TATATTATTTATACACATG
87766648 TA-ATTATTT
1 TATATTATTT
87766657 TTACCATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 7 0.27
19 10 0.38
20 9 0.35
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.54
Consensus pattern (19 bp):
TATATTATTTATACACATG
Found at i:87766655 original size:18 final size:19
Alignment explanation
Indices: 87766609--87766660 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
87766599 AAGTATTACA
* *
87766609 TATATTATTATATACATATG
1 TATATTATT-TTTACACATG
87766629 TATATTATTTTTACACATG
1 TATATTATTTTTACACATG
87766648 TA-ATTATTTTTAC
1 TATATTATTTTTAC
87766661 CATACACTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.37
19 10 0.33
20 9 0.30
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.54
Consensus pattern (19 bp):
TATATTATTTTTACACATG
Found at i:87780635 original size:40 final size:40
Alignment explanation
Indices: 87780576--87780743 Score: 171
Period size: 40 Copynumber: 4.2 Consensus size: 40
87780566 AAATTGAATG
* *
87780576 ATATCCGGGCTAA-ATCCCGAAGACAATTATGCTGGAGATT
1 ATATCCGGGCTAAGA-CCCGAAGGCAATTGTGCTGGAGATT
* * * **
87780616 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAGATT
*
87780656 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAGATT
* * ** *
87780696 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAGATT
87780736 ATATCCGG
1 ATATCCGG
87780744 TTATATTCCG
Statistics
Matches: 104, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
39 3 0.03
40 98 0.94
41 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAGATT
Found at i:87788621 original size:40 final size:40
Alignment explanation
Indices: 87788562--87788713 Score: 157
Period size: 40 Copynumber: 3.8 Consensus size: 40
87788552 AAATTGAATG
* *
87788562 ATATCCGGGCTAA-ATCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGA-CCCGAAGGCAATTGTGCTGGAAATT
* * ****
87788602 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
*
87788642 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
87788682 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
87788714 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
39 3 0.03
40 86 0.93
41 3 0.03
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:87788727 original size:40 final size:40
Alignment explanation
Indices: 87788599--87788729 Score: 165
Period size: 40 Copynumber: 3.3 Consensus size: 40
87788589 TATGCTGGAA
* * *
87788599 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * **
87788639 GCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
87788679 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
87788719 ATTATATCCGG
1 ATTATATCCGG
87788730 TTATATTCCG
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:87793069 original size:40 final size:40
Alignment explanation
Indices: 87793025--87793157 Score: 103
Period size: 40 Copynumber: 3.4 Consensus size: 40
87793015 ACCAGTTTGG
*
87793025 CACCCAGTGCCTCATCGGATAATTCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGGATAATACGAAGTAATAAATTGA
* * * *
87793065 CACCCGGTGTCTCATCGGTTAA-ACTGAAGTAAT---TTGG
1 CACCCAGTGCCTCATCGGATAATAC-GAAGTAATAAATTGA
** * * * * *
87793102 CATTCAGTGCCTCATCGAATTTATCCGATGTAGTAAATTGA
1 CACCCAGTGCCTCATCGGA-TAATACGAAGTAATAAATTGA
*
87793143 CACCCAGTGTCTCAT
1 CACCCAGTGCCTCAT
87793158 TCACTCGAAG
Statistics
Matches: 68, Mismatches: 19, Indels: 11
0.69 0.19 0.11
Matches are distributed among these distances:
37 16 0.24
38 8 0.12
39 2 0.03
40 27 0.40
41 15 0.22
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGGATAATACGAAGTAATAAATTGA
Found at i:87793352 original size:24 final size:24
Alignment explanation
Indices: 87793307--87793353 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
87793297 TATATATATT
87793307 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
87793331 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
87793354 TCTATTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:87793596 original size:22 final size:21
Alignment explanation
Indices: 87793562--87793604 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
87793552 AAAACCCTAA
87793562 CTTTTTCTCCTTT-TTCTTTCT
1 CTTTTTCTCCTTTATT-TTTCT
*
87793583 CTTTTTCCTTCTTTATTTTTCT
1 CTTTTT-CTCCTTTATTTTTCT
87793605 TTCGTTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 11 0.58
23 2 0.11
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (21 bp):
CTTTTTCTCCTTTATTTTTCT
Found at i:87793605 original size:20 final size:20
Alignment explanation
Indices: 87793564--87793606 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
87793554 AACCCTAACT
*
87793564 TTTTCTCCTTTTTCTTTCTC
1 TTTTCTCCTTTTTATTTCTC
*
87793584 TTTT-TCCTTCTTTATTTTTC
1 TTTTCTCCTT-TTTATTTCTC
87793604 TTT
1 TTT
87793607 CGTTTTACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTCTCCTTTTTATTTCTC
Found at i:87793629 original size:6 final size:6
Alignment explanation
Indices: 87793618--87793655 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
87793608 GTTTTACTTC
* *
87793618 TCTATT TCTATT TCTATT CCTTTT TCTATT TC-ATT TCT
1 TCTATT TCTATT TCTATT TCTATT TCTATT TCTATT TCT
87793656 TTTATTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.13, C:0.21, G:0.00, T:0.66
Consensus pattern (6 bp):
TCTATT
Found at i:87793631 original size:24 final size:24
Alignment explanation
Indices: 87793585--87793631 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
87793575 TTCTTTCTCT
* * * *
87793585 TTTTCCTTCTTTATTTTTCTTTCG
1 TTTTACTTCTCTATTTCTATTTCG
87793609 TTTTACTTCTCTATTTCTATTTC
1 TTTTACTTCTCTATTTCTATTTC
87793632 TATTCCTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.09, C:0.21, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTTACTTCTCTATTTCTATTTCG
Found at i:87793666 original size:18 final size:18
Alignment explanation
Indices: 87793622--87793658 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
87793612 TACTTCTCTA
87793622 TTTCTATTTCTATTCCTT
1 TTTCTATTTCTATTCCTT
*
87793640 TTTCTATTTC-ATTTCTT
1 TTTCTATTTCTATTCCTT
87793657 TT
1 TT
87793659 ATTTATTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.11, C:0.19, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTCTATTTCTATTCCTT
Found at i:87793763 original size:20 final size:19
Alignment explanation
Indices: 87793738--87793785 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
87793728 AAGTATTTCA
*
87793738 TATATTATTATATACATATG
1 TATATTATT-TATACACATG
*
87793758 TATATTATTTTTACACATG
1 TATATTATTTATACACATG
87793777 TA-ATTATTT
1 TATATTATTT
87793786 TTACCATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 7 0.27
19 10 0.38
20 9 0.35
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.54
Consensus pattern (19 bp):
TATATTATTTATACACATG
Found at i:87793784 original size:18 final size:19
Alignment explanation
Indices: 87793738--87793789 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
87793728 AAGTATTTCA
* *
87793738 TATATTATTATATACATATG
1 TATATTATT-TTTACACATG
87793758 TATATTATTTTTACACATG
1 TATATTATTTTTACACATG
87793777 TA-ATTATTTTTAC
1 TATATTATTTTTAC
87793790 CATACACTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.37
19 10 0.33
20 9 0.30
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.54
Consensus pattern (19 bp):
TATATTATTTTTACACATG
Found at i:87795234 original size:20 final size:22
Alignment explanation
Indices: 87795205--87795244 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
87795195 ATTGATTTAT
*
87795205 GGAAATTATA-AT-TATTATTA
1 GGAAAATATATATATATTATTA
87795225 GGAAAATATATATATATTAT
1 GGAAAATATATATATATTAT
87795245 CGTATTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (22 bp):
GGAAAATATATATATATTATTA
Found at i:87797241 original size:25 final size:25
Alignment explanation
Indices: 87797194--87797241 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
87797184 CCTTATACCA
* * *
87797194 TAAAAATGACCGTTTTGCCCCTAAG
1 TAAAAATGACCATTATACCCCTAAG
*
87797219 TAAAAATGACCATTATACTCCTA
1 TAAAAATGACCATTATACCCCTA
87797242 GGGTTTATGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (25 bp):
TAAAAATGACCATTATACCCCTAAG
Found at i:87797346 original size:20 final size:20
Alignment explanation
Indices: 87797286--87797346 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
87797276 ATAAATATGG
*
87797286 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
87797306 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
87797326 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
87797346 T
1 T
87797347 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:87797423 original size:24 final size:24
Alignment explanation
Indices: 87797396--87797538 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
87797386 GAGGAAGTGA
87797396 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
87797420 AAAAGGGCTTATGCCCCAGTTTTC
1 AAAAGGGCTTATGCCCCAGTTATC
87797444 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
87797467 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
87797491 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
87797515 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
87797539 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 23 0.21
24 75 0.69
25 11 0.10
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Done.