Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 453 of 770
Found at i:139548482 original size:27 final size:27
Alignment explanation
Indices: 139548441--139548494 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
139548431 TGTCATGTGA
* *
139548441 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
139548468 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
139548495 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:139548820 original size:49 final size:49
Alignment explanation
Indices: 139548741--139548985 Score: 265
Period size: 49 Copynumber: 4.9 Consensus size: 49
139548731 TCTATTGTAA
* *
139548741 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
139548790 GGTCGCATGTGTAGTACTAAGTACAGGCTACTATGCGTACCTGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* ** * ** *
139548840 CGATCACGCGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGCTA
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AATT
* * * **
139548891 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTATACTGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
139548940 GGTCGCATGTGTAGTACTAAGTGCAGGCTACCATGTGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
139548986 GCCTTGGCTA
Statistics
Matches: 158, Mismatches: 35, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
49 81 0.51
50 40 0.25
51 37 0.23
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:139550815 original size:14 final size:13
Alignment explanation
Indices: 139550807--139550843 Score: 65
Period size: 14 Copynumber: 2.8 Consensus size: 13
139550797 TTAAAAAGAT
139550807 AAAAATAAAAATA
1 AAAAATAAAAATA
139550820 AAAACATAAAAATA
1 AAAA-ATAAAAATA
139550834 AAAAATAAAA
1 AAAAATAAAA
139550844 TTCTTTAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:139550821 original size:20 final size:21
Alignment explanation
Indices: 139550798--139550843 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
139550788 AAAGTAGTTT
*
139550798 TAAAAAGATAAAAAT-AAAAA
1 TAAAAACATAAAAATAAAAAA
139550818 TAAAAACATAAAAATAAAAAA
1 TAAAAACATAAAAATAAAAAA
139550839 TAAAA
1 TAAAA
139550844 TTCTTTAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (21 bp):
TAAAAACATAAAAATAAAAAA
Found at i:139550822 original size:5 final size:6
Alignment explanation
Indices: 139550800--139550843 Score: 52
Period size: 7 Copynumber: 6.7 Consensus size: 6
139550790 AGTAGTTTTA
139550800 AAAAGAT AAAAAT AAAAAT AAAAACAT AAAAAT AAAAAAT AAAA
1 AAAA-AT AAAAAT AAAAAT -AAAA-AT AAAAAT -AAAAAT AAAA
139550844 TTCTTTAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
6 14 0.41
7 18 0.53
8 2 0.06
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:139552495 original size:46 final size:46
Alignment explanation
Indices: 139552445--139552617 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
139552435 TGGTTGAGCA
* *
139552445 TCCGAACTCCTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * * *
139552491 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* **
139552536 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAAAA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
139552584 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
139552618 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 4 0.04
45 4 0.04
46 57 0.56
47 29 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:139552601 original size:93 final size:93
Alignment explanation
Indices: 139552442--139552612 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
139552432 GGATGGTTGA
* *** *
139552442 GCATCCGAACTCCTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCCTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAAACCCGAACTCATTGAGT
*
139552507 TGAGTCTGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
139552535 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAAAACCCGAGCTCATTGAGT
1 GCATCCGAACTCCTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAAACCCGAACTCATTGAGT
139552600 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
139552613 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCCTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAAACCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:139557404 original size:49 final size:49
Alignment explanation
Indices: 139557330--139557615 Score: 518
Period size: 49 Copynumber: 5.8 Consensus size: 49
139557320 GTACATAATA
* *
139557330 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTGT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
139557379 ACATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
139557428 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
139557477 ACATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
139557526 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* *
139557575 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGA
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGA
139557616 CAGCCCAAAA
Statistics
Matches: 229, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 229 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (49 bp):
ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:139559035 original size:28 final size:29
Alignment explanation
Indices: 139558937--139559035 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
139558927 TCACAAATTG
* *
139558937 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGAGTTCGAATAT-TATA
* * *
139558966 GCACTAAGTGTGCAAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTATA
*
139558994 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTATA
139559022 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
139559036 GGCTTATTAC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 40 0.67
29 20 0.33
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTATA
Found at i:139566722 original size:28 final size:29
Alignment explanation
Indices: 139566624--139566722 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
139566614 TCACAAATTG
* *
139566624 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGAGTTCGAATAT-TATA
* * *
139566653 GCACTAAGTGTGCAAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTATA
*
139566681 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTATA
139566709 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
139566723 GGCTTATTAC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 40 0.67
29 20 0.33
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTATA
Found at i:139571963 original size:40 final size:38
Alignment explanation
Indices: 139571914--139572021 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
139571904 ATCACGATTT
*
139571914 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
139571954 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
139571994 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
139572022 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:139571981 original size:80 final size:80
Alignment explanation
Indices: 139571873--139572021 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
139571863 TATGGTAACC
* * * *
139571873 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
139571937 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
139571953 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
139572018 CCGG
66 CCGG
139572022 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:139577976 original size:54 final size:53
Alignment explanation
Indices: 139577910--139578383 Score: 456
Period size: 54 Copynumber: 8.8 Consensus size: 53
139577900 TTAGTTTACC
* * **
139577910 AAATTACCGAAATACCCTC-AGTTTGCAAAATTATTGAAATACCCTCGATTTGCA
1 AAATTACTGAAATACCCTCGA-TTTGTAAAATTACCGAAATACCCTCGA-TTGCA
* * * * **
139577964 AAATTACTGAAATATCCTCGACTTGTAAAATTACC-AAAGTACCCCCGGTTTATA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAA-TACCCTC-GATTGCA
* * * *
139578018 AAATTACTGAAATACCCTCGATTTGTAAAATTATCAAAATACCCTCAGTTTTCA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTC-GATTGCA
* * *
139578072 AAATTACTGAAATACCCTCGATTTGCAAAATTACTGAAATACCCTCGACTTACA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGA-TTGCA
* * * * * *
139578126 AAATTAC-AAAAGTACCC-CCAGTTTATAAAATTACCGAAATATCGTCGATTGTA
1 AAATTACTGAAA-TACCCTCGA-TTTGTAAAATTACCGAAATACCCTCGATTGCA
*
139578179 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCAGATTGCA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTC-GATTGCA
** * ** * * *
139578233 AAATTACTGAAATACATTCAATTTACAAAATTACTGAAATACCCTTGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGA-TTGCA
* * * * ** *
139578287 AAATTAC-CAAAGTACCC-CGGTTTATAAAATTACAGAAATACTGTCGATTGTA
1 AAATTACTGAAA-TACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTGCA
139578339 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCT
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCT
139578384 TGTAGGGTAG
Statistics
Matches: 342, Mismatches: 64, Indels: 29
0.79 0.15 0.07
Matches are distributed among these distances:
52 17 0.05
53 98 0.29
54 222 0.65
55 5 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (53 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTGCA
Found at i:139578340 original size:26 final size:26
Alignment explanation
Indices: 139577910--139578383 Score: 388
Period size: 27 Copynumber: 17.7 Consensus size: 26
139577900 TTAGTTTACC
* * *
139577910 AAATTACCGAAATACCCTCAGTTTGCA
1 AAATTACTGAAATACCCTC-GATTGTA
* *
139577937 AAATTATTGAAATACCCTCGATTTGCA
1 AAATTACTGAAATACCCTCGA-TTGTA
*
139577964 AAATTACTGAAATATCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGA-TTGTA
* * * *
139577991 AAATTAC-CAAAGTACCCCCGGTTTATA
1 AAATTACTGAAA-TACCCTC-GATTGTA
139578018 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGA-TTGTA
* *
139578045 AAATTA-TCAAAATACCCTC-AGTTTTCA
1 AAATTACT-GAAATACCCTCGA-TTGT-A
*
139578072 AAATTACTGAAATACCCTCGATTTGCA
1 AAATTACTGAAATACCCTCGA-TTGTA
**
139578099 AAATTACTGAAATACCCTCGACTTACA
1 AAATTACTGAAATACCCTCGA-TTGTA
* * * *
139578126 AAATTAC-AAAAGTACCCCCAGTTTATA
1 AAATTACTGAAA-TACCCTC-GATTGTA
* * *
139578153 AAATTACCGAAATATCGTCGATTGTA
1 AAATTACTGAAATACCCTCGATTGTA
139578179 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGA-TTGTA
*
139578206 AAATTA-TCGAAATACCCTCAGATTGCA
1 AAATTACT-GAAATACCCTC-GATTGTA
** *
139578233 AAATTACTGAAATACATTCAATT-TACA
1 AAATTACTGAAATACCCTCGATTGT--A
*
139578260 AAATTACTGAAATACCCTTGACTTGTA
1 AAATTACTGAAATACCCTCGA-TTGTA
* * *
139578287 AAATTAC-CAAAGTACCC-CGGTTTATA
1 AAATTACTGAAA-TACCCTC-GATTGTA
* **
139578313 AAATTACAGAAATACTGTCGATTGTA
1 AAATTACTGAAATACCCTCGATTGTA
139578339 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGA-TTGTA
*
139578366 AAATTACCGAAATACCCT
1 AAATTACTGAAATACCCT
139578384 TGTAGGGTAG
Statistics
Matches: 362, Mismatches: 60, Indels: 50
0.77 0.13 0.11
Matches are distributed among these distances:
26 80 0.22
27 264 0.73
28 17 0.05
29 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (26 bp):
AAATTACTGAAATACCCTCGATTGTA
Found at i:139578405 original size:27 final size:26
Alignment explanation
Indices: 139578367--139579802 Score: 1337
Period size: 27 Copynumber: 53.2 Consensus size: 26
139578357 CGATTTGTAA
139578367 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTA-CGAAATACCCTTGTAGGGTAG
* *
139578394 AAATATCAAAATACCCTTGTAGGGTAG
1 AATTA-CGAAATACCCTTGTAGGGTAG
139578421 AATTACTGAAATAGCCC-TGTAGGGTAG
1 AATTAC-GAAATA-CCCTTGTAGGGTAG
*
139578448 AATTACTGAAATACTCC-TATAGGGTAG
1 AATTAC-GAAATAC-CCTTGTAGGGTAG
139578475 AATTATCGAAATACTCC-TGTAGGGTAG
1 AATTA-CGAAATAC-CCTTGTAGGGTAG
* *
139578502 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTAC-GAAATACCCTTGTAGGGTAG
* *
139578529 AGTTATCGAAATACCCCTGTA-GGTAG
1 AATTA-CGAAATACCCTTGTAGGGTAG
*
139578555 AATTACTAAAATACCCCTT-TAGGGTAG
1 AATTAC-GAAATA-CCCTTGTAGGGTAG
* *
139578582 AATTACCGAAATACCCCTGTAGGGTTG
1 AATTA-CGAAATACCCTTGTAGGGTAG
139578609 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTA-CGAAATACCCTTGTAGGGTAG
** *
139578636 AAATGCCGAAATACCCCTGTAGGGTAG
1 -AATTACGAAATACCCTTGTAGGGTAG
139578663 AATTACTGAAATACCC-TGTAGGGTAG
1 AATTAC-GAAATACCCTTGTAGGGTAG
*
139578689 AATTACCGAAATACCCTTTTAGGGTAG
1 AATTA-CGAAATACCCTTGTAGGGTAG
139578716 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTA-CGAAATACCCTTGTAGGGTAG
*
139578743 AATTATCGAAATACCCTTATAGGGTAG
1 AATTA-CGAAATACCCTTGTAGGGTAG
* * *
139578770 AATTACCGAAATTCCCCTATAGGGTAG
1 AATTA-CGAAATACCCTTGTAGGGTAG
*
139578797 AATTACCGAAATTCCCTTGTAGGGTAG
1 AATTA-CGAAATACCCTTGTAGGGTAG
* * *
139578824 AAATACCAAAATACCC-TCTAGGGTAG
1 AATTA-CGAAATACCCTTGTAGGGTAG
* *
139578850 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTAC-GAAATACCCTTGTAGGGTAG
*
139578877 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTAC-GAAATACCCTTGTAGGGTAG
139578904 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTAC-GAAATACCCTTGTAGGGTAG
* *
139578931 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTAC-GAAATACCCTTGTAGGGTAG
139578958 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTAC-GAAATACCCTTGTAGGGTAG
** *
139578985 AATTACTGAAATACCCTTG-ACTTGTAA
1 AATTAC-GAAATACCCTTGTA-GGGTAG
* ** *** *
139579012 AATTACCAAAGTACCCCCGGT-TTATAA
1 AATTACGAAA-TA-CCCTTGTAGGGTAG
** * ** *
139579039 AATTACAGAAATACTGTCG-ATTGTAA
1 AATTAC-GAAATACCCTTGTAGGGTAG
* ** *
139579065 AATTACTGAAATACCCTCG-ATTTGTAA
1 AATTAC-GAAATACCCTTGTA-GGGTAG
139579092 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTA-CGAAATACCCTTGTAGGGTAG
* *
139579119 AAATATCAAAATACCCTTGTAGGGTAG
1 AATTA-CGAAATACCCTTGTAGGGTAG
*
139579146 AATTACTGAAATACTCC-TATAGGGTAG
1 AATTAC-GAAATAC-CCTTGTAGGGTAG
139579173 AATTATCGAAATACTCC-TGTAGGGTAG
1 AATTA-CGAAATAC-CCTTGTAGGGTAG
* * *
139579200 AATTACTAAAATACCCCTATAGGGTAG
1 AATTAC-GAAATACCCTTGTAGGGTAG
* *
139579227 AGTTATCGAAATACCCATGTA-GGTAG
1 AATTA-CGAAATACCCTTGTAGGGTAG
* *
139579253 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTAC-GAAATACCCTTGTAGGGTAG
*
139579280 AATTACCGAAATACCCCTGTAGGGTA-
1 AATTA-CGAAATACCCTTGTAGGGTAG
139579306 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTA-CGAAATACCCTTGTAGGGTAG
**
139579333 AAATGCCGAAATACCCTTGTAGGGTAG
1 -AATTACGAAATACCCTTGTAGGGTAG
*
139579360 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTAC-GAAATACCCTTGTAGGGTAG
139579387 AATTACCGAAATACCCTT-TAGGGTAG
1 AATTA-CGAAATACCCTTGTAGGGTAG
139579413 AATTACCGAAATACCCTTGTA-GGTAG
1 AATTA-CGAAATACCCTTGTAGGGTAG
*
139579439 AATTATCGAAATACCCTTATAGGGTAG
1 AATTA-CGAAATACCCTTGTAGGGTAG
* * *
139579466 AATTACCGAAATTCCCCTATAGGGTAG
1 AATTA-CGAAATACCCTTGTAGGGTAG
*
139579493 AATTACCGAAATTCCCTTGTA-GGTAG
1 AATTA-CGAAATACCCTTGTAGGGTAG
* *
139579519 AAATACCAAAATACCCCTT-TAGGGTAG
1 AATTA-CGAAATA-CCCTTGTAGGGTAG
* *
139579546 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTAC-GAAATACCCTTGTAGGGTAG
*
139579573 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTAC-GAAATACCCTTGTAGGGTAG
139579600 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTAC-GAAATACCCTTGTAGGGTAG
* *
139579627 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTAC-GAAATACCCTTGTAGGGTAG
139579654 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTAC-GAAATACCCTTGTAGGGTAG
* * *
139579681 AATTACTGAAATACCAAAATACCCCTGTAAGATAG
1 AATTAC-G--------AAATACCCTTGTAGGGTAG
* *
139579716 AATTTCTAAAATA-CCTCTGTAGGGTAG
1 AATTAC-GAAATACCCT-TGTAGGGTAG
* *
139579743 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTA-CGAAATACCCTTGTAGGGTAG
* * *
139579770 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTA-CGAAATACCCTTGTAGGGTAG
139579797 AATTAC
1 AATTAC
139579803 AATTTTAACC
Statistics
Matches: 1228, Mismatches: 124, Indels: 115
0.84 0.08 0.08
Matches are distributed among these distances:
25 3 0.00
26 232 0.19
27 942 0.77
28 29 0.02
35 22 0.02
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (26 bp):
AATTACGAAATACCCTTGTAGGGTAG
Found at i:139578409 original size:106 final size:108
Alignment explanation
Indices: 139578071--139578410 Score: 275
Period size: 107 Copynumber: 3.2 Consensus size: 108
139578061 CTCAGTTTTC
** ** *
139578071 AAAATTACTGAAATACCCTCGATTTGCAAAATTA-CTGAAATACCCTC-GACTTACAAAATTAC-
1 AAAATTACCAAAATACCCTCGATTTATAAAATTATC-GAAATACCCTCAGA-TTGCAAAATTACT
* * * * * * * * **
139578133 AAAAGTACCCCCAGTTTATAAAATTACCGAAATATCGTCGA-TTGT
64 GAAA-TACACTCAATTTACAAAATTACCGAAATACCCTTGACGGGT
** *
139578178 AAAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCAGATTGCAAAATTACTGA
1 AAAATTACCAAAATACCCTCGATTTATAAAATTATCGAAATACCCTCAGATTGCAAAATTACTGA
* * **
139578243 AATACATTCAATTTACAAAATTACTGAAATACCCTTGACTTGT
66 AATACACTCAATTTACAAAATTACCGAAATACCCTTGACGGGT
* * ** *
139578286 AAAATTACCAAAGTACCC-CGGTTTATAAAATTA-CAGAAATACTGTC-GATTGTAAAATTACTG
1 AAAATTACCAAAATACCCTCGATTTATAAAATTATC-GAAATACCCTCAGATTGCAAAATTACTG
* * **
139578348 AAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGTA-GGGT
65 AAATACACTCAATTTACAAAATTACCGAAATACCCTTG-ACGGGT
*
139578392 AGAAA-TATCAAAATACCCT
1 A-AAATTACCAAAATACCCT
139578411 TGTAGGGTAG
Statistics
Matches: 195, Mismatches: 30, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
106 62 0.32
107 108 0.55
108 25 0.13
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (108 bp):
AAAATTACCAAAATACCCTCGATTTATAAAATTATCGAAATACCCTCAGATTGCAAAATTACTGA
AATACACTCAATTTACAAAATTACCGAAATACCCTTGACGGGT
Found at i:139578425 original size:54 final size:54
Alignment explanation
Indices: 139578367--139579802 Score: 1625
Period size: 54 Copynumber: 26.6 Consensus size: 54
139578357 CGATTTGTAA
* * *
139578367 AATTACCGAAATACCCTTGTAGGGTAGAAATA-TCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACT-GAAATACCCCTGTAGGGTAG
* * *
139578421 AATTACTGAAATAGCCC-TGTAGGGTAGAATTACTGAAATACTCCTATAGGGTAG
1 AATTACCGAAATA-CCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* *
139578475 AATTATCGAAATACTCC-TGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATAC-CCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * * * *
139578529 AGTTATCGAAATACCCCTGTA-GGTAGAATTACTAAAATACCCCTTTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * * *
139578582 AATTACCGAAATACCCCTGTAGGGTTGAATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * *
139578636 AAATGCCGAAATACCCCTGTAGGGTAGAATTACTGAAATA-CCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * *
139578689 AATTACCGAAATACCCTTTTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * * * *
139578743 AATTATCGAAATACCCTTATAGGGTAGAATTACCGAAATTCCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * ** *
139578797 AATTACCGAAATTCCCTTGTAGGGTAGAAATACCAAAATA-CCCTCTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
** *
139578850 AATTACTAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* *
139578904 AATTACTGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * ** *
139578958 AATTACTGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCTTG-ACTTGTAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTA-GGGTAG
** *** * * ** *
139579012 AATTACC-AAAGTACCCCCGGT-TTATAAAATTACAGAAATA---CTGTCGATTGTAA
1 AATTACCGAAA-TA-CCCTTGTAGGGTAGAATTACTGAAATACCCCTGT--AGGGTAG
* * ** * * *
139579065 AATTACTGAAATACCCTCG-ATTTGTAAAATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTA-GGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * * * *
139579119 AAATATCAAAATACCCTTGTAGGGTAGAATTACTGAAATACTCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * *
139579173 AATTATCGAAATACTCC-TGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAG
1 AATTACCGAAATAC-CCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * * *
139579227 AGTTATCGAAATACCCATGTA-GGTAGAATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * *
139579280 AATTACCGAAATACCCCTGTAGGGTA-AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* *
139579333 AAATGCCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* *
139579387 AATTACCGAAATACCCTT-TAGGGTAGAATTACCGAAATACCCTTGTA-GGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * * * *
139579439 AATTATCGAAATACCCTTATAGGGTAGAATTACCGAAATTCCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * ** *
139579493 AATTACCGAAATTCCCTTGTA-GGTAGAAATACCAAAATACCCCTTTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
** *
139579546 AATTACTAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* *
139579600 AATTACTGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * *
139579654 AATTACTGAAATACCCTTGTAGGGTAGAATTACTGAAATACCAAAATACCCCTGTAAGATAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTG--------AAATACCCCTGTAGGGTAG
* ** *
139579716 AATTTCTAAAATA-CCTCTGTAGGGTAGAATTATTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCT-TGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * *
139579770 AATTACCGAGATACCCTTGTGGGGTAAAATTAC
1 AATTACCGAAATACCCTTGTAGGGTAGAATTAC
139579803 AATTTTAACC
Statistics
Matches: 1198, Mismatches: 147, Indels: 74
0.84 0.10 0.05
Matches are distributed among these distances:
51 2 0.00
52 26 0.02
53 376 0.31
54 728 0.61
55 15 0.01
56 3 0.00
61 3 0.00
62 45 0.04
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (54 bp):
AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
Found at i:139578433 original size:160 final size:160
Alignment explanation
Indices: 139578016--139578383 Score: 470
Period size: 161 Copynumber: 2.3 Consensus size: 160
139578006 CCCCGGTTTA
* * **** *
139578016 TAAAATTACTGAAATACCCTCGATTTGTAAAATTATCAAAATACCCTCAGTTTTCAAAATTACTG
1 TAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAGAGGGCAAAATTACTA
** * ** *
139578081 AAATACCCTCGATTTGCAAAATTACTGAAATACCCTCGACTTACAAAATTACAAAAGTACCCCCA
66 AAATACATTCAAGGT-AAAAATTACTGAAATACCCTCGACTTACAAAATTACAAAAGTACCCCCA
*
139578146 GTTTATAAAATTACCGAAATATCGTCGATTG
130 GTTTATAAAATTACAGAAATATCGTCGATTG
* ** *
139578177 TAAAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCAGATTGCAAAATTACTG
1 TAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAGAGGGCAAAATTACTA
** * ** * *
139578242 AAATACATTCAATTTACAAAATTACTGAAATACCCTTGACTTGTAAAATTACCAAAGTA-CCCCG
66 AAATACATTCAAGGTA-AAAATTACTGAAATACCCTCGACTTACAAAATTACAAAAGTACCCCCA
139578306 GTTTATAAAATTACAGAAATA-CTGTCGATTG
130 GTTTATAAAATTACAGAAATATC-GTCGATTG
139578337 TAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCT
1 TAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCT
139578384 TGTAGGGTAG
Statistics
Matches: 191, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
159 1 0.01
160 78 0.41
161 112 0.59
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (160 bp):
TAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAGAGGGCAAAATTACTA
AAATACATTCAAGGTAAAAATTACTGAAATACCCTCGACTTACAAAATTACAAAAGTACCCCCAG
TTTATAAAATTACAGAAATATCGTCGATTG
Found at i:139578604 original size:107 final size:107
Alignment explanation
Indices: 139578367--139579802 Score: 1555
Period size: 107 Copynumber: 13.3 Consensus size: 107
139578357 CGATTTGTAA
* * *
139578367 AATTACCGAAATACCCTTGTAGGGTAGAAATA-TCAAAATACCCTTGTAGGGTAGAATTACTGAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACT-GAAATACCCCTGTAGGGTAGAATTAC-GAA
* * *
139578431 ATAGCCCTGTAGGGTAGAATTACTGAAATACTCCTATAGGGTAG
64 ATACCCCTGTAGGGTAGAATTACTGAAATACCCCTTTAGGGTAG
* * *
139578475 AATTATCGAAATACTCC-TGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAGTTATCGAA
1 AATTACCGAAATAC-CCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTA-CGAA
*
139578539 ATACCCCTGTA-GGTAGAATTACTAAAATACCCCTTTAGGGTAG
64 ATACCCCTGTAGGGTAGAATTACTGAAATACCCCTTTAGGGTAG
* * * * **
139578582 AATTACCGAAATACCCCTGTAGGGTTGAATTACCGAAATACCCTTGTAGGGTAGAAATGCCGAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG-AATTACGAAA
*
139578647 TACCCCTGTAGGGTAGAATTACTGAAATA-CCCTGTAGGGTAG
65 TACCCCTGTAGGGTAGAATTACTGAAATACCCCTTTAGGGTAG
* * *
139578689 AATTACCGAAATACCCTTTTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTA-CGAAA
* * * * *
139578754 TACCCTTATAGGGTAGAATTACCGAAATTCCCCTATAGGGTAG
65 TACCCCTGTAGGGTAGAATTACTGAAATACCCCTTTAGGGTAG
* * ** * *
139578797 AATTACCGAAATTCCCTTGTAGGGTAGAAATACCAAAATA-CCCTCTAGGGTAGAATTACTAAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTAC-GAAA
*
139578861 TACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
65 TACCCCTGTAGGGTAGAATTACTGAAATACCCCTTTAGGGTAG
* *
139578904 AATTACTGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTGAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTAC-GAAA
* * ** *
139578969 TACCCTTGTAGGGTAGAATTACTGAAATA-CCCTTGACTTGTAA
65 TACCCCTGTAGGGTAGAATTACTGAAATACCCCTTTA-GGGTAG
** *** * * ** *
139579012 AATTACC-AAAGTACCCCCGGT-TTATAAAATTACAGAAATA---CTGTCGATTGTAAAATTACT
1 AATTACCGAAA-TA-CCCTTGTAGGGTAGAATTACTGAAATACCCCTGT--AGGGTAGAATTAC-
** * *
139579072 GAAATA-CCCTCG-ATTTGTAAAATTACCGAAATA-CCCTTGTAGGGTAG
61 GAAATACCCCT-GTA-GGGTAGAATTACTGAAATACCCCTT-TAGGGTAG
* * * * *
139579119 AAATATCAAAATACCCTTGTAGGGTAGAATTACTGAAATACTCCTATAGGGTAGAATTATCGAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTA-CGAAA
* * *
139579184 TACTCCTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAG
65 TACCCCTGTAGGGTAGAATTACTGAAATACCCCTTTAGGGTAG
* * * *
139579227 AGTTATCGAAATACCCATGTA-GGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTA-CGAAA
*
139579291 TACCCCTGTAGGGTA-AATTACCGAAATA-CCCTTGTAGGGTAG
65 TACCCCTGTAGGGTAGAATTACTGAAATACCCCTT-TAGGGTAG
* *
139579333 AAATGCCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTA-CGAAA
* *
139579398 TA-CCCTTTAGGGTAGAATTACCGAAATA-CCCTTGTA-GGTAG
65 TACCCCTGTAGGGTAGAATTACTGAAATACCCCTT-TAGGGTAG
* * * * *
139579439 AATTATCGAAATACCCTTATAGGGTAGAATTACCGAAATTCCCCTATAGGGTAGAATTACCGAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTA-CGAAA
* * * **
139579504 TTCCCTTGTA-GGTAGAAATACCAAAATACCCCTTTAGGGTAG
65 TACCCCTGTAGGGTAGAATTACTGAAATACCCCTTTAGGGTAG
** *
139579546 AATTACTAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTAC-GAAA
* * *
139579611 TACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAG
65 TACCCCTGTAGGGTAGAATTACTGAAATACCCCTTTAGGGTAG
* * *
139579654 AATTACTGAAATACCCTTGTAGGGTAGAATTACTGAAATACCAAAATACCCCTGTAAGATAGAAT
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTG--------AAATACCCCTGTAGGGTAGAAT
* * * * *
139579719 TTCTAAAATACCTCTGTAGGGTAGAATTATTGAAATACCCCTGTAGGGTAG
58 TAC-GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTTTAGGGTAG
* * *
139579770 AATTACCGAGATACCCTTGTGGGGTAAAATTAC
1 AATTACCGAAATACCCTTGTAGGGTAGAATTAC
139579803 AATTTTAACC
Statistics
Matches: 1135, Mismatches: 150, Indels: 78
0.83 0.11 0.06
Matches are distributed among these distances:
105 8 0.01
106 144 0.13
107 543 0.48
108 325 0.29
109 18 0.02
110 3 0.00
116 94 0.08
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (107 bp):
AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACGAAAT
ACCCCTGTAGGGTAGAATTACTGAAATACCCCTTTAGGGTAG
Found at i:139579701 original size:35 final size:35
Alignment explanation
Indices: 139579662--139579730 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
139579652 AGAATTACTG
* * * *
139579662 AAATACCCTTGTAGGGTAGAATTACTGAAATACCA
1 AAATACCCCTGTAAGATAGAATTACTAAAATACCA
*
139579697 AAATACCCCTGTAAGATAGAATTTCTAAAATACC
1 AAATACCCCTGTAAGATAGAATTACTAAAATACC
139579731 TCTGTAGGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (35 bp):
AAATACCCCTGTAAGATAGAATTACTAAAATACCA
Found at i:139579728 original size:62 final size:62
Alignment explanation
Indices: 139579626--139579757 Score: 185
Period size: 62 Copynumber: 2.1 Consensus size: 62
139579616 TTGTAGGGTA
** * * *
139579626 GAAATACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACC-CTTGTAGGGTAGAATTACT
1 GAAATACCAAAATACCCCTGTAAGATAGAATTACTAAAATACCTC-TGTAGGGTAGAATTACT
* *
139579688 GAAATACCAAAATACCCCTGTAAGATAGAATTTCTAAAATACCTCTGTAGGGTAGAATTATT
1 GAAATACCAAAATACCCCTGTAAGATAGAATTACTAAAATACCTCTGTAGGGTAGAATTACT
139579750 GAAATACC
1 GAAATACC
139579758 CCTGTAGGGT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
62 61 0.98
63 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (62 bp):
GAAATACCAAAATACCCCTGTAAGATAGAATTACTAAAATACCTCTGTAGGGTAGAATTACT
Found at i:139579744 original size:116 final size:116
Alignment explanation
Indices: 139579581--139579802 Score: 338
Period size: 116 Copynumber: 1.9 Consensus size: 116
139579571 AGAATTACTG
* * *
139579581 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTG
1 AAATACCCCTGTAAGATAGAATTACTAAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTG
* *
139579646 TAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACTGAAATACCA
66 TAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTACTGAAATACCA
* * *
139579697 AAATACCCCTGTAAGATAGAATTTCTAAAATA-CCTCTGTAGGGTAGAATTATTGAAATACCCCT
1 AAATACCCCTGTAAGATAGAATTACTAAAATACCCT-TGTAGGGTAGAAATACTGAAATACCCCT
* *
139579761 GTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTAC
65 GTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTAC
139579803 AATTTTAACC
Statistics
Matches: 95, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
115 3 0.03
116 92 0.97
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (116 bp):
AAATACCCCTGTAAGATAGAATTACTAAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTG
TAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTACTGAAATACCA
Found at i:139579764 original size:89 final size:89
Alignment explanation
Indices: 139579608--139579784 Score: 255
Period size: 89 Copynumber: 2.0 Consensus size: 89
139579598 AGAATTACTG
* * * * *
139579608 AAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTG
1 AAATACCCCTGTAAGATAGAAATACTAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTG
*
139579673 TAGGGTAGAATTACTGAAATACCA
66 TAGGGTAGAATTACCGAAATACCA
* * * *
139579697 AAATACCCCTGTAAGATAGAATTTCTAAAATACCTCTGTAGGGTAGAATTATTGAAATACCCCTG
1 AAATACCCCTGTAAGATAGAAATACTAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTG
*
139579762 TAGGGTAGAATTACCGAGATACC
66 TAGGGTAGAATTACCGAAATACC
139579785 CTTGTGGGGT
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
89 77 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.27
Consensus pattern (89 bp):
AAATACCCCTGTAAGATAGAAATACTAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTG
TAGGGTAGAATTACCGAAATACCA
Found at i:139580035 original size:27 final size:26
Alignment explanation
Indices: 139579996--139580074 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 26
139579986 GGAAGCGTTC
139579996 TGGTGGCTATGCCACAAATATCTGTTT
1 TGGTGGCTATGCCAC-AATATCTGTTT
* *
139580023 TGGTGGCTCTGCCACAATATCTGTATC
1 TGGTGGCTATGCCACAATATCTGT-TT
* * **
139580050 TGGTGACTTTATCACAATATCTGTT
1 TGGTGGCTATGCCACAATATCTGTT
139580075 GACCGATCGA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 10 0.22
27 35 0.78
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (26 bp):
TGGTGGCTATGCCACAATATCTGTTT
Found at i:139582910 original size:27 final size:26
Alignment explanation
Indices: 139582498--139582915 Score: 366
Period size: 27 Copynumber: 15.7 Consensus size: 26
139582488 TTAGTTTACC
*
139582498 AAATTACCGAAATACCCTC-AGTTTGCA
1 AAATTA-CGAAATACCCTCGA-TTTGTA
* * *
139582525 AAATTACTAAAATACCCTTGATTTGCA
1 AAATTAC-GAAATACCCTCGATTTGTA
*
139582552 AAATTACTGAAATA-CCTCGACTTGTA
1 AAATTAC-GAAATACCCTCGATTTGTA
* * *
139582578 AAATTACCAAAGTACCC-CGGTTTATA
1 AAATTACGAAA-TACCCTCGATTTGTA
* ***
139582604 AAATTACCAAAATATTATCGA-TTGTA
1 AAATTA-CGAAATACCCTCGATTTGTA
139582630 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTAC-GAAATACCCTCGATTTGTA
*
139582657 AAATTACCGAAATACCCTC-AGTTTGCA
1 AAATTA-CGAAATACCCTCGA-TTTGTA
* * *
139582684 AAATTATTGAAATACCCTTGATTTGCA
1 AAATTA-CGAAATACCCTCGATTTGTA
*
139582711 AAATTACTGAAATACCCTCAATTTGTA
1 AAATTAC-GAAATACCCTCGATTTGTA
**
139582738 AAATTACCGAAATACCCTC-AGTTTACA
1 AAATTA-CGAAATACCCTCGA-TTTGTA
* *
139582765 AAATTACTAAAATACCCTCAATTTGTA
1 AAATTAC-GAAATACCCTCGATTTGTA
* *
139582792 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTAC-GAAATACCCTCGATTTGTA
* *
139582819 AAATTACCAAAGTACCC-CGATTTATA
1 AAATTACGAAA-TACCCTCGATTTGTA
*
139582845 AAATTATCGAAATACCGTCGA-TTGTA
1 AAATTA-CGAAATACCCTCGATTTGTA
139582871 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTAC-GAAATACCCTCGATTTGTA
*
139582898 AAATTATCAAAATACCCT
1 AAATTA-CGAAATACCCT
139582916 TGTAGGGTAG
Statistics
Matches: 326, Mismatches: 43, Indels: 44
0.79 0.10 0.11
Matches are distributed among these distances:
25 5 0.02
26 97 0.30
27 218 0.67
28 6 0.02
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (26 bp):
AAATTACGAAATACCCTCGATTTGTA
Found at i:139582937 original size:27 final size:27
Alignment explanation
Indices: 139582907--139583384 Score: 586
Period size: 27 Copynumber: 17.9 Consensus size: 27
139582897 AAAATTATCA
* *
139582907 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
139582934 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
139582961 AAATA-CCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
139582987 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
139583014 AAATA-CCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
** *
139583040 AAATACCCCAATAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
139583067 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
139583094 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
**
139583121 AAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
*
139583148 AAATACCCCTGTAAGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
139583175 AAATACCCTTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
139583202 AAATACCCTTGTAAGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
139583229 AAATA-CCCTATAGAGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * **
139583255 AAATACCCTTGTAGGGTAAAAATACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
**
139583282 AAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
* **
139583309 AAATACCCCTATAGGGTAGAATTATTG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
139583336 AAATACCCCTGTAGGATAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
139583363 AGATACCCTTGTGGGGTA-AATT
1 AAATACCCCTGTAGGGTAGAATT
139583385 TACCATTTTA
Statistics
Matches: 395, Mismatches: 53, Indels: 7
0.87 0.12 0.02
Matches are distributed among these distances:
26 73 0.18
27 322 0.82
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:139582939 original size:241 final size:240
Alignment explanation
Indices: 139582498--139582941 Score: 676
Period size: 241 Copynumber: 1.8 Consensus size: 240
139582488 TTAGTTTACC
* ** *
139582498 AAATTACCGAAATACCCTCAGTTTGCAAAATTACTAAAATACCCTTGATTTGCAAAATTACTGAA
1 AAATTACCGAAATACCCTCAGTTTACAAAATTACTAAAATACCCTCAATTTGCAAAATTACTAAA
* **
139582563 ATACCTCGACTTGTAAAATTACCAAAGTACCCCGGTTTATAAAATTACCAAAATATTATCGATTG
66 ATACCTCGACTTGTAAAATTACCAAAGTACCCCGATTTATAAAATTACCAAAATACCATCGATTG
* ** **
139582628 TAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAGTTTGCAAAATTATTG
131 TAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCAGTGGGCAAAATTACCG
139582693 AAATACCCTTGATTTGCAAAATTACTGAAATACCCTCAATTTGTA
196 AAATACCCTTGATTTGCAAAATTACTGAAATACCCTCAATTTGTA
*
139582738 AAATTACCGAAATACCCTCAGTTTACAAAATTACTAAAATACCCTCAATTTGTAAAATTACTAAA
1 AAATTACCGAAATACCCTCAGTTTACAAAATTACTAAAATACCCTCAATTTGCAAAATTACTAAA
* * *
139582803 ATACCCTCGACTTGTAAAATTACCAAAGTACCCCGATTTATAAAATTATCGAAATACCGTCGATT
66 ATA-CCTCGACTTGTAAAATTACCAAAGTACCCCGATTTATAAAATTACCAAAATACCATCGATT
* * *
139582868 GTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCAAAATACCCT-TGTAGGGTAGAAA-TA
130 GTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCAGT-GGGCA-AAATTA
139582931 CCGAAATACCC
193 CCGAAATACCC
139582942 CTGTAGGGTA
Statistics
Matches: 182, Mismatches: 19, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
240 65 0.36
241 114 0.63
242 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (240 bp):
AAATTACCGAAATACCCTCAGTTTACAAAATTACTAAAATACCCTCAATTTGCAAAATTACTAAA
ATACCTCGACTTGTAAAATTACCAAAGTACCCCGATTTATAAAATTACCAAAATACCATCGATTG
TAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCAGTGGGCAAAATTACCG
AAATACCCTTGATTTGCAAAATTACTGAAATACCCTCAATTTGTA
Found at i:139583240 original size:161 final size:160
Alignment explanation
Indices: 139582902--139583374 Score: 680
Period size: 161 Copynumber: 2.9 Consensus size: 160
139582892 TTTGTAAAAT
* * * * *
139582902 TATCAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATA-
1 TATCGAAATACCC-TATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATAC
*
139582966 CCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTGTAGGGTA
65 CCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTGTAGGGTA
*** * *
139583031 GAATTATCGAAATACCCCAATAGGGTAGAAT
130 GAATTATCGAAATACCCTTGTAAGGTAGAAA
*
139583062 TA-CTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATA
1 TATC-GAAATA-CCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATA
* *
139583126 CCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACCGAAATACCCTTGTAGGG
64 CCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACTGAAATACCC-TGTAGGG
139583191 TAGAATTATCGAAATACCCTTGTAAGGTAGAAA
128 TAGAATTATCGAAATACCCTTGTAAGGTAGAAA
* * * *
139583224 TATCGAAATACCCTATAGAGTAGAATTACCAAAATACCCTTGTAGGGTAAAAATACTAAAATACC
1 TATCGAAATACCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACC
* * *
139583289 CCTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTATTGAAATACCCCTGTAGGATA
66 CCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACTGAAATA-CCCTGTAGGGTA
* *
139583354 GAATTACCGAGATACCCTTGT
130 GAATTATCGAAATACCCTTGT
139583375 GGGGTAAATT
Statistics
Matches: 281, Mismatches: 26, Indels: 11
0.88 0.08 0.03
Matches are distributed among these distances:
159 1 0.00
160 52 0.19
161 181 0.64
162 46 0.16
163 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.25
Consensus pattern (160 bp):
TATCGAAATACCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACC
CCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTGTAGGGTAG
AATTATCGAAATACCCTTGTAAGGTAGAAA
Found at i:139583650 original size:27 final size:26
Alignment explanation
Indices: 139583612--139583694 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
139583602 TGGATGAAGC
139583612 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
139583639 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * * *
139583665 GTACCAGGTGACTTTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
139583692 GTT
1 GTT
139583695 GACCGATCGA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 9 0.19
27 39 0.81
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:139583891 original size:98 final size:98
Alignment explanation
Indices: 139583753--139583983 Score: 320
Period size: 98 Copynumber: 2.4 Consensus size: 98
139583743 ATTATTGTCG
*
139583753 GCTTCGTGCTGATTATAGACCCGTTATCAATGGCTGAGTGCCGATCATGTTACCGAAGCCTATGT
1 GCTTCGTGCCGATTATAGACCCGTTATCAATGGCTGAGTGCCGATCATGTTACCGAAGCCTATGT
* *
139583818 GCTGTTAGTGTGGGCTTCGTATCGATACTGT-A
66 ACCGTTAGTGTGGGCTTCGTATCGATACTGTGA
* * * *
139583850 GGGTTCGTGCCGATTATAGACCCGTTATCAATGGCTGAGTGCCGATCCTGTTACCGAAGGCTGTG
1 -GCTTCGTGCCGATTATAGACCCGTTATCAATGGCTGAGTGCCGATCATGTTACCGAAGCCTATG
* * *
139583915 TACCGTTATTGTGGGCTTCGTATTGATATTGTGA
65 TACCGTTAGTGTGGGCTTCGTATCGATACTGTGA
* * * *
139583949 GCTTCATTCCGATTATAGACCTGTTATCGATGGCT
1 GCTTCGTGCCGATTATAGACCCGTTATCAATGGCT
139583984 TTGTGCCACG
Statistics
Matches: 117, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
98 116 0.99
99 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (98 bp):
GCTTCGTGCCGATTATAGACCCGTTATCAATGGCTGAGTGCCGATCATGTTACCGAAGCCTATGT
ACCGTTAGTGTGGGCTTCGTATCGATACTGTGA
Found at i:139584058 original size:27 final size:27
Alignment explanation
Indices: 139584005--139584085 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
139583995 ATTCTGTTAA
* *
139584005 GTGGCTTTGCCACATTATCTAATTCTG
1 GTGGCTCTGCCACAATATCTAATTCTG
*
139584032 GTGGCTCTGCCACAATATCTGCA-TCTG
1 GTGGCTCTGCCACAATATCT-AATTCTG
* * *
139584059 GTGACTCTGTCACAATATC-AGTTCTG
1 GTGGCTCTGCCACAATATCTAATTCTG
139584085 G
1 G
139584086 AAGCCATGCT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
26 5 0.11
27 39 0.87
28 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTAATTCTG
Found at i:139589884 original size:18 final size:19
Alignment explanation
Indices: 139589853--139589891 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
139589843 GTAGAATTTT
*
139589853 GAAAAAATAGAGTGGAATA
1 GAAAAAATACAGTGGAATA
*
139589872 GAAAAAAT-CAGTGTAATA
1 GAAAAAATACAGTGGAATA
139589890 GA
1 GA
139589892 GTAATTATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.56, C:0.03, G:0.23, T:0.18
Consensus pattern (19 bp):
GAAAAAATACAGTGGAATA
Found at i:139594505 original size:45 final size:45
Alignment explanation
Indices: 139594453--139594762 Score: 248
Period size: 47 Copynumber: 6.7 Consensus size: 45
139594443 GGATACCATT
*
139594453 TAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCTCATG
1 TAAGACCATGTCAAGACATGGCATTGGTAAGACAAGGATCTCATG
* * *
139594498 TAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCGTG
1 TAAGACCATGTCAAGACATGGCATTGGTAAGACAAGGATCTCATG
* * * *
139594543 TAAGACCATGTCAAGACATGGCATCGGCATTGATTAAGGA-CTTCATG
1 TAAGACCATGTCAAGACATGGCATTGGTA-AGA-CAAGGATC-TCATG
** ** *
139594590 TAAGACCACATCAAGATGTGGCATTAGCACTAAGACAAGGATAC-CATG
1 TAAGACCATGTCAAGACATGGCATT-G--GTAAGACAAGGAT-CTCATG
*** *
139594638 TAAGACCATGTTTGGAACATGGCATTTGGTAAGACAATGATAC-CATG
1 TAAGACCATGTCAAG-ACATGGCA-TTGGTAAGACAAGGAT-CTCATG
*** * *
139594685 TAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
1 TAAGACCATGTCAAG-ACATGGCA-TTGGTAAGACAAGGATCTCATG
* * * * *
139594732 TAAGGCCATGCCAAGGCATGGAATTGATAAG
1 TAAGACCATGTCAAGACATGGCATTGGTAAG
139594763 TTCTATAAGG
Statistics
Matches: 216, Mismatches: 38, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
45 77 0.36
46 8 0.04
47 98 0.45
48 20 0.09
49 9 0.04
50 4 0.02
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (45 bp):
TAAGACCATGTCAAGACATGGCATTGGTAAGACAAGGATCTCATG
Found at i:139594724 original size:142 final size:140
Alignment explanation
Indices: 139594480--139594735 Score: 304
Period size: 142 Copynumber: 1.8 Consensus size: 140
139594470 ATGGCATTGG
* * * *
139594480 TAAGGCAAGGATCTCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCGTGTA
1 TAAGACAAGGATCTCATGTAAGACCATGTCAAGACATGGCATTGGTAAGACAAGGATACCATGTA
*
139594545 AGACCATGTCAAGACATGGCATCGGCATTGATTAAGGACT-TCATGTAAGACCACATCAAGATGT
66 AGACCATGTCAAGACATGGCATCGGCATAGATTAAGGA-TATCATGTAAGACCACATCAAGATGT
139594609 GGCATTAGCAC
130 GGCATTAGCAC
*** *
139594620 TAAGACAAGGATAC-CATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGACAATGATACCAT
1 TAAGACAAGGAT-CTCATGTAAGACCATGTCAAG-ACATGGCA-TTGGTAAGACAAGGATACCAT
*** * *
139594684 GTAAGACCATGTTTGGAACATGGCATTTGGTA-AGA-TAAGGATATCATGTAAG
63 GTAAGACCATGTCAAG-ACATGGCA-TCGGCATAGATTAAGGATATCATGTAAG
139594736 GCCATGCCAA
Statistics
Matches: 96, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
140 27 0.28
141 10 0.10
142 45 0.47
143 10 0.10
144 4 0.04
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (140 bp):
TAAGACAAGGATCTCATGTAAGACCATGTCAAGACATGGCATTGGTAAGACAAGGATACCATGTA
AGACCATGTCAAGACATGGCATCGGCATAGATTAAGGATATCATGTAAGACCACATCAAGATGTG
GCATTAGCAC
Found at i:139594849 original size:55 final size:55
Alignment explanation
Indices: 139594728--139594971 Score: 255
Period size: 55 Copynumber: 4.5 Consensus size: 55
139594718 ATAAGGATAT
* * * * * ***
139594728 CATGTAAGGCCATGCCAAGGCATGGAATTGATAAGTT-CTATAAGG-TAAGGAAAT
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGG-TCC
* * *
139594782 CATGTAAGACCATGTCAAGACATGGTATTGATGAGTTACTATAAAGCAAAGGTCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
* * * *
139594837 CATATAAGACCATGCCAGGGCATGGCATTGATGAGTTACTATTAGGCAAAGGTCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
* * *
139594892 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTT-C-ATAAGGC-AAGGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGG-TCC
* *
139594945 CACGTAAGACCATGTCAAGACATGGCA
1 CATGTAAGACCATGCCAAGACATGGCA
139594972 ATGGTAAGTT
Statistics
Matches: 162, Mismatches: 25, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
52 4 0.02
53 32 0.20
54 33 0.20
55 89 0.55
56 4 0.02
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (55 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
Found at i:139599683 original size:46 final size:46
Alignment explanation
Indices: 139599566--139599780 Score: 181
Period size: 46 Copynumber: 4.6 Consensus size: 46
139599556 GAGAGCTAGA
* * *
139599566 TGTAAGA-CATTTCTGGGACAT-ACATCGACCTCGAGATGTAAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCG-GCTCGAGATGT-AGCCAG
* *
139599612 TGTAAGA-CATGTATGGGACAT-GCATCGGCTACGAGATGT-GTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCT-CGAGATGTAGCCAG
* * *
139599656 TGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTC-GAGATGT---AGCCAG
* * * * *
139599706 TGTAAGACCATGTCCGAGATATGGCATCGACTTGATGGATG-AGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTCGA--GATGTAGCCAG
*
139599753 TGTAAGACCATGTCTGGGACATGCCATC
1 TGTAAGACCATGTCTGGGACATGGCATC
139599781 AACAGTATAC
Statistics
Matches: 137, Mismatches: 22, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
44 11 0.08
45 16 0.12
46 46 0.34
47 29 0.21
49 2 0.01
50 30 0.22
51 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGTAGCCAG
Found at i:139609541 original size:14 final size:14
Alignment explanation
Indices: 139609522--139609551 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
139609512 CGTTATCCAT
139609522 GTTGTAGCCATAAG
1 GTTGTAGCCATAAG
*
139609536 GTTGTAGTCATAAG
1 GTTGTAGCCATAAG
139609550 GT
1 GT
139609552 CGGTATTCCG
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:0.27, C:0.10, G:0.30, T:0.33
Consensus pattern (14 bp):
GTTGTAGCCATAAG
Found at i:139613764 original size:46 final size:46
Alignment explanation
Indices: 139613584--139613845 Score: 169
Period size: 46 Copynumber: 5.6 Consensus size: 46
139613574 TTATTTCTGT
* *
139613584 GCCAGTGTAAGACATGTCTAGGACATGCATTGGCCAC-ATTATGAGA
1 GCCAGTGTAAGACATGTCTAGGACATGCATTGGCTACGA-GATGAGA
* * * * * *
139613630 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-ATTGAGACGAGA
1 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATTGGCTA-CGAGATGAGA
* * * *
139613678 GCTAGTGTAAGACATGTCTAGGACATGTATCAGCCT-CGAGATGTA-A
1 GCCAGTGTAAGACATGTCTAGGACATGCAT-TGGCTACGAGATG-AGA
* *
139613724 GCCAATGTAAGACATGTCTAGGACATGCATTGGCTACGAGAT--GT
1 GCCAGTGTAAGACATGTCTAGGACATGCATTGGCTACGAGATGAGA
* * * ** * *
139613768 GTCAGTGTAAGACCATGTTTGGGACATGGCATCAGC-ATGGATATGTGAGA
1 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATTGGCTA-CGAGA--TGAGA
*
139613818 GCTAGTGTAAGACCATGTCTAGGACATG
1 GCCAGTGTAAGA-CATGTCTAGGACATG
139613846 ACATCAACTT
Statistics
Matches: 168, Mismatches: 32, Indels: 29
0.73 0.14 0.13
Matches are distributed among these distances:
44 10 0.06
45 16 0.10
46 62 0.37
47 30 0.18
48 24 0.14
49 2 0.01
50 24 0.14
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTAGGACATGCATTGGCTACGAGATGAGA
Found at i:139615758 original size:29 final size:29
Alignment explanation
Indices: 139615725--139615798 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
139615715 GTGACGAGAT
139615725 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
139615754 TGGCACTAAGTGTGCGTTCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
139615783 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
139615799 ATTTACTACT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.24, C:0.15, G:0.31, T:0.30
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:139615827 original size:16 final size:18
Alignment explanation
Indices: 139615787--139615822 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
139615777 AATATATGGC
139615787 ACTATGTGTGCGATTTACT
1 ACTATGTGTGCGATTTA-T
139615806 ACTATGTGTGCGATTTA
1 ACTATGTGTGCGATTTA
139615823 CTATGGCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (18 bp):
ACTATGTGTGCGATTTAT
Found at i:139615833 original size:24 final size:24
Alignment explanation
Indices: 139615781--139615937 Score: 254
Period size: 24 Copynumber: 6.8 Consensus size: 24
139615771 TCTGGAAATA
139615781 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
139615805 --T---ACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
139615824 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
139615848 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
139615872 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
139615896 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
139615920 TATGGCACTATG-GTGCGA
1 TATGGCACTATGTGTGCGA
139615938 ACATAATAAG
Statistics
Matches: 126, Mismatches: 2, Indels: 11
0.91 0.01 0.08
Matches are distributed among these distances:
19 18 0.14
21 1 0.01
22 1 0.01
23 6 0.05
24 100 0.79
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:139623697 original size:27 final size:28
Alignment explanation
Indices: 139623666--139623737 Score: 119
Period size: 27 Copynumber: 2.6 Consensus size: 28
139623656 TTGACGAGAT
139623666 TGGCACTAAGTGTGCGTGCTGG-ATATA
1 TGGCACTAAGTGTGCGTGCTGGAATATA
139623693 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGG-AATATA
*
139623722 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
139623738 ATTTACTATG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
27 22 0.52
29 20 0.48
ACGTcount: A:0.22, C:0.15, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGTGCTGGAATATA
Found at i:139623798 original size:21 final size:23
Alignment explanation
Indices: 139623720--139623820 Score: 163
Period size: 24 Copynumber: 4.4 Consensus size: 23
139623710 GCTGGAAATA
139623720 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGA-TTAC
139623744 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGA-TTAC
139623768 TATGGCACTATGTGTGCGA-TAC
1 TATGGCACTATGTGTGCGATTAC
139623790 TAT-GCACTATGTGTGCGA-TAC
1 TATGGCACTATGTGTGCGATTAC
139623811 TATGGCACTA
1 TATGGCACTA
139623821 NNNNNNNNNN
Statistics
Matches: 76, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
21 21 0.28
22 12 0.16
24 43 0.57
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.35
Consensus pattern (23 bp):
TATGGCACTATGTGTGCGATTAC
Found at i:139627612 original size:40 final size:39
Alignment explanation
Indices: 139627447--139627630 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
139627437 AAATTGAATG
* * *
139627447 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
139627487 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
139627527 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
139627567 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
139627606 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
139627631 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:139627655 original size:80 final size:81
Alignment explanation
Indices: 139627487--139627675 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
139627477 GCTGGAAATT
* * * *
139627487 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
139627552 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
139627568 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
139627631 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
139627647 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
139627676 ACGAGTAGCG
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:139635410 original size:40 final size:39
Alignment explanation
Indices: 139635245--139635428 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
139635235 AAATTGAATG
* * *
139635245 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
139635285 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
139635325 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
139635365 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
139635404 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
139635429 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:139635453 original size:80 final size:81
Alignment explanation
Indices: 139635285--139635473 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
139635275 GCTGGAAATT
* * * *
139635285 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
139635350 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
139635366 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
139635429 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
139635445 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
139635474 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:139636937 original size:47 final size:45
Alignment explanation
Indices: 139636878--139637035 Score: 174
Period size: 47 Copynumber: 3.4 Consensus size: 45
139636868 TGTCCTATAT
* *
139636878 ATGTCCTACACTGGCTA-TCATCGTTGAGGCCAATGCATGTCCCAGAC
1 ATGTCTTACACTGGC-ACTCATC-TTG-GGCCGATGCATGTCCCAGAC
* * *
139636925 ATGTCTTACACTGGCACTCGTCTCTGTGTCGATGCCATGTCCCAGAC
1 ATGTCTTACACTGGCACTCATCT-TGGGCCGATG-CATGTCCCAGAC
* **
139636972 ATGGTCTTATACTGGCACTCATAATGTGGCCGATGCATGTCCCAGAC
1 AT-GTCTTACACTGGCACTCATCTTG-GGCCGATGCATGTCCCAGAC
139637019 ATGTCTTACACTGGCAC
1 ATGTCTTACACTGGCAC
139637036 ACAAGAAATC
Statistics
Matches: 94, Mismatches: 12, Indels: 11
0.80 0.10 0.09
Matches are distributed among these distances:
46 21 0.22
47 50 0.53
48 23 0.24
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (45 bp):
ATGTCTTACACTGGCACTCATCTTGGGCCGATGCATGTCCCAGAC
Found at i:139637394 original size:30 final size:30
Alignment explanation
Indices: 139637360--139637417 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
139637350 AAATTCACAT
* *
139637360 CTTTGGAAAAATGATCATTTTGCCCCTAAA
1 CTTTGGAAAAATGACCATTTTACCCCTAAA
139637390 CTTTGGAAAAATGACCATTTTACCCCTA
1 CTTTGGAAAAATGACCATTTTACCCCTA
139637418 TGCTCGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (30 bp):
CTTTGGAAAAATGACCATTTTACCCCTAAA
Found at i:139640338 original size:29 final size:28
Alignment explanation
Indices: 139640296--139640355 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
139640286 GGGCTAAGTC
*
139640296 CCGAAGGCTTTTGTGCTAAGTGACTATAT
1 CCGAAGGCATTTGTGC-AAGTGACTATAT
* *
139640325 CCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGAAGGCATTTGTGCAAGTGACTATAT
139640353 CCG
1 CCG
139640356 GACTAAGATC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (28 bp):
CCGAAGGCATTTGTGCAAGTGACTATAT
Found at i:139640371 original size:40 final size:40
Alignment explanation
Indices: 139640325--139640475 Score: 209
Period size: 40 Copynumber: 3.8 Consensus size: 40
139640315 GTGACTATAT
*
139640325 CCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGAT-
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAG-TC
* *
139640365 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
139640405 CCGAAGGCATTTGTGCGAGTTACTATA-ACGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
139640444 CCGAAGGCATTTGAGCGAG-TAGCTATATCCGG
1 CCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
139640476 TTAAATTCCG
Statistics
Matches: 99, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.02
39 33 0.33
40 64 0.65
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:139648340 original size:40 final size:39
Alignment explanation
Indices: 139648259--139648466 Score: 224
Period size: 40 Copynumber: 5.2 Consensus size: 39
139648249 TATTCGAATG
* * * *
139648259 ATAT-CGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGACTAAGT-CCGAAGGCATTTGTGC-GAGTTACT
*
139648299 ATATCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACT
139648339 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACT
* **
139648379 AAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGACTAAGT-CCGAAGGCATTTGTGCGAGTTACT
* * *
139648419 AT-TACCGGGCTATGTCCTGAAGGCATTTGAGCGAG-TAGCT
1 ATAT-CCGGACTAAGTCC-GAAGGCATTTGTGCGAGTTA-CT
139648459 ATATCCGG
1 ATATCCGG
139648467 TTAAATTCCG
Statistics
Matches: 148, Mismatches: 13, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
39 6 0.04
40 118 0.80
41 23 0.16
42 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (39 bp):
ATATCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACT
Found at i:139653379 original size:68 final size:70
Alignment explanation
Indices: 139653307--139653504 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
139653297 ACACCCTGTA
* * * *
139653307 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
139653369 ATAAAT
65 ATAAAT
*
139653375 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
139653440 ATAAAT
65 ATAAAT
*
139653446 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
139653505 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:139653418 original size:41 final size:41
Alignment explanation
Indices: 139653373--139653490 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
139653363 TGAAAGATAA
139653373 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
139653414 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
139653444 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
139653485 ATGTAG
1 ATGTAG
139653491 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:139653430 original size:71 final size:71
Alignment explanation
Indices: 139653341--139653504 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
139653331 GAGATGTATC
139653341 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
139653406 AGGACA
66 AGGACA
139653412 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
139653477 AGGACA
66 AGGACA
139653483 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
139653505 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:139660949 original size:68 final size:70
Alignment explanation
Indices: 139660877--139661074 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
139660867 ACACCCTGTA
* * * *
139660877 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
139660939 ATAAAT
65 ATAAAT
*
139660945 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
139661010 ATAAAT
65 ATAAAT
*
139661016 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
139661075 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:139660988 original size:41 final size:41
Alignment explanation
Indices: 139660943--139661060 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
139660933 TGAAAGATAA
139660943 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
139660984 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
139661014 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
139661055 ATGTAG
1 ATGTAG
139661061 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:139661000 original size:71 final size:71
Alignment explanation
Indices: 139660911--139661074 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
139660901 GAGATGTATC
139660911 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
139660976 AGGACA
66 AGGACA
139660982 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
139661047 AGGACA
66 AGGACA
139661053 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
139661075 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:139671205 original size:40 final size:39
Alignment explanation
Indices: 139671040--139671223 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
139671030 AAATTGAATG
* * *
139671040 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
139671080 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
139671120 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
139671160 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
139671199 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
139671224 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:139671248 original size:80 final size:81
Alignment explanation
Indices: 139671080--139671268 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
139671070 GCTGGAAATT
* * * *
139671080 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
139671145 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
139671161 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
139671224 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
139671240 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
139671269 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:139679238 original size:40 final size:40
Alignment explanation
Indices: 139679151--139679301 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
139679141 GAGAAAATGA
* * * **
139679151 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* * *
139679191 TAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
139679232 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
139679271 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
139679302 AATCGTGATA
Statistics
Matches: 90, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.06
40 82 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:139685444 original size:24 final size:24
Alignment explanation
Indices: 139685412--139685510 Score: 189
Period size: 24 Copynumber: 4.1 Consensus size: 24
139685402 AGGGGTAGAA
139685412 GATTTACTATGGCACTGTGTGTGC
1 GATTTACTATGGCACTGTGTGTGC
139685436 GATTTACTATGGCACTGTGTGTGC
1 GATTTACTATGGCACTGTGTGTGC
139685460 GATTTACTATGGCACTGTGTGTGC
1 GATTTACTATGGCACTGTGTGTGC
*
139685484 GATTTACTATGGCACTATGTGTGC
1 GATTTACTATGGCACTGTGTGTGC
139685508 GAT
1 GAT
139685511 CATAATAAGC
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
24 74 1.00
ACGTcount: A:0.18, C:0.16, G:0.28, T:0.37
Consensus pattern (24 bp):
GATTTACTATGGCACTGTGTGTGC
Found at i:139685523 original size:48 final size:48
Alignment explanation
Indices: 139685423--139685531 Score: 157
Period size: 48 Copynumber: 2.3 Consensus size: 48
139685413 ATTTACTATG
* * * *
139685423 GCACTGTGTGTGCGATTTACTATGGCACTGTGTGTGCGATTTACTATG
1 GCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATATAATATA
139685471 GCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATCATAATA-A
1 GCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGAT-ATAATATA
*
139685519 GCACTATGTGTGC
1 GCACTGTGTGTGC
139685532 CACATTCGGT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
48 51 0.93
49 4 0.07
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (48 bp):
GCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATATAATATA
Found at i:139688307 original size:32 final size:32
Alignment explanation
Indices: 139688263--139688356 Score: 84
Period size: 32 Copynumber: 2.8 Consensus size: 32
139688253 TCAAGCCCAT
*
139688263 TGGGCCTAAGCCC-ATTCAGATAACAGTGATAC
1 TGGGCC-AAGCCCTATTCAGATAACAGTGAAAC
* * *
139688295 TGGGCCAGAGCCCTTTTCAGATTACA-TTAAAC
1 TGGGCCA-AGCCCTATTCAGATAACAGTGAAAC
*
139688327 TGGGCCTTAGCCCCTTATTCAGATAACAGT
1 TGGGCC-AAG-CCC-TATTCAGATAACAGT
139688357 ATGGCCCATG
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
31 1 0.02
32 23 0.47
33 13 0.27
34 11 0.22
35 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (32 bp):
TGGGCCAAGCCCTATTCAGATAACAGTGAAAC
Found at i:139696180 original size:32 final size:32
Alignment explanation
Indices: 139696136--139696229 Score: 84
Period size: 32 Copynumber: 2.8 Consensus size: 32
139696126 CTCAAGCCAT
*
139696136 TGGGCCTAAGCCC-ATTCAGATAACAGTGATAC
1 TGGGCC-AAGCCCTATTCAGATAACAGTGAAAC
* * *
139696168 TGGGCCAGAGCCCTTTTCAGATTACA-TTAAAC
1 TGGGCCA-AGCCCTATTCAGATAACAGTGAAAC
*
139696200 TGGGCCTTAGCCCCTTATTCAGATAACAGT
1 TGGGCC-AAG-CCC-TATTCAGATAACAGT
139696230 ATGGCCCATA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
31 1 0.02
32 23 0.47
33 13 0.27
34 11 0.22
35 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (32 bp):
TGGGCCAAGCCCTATTCAGATAACAGTGAAAC
Found at i:139698407 original size:35 final size:35
Alignment explanation
Indices: 139698361--139698428 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
139698351 TAGTGCGATC
139698361 ATAATTGGAGCATCAATCAATTTATCCTTTAAATT
1 ATAATTGGAGCATCAATCAATTTATCCTTTAAATT
139698396 ATAATTGGAGCATCAATCAATTTATCCTTTAAA
1 ATAATTGGAGCATCAATCAATTTATCCTTTAAA
139698429 GTATTAAACG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (35 bp):
ATAATTGGAGCATCAATCAATTTATCCTTTAAATT
Found at i:139704773 original size:28 final size:28
Alignment explanation
Indices: 139704733--139704792 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
139704723 TTCTGTTGCT
*
139704733 TACTGAAATGGGCTA-AGGCCC-ACACTGA
1 TACTAAAATGGGCTATA-GCCCTA-ACTGA
139704761 TACTAAAATGGGCTATAGCCCTAACTGA
1 TACTAAAATGGGCTATAGCCCTAACTGA
139704789 TACT
1 TACT
139704793 GGACTACCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (28 bp):
TACTAAAATGGGCTATAGCCCTAACTGA
Found at i:139707629 original size:41 final size:41
Alignment explanation
Indices: 139707563--139707679 Score: 182
Period size: 41 Copynumber: 2.9 Consensus size: 41
139707553 AAAGCCACTT
*
139707563 GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAATCG
1 GTGGATCCACGATCGTCAAGCAACCATGCGATCCTTAATCG
* * *
139707604 GTGGATCCACGATCATTAAGAAACCATGCGATCCTTAATCG
1 GTGGATCCACGATCGTCAAGCAACCATGCGATCCTTAATCG
139707645 GTGGATCCAC-AGTCGTCAAGCAACCATGCGATCCT
1 GTGGATCCACGA-TCGTCAAGCAACCATGCGATCCT
139707680 CAATTTCTTC
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 1 0.01
41 67 0.99
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (41 bp):
GTGGATCCACGATCGTCAAGCAACCATGCGATCCTTAATCG
Found at i:139708251 original size:54 final size:54
Alignment explanation
Indices: 139707931--139708253 Score: 244
Period size: 54 Copynumber: 6.0 Consensus size: 54
139707921 CAAGGGTGTA
* * * *
139707931 TTGGTAAATTTACAAACCAAGGGTATTTCGATAATTTTGCAAACCAATGGTATT
1 TTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTGTAAACCAATGGTATT
* * * * * *
139707985 TTTGCAATTTTGA-AAGTCAAAGGTATTT-TGTAATTTTGTAAATCAGA-GGTATT
1 TTGGTAATTTT-ACAAATCAAGGGTATTTCGGTAATTTTGTAAACCA-ATGGTATT
* * * * ** *
139708038 TTTGTAATTTTCCAAATTAAGGGTATTTCGGTAATTTTCTAAA-TTAGGGTATT
1 TTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTGTAAACCAATGGTATT
* * ** * * *
139708091 TTGGGAATTTTATAAATTGAGGGTATTTCGATAATTTTATAAGTCC-ATGGTATT
1 TTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTGTAA-ACCAATGGTATT
** * *** * **
139708145 TTGGTAATTTTACAGGT-AGAAGGTATTTCGGTAATTTCACAAATCAGGGGTATT
1 TTGGTAATTTTACAAATCA-AGGGTATTTCGGTAATTTTGTAAACCAATGGTATT
* * *
139708199 TTGGTAATTTTACAAACCAAGGGCATTTTGGTAATTTTGTAAACCAATGGTATT
1 TTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTGTAAACCAATGGTATT
139708253 T
1 T
139708254 CAGTAATTCT
Statistics
Matches: 205, Mismatches: 54, Indels: 20
0.73 0.19 0.07
Matches are distributed among these distances:
52 1 0.00
53 83 0.40
54 119 0.58
55 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (54 bp):
TTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTGTAAACCAATGGTATT
Found at i:139708261 original size:27 final size:27
Alignment explanation
Indices: 139707921--139708253 Score: 178
Period size: 27 Copynumber: 12.4 Consensus size: 27
139707911 TTTCACCCTA
* * *
139707921 CAAGGGTGTATTGGTAAATTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
139707948 CAAGGGTATTTCGATAATTTTGCAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * **
139707975 CAATGGTATTTTTGCAATTTTGA-AAGT
1 CAAGGGTATTTTGGTAATTTT-ACAAAC
* ** *
139708002 CAAAGGTATTTT-GTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
139708028 C-AGAGGTATTTTTGTAATTTTCCAAAT
1 CAAG-GGTATTTTGGTAATTTTACAAAC
* *
139708055 TAAGGGTATTTCGGTAATTTT-CTAAA-
1 CAAGGGTATTTTGGTAATTTTAC-AAAC
** * * *
139708081 TTAGGGTATTTTGGGAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** * * * *
139708108 TGAGGGTATTTCGATAATTTTATAAGTC
1 CAAGGGTATTTTGGTAATTTTACAA-AC
* *
139708136 C-ATGGTATTTTGGTAATTTTACAGGTA-
1 CAAGGGTATTTTGGTAATTTTACA--AAC
* * * *
139708163 GAA-GGTATTTCGGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
139708189 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
139708216 CAAGGGCATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
139708243 CAATGGTATTT
1 CAAGGGTATTT
139708254 CAGTAATTCT
Statistics
Matches: 236, Mismatches: 56, Indels: 28
0.74 0.17 0.09
Matches are distributed among these distances:
25 2 0.01
26 42 0.18
27 189 0.80
28 3 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:139708280 original size:27 final size:27
Alignment explanation
Indices: 139708250--139708314 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
139708240 AACCAATGGT
139708250 ATTTCAGTAATTCTACCCTACAAGGGC
1 ATTTCAGTAATTCTACCCTACAAGGGC
* *
139708277 ATTTCAGTAATTCTATCCTATAAGGGC
1 ATTTCAGTAATTCTACCCTACAAGGGC
139708304 ATTTCAGTAAT
1 ATTTCAGTAAT
139708315 ACTAGCTTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTACAAGGGC
Found at i:139709877 original size:79 final size:81
Alignment explanation
Indices: 139709776--139709960 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
139709766 ACGACTCGCT
** * *
139709776 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
139709839 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
139709856 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
139709920 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
139709936 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
139709961 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:139709960 original size:40 final size:39
Alignment explanation
Indices: 139709769--139709960 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
139709759 GGATATAACG
* ** * *
139709769 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
139709809 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
139709849 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
139709888 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
139709928 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
139709961 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:139716509 original size:29 final size:29
Alignment explanation
Indices: 139716476--139716607 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
139716466 CCTCCGAACT
** * * *
139716476 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
139716505 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
139716534 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
139716563 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
139716592 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
139716608 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:139724570 original size:29 final size:29
Alignment explanation
Indices: 139724537--139724668 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
139724527 CCTCCGAACT
** * * *
139724537 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
139724566 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
139724595 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
139724624 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
139724653 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
139724669 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:139729140 original size:40 final size:39
Alignment explanation
Indices: 139729096--139729225 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 39
139729086 GGCTCGCTCA
* *
139729096 AATGCCTTCGGGACGAAGCCCGGTTATAGTGACTCGCACG
1 AATGCCTTCGGGACTAAGCCCGGTT-TAGTAACTCGCACG
* *
139729136 AATGCCTTCGGGACTTAA-CCCGGGTTTAGTAACTTGCACA
1 AATGCCTTCGGGAC-TAAGCCC-GGTTTAGTAACTCGCACG
* *
139729176 AATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGGACTAAGCCCGG-TTTAGTAACTCGCACG
139729215 AATGCCTTCGG
1 AATGCCTTCGG
139729226 ATCCTAGTCC
Statistics
Matches: 78, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
38 4 0.05
39 28 0.36
40 40 0.51
41 6 0.08
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTAAGCCCGGTTTAGTAACTCGCACG
Found at i:139729195 original size:79 final size:80
Alignment explanation
Indices: 139729094--139729278 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
139729084 ACGGCTCGCT
** * *
139729094 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
139729157 GGGTTTAGTAACTT-GCA
63 GGATATAGTAACTTAGCA
* **
139729174 CAAATGCCTTCGGGCTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGGA
*
139729239 TATAGTCACTTAGCA
66 TATAGTAACTTAGCA
*
139729254 CAAA-GCCTTCGAGACTTAGCCCGGA
1 CAAATGCCTTCG-GGCTTAGCCCGGA
139729279 CATCATTCGA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 52 0.58
80 35 0.39
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGGA
TATAGTAACTTAGCA
Found at i:139729278 original size:40 final size:38
Alignment explanation
Indices: 139729088--139729278 Score: 139
Period size: 40 Copynumber: 4.8 Consensus size: 38
139729078 GATATAACGG
* ** * *
139729088 CTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTGA
1 CTCGCACAAA-GCCTTC-GGACTTAGCCCGGATATAGTAA
* * * *
139729128 CTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTAA
1 CTCGCAC-AAAGCCTTC-GGACTTAGCCCGGATATAGTAA
* * * *
139729168 CTTGCACAAATGCCTTCGGGCTTAGCCCGGATTTATTAA
1 CTCGCACAAA-GCCTTCGGACTTAGCCCGGATATAGTAA
* * * *
139729207 CTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCA
1 CTCGCAC-AAAGCCTTCGGA-CTTAGCCCGGATATAGTAA
*
139729247 CTTAGCACAAAGCCTTCGAGACTTAGCCCGGA
1 C-TCGCACAAAGCCTTCG-GACTTAGCCCGGA
139729279 CATCATTCGA
Statistics
Matches: 119, Mismatches: 26, Indels: 12
0.76 0.17 0.08
Matches are distributed among these distances:
39 34 0.29
40 76 0.64
41 9 0.08
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (38 bp):
CTCGCACAAAGCCTTCGGACTTAGCCCGGATATAGTAA
Found at i:139738541 original size:29 final size:29
Alignment explanation
Indices: 139738508--139738667 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
139738498 GTGACGAGAT
139738508 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
139738537 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
139738566 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
139738595 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
139738624 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
139738653 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
139738668 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:139746622 original size:29 final size:29
Alignment explanation
Indices: 139746589--139746748 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
139746579 GTGACGAGAT
139746589 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
139746618 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
139746647 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
139746676 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
139746705 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
139746734 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
139746749 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:139751887 original size:47 final size:47
Alignment explanation
Indices: 139751814--139752254 Score: 711
Period size: 47 Copynumber: 9.4 Consensus size: 47
139751804 GATGTACAAG
* *
139751814 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* *
139751861 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
139751908 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
139751955 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* *
139752002 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
139752049 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* *
139752096 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * * *
139752143 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * *
139752190 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
139752237 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
139752255 TCCCGAAGGG
Statistics
Matches: 366, Mismatches: 28, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 366 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
Found at i:139751944 original size:22 final size:22
Alignment explanation
Indices: 139751916--139751991 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
139751906 AAGTGTGTAT
139751916 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* *** ***
139751938 ATGTGATGAATGTGAAAGTGTGTAT
1 ATGTGAT-AAGGCCTAA-TG-GCCG
139751963 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
139751985 ATGTGAT
1 ATGTGAT
139751992 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:139753889 original size:40 final size:40
Alignment explanation
Indices: 139753834--139754107 Score: 424
Period size: 40 Copynumber: 6.9 Consensus size: 40
139753824 TTCAGTATGT
* *
139753834 TATATTCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
139753874 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
* *
139753914 TATATCCGGACTAGGTCCCGAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
* * *
139753954 TGTATCCGGGCTAAGTTCCAAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
* * *
139753994 TGTATCCGGGCTAAGTTCCAAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
139754034 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
* * *
139754074 TGTATCCGGGCTAAGCCCCGAAG-GCATTTGTGCT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
139754108 TGGAAAAAAT
Statistics
Matches: 219, Mismatches: 15, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
39 10 0.05
40 209 0.95
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
Found at i:139755456 original size:31 final size:31
Alignment explanation
Indices: 139755418--139755481 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
139755408 CCTTTTCATA
139755418 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
139755449 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
139755480 TT
1 TT
139755482 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:139755724 original size:24 final size:24
Alignment explanation
Indices: 139755673--139755815 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
139755663 GCTTTATCAT
*
139755673 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
139755698 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
139755722 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
139755745 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
139755769 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
139755793 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
139755816 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:139755752 original size:47 final size:48
Alignment explanation
Indices: 139755673--139755814 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
139755663 GCTTTATCAT
* *
139755673 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
139755722 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
139755769 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
139755815 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:139755773 original size:71 final size:72
Alignment explanation
Indices: 139755672--139755815 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
139755662 TGCTTTATCA
*
139755672 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
139755737 GCCCTTT
66 GCCCTTT
* * **
139755744 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
139755807 AGCCCTTT
65 AGCCCTTT
139755815 T
1 T
139755816 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:139755891 original size:20 final size:20
Alignment explanation
Indices: 139755866--139755925 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
139755856 TATGATTACC
139755866 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
139755886 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
139755906 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
139755926 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:139755896 original size:11 final size:11
Alignment explanation
Indices: 139755866--139755920 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
139755856 TATGATTACC
139755866 TCATGTGCATA
1 TCATGTGCATA
*
139755877 TCA--TACATA
1 TCATGTGCATA
139755886 TCATGTGCATA
1 TCATGTGCATA
* *
139755897 TCA--TACATT
1 TCATGTGCATA
139755906 TCATGTGCATA
1 TCATGTGCATA
139755917 TCAT
1 TCAT
139755921 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:139756000 original size:25 final size:25
Alignment explanation
Indices: 139755968--139756015 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
139755958 ATACATAAAC
* * *
139755968 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
139755993 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
139756016 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:139763560 original size:31 final size:31
Alignment explanation
Indices: 139763522--139763585 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
139763512 CCTTTTCATA
139763522 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
139763553 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
139763584 TT
1 TT
139763586 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:139763828 original size:24 final size:24
Alignment explanation
Indices: 139763777--139763919 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
139763767 GCTTTATCAT
*
139763777 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
139763802 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
139763826 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
139763849 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
139763873 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
139763897 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
139763920 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:139763856 original size:47 final size:48
Alignment explanation
Indices: 139763777--139763918 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
139763767 GCTTTATCAT
* *
139763777 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
139763826 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
139763873 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
139763919 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:139763877 original size:71 final size:72
Alignment explanation
Indices: 139763776--139763919 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
139763766 TGCTTTATCA
*
139763776 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
139763841 GCCCTTT
66 GCCCTTT
* * **
139763848 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
139763911 AGCCCTTT
65 AGCCCTTT
139763919 T
1 T
139763920 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:139763995 original size:20 final size:20
Alignment explanation
Indices: 139763970--139764029 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
139763960 TATGATTACC
139763970 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
139763990 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
139764010 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
139764030 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:139764000 original size:11 final size:11
Alignment explanation
Indices: 139763970--139764024 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
139763960 TATGATTACC
139763970 TCATGTGCATA
1 TCATGTGCATA
*
139763981 TCA--TACATA
1 TCATGTGCATA
139763990 TCATGTGCATA
1 TCATGTGCATA
* *
139764001 TCA--TACATT
1 TCATGTGCATA
139764010 TCATGTGCATA
1 TCATGTGCATA
139764021 TCAT
1 TCAT
139764025 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:139764104 original size:25 final size:25
Alignment explanation
Indices: 139764072--139764119 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
139764062 ATACATAAAC
* * *
139764072 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
139764097 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
139764120 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:139769217 original size:47 final size:47
Alignment explanation
Indices: 139769158--139769739 Score: 975
Period size: 47 Copynumber: 12.4 Consensus size: 47
139769148 GATGTACAAG
*
139769158 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
139769205 GTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* *
139769252 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
139769299 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
139769346 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
139769393 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
139769440 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* *
139769487 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
139769534 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* *
139769581 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * * *
139769628 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * *
139769675 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
139769722 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
139769740 TCCCGAAGGG
Statistics
Matches: 504, Mismatches: 31, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 504 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
Found at i:139769288 original size:22 final size:22
Alignment explanation
Indices: 139769260--139769382 Score: 59
Period size: 22 Copynumber: 5.3 Consensus size: 22
139769250 AAGTGTGTAT
139769260 ATGTGATAAGGCCTAATGGCCA
1 ATGTGATAAGGCCTAATGGCCA
* *** *
139769282 ATGTGATGAATGTGAAAGTGTG-TA
1 ATGTGAT-AAGGCCTAA-TG-GCCA
*
139769306 TATGTGATAAGGCCTAATGGCCG
1 -ATGTGATAAGGCCTAATGGCCA
* *** ***
139769329 ATGTGATGAATGTGAAAGTGTATA
1 ATGTGAT-AAGGCCTAA-TGGCCA
139769353 TATGTGATAAGGCCTAATGGCCA
1 -ATGTGATAAGGCCTAATGGCCA
139769376 ATGTGAT
1 ATGTGAT
139769383 GAATGTGAAA
Statistics
Matches: 67, Mismatches: 26, Indels: 16
0.61 0.24 0.15
Matches are distributed among these distances:
22 22 0.33
23 15 0.22
24 15 0.22
25 15 0.22
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCA
Found at i:139769429 original size:22 final size:22
Alignment explanation
Indices: 139769401--139769476 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
139769391 AAGTGTGTAT
139769401 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* *** ***
139769423 ATGTGATGAATGTGAAAGTGTGTAT
1 ATGTGAT-AAGGCCTAA-TG-GCCG
139769448 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
139769470 ATGTGAT
1 ATGTGAT
139769477 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:139775933 original size:26 final size:26
Alignment explanation
Indices: 139775904--139776001 Score: 81
Period size: 27 Copynumber: 3.7 Consensus size: 26
139775894 TTAGTTTACC
*
139775904 AAATTACTAAAATAACCCCAGTTGTA
1 AAATTACCAAAATAACCCCAGTTGTA
* * * *
139775930 AAATTACCAAAGTACCCCCGGTTTATA
1 AAATTACCAAAATAACCCCAG-TTGTA
* * * *
139775957 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCAAAATAACC-CCAGTTGTA
*
139775984 AAATTACCGAAAT-ACCCC
1 AAATTACCAAAATAACCCC
139776002 TGTAAGGTAG
Statistics
Matches: 55, Mismatches: 15, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
25 1 0.02
26 19 0.35
27 34 0.62
28 1 0.02
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (26 bp):
AAATTACCAAAATAACCCCAGTTGTA
Found at i:139775962 original size:27 final size:26
Alignment explanation
Indices: 139775928--139776001 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 26
139775918 ACCCCAGTTG
*
139775928 TAAAATTACCAAAGTACCCCCGGTTTA
1 TAAAATTACCAAA-TACCCCCGATTTA
* * *
139775955 TAAAATTACCCAAATATCCTCGATTTG
1 TAAAATTA-CCAAATACCCCCGATTTA
139775982 TAAAATTACCGAAATACCCC
1 TAAAATTACC-AAATACCCC
139776002 TGTAAGGTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.05
27 32 0.82
28 5 0.13
ACGTcount: A:0.39, C:0.26, G:0.08, T:0.27
Consensus pattern (26 bp):
TAAAATTACCAAATACCCCCGATTTA
Found at i:139776015 original size:27 final size:27
Alignment explanation
Indices: 139775985--139776800 Score: 985
Period size: 27 Copynumber: 30.3 Consensus size: 27
139775975 CGATTTGTAA
*
139775985 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
139776012 AATTACTGAAATACCCCTGTAAGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
139776039 AATTACCGAAATACCCCTGTAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
139776066 AATTACTAAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
139776093 AATTACCGAAATACCCCTGTAAGGTAC
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
139776120 AATTATTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
139776147 AATTACCAAAAAGACCCTTGTAGGGTAG
1 AATTACC-GAAATACCCCTGTAGGGTAG
* ** * *
139776175 AATTGCTAAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
139776202 AATTACCG-AATA-CCCTATAGTGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
139776227 AATTACTGAAATACCCCTGTAAGGTTG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
139776254 AATTATCGAAATACCCCTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
139776281 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * * *
139776308 AATTATTGAAATACCCTTATATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
139776335 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
139776362 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
139776389 AATTATCGAAATATCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
139776416 AATTACCGAAATACCCCTGTAGGGTAT
1 AATTACCGAAATACCCCTGTAGGGTAG
139776443 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
139776470 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
139776497 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
139776524 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
139776551 AATAATCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
139776578 AATAATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
139776605 AATTATCGAAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
139776632 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
139776659 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
139776686 AATTATCGAAATACACCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
139776713 AATTACTGAAATACCCCTGTAGGGTAGG
1 AATTACCGAAATACCCCTGTAGGGTA-G
** *
139776741 AA-TACTAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
139776767 AATTACCGAGAA-A-CCCTCGTGGGGTAA
1 AATTACCGA-AATACCCCT-GTAGGGTAG
139776794 AATTACC
1 AATTACC
139776801 ATTTTACCCC
Statistics
Matches: 688, Mismatches: 94, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
25 16 0.02
26 15 0.02
27 631 0.92
28 26 0.04
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:139777238 original size:6 final size:6
Alignment explanation
Indices: 139777201--139777331 Score: 72
Period size: 6 Copynumber: 21.3 Consensus size: 6
139777191 TTGCATTCAC
* * * *
139777201 ATTCTA ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * * *
139777250 -TTACCTG ATACTA ATTTTG ATTCTG ATCCTG -TCACCTA ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
*
139777300 ATTCTG ATTCTG ATTATG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
139777332 AATGTTTCTT
Statistics
Matches: 95, Mismatches: 19, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
5 6 0.06
6 76 0.80
7 10 0.11
8 3 0.03
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:139777242 original size:31 final size:31
Alignment explanation
Indices: 139777201--139777311 Score: 141
Period size: 31 Copynumber: 3.6 Consensus size: 31
139777191 TTGCATTCAC
* *
139777201 ATTCTAATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* *
139777232 ATTCTGATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * * * *
139777263 ATTTTGATTCTGATCCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
139777294 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
139777312 ATTATGATTC
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 69 1.00
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:139777288 original size:25 final size:25
Alignment explanation
Indices: 139777223--139777301 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
139777213 ATTCTGTTAC
* *
139777223 CTGATA-CTGATTCTGATTTTGATT
1 CTGATACCTGATACTAATTTTGATT
*
139777247 CTGTTACCTGATACTAATTTTGATT
1 CTGATACCTGATACTAATTTTGATT
*
139777272 CTGAT-CCTG-TCACCTAATTCTGATT
1 CTGATACCTGAT-A-CTAATTTTGATT
139777297 CTGAT
1 CTGAT
139777302 TCTGATTCTG
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
23 1 0.02
24 10 0.21
25 36 0.77
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.46
Consensus pattern (25 bp):
CTGATACCTGATACTAATTTTGATT
Found at i:139778880 original size:40 final size:40
Alignment explanation
Indices: 139778781--139778882 Score: 118
Period size: 40 Copynumber: 2.5 Consensus size: 40
139778771 GCTACTCGTT
* * * *
139778781 CAAATGCATTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
* *
139778821 CAAATGCCTTC-GGATCTTAGTCCGGATATAATCACTCAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAATAACTC-GCA
139778862 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
139778883 TGGACATCAT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
39 3 0.06
40 39 0.75
41 10 0.19
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
Found at i:139787546 original size:30 final size:29
Alignment explanation
Indices: 139787492--139787650 Score: 205
Period size: 29 Copynumber: 5.4 Consensus size: 29
139787482 TAGTGAATCT
139787492 GCACACTTAGTGCTATATATTTTCAGCTC
1 GCACACTTAGTGCTATATATTTTCAGCTC
*
139787521 GCACAGTTAGTGCTATATAATTTTCAGCTC
1 GCACACTTAGTGCTATAT-ATTTTCAGCTC
139787551 GCACACTTAGTGCTATATATTTTCAGCTC
1 GCACACTTAGTGCTATATATTTTCAGCTC
* *
139787580 GCACACTTAGTGCTATATA--ATCAAACTC
1 GCACACTTAGTGCTATATATTTTC-AGCTC
* * * * *
139787608 GCACACTTAGTGCTGTACAATTTTAAACCC
1 GCACACTTAGTGCTATA-TATTTTCAGCTC
139787638 GCACACTTAGTGC
1 GCACACTTAGTGC
139787651 CAATCTTGTC
Statistics
Matches: 116, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.02
28 20 0.17
29 48 0.41
30 45 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (29 bp):
GCACACTTAGTGCTATATATTTTCAGCTC
Found at i:139787584 original size:59 final size:57
Alignment explanation
Indices: 139787492--139787650 Score: 212
Period size: 59 Copynumber: 2.7 Consensus size: 57
139787482 TAGTGAATCT
* *
139787492 GCACACTTAGTGCTATATATTTTCAGCTCGCACAGTTAGTGCTATATAATTTTC-AGCTC
1 GCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACTC
139787551 GCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACTC
* * * * *
139787608 GCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 GCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
139787651 CAATCTTGTC
Statistics
Matches: 91, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 48 0.53
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (57 bp):
GCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACTC
Found at i:139793093 original size:93 final size:93
Alignment explanation
Indices: 139792981--139793152 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
139792971 GCCCATAAGT
* *
139792981 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
139793046 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
139793074 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
139793139 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
139793153 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:139793148 original size:46 final size:46
Alignment explanation
Indices: 139792973--139793148 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
139792963 TGTAACCCGC
* * *
139792973 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
139793019 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
139793069 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
139793112 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
139793149 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:139795569 original size:30 final size:30
Alignment explanation
Indices: 139795525--139795613 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
139795515 CAAAGATAAC
139795525 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
139795554 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
139795584 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
139795614 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:139795573 original size:15 final size:15
Alignment explanation
Indices: 139795525--139795604 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
139795515 CAAAGATAAC
*
139795525 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
139795539 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
139795554 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
139795569 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
139795584 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
139795599 AAGAAA
1 AAGAAA
139795605 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:139795613 original size:15 final size:15
Alignment explanation
Indices: 139795536--139795613 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
139795526 AGAAAACCGA
139795536 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
139795551 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
139795565 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
139795580 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
139795596 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
139795611 ATA
1 ATA
139795614 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:139798673 original size:93 final size:93
Alignment explanation
Indices: 139798561--139798732 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
139798551 GCCCATAAGT
* *
139798561 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
139798626 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
139798654 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
139798719 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
139798733 CAAATATCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:139798728 original size:46 final size:46
Alignment explanation
Indices: 139798553--139798728 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
139798543 TGTAACCCGC
* * *
139798553 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
139798599 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
139798649 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
139798692 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
139798729 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:139801770 original size:91 final size:91
Alignment explanation
Indices: 139801708--139801902 Score: 248
Period size: 91 Copynumber: 2.1 Consensus size: 91
139801698 GTATTAGTAG
* * * * *
139801708 CTTTTATATGCACTAATGGATGGTTCATCCATCAATATTTTATTCTG-CAGTTTACCTACTCGAC
1 CTTTTATATGCACAAATGGATGGTTCAACCACCAATATTTCAGTC-GCCAGTTTACCTACTCGAC
*
139801772 CAATGGTTCATCCACAATGTTCAACAA
65 CAATGGTTCATCCACAACGTTCAACAA
**
139801799 CTTTTATATGCACAAATGGATGGTTCAACCACCAATATTTCAGTCGCCAGTTTACCTACTTAACC
1 CTTTTATATGCACAAATGGATGGTTCAACCACCAATATTTCAGTCGCCAGTTTACCTACTCGACC
* * * *
139801864 AATGGTTCATCTACAAAGTATTAGCAA
66 AATGGTTCATCCACAACGT-TCAACAA
*
139801891 CTTTTATCTGCA
1 CTTTTATATGCA
139801903 TAGACAGTTG
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
90 1 0.01
91 73 0.81
92 16 0.18
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (91 bp):
CTTTTATATGCACAAATGGATGGTTCAACCACCAATATTTCAGTCGCCAGTTTACCTACTCGACC
AATGGTTCATCCACAACGTTCAACAA
Found at i:139804131 original size:10 final size:10
Alignment explanation
Indices: 139804116--139804140 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
139804106 ATTGATGAAT
139804116 AAAATATAAA
1 AAAATATAAA
139804126 AAAATATAAA
1 AAAATATAAA
139804136 AAAAT
1 AAAAT
139804141 GCTTATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATATAAA
Found at i:139808184 original size:20 final size:21
Alignment explanation
Indices: 139808138--139808190 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
139808128 TACTAATTAC
139808138 AAATATTTAATAATTATATTT
1 AAATATTTAATAATTATATTT
139808159 AAATATTTAA-AA-TATAGTTT
1 AAATATTTAATAATTATA-TTT
*
139808179 ATATATTCTAAT
1 AAATATT-TAAT
139808191 TAAATTTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 4 0.14
20 11 0.39
21 13 0.46
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
AAATATTTAATAATTATATTT
Found at i:139808486 original size:13 final size:13
Alignment explanation
Indices: 139808470--139808499 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
139808460 ACTTTTTCAC
139808470 AGCACTTTCCAAA
1 AGCACTTTCCAAA
*
139808483 AGCACTTTTCAAA
1 AGCACTTTCCAAA
139808496 AGCA
1 AGCA
139808500 TTGCCAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.27, G:0.10, T:0.23
Consensus pattern (13 bp):
AGCACTTTCCAAA
Done.