Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 108 of 214
Found at i:32462815 original size:18 final size:18
Alignment explanation
Indices: 32462794--32462876 Score: 94
Period size: 18 Copynumber: 4.6 Consensus size: 18
32462784 ACCCATATTG
*
32462794 TTATGCGAACCTTTGTTA
1 TTATGCGAACCTATGTTA
* * *
32462812 TTATGCAAACTTATGTTG
1 TTATGCGAACCTATGTTA
32462830 TTATGCGAACCTATGTTA
1 TTATGCGAACCTATGTTA
* * *
32462848 TTTTTCGAACCCATGTTA
1 TTATGCGAACCTATGTTA
*
32462866 TTGTGCGAACC
1 TTATGCGAACC
32462877 CTAACATTAA
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 53 1.00
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (18 bp):
TTATGCGAACCTATGTTA
Found at i:32462864 original size:36 final size:36
Alignment explanation
Indices: 32462775--32462876 Score: 114
Period size: 36 Copynumber: 2.8 Consensus size: 36
32462765 TGATCTTTCT
* *
32462775 TTTTTCGAAACCCATATTGTTATGCGAACCTTTGTTA
1 TTTTTCG-AACCCATGTTGTTATGCGAACCTATGTTA
* * * **
32462812 TTATGCAAACTTATGTTGTTATGCGAACCTATGTTA
1 TTTTTCGAACCCATGTTGTTATGCGAACCTATGTTA
* *
32462848 TTTTTCGAACCCATGTTATTGTGCGAACC
1 TTTTTCGAACCCATGTTGTTATGCGAACC
32462877 CTAACATTAA
Statistics
Matches: 51, Mismatches: 14, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
36 47 0.92
37 4 0.08
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.41
Consensus pattern (36 bp):
TTTTTCGAACCCATGTTGTTATGCGAACCTATGTTA
Found at i:32462877 original size:18 final size:18
Alignment explanation
Indices: 32462783--32462877 Score: 82
Period size: 18 Copynumber: 5.3 Consensus size: 18
32462773 CTTTTTTCGA
* *
32462783 AACCCATATTGTTATGCG
1 AACCCATGTTATTATGCG
** *
32462801 AACCTTTGTTATTATGCA
1 AACCCATGTTATTATGCG
** *
32462819 AACTTATGTTGTTATGCG
1 AACCCATGTTATTATGCG
* * *
32462837 AACCTATGTTATTTTTCG
1 AACCCATGTTATTATGCG
*
32462855 AACCCATGTTATTGTGCG
1 AACCCATGTTATTATGCG
32462873 AACCC
1 AACCC
32462878 TAACATTAAT
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (18 bp):
AACCCATGTTATTATGCG
Found at i:32465409 original size:44 final size:42
Alignment explanation
Indices: 32465359--32465471 Score: 118
Period size: 44 Copynumber: 2.6 Consensus size: 42
32465349 GGTGCTTCGG
* *** *
32465359 TGGCATTCTATTAACCTTTATGGTGTATTTTGATTTGGCCTTTA
1 TGGCATTCTATTAGCCTTTATGGCACATTTTG--TTAGCCTTTA
*
32465403 TGGCATTCTAATCTAGCCTTTGTGGCACATTTTGTTAGCCTTTA
1 TGGCATTCT-AT-TAGCCTTTATGGCACATTTTGTTAGCCTTTA
* *
32465447 TGGCATTCTACTAGCCTTTGTGGCA
1 TGGCATTCTATTAGCCTTTATGGCA
32465472 TGTTCTATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 14 0.23
43 1 0.02
44 27 0.45
45 2 0.03
46 16 0.27
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (42 bp):
TGGCATTCTATTAGCCTTTATGGCACATTTTGTTAGCCTTTA
Found at i:32465428 original size:22 final size:21
Alignment explanation
Indices: 32465396--32465472 Score: 77
Period size: 22 Copynumber: 3.6 Consensus size: 21
32465386 TTTTGATTTG
32465396 GCCTTTATGGCATTCTAATCTA
1 GCCTTTATGGCATTCT-ATCTA
* * *
32465418 GCCTTTGTGGCACATTTTGT-TA
1 GCCTTTATGG--CATTCTATCTA
32465440 GCCTTTATGGCATTCTA-CTA
1 GCCTTTATGGCATTCTATCTA
*
32465460 GCCTTTGTGGCAT
1 GCCTTTATGGCAT
32465473 GTTCTATATG
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
20 19 0.42
22 20 0.44
23 1 0.02
24 5 0.11
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.42
Consensus pattern (21 bp):
GCCTTTATGGCATTCTATCTA
Found at i:32467513 original size:19 final size:19
Alignment explanation
Indices: 32467489--32467528 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
32467479 ACATAAAATA
*
32467489 AACTAAGTAAAAACTTAAG
1 AACTAAATAAAAACTTAAG
32467508 AACTAAATAAAAACTTAAG
1 AACTAAATAAAAACTTAAG
32467527 AA
1 AA
32467529 TCAATCCCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.62, C:0.10, G:0.07, T:0.20
Consensus pattern (19 bp):
AACTAAATAAAAACTTAAG
Found at i:32471393 original size:30 final size:30
Alignment explanation
Indices: 32471350--32471412 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
32471340 CTTAACAAGA
*
32471350 AAATGCCTCTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAAGAACAAAATTAAC
* *
32471380 AAATGTCTTTAAAATAAGAACAAAATTAAC
1 AAATGCCTCTAAAATAAGAACAAAATTAAC
32471410 AAA
1 AAA
32471413 AAATAAGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.59, C:0.13, G:0.05, T:0.24
Consensus pattern (30 bp):
AAATGCCTCTAAAATAAGAACAAAATTAAC
Found at i:32473380 original size:69 final size:69
Alignment explanation
Indices: 32473244--32473396 Score: 164
Period size: 69 Copynumber: 2.2 Consensus size: 69
32473234 GACTGCCTTT
* * **** *
32473244 GGTTTCCTCCTTTCGTCTCTACTCAGCTGCTACACTCTATTGTTGCCTTTGGATCTCTACACTCT
1 GGTTTCCTCCTTTCATCCCTACTCAGCTGCTACACTCTATTGTTGCCTCCAAATCTCTACACCCT
32473309 TTAG
66 TTAG
* * * * *
32473313 GGTTTCCTCTTTTCATCCCTACTTAGTTGCTACCCTTTATTGTTGCCTCCAAATCT-TCACACCC
1 GGTTTCCTCCTTTCATCCCTACTCAGCTGCTACACTCTATTGTTGCCTCCAAATCTCT-ACACCC
32473377 TTTAG
65 TTTAG
32473382 GGTTTTTCCTCCTTT
1 GG--TTTCCTCCTTT
32473397 GGCTTTTTAT
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
68 1 0.01
69 57 0.84
71 10 0.15
ACGTcount: A:0.13, C:0.31, G:0.12, T:0.44
Consensus pattern (69 bp):
GGTTTCCTCCTTTCATCCCTACTCAGCTGCTACACTCTATTGTTGCCTCCAAATCTCTACACCCT
TTAG
Found at i:32480600 original size:7 final size:7
Alignment explanation
Indices: 32480588--32480634 Score: 85
Period size: 7 Copynumber: 6.7 Consensus size: 7
32480578 TCACGCCCTC
32480588 TAGGGTT
1 TAGGGTT
32480595 TAGGGTT
1 TAGGGTT
32480602 TAGGGTT
1 TAGGGTT
*
32480609 TAAGGTT
1 TAGGGTT
32480616 TAGGGTT
1 TAGGGTT
32480623 TAGGGTT
1 TAGGGTT
32480630 TAGGG
1 TAGGG
32480635 CGTGATTTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (7 bp):
TAGGGTT
Found at i:32481027 original size:23 final size:22
Alignment explanation
Indices: 32480983--32481470 Score: 549
Period size: 23 Copynumber: 22.0 Consensus size: 22
32480973 AGGATGCTAG
32480983 TTAAGGGTTTAGGG-TTTTAATT
1 TTAAGGGTTTAGGGTTTTTAA-T
*
32481005 TTAAGGGTTTAAGGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* ** *
32481027 TAAATTAGTTTAGGGTTTTTAAG
1 TTAA-GGGTTTAGGGTTTTTAAT
*
32481050 TTAAGGGCTTAGGGTTTTTAATT
1 TTAAGGGTTTAGGGTTTTTAA-T
32481073 TTAAGGGTTTA-GGTTTTATAAT
1 TTAAGGGTTTAGGGTTTT-TAAT
* * *
32481095 TTAAGGG-TTAGGGCTTATAAG
1 TTAAGGGTTTAGGGTTTTTAAT
*
32481116 TTAATGGTTTAGGGTTTTTAATT
1 TTAAGGGTTTAGGGTTTTTAA-T
*
32481139 TTAAGGGTTTATGGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* **
32481161 TAAATTAGTTTAGGGTTTTTAAGT
1 TTAA-GGGTTTAGGGTTTTTAA-T
*
32481185 TAAAGGG-TTAGGGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* ** *
32481206 TAAATTAGTTTAGGGTTTTTAAG
1 TTAA-GGGTTTAGGGTTTTTAAT
* *
32481229 TTAAGGGCTTAGGGTTTTTATT
1 TTAAGGGTTTAGGGTTTTTAAT
*
32481251 TTAAGGGTTTAGGGTTCTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* *
32481273 TTAAGGG-TTAGAGTTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAT
32481294 TTAAGGGTTTAGGGTTTTTAATT
1 TTAAGGGTTTAGGGTTTTTAA-T
* *
32481317 TTAAGAGTTTATGGTTTTTAACT
1 TTAAGGGTTTAGGGTTTTTAA-T
32481340 TTAAGGGTTTAGGGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
*
32481362 TTAAGGG-TTAGGGTTTTTAAA
1 TTAAGGGTTTAGGGTTTTTAAT
*
32481383 TTAAGGGTTTAGGG-TTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAT
*
32481404 TCAAGGGTTTAGGGTTTTTAATT
1 TTAAGGGTTTAGGGTTTTTAA-T
*
32481427 TTAAGGGTTTAGGATTTTTAATT
1 TTAAGGGTTTAGGGTTTTTAA-T
32481450 TTAAGGGTTTAGGGTTTTTAA
1 TTAAGGGTTTAGGGTTTTTAA
32481471 GTAATAACTC
Statistics
Matches: 394, Mismatches: 56, Indels: 31
0.82 0.12 0.06
Matches are distributed among these distances:
21 74 0.19
22 149 0.38
23 166 0.42
24 5 0.01
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.48
Consensus pattern (22 bp):
TTAAGGGTTTAGGGTTTTTAAT
Found at i:32481159 original size:89 final size:88
Alignment explanation
Indices: 32480983--32481472 Score: 598
Period size: 89 Copynumber: 5.5 Consensus size: 88
32480973 AGGATGCTAG
* *
32480983 TTAAGGGTTTAGGG-TTTTAATTTTAAGGGTTTAAGGTTTTTAA-TTAAATTAGTTTAGGGTTTT
1 TTAAGGGTTTAGGGTTTTTAA-TTTAAGGG-TTAGGGTTTTTAAGTT-AA-TGGTTTAGGGTTTT
*
32481046 TAAGTTAAGGGCTTAGGGTTTTTAATT
62 TAAGTTAAGGGTTTAGGGTTTTTAATT
* *
32481073 TTAAGGGTTTA-GGTTTTATAATTTAAGGGTTAGGGCTTATAAGTTAATGGTTTAGGGTTTTTAA
1 TTAAGGGTTTAGGGTTTT-TAATTTAAGGGTTAGGGTTTTTAAGTTAATGGTTTAGGGTTTTTAA
* *
32481137 TTTTAAGGGTTTATGGTTTTTAA-T
65 -GTTAAGGGTTTAGGGTTTTTAATT
* ** * *
32481161 TAAATTAGTTTAGGGTTTTTAAGTTAAAGGGTTAGGGTTTTTAA-TTAAATTAGTTTAGGGTTTT
1 TTAA-GGGTTTAGGGTTTTTAA-TTTAAGGGTTAGGGTTTTTAAGTT-AA-TGGTTTAGGGTTTT
*
32481225 TAAGTTAAGGGCTTAGGGTTTTT-ATT
62 TAAGTTAAGGGTTTAGGGTTTTTAATT
* * *
32481251 TTAAGGGTTTAGGGTTCTTAATTTAAGGGTTAGAGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAATGGTTTAGGGTTTTTAA-
* * * *
32481316 TTTAAGAGTTTATGGTTTTTAACT
65 GTTAAGGGTTTAGGGTTTTTAATT
* *
32481340 TTAAGGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAATTAAGGGTTTAGGG-TTTTAAG
1 TTAAGGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAATGGTTTAGGGTTTTTAAG
*
32481404 TCAAGGGTTTAGGGTTTTTAATT
66 TTAAGGGTTTAGGGTTTTTAATT
*
32481427 TTAAGGGTTTAGGATTTTTAATTTTAAGGGTTTAGGGTTTTTAAGT
1 TTAAGGGTTTAGGGTTTTTAA-TTTAAGGG-TTAGGGTTTTTAAGT
32481473 AATAACTCAA
Statistics
Matches: 345, Mismatches: 40, Indels: 31
0.83 0.10 0.07
Matches are distributed among these distances:
87 54 0.16
88 71 0.21
89 130 0.38
90 71 0.21
91 19 0.06
ACGTcount: A:0.25, C:0.01, G:0.26, T:0.48
Consensus pattern (88 bp):
TTAAGGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAATGGTTTAGGGTTTTTAAG
TTAAGGGTTTAGGGTTTTTAATT
Found at i:32482849 original size:20 final size:20
Alignment explanation
Indices: 32482812--32482849 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32482802 TTTATTTTTA
*
32482812 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
32482832 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
32482850 TTCCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:32485348 original size:11 final size:12
Alignment explanation
Indices: 32485334--32485409 Score: 92
Period size: 11 Copynumber: 6.8 Consensus size: 12
32485324 TTAAATATGG
32485334 ATTTGAGA-GAA
1 ATTTGAGAGGAA
32485345 ATTTG-GAAGG-A
1 ATTTGAG-AGGAA
32485356 ATTTGAGAGGAA
1 ATTTGAGAGGAA
32485368 A-TTGAGAGGAA
1 ATTTGAGAGGAA
32485379 ATTT-AGAGGAA
1 ATTTGAGAGGAA
*
32485390 A-TTGAGATGAA
1 ATTTGAGAGGAA
32485401 ATTTGAGAG
1 ATTTGAGAG
32485410 ATGATTAGTT
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
10 3 0.05
11 41 0.73
12 12 0.21
ACGTcount: A:0.42, C:0.00, G:0.32, T:0.26
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:32485389 original size:33 final size:35
Alignment explanation
Indices: 32485334--32485409 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 35
32485324 TTAAATATGG
* *
32485334 ATTTGAGA-GAAATTTGGAAGGAATTTGAGAGGAA
1 ATTTGAGAGGAAATTTAGAAGGAAATTGAGAGGAA
*
32485368 A-TTGAGAGGAAATTTAG-AGGAAATTGAGATGAA
1 ATTTGAGAGGAAATTTAGAAGGAAATTGAGAGGAA
32485401 ATTTGAGAG
1 ATTTGAGAG
32485410 ATGATTAGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 21 0.57
34 16 0.43
ACGTcount: A:0.42, C:0.00, G:0.32, T:0.26
Consensus pattern (35 bp):
ATTTGAGAGGAAATTTAGAAGGAAATTGAGAGGAA
Found at i:32493243 original size:23 final size:23
Alignment explanation
Indices: 32493217--32493439 Score: 169
Period size: 23 Copynumber: 9.7 Consensus size: 23
32493207 GAAAAATATT
* *
32493217 GAATACGCTACATAGGCATTACA
1 GAATACGCCACAAAGGCATTACA
* **
32493240 GAATACACCACAAA-GCATTGTA
1 GAATACGCCACAAAGGCATTACA
* * *
32493262 GAATAAGCCACATAGGCATTGCA
1 GAATACGCCACAAAGGCATTACA
* * ** *
32493285 AAATACACCACAAAGAAAATACA
1 GAATACGCCACAAAGGCATTACA
* * *
32493308 TAATAAGCCACATAGGCATTACA
1 GAATACGCCACAAAGGCATTACA
* * *
32493331 TAATATGCCACAAATGCATTACA
1 GAATACGCCACAAAGGCATTACA
* * * **
32493354 AAATATGCCACATAGGCATTGTA
1 GAATACGCCACAAAGGCATTACA
* *
32493377 GAATACACCATAAAGGCATTACA
1 GAATACGCCACAAAGGCATTACA
* * * *
32493400 AAATATGCTACAAAGGCATTATA
1 GAATACGCCACAAAGGCATTACA
32493423 GAATACGCCACAAAGGC
1 GAATACGCCACAAAGGC
32493440 TTCAAAAGTA
Statistics
Matches: 151, Mismatches: 48, Indels: 2
0.75 0.24 0.01
Matches are distributed among these distances:
22 17 0.11
23 134 0.89
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.19
Consensus pattern (23 bp):
GAATACGCCACAAAGGCATTACA
Found at i:32493264 original size:22 final size:22
Alignment explanation
Indices: 32493232--32493299 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
32493222 CGCTACATAG
*
32493232 GCATTACAGAATACACCACAAA
1 GCATTGCAGAATACACCACAAA
* *
32493254 GCATTGTAGAATA-AGCCACATAG
1 GCATTGCAGAATACA-CCACA-AA
*
32493277 GCATTGCAAAATACACCACAAA
1 GCATTGCAGAATACACCACAAA
32493299 G
1 G
32493300 AAAATACATA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.03
22 18 0.49
23 17 0.46
24 1 0.03
ACGTcount: A:0.46, C:0.24, G:0.15, T:0.16
Consensus pattern (22 bp):
GCATTGCAGAATACACCACAAA
Found at i:32493438 original size:46 final size:46
Alignment explanation
Indices: 32493226--32493446 Score: 223
Period size: 46 Copynumber: 4.9 Consensus size: 46
32493216 TGAATACGCT
** *
32493226 ACATAGGCATTACAGAATACACCACAAA-GCATTGTAGAATAAGCC
1 ACATAGGCATTACAGAATACACCACAAAGGCATTACAAAATAAGCC
* * ** * *
32493271 ACATAGGCATTGCAAAATACACCACAAAGAAAATACATAATAAGCC
1 ACATAGGCATTACAGAATACACCACAAAGGCATTACAAAATAAGCC
* ** * *
32493317 ACATAGGCATTACATAATATGCCACAAATGCATTACAAAATATGCC
1 ACATAGGCATTACAGAATACACCACAAAGGCATTACAAAATAAGCC
** * * *
32493363 ACATAGGCATTGTAGAATACACCATAAAGGCATTACAAAATATGCT
1 ACATAGGCATTACAGAATACACCACAAAGGCATTACAAAATAAGCC
* * *
32493409 ACAAAGGCATTATAGAATACGCCACAAAGGC-TT-CAAAA
1 ACATAGGCATTACAGAATACACCACAAAGGCATTACAAAA
32493447 GTAACTTACC
Statistics
Matches: 145, Mismatches: 30, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
44 5 0.03
45 28 0.19
46 112 0.77
ACGTcount: A:0.46, C:0.21, G:0.14, T:0.19
Consensus pattern (46 bp):
ACATAGGCATTACAGAATACACCACAAAGGCATTACAAAATAAGCC
Found at i:32496150 original size:15 final size:15
Alignment explanation
Indices: 32496129--32496163 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
32496119 ACTTTTTAAG
32496129 CTTTAGTTTAATGCA
1 CTTTAGTTTAATGCA
* *
32496144 TTTTAGTTTATTGCA
1 CTTTAGTTTAATGCA
32496159 CTTTA
1 CTTTA
32496164 AATCTATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.23, C:0.11, G:0.11, T:0.54
Consensus pattern (15 bp):
CTTTAGTTTAATGCA
Found at i:32499060 original size:25 final size:25
Alignment explanation
Indices: 32499031--32499100 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
32499021 CGTTCTGACC
*
32499031 CACAGCTTGTGTAAGCATACCGATT
1 CACAGCTTGTGTAAGCATACCAATT
*
32499056 CACAGCTTGTGTGAGCATACCAATT
1 CACAGCTTGTGTAAGCATACCAATT
* *
32499081 CACAGATCGTGTAAGCATAC
1 CACAGCTTGTGTAAGCATAC
32499101 ATGTACAGGA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (25 bp):
CACAGCTTGTGTAAGCATACCAATT
Found at i:32508995 original size:12 final size:12
Alignment explanation
Indices: 32508978--32509019 Score: 84
Period size: 12 Copynumber: 3.5 Consensus size: 12
32508968 GTAGCAGTTT
32508978 TATAACTAAGCC
1 TATAACTAAGCC
32508990 TATAACTAAGCC
1 TATAACTAAGCC
32509002 TATAACTAAGCC
1 TATAACTAAGCC
32509014 TATAAC
1 TATAAC
32509020 ACCATTATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (12 bp):
TATAACTAAGCC
Found at i:32509978 original size:23 final size:23
Alignment explanation
Indices: 32509922--32510056 Score: 128
Period size: 23 Copynumber: 5.9 Consensus size: 23
32509912 CTACATAGGT
* *
32509922 ATTGCAGAATTCACCACAAAGGC
1 ATTGCAGAATACGCCACAAAGGC
* * * *
32509945 ATTACAAAATATGCTACAAAGGC
1 ATTGCAGAATACGCCACAAAGGC
* *
32509968 ATTGCAGAATACGCCACATAGGT
1 ATTGCAGAATACGCCACAAAGGC
* * * *
32509991 ATTGTAGAATATGTCACTAAGGC
1 ATTGCAGAATACGCCACAAAGGC
* * *
32510014 ATTACATAATACGCCACATAGGC
1 ATTGCAGAATACGCCACAAAGGC
32510037 ATTGCAGAATACGCCA-AAAG
1 ATTGCAGAATACGCCACAAAG
32510057 TGTAACACCC
Statistics
Matches: 84, Mismatches: 28, Indels: 1
0.74 0.25 0.01
Matches are distributed among these distances:
22 3 0.04
23 81 0.96
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (23 bp):
ATTGCAGAATACGCCACAAAGGC
Found at i:32510037 original size:69 final size:69
Alignment explanation
Indices: 32509914--32510052 Score: 190
Period size: 69 Copynumber: 2.0 Consensus size: 69
32509904 TGAGTACACT
* *
32509914 ACATAGGTATTGCAGAATTCACCACAAAGGCATTACAAAATATGCTACAAAGGCATTGCAGAATA
1 ACATAGGTATTGCAGAATTCACCACAAAGGCATTACAAAATACGCCACAAAGGCATTGCAGAATA
32509979 CGCC
66 CGCC
* ** * * *
32509983 ACATAGGTATTGTAGAATAT-GTCACTAAGGCATTACATAATACGCCACATAGGCATTGCAGAAT
1 ACATAGGTATTGCAGAAT-TCACCACAAAGGCATTACAAAATACGCCACAAAGGCATTGCAGAAT
32510047 ACGCC
65 ACGCC
32510052 A
1 A
32510053 AAAGTGTAAC
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
69 60 0.98
70 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (69 bp):
ACATAGGTATTGCAGAATTCACCACAAAGGCATTACAAAATACGCCACAAAGGCATTGCAGAATA
CGCC
Found at i:32515165 original size:23 final size:22
Alignment explanation
Indices: 32515102--32515167 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
32515092 CAAAATGTGT
*
32515102 CACAAAGACTATATAAAATGCGC
1 CACAAAGAC-ATATAGAATGCGC
* *
32515125 CAAAAATGTCATATAGAATGCGC
1 CACAAA-GACATATAGAATGCGC
*
32515148 CACAAAGACAATACAGAATG
1 CACAAAGAC-ATATAGAATG
32515168 ACACAAAGTC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
22 2 0.06
23 31 0.89
24 2 0.06
ACGTcount: A:0.48, C:0.20, G:0.15, T:0.17
Consensus pattern (22 bp):
CACAAAGACATATAGAATGCGC
Found at i:32517426 original size:33 final size:33
Alignment explanation
Indices: 32517379--32517479 Score: 112
Period size: 33 Copynumber: 3.0 Consensus size: 33
32517369 AACAACATGT
* * ** * *
32517379 AGTAACAGTCTGGGCCTCAGCCTTATTCAATGAC
1 AGTAA-AGTGTGGGCCTTAGCCCAATACAATAAC
*
32517413 AGTAAAGTGTGGGCCTTAGCCCAATACAGTAAC
1 AGTAAAGTGTGGGCCTTAGCCCAATACAATAAC
* *
32517446 AGTACAGTGTGGGCCTTAGCCCAATACAGTAAC
1 AGTAAAGTGTGGGCCTTAGCCCAATACAATAAC
32517479 A
1 A
32517480 ATGCAGTGCA
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
33 54 0.92
34 5 0.08
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.23
Consensus pattern (33 bp):
AGTAAAGTGTGGGCCTTAGCCCAATACAATAAC
Found at i:32517487 original size:33 final size:33
Alignment explanation
Indices: 32517418--32517487 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
32517408 ATGACAGTAA
*
32517418 AGTGTGGGCCTTAGCCCAATACAGTAACAGTAC
1 AGTGTGGGCCTTAGCCCAATACAGTAACAATAC
*
32517451 AGTGTGGGCCTTAGCCCAATACAGTAACAATGC
1 AGTGTGGGCCTTAGCCCAATACAGTAACAATAC
32517484 AGTG
1 AGTG
32517488 CAATAATGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (33 bp):
AGTGTGGGCCTTAGCCCAATACAGTAACAATAC
Found at i:32517905 original size:27 final size:26
Alignment explanation
Indices: 32517875--32518123 Score: 295
Period size: 27 Copynumber: 9.2 Consensus size: 26
32517865 TATAACAGTT
*
32517875 ATTTTACCTTATGGGGATATTTCGATC
1 ATTTTACCCTATGGGG-TATTTCGATC
32517902 ATTTTACCCTATAGGGGTATTTCGATC
1 ATTTTACCCTAT-GGGGTATTTCGATC
* *
32517929 ATTTTTCCCTATGGGGGTATTTTGATC
1 ATTTTACCCTAT-GGGGTATTTCGATC
* * *
32517956 ATTTTAGCCTATGAGGGTATTTTGGTC
1 ATTTTACCCTATG-GGGTATTTCGATC
32517983 ATTTTACCCTATGGGGGTATTTC-AGTC
1 ATTTTACCCTAT-GGGGTATTTCGA-TC
32518010 ATTTTACCCTATAGGGGTATTTCGATC
1 ATTTTACCCTAT-GGGGTATTTCGATC
* *
32518037 ATTTTAACCTATGGGGGTATTTC-AGTT
1 ATTTTACCCTAT-GGGGTATTTCGA-TC
32518064 ATTTTACCCTATTGGGGTATTTCGATC
1 ATTTTACCCTA-TGGGGTATTTCGATC
*
32518091 ATTTTACACTATGGGGGGTATTTCGATC
1 ATTTTACCCTAT--GGGGTATTTCGATC
32518119 ATTTT
1 ATTTT
32518124 CATCTATTAG
Statistics
Matches: 195, Mismatches: 17, Indels: 19
0.84 0.07 0.08
Matches are distributed among these distances:
26 3 0.02
27 165 0.85
28 27 0.14
ACGTcount: A:0.20, C:0.15, G:0.21, T:0.44
Consensus pattern (26 bp):
ATTTTACCCTATGGGGTATTTCGATC
Found at i:32517985 original size:81 final size:79
Alignment explanation
Indices: 32517875--32518123 Score: 329
Period size: 81 Copynumber: 3.1 Consensus size: 79
32517865 TATAACAGTT
* *
32517875 ATTTTACCTTATGGGGATATTTCGATCATTTTACCCTATAGGGGTATTTCGATCATTTTTCCCTA
1 ATTTTACC-TATGGGG-TATTTCGGTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTA
*
32517940 TGGGGGTATTTTGATC
64 TGGGGGTATTTCGATC
* *
32517956 ATTTTAGCCTATGAGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTC-AGTCATTTTACCCT
1 ATTTTA-CCTATG-GGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCGA-TCATTTTACCCT
*
32518020 ATAGGGGTATTTCGATC
63 ATGGGGGTATTTCGATC
* * * *
32518037 ATTTTAACCTATGGGGGTATTTCAGTTATTTTACCCTATTGGGGTATTTCGATCATTTTACACTA
1 ATTTT-ACCTAT-GGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTA
32518102 TGGGGGGTATTTCGATC
64 T-GGGGGTATTTCGATC
32518119 ATTTT
1 ATTTT
32518124 CATCTATTAG
Statistics
Matches: 149, Mismatches: 12, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
80 1 0.01
81 121 0.81
82 27 0.18
ACGTcount: A:0.20, C:0.15, G:0.21, T:0.44
Consensus pattern (79 bp):
ATTTTACCTATGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATG
GGGGTATTTCGATC
Found at i:32520822 original size:28 final size:28
Alignment explanation
Indices: 32520781--32520987 Score: 251
Period size: 28 Copynumber: 7.4 Consensus size: 28
32520771 CTATTTAGTG
*
32520781 ACAGT-ACAGTGTGGGGCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
32520808 ATAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* * *
32520836 ACAGTAACAATGTGGGCCTTAGTCTAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
32520864 ACAG-AATCAGTGTGGGCCTTAGCCTAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
* *
32520892 ACAG-AATCAGTGGGGGCCTTAGCTCAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
* *
32520920 ATAGTAACAGTGTGGGCCTTAGCCAAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
32520948 ACAG-AATCGGTGTGGGCCTTAGCCCAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
*
32520976 ACAGTAATAGTG
1 ACAGTAACAGTG
32520988 CAGTGCAGTA
Statistics
Matches: 155, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
27 8 0.05
28 143 0.92
29 4 0.03
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.24
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:32520903 original size:84 final size:85
Alignment explanation
Indices: 32520787--32520987 Score: 291
Period size: 84 Copynumber: 2.4 Consensus size: 85
32520777 AGTGACAGTA
* * *
32520787 CAGTGTGGGGCTTAGCCCAATATAGTAA-CAGTGTGGGCCTTAGCCCAATACAGTAACAATGTGG
1 CAGTGTGGGCCTTAGCCCAATACAGTAATCAGTGGGGGCCTTAGCCCAATACAGTAACAATGTGG
* *
32520851 GCCTTAGTCTAATACAGAAT
66 GCCTTAGCCAAATACAGAAT
* * * *
32520871 CAGTGTGGGCCTTAGCCTAATACAG-AATCAGTGGGGGCCTTAGCTCAATATAGTAACAGTGTGG
1 CAGTGTGGGCCTTAGCCCAATACAGTAATCAGTGGGGGCCTTAGCCCAATACAGTAACAATGTGG
32520935 GCCTTAGCCAAATACAGAAT
66 GCCTTAGCCAAATACAGAAT
*
32520955 CGGTGTGGGCCTTAGCCCAATACAGTAAT-AGTG
1 CAGTGTGGGCCTTAGCCCAATACAGTAATCAGTG
32520988 CAGTGCAGTA
Statistics
Matches: 104, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
83 2 0.02
84 99 0.95
85 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.24
Consensus pattern (85 bp):
CAGTGTGGGCCTTAGCCCAATACAGTAATCAGTGGGGGCCTTAGCCCAATACAGTAACAATGTGG
GCCTTAGCCAAATACAGAAT
Found at i:32521148 original size:26 final size:26
Alignment explanation
Indices: 32521094--32521169 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 26
32521084 ACCAATATCA
* * * **
32521094 CAGCAAAGCTGCTAGTAATAGCACCG
1 CAGCAAAGCTGCCAGTAACAGTATTG
* * *
32521120 CAGTAGAGCTGCCAGTATCAGTATTG
1 CAGCAAAGCTGCCAGTAACAGTATTG
*
32521146 CAGCAAAGTTGCCAGTAACAGTAT
1 CAGCAAAGCTGCCAGTAACAGTAT
32521170 ATGTGCCAAA
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAACAGTATTG
Found at i:32521518 original size:81 final size:82
Alignment explanation
Indices: 32521421--32521792 Score: 350
Period size: 81 Copynumber: 4.6 Consensus size: 82
32521411 ACCCTCTGAG
* *
32521421 GGTATTTCGGTTATTTTACCATATAGGGGTATTTTAGTCATTTTACCCTATGGGGGTATTTCAGT
1 GGTATTTTGGTCATTTTACCATATAGGGGTATTTTAGTCATTTTACCCTATGGGGGTATTTCAGT
32521486 CATTTTACCT-TGTGGA
66 CATTTTACCTATGTGGA
* * ** *
32521502 GGTATTTTTGTCATTTTACCTTAT-GGTGGTATTTTTTTCATTTTACCCTATGGGGGAATTTC-G
1 GGTATTTTGGTCATTTTACCATATAGG-GGTATTTTAGTCATTTTACCCTATGGGGGTATTTCAG
32521565 ATCATTTTATCCTATG-GG-
65 -TCATTTTA-CCTATGTGGA
* * * * * *
32521583 GGTATTTTGCTCATTTTACCATATGGGGGTATTTTAGTCATTTTACCCTACGGAGCTATTT-TGC
1 GGTATTTTGGTCATTTTACCATATAGGGGTATTTTAGTCATTTTACCCTATGGGGGTATTTCAG-
32521647 TCATTTTACCCTATG-GGA
65 TCATTTTA-CCTATGTGGA
* * * * * * * *
32521665 -GTATTTCGGTCATGTTACCTTATGGGGGTATTTCAGTCACTTTACCCTATAGGGGTATGTCAGT
1 GGTATTTTGGTCATTTTACCATATAGGGGTATTTTAGTCATTTTACCCTATGGGGGTATTTCAGT
*
32521729 CATTTTCATCTAT-TAGG-
66 CATTTT-ACCTATGT-GGA
*** * * * *
32521746 GGTAAAATAGTCATTTTACCCTTTAGGGGTATTTTGGTCATTTTACC
1 GGTATTTTGGTCATTTTACCATATAGGGGTATTTTAGTCATTTTACC
32521793 TATTTGGGGT
Statistics
Matches: 236, Mismatches: 43, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
80 3 0.01
81 186 0.79
82 45 0.19
83 2 0.01
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.44
Consensus pattern (82 bp):
GGTATTTTGGTCATTTTACCATATAGGGGTATTTTAGTCATTTTACCCTATGGGGGTATTTCAGT
CATTTTACCTATGTGGA
Found at i:32521785 original size:27 final size:27
Alignment explanation
Indices: 32521390--32521792 Score: 302
Period size: 27 Copynumber: 14.9 Consensus size: 27
32521380 TTTTATCTCC
** *
32521390 TAGGGGTATAATAGTCATTTTACCCTC
1 TAGGGGTATTTTAGTCATTTTACCCTA
** * *
32521417 T-GAGGGTATTTCGGTTATTTTACCATA
1 TAG-GGGTATTTTAGTCATTTTACCCTA
32521444 TAGGGGTATTTTAGTCATTTTACCCTA
1 TAGGGGTATTTTAGTCATTTTACCCTA
* * * *
32521471 TGGGGGTATTTCAGTCATTTTACCTTG
1 TAGGGGTATTTTAGTCATTTTACCCTA
* *
32521498 T-GGAGGTATTTTTGTCATTTTACCTTA
1 TAGG-GGTATTTTAGTCATTTTACCCTA
**
32521525 T-GGTGGTATTTTTTTCATTTTACCCTA
1 TAGG-GGTATTTTAGTCATTTTACCCTA
* * * *
32521552 T-GGGGGAATTTCGATCATTTTATCCTA
1 TAGGGGTATTTTAG-TCATTTTACCCTA
* *
32521579 TGGGGGTATTTT-GCTCATTTTACCATA
1 TAGGGGTATTTTAG-TCATTTTACCCTA
*
32521606 TGGGGGTATTTTAGTCATTTTACCCTA
1 TAGGGGTATTTTAGTCATTTTACCCTA
* *
32521633 -CGGAGCTATTTT-GCTCATTTTACCCTA
1 TAGG-GGTATTTTAG-TCATTTTACCCTA
** * *
32521660 T-GGGAGTATTTCGGTCATGTTACCTTA
1 TAGGG-GTATTTTAGTCATTTTACCCTA
* * *
32521687 TGGGGGTATTTCAGTCACTTTACCCTA
1 TAGGGGTATTTTAGTCATTTTACCCTA
* * *
32521714 TAGGGGTATGTCAGTCATTTT-CATCTA
1 TAGGGGTATTTTAGTCATTTTAC-CCTA
*** *
32521741 TTAGGGGTAAAATAGTCATTTTACCCTT
1 -TAGGGGTATTTTAGTCATTTTACCCTA
*
32521769 TAGGGGTATTTTGGTCATTTTACC
1 TAGGGGTATTTTAGTCATTTTACC
32521793 TATTTGGGGT
Statistics
Matches: 305, Mismatches: 56, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
26 14 0.05
27 257 0.84
28 33 0.11
29 1 0.00
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (27 bp):
TAGGGGTATTTTAGTCATTTTACCCTA
Found at i:32521786 original size:55 final size:54
Alignment explanation
Indices: 32521699--32521802 Score: 136
Period size: 55 Copynumber: 1.9 Consensus size: 54
32521689 GGGGTATTTC
*
32521699 AGTCACTTTACCCTATAGGGGTATGTCAGTCATTTTCATCTATTAGGGGTAAAAT
1 AGTCACTTTACCCTATAGGGGTATGTCAGTCATTTT-ACCTATTAGGGGTAAAAT
* * * ** *
32521754 AGTCATTTTACCCTTTAGGGGTATTTTGGTCATTTTACCTATTTGGGGT
1 AGTCACTTTACCCTATAGGGGTATGTCAGTCATTTTACCTATTAGGGGT
32521803 CTCGGTGTAG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
54 11 0.26
55 31 0.74
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.41
Consensus pattern (54 bp):
AGTCACTTTACCCTATAGGGGTATGTCAGTCATTTTACCTATTAGGGGTAAAAT
Found at i:32530174 original size:22 final size:19
Alignment explanation
Indices: 32530135--32530176 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
32530125 TGCAAAGTTG
32530135 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
32530154 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
32530176 A
1 A
32530177 ATGATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:32541571 original size:21 final size:21
Alignment explanation
Indices: 32541547--32541593 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
32541537 AGGTTAACAG
*
32541547 AATGCCATAAAAGCCATACAA
1 AATGCCACAAAAGCCATACAA
* *
32541568 AATGCCACAAAGGCCATACAG
1 AATGCCACAAAAGCCATACAA
32541589 AATGC
1 AATGC
32541594 ATTATAAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.47, C:0.26, G:0.15, T:0.13
Consensus pattern (21 bp):
AATGCCACAAAAGCCATACAA
Found at i:32546956 original size:21 final size:21
Alignment explanation
Indices: 32546932--32546985 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
32546922 TGAATTTTTA
**
32546932 AATTAGATTTTATTAAATTAT
1 AATTAGATTTTAAAAAATTAT
*
32546953 AATTAAATTTTAAAAAATTAT
1 AATTAGATTTTAAAAAATTAT
*
32546974 AATATAGTTTTT
1 AAT-TAGATTTT
32546986 GTTTCTATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 21 0.78
22 6 0.22
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (21 bp):
AATTAGATTTTAAAAAATTAT
Found at i:32548711 original size:145 final size:145
Alignment explanation
Indices: 32548513--32548786 Score: 503
Period size: 145 Copynumber: 1.9 Consensus size: 145
32548503 AACTCGAGGT
* *
32548513 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
32548578 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAATGCCATGC
32548643 ATTTCAAGTTCGCAC
131 ATTTCAAGTTCGCAC
*
32548658 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
32548723 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAATGCCATG
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAATGCCATG
32548787 TACTTTAAAC
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
145 124 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (145 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAATGCCATGC
ATTTCAAGTTCGCAC
Found at i:32553251 original size:27 final size:27
Alignment explanation
Indices: 32553221--32553307 Score: 129
Period size: 27 Copynumber: 3.2 Consensus size: 27
32553211 TAAACACGTT
*
32553221 ATGAAAGAAATGTCTTTGTGGTGAATC
1 ATGAAAGAAATGCCTTTGTGGTGAATC
*
32553248 ATGAAAGAAATGCCTTTGTGGCGAATC
1 ATGAAAGAAATGCCTTTGTGGTGAATC
* * *
32553275 ATGAAAGAAAAGCCTTGGTGGTGAATT
1 ATGAAAGAAATGCCTTTGTGGTGAATC
32553302 ATGAAA
1 ATGAAA
32553308 AGAATTCTGT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.28
Consensus pattern (27 bp):
ATGAAAGAAATGCCTTTGTGGTGAATC
Found at i:32570967 original size:20 final size:22
Alignment explanation
Indices: 32570927--32570967 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
32570917 CATGGATGAA
32570927 ATGGATATATTTATGAAGTTTT
1 ATGGATATATTTATGAAGTTTT
*
32570949 ATGG-TATATTT-TTAAGTTT
1 ATGGATATATTTATGAAGTTT
32570968 GGTTGTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.54
Consensus pattern (22 bp):
ATGGATATATTTATGAAGTTTT
Found at i:32572004 original size:46 final size:45
Alignment explanation
Indices: 32571771--32572200 Score: 386
Period size: 45 Copynumber: 9.4 Consensus size: 45
32571761 AGACCACAAC
** *
32571771 TGAAAGAGTCTATGGCATCATTATTC--AAATGAGTAAGACCATAGT
1 TGAAAGACACTATGGCATCA-TA-TCGAAAATGAATAAGACCATAGT
** * * *
32571816 TGAAAGATGCTATGGCATCATGATTC--AGATGAGTAAGACCGTAGT
1 TGAAAGACACTATGGCATCAT-A-TCGAAAATGAATAAGACCATAGT
* * * *
32571861 TGAAAGACAGTATGTCATCATATTGGAAAGTGAATAAGACCATAGT
1 TGAAAGACACTATGGCATCATA-TCGAAAATGAATAAGACCATAGT
* * * * *
32571907 T-AAAGACATTATGGAATCCTATCAAAAATGGATAAGACCATAGT
1 TGAAAGACACTATGGCATCATATCGAAAATGAATAAGACCATAGT
* * *
32571951 TGAAAGACACTATGGCATTATATCAAAAAGTGAATAAGACCATAAT
1 TGAAAGACACTATGGCATCATATCGAAAA-TGAATAAGACCATAGT
* * *
32571997 TGAAAGACACTATGGCAACCTATCGAAAATGGATAAGACCATAGT
1 TGAAAGACACTATGGCATCATATCGAAAATGAATAAGACCATAGT
* *
32572042 TGAAAGACACACTATGGCATCATATCAGAAACTGAATAAGACCATGGT
1 TGAAAG--ACACTATGGCATCATATC-GAAAATGAATAAGACCATAGT
* * * *
32572090 TAAAAGAAACTTATGGCATCATATCGGAAAGTGAATAAGACCATGGT
1 TGAAAGACAC-TATGGCATCATATC-GAAAATGAATAAGACCATAGT
** * * * * *
32572137 TGAAATTCATTATGGCATCA-AGTCGAGAATAAATAAGATCATGGT
1 TGAAAGACACTATGGCATCATA-TCGAAAATGAATAAGACCATAGT
32572182 TGAAAGACACTATGGCATC
1 TGAAAGACACTATGGCATC
32572201 CTTCAATCAT
Statistics
Matches: 321, Mismatches: 54, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
44 24 0.07
45 149 0.46
46 70 0.22
47 55 0.17
48 23 0.07
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (45 bp):
TGAAAGACACTATGGCATCATATCGAAAATGAATAAGACCATAGT
Found at i:32580310 original size:25 final size:25
Alignment explanation
Indices: 32580199--32580360 Score: 107
Period size: 25 Copynumber: 6.5 Consensus size: 25
32580189 GTACATGTAT
*
32580199 GCTCATACGAGCTGTA-AATGGTAA
1 GCTCATACGAGCTGAATAATGGTAA
* * *
32580223 GCTCCTCCGAGCTGAATAACGGTAA
1 GCTCATACGAGCTGAATAATGGTAA
* * * *
32580248 ACTC-TTCTGAGCTAAATAACGGTAA
1 GCTCATAC-GAGCTGAATAATGGTAA
* * * *
32580273 ACTCCTCCAAGCTGAATAATGGTAA
1 GCTCATACGAGCTGAATAATGGTAA
**
32580298 GCTCATACGAGCT-AAGCATCGGTAA
1 GCTCATACGAGCTGAATAAT-GGTAA
* **
32580323 GCTCATACGAGTTG-AGCATCGGTAA
1 GCTCATACGAGCTGAATAAT-GGTAA
*
32580348 GCTCATAAGAGCT
1 GCTCATACGAGCT
32580361 AAAATCGGTA
Statistics
Matches: 113, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
24 19 0.17
25 92 0.81
26 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.23
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAATGGTAA
Found at i:32580310 original size:50 final size:49
Alignment explanation
Indices: 32580199--32580371 Score: 132
Period size: 50 Copynumber: 3.5 Consensus size: 49
32580189 GTACATGTAT
** * * *
32580199 GCTCATACGAGCTGTAAATGGTAAGCTCCTCCGAGCTGAATAACGGTAA
1 GCTCATACGAGCTAAAAACGGTAAACTCCTCCAAGCTGAATAACGGTAA
* * *
32580248 ACTC-TTCTGAGCTAAATAACGGTAAACTCCTCCAAGCTGAATAATGGTAA
1 GCTCATAC-GAGCTAAA-AACGGTAAACTCCTCCAAGCTGAATAACGGTAA
* * * * * * * ** *
32580298 GCTCATACGAGCTAAGCATCGGTAAGCTCATACGAGTTGAGCATCGGTAA
1 GCTCATACGAGCTAA-AAACGGTAAACTCCTCCAAGCTGAATAACGGTAA
* *
32580348 GCTCATAAGAGCTAAAATCGGTAA
1 GCTCATACGAGCTAAAAACGGTAA
32580372 CCCTAATGAC
Statistics
Matches: 97, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
48 2 0.02
49 17 0.18
50 76 0.78
51 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (49 bp):
GCTCATACGAGCTAAAAACGGTAAACTCCTCCAAGCTGAATAACGGTAA
Found at i:32585369 original size:25 final size:25
Alignment explanation
Indices: 32585332--32585416 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 25
32585322 ATACGAGCTG
32585332 TAAACGGTAAGCTCCTCTGAGCTAAA
1 TAAA-GGTAAGCTCCTCTGAGCTAAA
* *
32585358 TAAAGGTAAGCTCCTCCGAGCTAGA
1 TAAAGGTAAGCTCCTCTGAGCTAAA
* * * *
32585383 TAATGGTAAGCTCGTCTAAGCTGAA
1 TAAAGGTAAGCTCCTCTGAGCTAAA
*
32585408 TAACGGTAA
1 TAAAGGTAA
32585417 CCTCATACGA
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
25 46 0.92
26 4 0.08
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (25 bp):
TAAAGGTAAGCTCCTCTGAGCTAAA
Found at i:32585428 original size:50 final size:49
Alignment explanation
Indices: 32585319--32585430 Score: 127
Period size: 50 Copynumber: 2.3 Consensus size: 49
32585309 TACATGTATG
* *
32585319 CTCATACGAGCTGTAAACGGTAAGCTCCTCTGAGCTAAATAAAGGTAAG
1 CTCATACGAGCTGTAAACGGTAAGCTCCTCTAAGCTAAATAAAGGTAAC
* * * * * *
32585368 CTCCTCCGAGCTAG-ATAATGGTAAGCTCGTCTAAGCTGAATAACGGTAAC
1 CTCATACGAGCT-GTA-AACGGTAAGCTCCTCTAAGCTAAATAAAGGTAAC
32585418 CTCATACGAGCTG
1 CTCATACGAGCTG
32585431 AGCATCGATA
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
49 12 0.24
50 39 0.76
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.23
Consensus pattern (49 bp):
CTCATACGAGCTGTAAACGGTAAGCTCCTCTAAGCTAAATAAAGGTAAC
Found at i:32585429 original size:25 final size:24
Alignment explanation
Indices: 32585318--32585431 Score: 79
Period size: 25 Copynumber: 4.6 Consensus size: 24
32585308 GTACATGTAT
*
32585318 GCTCATACGAGCTGTA-AACGGTAA
1 GCTCAT-CGAGCTGAATAACGGTAA
* * *
32585342 GCTCCTCTGAGCTAAATAAAGGTAA
1 GCTCATC-GAGCTGAATAACGGTAA
* *
32585367 GCTCCTCCGAGCT-AGATAATGGTAA
1 GCTCAT-CGAGCTGA-ATAACGGTAA
* *
32585392 GCTCGTCTAAGCTGAATAACGGTAA
1 GCTCATC-GAGCTGAATAACGGTAA
*
32585417 CCTCATACGAGCTGA
1 GCTCAT-CGAGCTGA
32585432 GCATCGATAA
Statistics
Matches: 72, Mismatches: 11, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
23 1 0.01
24 13 0.18
25 55 0.76
26 3 0.04
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (24 bp):
GCTCATCGAGCTGAATAACGGTAA
Found at i:32585446 original size:25 final size:24
Alignment explanation
Indices: 32585418--32585465 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
32585408 TAACGGTAAC
* *
32585418 CTCATACGAGCTGAGCATCGATAAG
1 CTCATAAGAGCTGA-AATCGATAAG
32585443 CTCATAAGAGCTGAAATCGATAA
1 CTCATAAGAGCTGAAATCGATAA
32585466 CCATAATGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (24 bp):
CTCATAAGAGCTGAAATCGATAAG
Found at i:32590329 original size:20 final size:20
Alignment explanation
Indices: 32590304--32590346 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
32590294 TCTTTAATTT
*
32590304 CTTCTTTATTTACTCTCTTA
1 CTTCTTTACTTACTCTCTTA
*
32590324 CTTCTTTACTTACTTTCTTA
1 CTTCTTTACTTACTCTCTTA
32590344 CTT
1 CTT
32590347 AAATAACTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.26, G:0.00, T:0.60
Consensus pattern (20 bp):
CTTCTTTACTTACTCTCTTA
Found at i:32590721 original size:50 final size:52
Alignment explanation
Indices: 32590661--32590784 Score: 162
Period size: 56 Copynumber: 2.3 Consensus size: 52
32590651 CCATGTCATA
* *
32590661 TCCCACACATGGTCTTACGGGGGACCTCTCAT-CTC-GATGCCAATGCCATG
1 TCCCAGACATGGTCTTACGGGGGACCTCTCATACTCAAATGCCAATGCCATG
* *
32590711 TCCTAGACATGGTCTTACGTGGGACCTCTCATAACCTCAATAATGCCAATGCCATG
1 TCCCAGACATGGTCTTACGGGGGACCTCTCAT-A-CTC-A-AATGCCAATGCCATG
32590767 TCCCAGACATGGTCTTAC
1 TCCCAGACATGGTCTTAC
32590785 ATGGGATCTC
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
50 29 0.46
53 3 0.05
56 31 0.49
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (52 bp):
TCCCAGACATGGTCTTACGGGGGACCTCTCATACTCAAATGCCAATGCCATG
Found at i:32590759 original size:56 final size:50
Alignment explanation
Indices: 32590600--32590790 Score: 166
Period size: 50 Copynumber: 3.7 Consensus size: 50
32590590 TCTTGTACTA
* * * * ** * * **
32590600 CCAATGCCATATCTCAGATATGGTCTTACATGGGAGTTATCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTCAATG
* * * * * *
32590650 CCCATGTCATATCCCACACATGGTCTTACGGGGGACCTCTCATCTCGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTCAATG
*
32590700 CCAATGCCATGTCCTAGACATGGTCTTACGTGGGACCTCTCATAACCTCAATAATG
1 CCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCAT---CTC---AATG
*
32590756 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 CCAATGCCATGTCCCAGACATGGTCTTACGTGGGA
32590791 TCTCATTCCT
Statistics
Matches: 114, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
50 75 0.66
53 3 0.03
56 36 0.32
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTCAATG
Found at i:32593929 original size:21 final size:20
Alignment explanation
Indices: 32593903--32593956 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
32593893 TGTTGTTGAG
*
32593903 AAGGAAGTTGCTGCTGTAGA
1 AAGGAAGTTGCTGCTGAAGA
*
32593923 TAAGGAAGTTGTTGCTGAAGA
1 -AAGGAAGTTGCTGCTGAAGA
*
32593944 AGAAGAAGTTGCT
1 A-AGGAAGTTGCT
32593957 AAAAATGAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.26
Consensus pattern (20 bp):
AAGGAAGTTGCTGCTGAAGA
Found at i:32594403 original size:39 final size:39
Alignment explanation
Indices: 32594344--32594430 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
32594334 TAGTTTATTT
* *
32594344 TAAGCTTTAGTTGTAGTATCCATGCGTTACATGTAGCTG
1 TAAGTTTTAGTTGTAGTATCCATGCATTACATGTAGCTG
32594383 TAAGTTTTAGTTGTAGTATCCATGCATTACATGTAGCTG
1 TAAGTTTTAGTTGTAGTATCCATGCATTACATGTAGCTG
32594422 TAAGTTTTA
1 TAAGTTTTA
32594431 TTTGGATAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (39 bp):
TAAGTTTTAGTTGTAGTATCCATGCATTACATGTAGCTG
Found at i:32600203 original size:45 final size:45
Alignment explanation
Indices: 32600147--32600270 Score: 140
Period size: 45 Copynumber: 2.8 Consensus size: 45
32600137 TTATTCAGAT
* * * *
32600147 GAGTAAGACCATAGCTGAAAGACGTTATGGCCTCATTAATCAAAC
1 GAGTAAAACCATAGCTGAAAGACGCTATGGCATCATGAATCAAAC
* * * * * *
32600192 GAGTAATACCATAGCTGAAAGATGCTATGGTATCATGACTCAGAT
1 GAGTAAAACCATAGCTGAAAGACGCTATGGCATCATGAATCAAAC
* *
32600237 GAGTAAAACCATAGTTGAAAGACACTATGGCATC
1 GAGTAAAACCATAGCTGAAAGACGCTATGGCATC
32600271 CTATCGAAAA
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 65 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (45 bp):
GAGTAAAACCATAGCTGAAAGACGCTATGGCATCATGAATCAAAC
Found at i:32600439 original size:46 final size:45
Alignment explanation
Indices: 32600244--32600632 Score: 450
Period size: 45 Copynumber: 8.6 Consensus size: 45
32600234 GATGAGTAAA
* *
32600244 ACCATAGTTGAAAGACACTATGGCATCCTATCGAAAATGAATAAG
1 ACCATAGTTGAAAGACACTATGGCATCATATCGAAAGTGAATAAG
*
32600289 ACCAGT-GTTGAAA-ACATTATGGCATCATATCAGAAAGTGAATAAG
1 ACCA-TAGTTGAAAGACACTATGGCATCATATC-GAAAGTGAATAAG
* * * *
32600334 GCCATAGTT-AAAGACACTATGGCATCCTATCG-AAGATGGATAAA
1 ACCATAGTTGAAAGACACTATGGCATCATATCGAAAG-TGAATAAG
*
32600378 ACCATAGTTGAAAGACACAATGGCATCATATCAGAAAGTGAATAAG
1 ACCATAGTTGAAAGACACTATGGCATCATATC-GAAAGTGAATAAG
** *
32600424 ACCATAGTTGAAAGACACTATACCATTC-TATCGAAAATGAATAAG
1 ACCATAGTTGAAAGACACTATGGCA-TCATATCGAAAGTGAATAAG
* *
32600469 ACCATAGTTGAAAGACACTATGGCATCATATTGGAAAATGAATAAG
1 ACCATAGTTGAAAGACACTATGGCATCATA-TCGAAAGTGAATAAG
* *
32600515 ACCATGGTTGAAAGACACTATGGCATCATGTCGGAAAGTGAATAAG
1 ACCATAGTTGAAAGACACTATGGCATCATATC-GAAAGTGAATAAG
* * * **
32600561 ACCATGGTTGAAAGACATTATGGCTTCA-AGTCGAGAA-CAAATAAG
1 ACCATAGTTGAAAGACACTATGGCATCATA-TCGA-AAGTGAATAAG
* *
32600606 ACCATGGTTGAAAGACATTATGGCATC
1 ACCATAGTTGAAAGACACTATGGCATC
32600633 CTTTAATCAT
Statistics
Matches: 300, Mismatches: 30, Indels: 28
0.84 0.08 0.08
Matches are distributed among these distances:
43 3 0.01
44 37 0.12
45 137 0.46
46 118 0.39
47 5 0.02
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (45 bp):
ACCATAGTTGAAAGACACTATGGCATCATATCGAAAGTGAATAAG
Found at i:32600484 original size:91 final size:91
Alignment explanation
Indices: 32600244--32600634 Score: 499
Period size: 91 Copynumber: 4.3 Consensus size: 91
32600234 GATGAGTAAA
*
32600244 ACCATAGTTGAAAGACACTATGGCATCCTATCGAAAATGAATAAGACCAGT-GTTGAAA-ACATT
1 ACCATAGTTGAAAGACACTATGGCATCCTATCGAAAATGAATAAGACCA-TAGTTGAAAGACACT
32600307 ATGGCATCATATCAGAAAGTGAATAAG
65 ATGGCATCATATCAGAAAGTGAATAAG
* * * * *
32600334 GCCATAGTT-AAAGACACTATGGCATCCTATCGAAGATGGATAAAACCATAGTTGAAAGACACAA
1 ACCATAGTTGAAAGACACTATGGCATCCTATCGAAAATGAATAAGACCATAGTTGAAAGACACTA
32600398 TGGCATCATATCAGAAAGTGAATAAG
66 TGGCATCATATCAGAAAGTGAATAAG
** *
32600424 ACCATAGTTGAAAGACACTATACCATTCTATCGAAAATGAATAAGACCATAGTTGAAAGACACTA
1 ACCATAGTTGAAAGACACTATGGCATCCTATCGAAAATGAATAAGACCATAGTTGAAAGACACTA
** *
32600489 TGGCATCATATTGGAAAATGAATAAG
66 TGGCATCATATCAGAAAGTGAATAAG
* * * * * *
32600515 ACCATGGTTGAAAGACACTATGGCATCATGTCGGAAAGTGAATAAGACCATGGTTGAAAGACATT
1 ACCATAGTTGAAAGACACTATGGCATCCTATC-GAAAATGAATAAGACCATAGTTGAAAGACACT
*
32600580 ATGGCTTCA-AGTCGAGAACA---AATAAG
65 ATGGCATCATA-TC-AGAA-AGTGAATAAG
* *
32600606 ACCATGGTTGAAAGACATTATGGCATCCT
1 ACCATAGTTGAAAGACACTATGGCATCCT
32600635 TTAATCATTA
Statistics
Matches: 263, Mismatches: 31, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
88 1 0.00
89 43 0.16
90 46 0.17
91 131 0.50
92 38 0.14
93 3 0.01
94 1 0.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (91 bp):
ACCATAGTTGAAAGACACTATGGCATCCTATCGAAAATGAATAAGACCATAGTTGAAAGACACTA
TGGCATCATATCAGAAAGTGAATAAG
Found at i:32604293 original size:30 final size:31
Alignment explanation
Indices: 32604234--32604293 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
32604224 CAGTTTCTTA
* *
32604234 GTGTGAACAAAAGGAAATGAGCAGGCCTTGT
1 GTGTGAACAAAAGAAAATGAACAGGCCTTGT
32604265 GTGTGAACACAAA-AAAATGAAC-GGCCTTG
1 GTGTGAACA-AAAGAAAATGAACAGGCCTTG
32604294 GTGAGGGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 7 0.27
31 16 0.62
32 3 0.12
ACGTcount: A:0.38, C:0.15, G:0.28, T:0.18
Consensus pattern (31 bp):
GTGTGAACAAAAGAAAATGAACAGGCCTTGT
Found at i:32606736 original size:15 final size:14
Alignment explanation
Indices: 32606701--32606746 Score: 60
Period size: 12 Copynumber: 3.4 Consensus size: 14
32606691 TTTTCAAACT
32606701 CTCTTTCTTTTT--
1 CTCTTTCTTTTTCA
*
32606713 CTTTTTCTTTTTCCA
1 CTCTTTCTTTTT-CA
32606728 CTCTTTCTTTTTCA
1 CTCTTTCTTTTTCA
32606742 CTCTT
1 CTCTT
32606747 AATTTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 11 0.38
14 7 0.24
15 11 0.38
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.67
Consensus pattern (14 bp):
CTCTTTCTTTTTCA
Found at i:32606838 original size:11 final size:12
Alignment explanation
Indices: 32606822--32606854 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
32606812 TTTATTGTTC
32606822 TTTTTCTTTC-A
1 TTTTTCTTTCGA
32606833 TTTTTCTTCTCGA
1 TTTTTCTT-TCGA
32606846 TTTTTCTTT
1 TTTTTCTTT
32606855 ACAAGATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 8 0.40
12 3 0.15
13 9 0.45
ACGTcount: A:0.06, C:0.18, G:0.03, T:0.73
Consensus pattern (12 bp):
TTTTTCTTTCGA
Found at i:32607744 original size:13 final size:13
Alignment explanation
Indices: 32607726--32607760 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
32607716 AATCACGTAC
*
32607726 AAATTTTTTTTTG
1 AAATTTTTTTTCG
32607739 AAATTTTTTTTCG
1 AAATTTTTTTTCG
32607752 -AATTTTTTT
1 AAATTTTTTT
32607761 AAATCACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.23, C:0.03, G:0.06, T:0.69
Consensus pattern (13 bp):
AAATTTTTTTTCG
Found at i:32610198 original size:27 final size:27
Alignment explanation
Indices: 32610127--32610185 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
32610117 GAATAGGAGG
** * *
32610127 ATTAACACCCTGAACATTTGGATTATC
1 ATTAACACCAGGACCATTTAGATTATC
32610154 ATTAACACCAGGACCATTTAGATTATC
1 ATTAACACCAGGACCATTTAGATTATC
32610181 ATTAA
1 ATTAA
32610186 GACTGGGATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
ATTAACACCAGGACCATTTAGATTATC
Found at i:32620891 original size:66 final size:68
Alignment explanation
Indices: 32620806--32621047 Score: 201
Period size: 66 Copynumber: 3.6 Consensus size: 68
32620796 TACATAACTA
* * *
32620806 TTCACTTACCTTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTG-T-AGGGAATATTTC
1 TTCACTT-TCTTTTCTTGCAGGGAATCTTTCCTGTTCACGCATTATTCTGTTCAGGGAATATCTC
32620869 CTG-
65 CTGT
* * * *
32620872 TTCACTTGTCTTTTTTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCT
1 TTCACTT-TCTTTTCTTGCAGGGAATCTTTCCTGTTCACGCATTATTCTGTT-CAGGGAATATCT
32620937 CCTGT
64 CCTGT
* * * * * * *
32620942 TTACACATTATTTTGTTGCAGGAAATCTTTCCTGTTCA--CATCATTTCT-TGCAGGGAATCTCT
1 TT-CACTTTCTTTTCTTGCAGGGAATCTTTCCTGTTCACGCATTA-TTCTGTTCAGGGAATATCT
*
32621004 CTTG-
64 CCTGT
* * * *
32621008 TTCACGGATTATTTTGTTGCAGGGAATCTCTCCTGTTCAC
1 TTCAC--TTTCTTTTCTTGCAGGGAATCTTTCCTGTTCAC
32621048 ATCATTTCTT
Statistics
Matches: 148, Mismatches: 19, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
65 3 0.02
66 46 0.31
67 46 0.31
68 5 0.03
69 16 0.11
70 28 0.19
71 4 0.03
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.43
Consensus pattern (68 bp):
TTCACTTTCTTTTCTTGCAGGGAATCTTTCCTGTTCACGCATTATTCTGTTCAGGGAATATCTCC
TGT
Found at i:32620931 original size:35 final size:35
Alignment explanation
Indices: 32620816--32621088 Score: 262
Period size: 35 Copynumber: 8.1 Consensus size: 35
32620806 TTCACTTACC
* * *
32620816 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * * * *
32620851 TTCTG-T--AGGGAATATTTCCTGTTCA--CTTGTC
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCAT-TA
*
32620882 TTTTTTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* *
32620917 TTTTGTTGCAGGGAATCTCTCCTGTTTACACATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * *
32620952 TTTTGTTGCAGGAAATCTTTCCTGTTCA--CATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * *
32620985 -TTTCTTGCAGGGAATCTCTCTTGTTCACGGATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
*
32621019 TTTTGTTGCAGGGAATCTCTCCTGTTCA--CATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * * *
32621052 -TTTCTTGCAGGGAATCTCTCATGTTCATGTATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
32621086 TTT
1 TTT
32621089 CTTTTTGGAC
Statistics
Matches: 195, Mismatches: 31, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
30 2 0.01
31 4 0.02
32 68 0.35
33 7 0.04
34 24 0.12
35 88 0.45
36 2 0.01
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.43
Consensus pattern (35 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
Found at i:32621019 original size:67 final size:67
Alignment explanation
Indices: 32620882--32621088 Score: 279
Period size: 67 Copynumber: 3.0 Consensus size: 67
32620872 TTCACTTGTC
* * * * * *
32620882 TTTTTTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTTACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCA--CATCA-TTTCTTGCAGGGAATCTCTCATGTTCACG
32620947 CATTA
63 CATTA
* * * *
32620952 TTTTGTTGCAGGAAATCTTTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCTTGTTCACGGAT
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCATGTTCACGCAT
32621017 TA
66 TA
* *
32621019 TTTTGTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCATGTTCATGTAT
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCATGTTCACGCAT
32621084 TA
66 TA
32621086 TTT
1 TTT
32621089 CTTTTTGGAC
Statistics
Matches: 123, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
67 94 0.76
68 4 0.03
70 25 0.20
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.43
Consensus pattern (67 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCATGTTCACGCAT
TA
Found at i:32627909 original size:17 final size:17
Alignment explanation
Indices: 32627878--32627910 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
32627868 TAACGCAAGG
32627878 GACCTTTTCATGATCCC
1 GACCTTTTCATGATCCC
32627895 GACCTGTTTCA-GATCC
1 GACCT-TTTCATGATCC
32627911 GTCTCTGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.18, C:0.33, G:0.15, T:0.33
Consensus pattern (17 bp):
GACCTTTTCATGATCCC
Found at i:32638552 original size:25 final size:24
Alignment explanation
Indices: 32638524--32638575 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
32638514 CTGAATAATA
* *
32638524 GTAAGCTCATACGAGCTGAGCATCG
1 GTAAGCTCATAAGAGCT-AACATCG
32638549 GTAAGCTCATAAGAGCTAACATCG
1 GTAAGCTCATAAGAGCTAACATCG
32638573 GTA
1 GTA
32638576 GCCCTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (24 bp):
GTAAGCTCATAAGAGCTAACATCG
Found at i:32640013 original size:69 final size:68
Alignment explanation
Indices: 32639890--32640017 Score: 193
Period size: 69 Copynumber: 1.9 Consensus size: 68
32639880 AGTTTAATAG
* * *
32639890 TAAATTTAATTTAATACTTATCTTAATAGTATTTTATTAATTTAATATTAAAGTGATTATCTTAA
1 TAAATTAAATTTAATACTTATCTTAATAATATTATATTAATTTAATATTAAAGTGATTATCTTAA
32639955 AAT
66 AAT
** *
32639958 TAAATTAAATTTAATGTTTATCTTGATAAATATTATATTAATTTAATATTAAAGTGATTA
1 TAAATTAAATTTAATACTTATCTTAAT-AATATTATATTAATTTAATATTAAAGTGATTA
32640018 AGTTTATCAT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
68 23 0.43
69 30 0.57
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.49
Consensus pattern (68 bp):
TAAATTAAATTTAATACTTATCTTAATAATATTATATTAATTTAATATTAAAGTGATTATCTTAA
AAT
Found at i:32649565 original size:12 final size:12
Alignment explanation
Indices: 32649536--32649582 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
32649526 TGGCTCGATT
*
32649536 ATTGTCATTTTGG
1 ATTGGCATTTT-G
*
32649549 ATTGGTATTTTG
1 ATTGGCATTTTG
32649561 ATTGGCATTTTG
1 ATTGGCATTTTG
32649573 ATTGGCATTT
1 ATTGGCATTT
32649583 GAGTTTCTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
12 22 0.71
13 9 0.29
ACGTcount: A:0.17, C:0.06, G:0.23, T:0.53
Consensus pattern (12 bp):
ATTGGCATTTTG
Found at i:32661299 original size:533 final size:537
Alignment explanation
Indices: 32660285--32661358 Score: 1591
Period size: 533 Copynumber: 2.0 Consensus size: 537
32660275 TGTGACGTAT
* * * * *
32660285 AGATATTCTGGTGTTGCTTTGGAACTCACTAGGTTTTATAAACTTACTTCGTTTATCTTCCCTTC
1 AGATATTCTGATGTTGCTTTGGAACTCACTAAGTTCTATAAACTTACTCCGTTGATCTTCCCTTC
* * *
32660350 TCAAGACCATTAAAGAAAAAAATGAACCTTCAAGGAATACGCCAGAGGATATATTGTGTGTGAGG
66 TCAAGACCATTAAAGAAAAAAAGGAACCTTCAAGGAATACGCCAGAGGATATATTATGTGTAAGG
*
32660415 CTTATAGTGATTTTGTATTATGCATGACAAATGAGAGTAGCATCAAGGCTTGAAATATGATAAAC
131 CTTATAGTGATTTTGTATTATGCATG---AA-GAGAGTAGCATCAAGGCTTGAAATATGAGAAAC
* * *
32660480 AATATTTTGTAACTAAAATTGTATCCACCAAATGGCGTCCTTTCCTTAGATCTTCATAATGAACT
192 AATATTTTGTAACTAAAATTGTATCCACCAAATGGCGTCCTCTCCTTAAATCTTCACAATGAACT
* * *
32660545 TTTGTGTTTTAAAGGTGTTTAGGCCCTAAAGTTTAAAAGTTTTATTTATTACTACTATAGCAAAT
257 TTTGTGTTTTAAAGGTGTTTAGGCCCTAAAGTCTAAAAGTTTTATTTACTACTACTATAGCAAAC
* * *
32660610 ACCTTTTGTTCTTTTGTAAACTTGAGATTTTGCCAATTTCGTTACAGTAAGGAAAGGCTTCAAAG
322 ACCTTTTGCTCTTTTGTAAACTTGAGATTCTGCCAATTTCGTAACAGTAAGGAAAGGCTTCAAAG
* * * * *
32660675 TTGTAACACACCACTCCTGGATCCTCCTTAAAGGTCGGGGATGGGGCGCTACAACTGAAAACTTG
387 TTGTAACACACCACTCCTGGATCCTCCTTAAAGGTCAGGGATGAGGCACTACAACCGAAAACTTA
32660740 TAACCTTGCACTTTTTGGATTAGTCACTAACACATGATAGATGAAAAACATGGCCCTCTTGTGTA
452 TAACCTTGCACTTTTTGGATTAGTCACTAACACATGATAGATGAAAAACATGGCCCTCTTGTGTA
32660805 ATCGAAAAGTAATGTGGTCAC
517 ATCGAAAAGTAATGTGGTCAC
*
32660826 AGATATTCTGATGTTGCTTTGGAACTCACTAAGTTCTATGAACTTACTCCGTTGATCTTCCCTTC
1 AGATATTCTGATGTTGCTTTGGAACTCACTAAGTTCTATAAACTTACTCCGTTGATCTTCCCTTC
* * * * * * * *
32660891 TCAGGACCCTTGAAGAAATAAAGGAACCTTTACA-GACTACTCTAGAGGATATATTATGTGTAAG
66 TCAAGACCATTAAAGAAAAAAAGGAACCTTCA-AGGAATACGCCAGAGGATATATTATGTGTAAG
* *
32660955 GCTTATAGTGATTTTGTATTATGCATG-A-A-AGTGGCATCAAGGCTTGAAATCTGAGAAACAAT
130 GCTTATAGTGATTTTGTATTATGCATGAAGAGAGTAGCATCAAGGCTTGAAATATGAGAAACAAT
* * * *
32661017 ATTTTGTAACTAAAATTGTATCCGCCAAAT-TCGTTCTCTCCTTAAATCTTTACAATGAACTTTT
195 ATTTTGTAACTAAAATTGTATCCACCAAATGGCGTCCTCTCCTTAAATCTTCACAATGAACTTTT
* * * *
32661081 GTGTTTTAAAGGTGTTTGGGCCCTTAAGTCTAAAAGTTTTATTTACTACTGCTATAGCAAACGCC
260 GTGTTTTAAAGGTGTTTAGGCCCTAAAGTCTAAAAGTTTTATTTACTACTACTATAGCAAACACC
**
32661146 TTTTGCTCTTTTGTAAACTTGAGATTCTGCCAATTTCGTAATTGTAAGGAAAGGCTTCAAAGTTG
325 TTTTGCTCTTTTGTAAACTTGAGATTCTGCCAATTTCGTAACAGTAAGGAAAGGCTTCAAAGTTG
** * * * **
32661211 TAATGCACCATTCTTGGATCCTCCTTAAAGGTCAGGGATGAGGCACTACAGCCGGGAACTTATAA
390 TAACACACCACTCCTGGATCCTCCTTAAAGGTCAGGGATGAGGCACTACAACCGAAAACTTATAA
* *
32661276 CCTTGCACTTTTTGGATTAGTCACTAGCACATGATAGATGGAAAACATGGCCCTCTTGTGTAATC
455 CCTTGCACTTTTTGGATTAGTCACTAACACATGATAGATGAAAAACATGGCCCTCTTGTGTAATC
32661341 GAAAAGTAATGTGGTCAC
520 GAAAAGTAATGTGGTCAC
32661359 GGTTATTTGT
Statistics
Matches: 479, Mismatches: 53, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
533 280 0.58
534 59 0.12
535 1 0.00
537 1 0.00
541 137 0.29
542 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (537 bp):
AGATATTCTGATGTTGCTTTGGAACTCACTAAGTTCTATAAACTTACTCCGTTGATCTTCCCTTC
TCAAGACCATTAAAGAAAAAAAGGAACCTTCAAGGAATACGCCAGAGGATATATTATGTGTAAGG
CTTATAGTGATTTTGTATTATGCATGAAGAGAGTAGCATCAAGGCTTGAAATATGAGAAACAATA
TTTTGTAACTAAAATTGTATCCACCAAATGGCGTCCTCTCCTTAAATCTTCACAATGAACTTTTG
TGTTTTAAAGGTGTTTAGGCCCTAAAGTCTAAAAGTTTTATTTACTACTACTATAGCAAACACCT
TTTGCTCTTTTGTAAACTTGAGATTCTGCCAATTTCGTAACAGTAAGGAAAGGCTTCAAAGTTGT
AACACACCACTCCTGGATCCTCCTTAAAGGTCAGGGATGAGGCACTACAACCGAAAACTTATAAC
CTTGCACTTTTTGGATTAGTCACTAACACATGATAGATGAAAAACATGGCCCTCTTGTGTAATCG
AAAAGTAATGTGGTCAC
Found at i:32670702 original size:26 final size:26
Alignment explanation
Indices: 32670659--32670719 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
32670649 AACACATCAG
*
32670659 GAAAGAAAGCCTTGGTGGCGTAATAT
1 GAAAGAAAGACTTGGTGGCGTAATAT
* * *
32670685 GAAAGAAAGATTTTGTGGCTTAATAT
1 GAAAGAAAGACTTGGTGGCGTAATAT
32670711 GAAAGAAAG
1 GAAAGAAAG
32670720 CCTTTATGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.41, C:0.07, G:0.28, T:0.25
Consensus pattern (26 bp):
GAAAGAAAGACTTGGTGGCGTAATAT
Found at i:32672634 original size:21 final size:22
Alignment explanation
Indices: 32672590--32672632 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
32672580 ACACCAAAAC
* *
32672590 AGGCTTTTAGCGGTACTTTTTT
1 AGGCCTTTAGCGGCACTTTTTT
32672612 AGGCCTTTAGCGGCACTTTTT
1 AGGCCTTTAGCGGCACTTTTT
32672633 AGCGCCGCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.19, G:0.23, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCACTTTTTT
Found at i:32672868 original size:43 final size:43
Alignment explanation
Indices: 32672820--32673090 Score: 267
Period size: 43 Copynumber: 6.3 Consensus size: 43
32672810 GTTTTTTCTA
* *
32672820 AAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTTGACTAC
1 AAACGCCGCTAA-AGACCCTGATCTTTAGCGGCGCTTTGACCAC
* * * * * ** *
32672863 AAACGCCACTAAAGAACCTAATCTTTAGCGGTGTTTTCCCCTC
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGACCAC
* * *
32672906 AAACGCCGC-AATAGACCCTGATCTATAGCGACGCTTCGACCAC
1 AAACGCCGCTAA-AGACCCTGATCTTTAGCGGCGCTTTGACCAC
* * * **
32672949 AAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGACCAC
* * **
32672992 AAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGACCAC
* * * *
32673035 AAACGTCGCTAAAGACCCTTATCTTTAGCGGTGCTTTGACCAA
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGACCAC
*
32673078 AAACGCCACTAAA
1 AAACGCCGCTAAA
32673091 TTTGGCAGAT
Statistics
Matches: 179, Mismatches: 46, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
42 2 0.01
43 173 0.97
44 4 0.02
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGACCAC
Found at i:32672933 original size:86 final size:86
Alignment explanation
Indices: 32672820--32673071 Score: 353
Period size: 86 Copynumber: 2.9 Consensus size: 86
32672810 GTTTTTTCTA
*
32672820 AAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACTACAAACGCCACTAAAGAACCTAAT
1 AAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCACTAAAGAACCTAAT
* *
32672885 CTTTAGCGGTGTTTTCCCCTC
66 CTTTAGCGGTGCTTTCCCCAC
* *
32672906 AAACGCCGCAATAGACCCTGATCTATAGCGACGCTTCGACCACAAACGCCACTAAAGAACCTAAT
1 AAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCACTAAAGAACCTAAT
*
32672971 CTTTAGCGGCGCTTTCCCCAC
66 CTTTAGCGGTGCTTTCCCCAC
* * * ** * * * *
32672992 AAACGCCGCTAA-AGACCATGATCTTTAGTGGCGCTTTTTCCACAAACGTCGCTAAAGACCCTTA
1 AAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCACTAAAGAACCTAA
32673056 TCTTTAGCGGTGCTTT
65 TCTTTAGCGGTGCTTT
32673072 GACCAAAAAC
Statistics
Matches: 147, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
86 145 0.99
87 2 0.01
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (86 bp):
AAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCACTAAAGAACCTAAT
CTTTAGCGGTGCTTTCCCCAC
Found at i:32673004 original size:129 final size:129
Alignment explanation
Indices: 32672840--32673090 Score: 301
Period size: 129 Copynumber: 1.9 Consensus size: 129
32672830 ATAGACCCTG
* * *
32672840 ATCTATAGCGGCGCTTTGACTACAAACGCCACTAAAGAACC-TAATCTTTAGCGGTG-TTTTCCC
1 ATCTATAGCGGCGCTTTCACCACAAACGCCACTAAAG-ACCATAATCTTTAGCGGCGCTTTT-CC
* *
32672903 CTCAAACGCCGC-AATAGACCCTGATCTATAGCGACGCTTCGACCACAAACGCCACTAAAGAACC
64 CACAAACGCCGCTAA-AGACCCTGATCTATAGCGACGCTTCGACCAAAAACGCCACTAAAGAACC
32672967 TA
128 TA
* * * * * *
32672969 ATCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCA
1 ATCTATAGCGGCGCTTTCACCACAAACGCCACTAAAGACCATAATCTTTAGCGGCGCTTTTCCCA
* * * ** *
32673034 CAAACGTCGCTAAAGACCCTTATCTTTAGCGGTGCTTTGACCAAAAACGCCACTAAA
66 CAAACGCCGCTAAAGACCCTGATCTATAGCGACGCTTCGACCAAAAACGCCACTAAA
32673091 TTTGGCAGAT
Statistics
Matches: 102, Mismatches: 17, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
128 3 0.03
129 93 0.91
130 6 0.06
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (129 bp):
ATCTATAGCGGCGCTTTCACCACAAACGCCACTAAAGACCATAATCTTTAGCGGCGCTTTTCCCA
CAAACGCCGCTAAAGACCCTGATCTATAGCGACGCTTCGACCAAAAACGCCACTAAAGAACCTA
Found at i:32673424 original size:21 final size:21
Alignment explanation
Indices: 32673398--32673455 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
32673388 TTTGACGCTG
32673398 CTCTGCTTCCCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGTAGC
*
32673419 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGTAGC
32673440 CTCTGCTTCCCTCGCT
1 CTCTGCTTCCCTCGCT
32673456 ATAGTTTGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.03, C:0.45, G:0.16, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTAGC
Found at i:32673509 original size:21 final size:21
Alignment explanation
Indices: 32673466--32673510 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
32673456 ATAGTTTGTA
* *
32673466 CTTCTCTCGCTGCCGCCTTTG
1 CTTCTCTCGCTGCCGCATCTG
*
32673487 CTTCTCTTGCTGCCGCATCTG
1 CTTCTCTCGCTGCCGCATCTG
32673508 CTT
1 CTT
32673511 TAAGCTGCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.40, G:0.18, T:0.40
Consensus pattern (21 bp):
CTTCTCTCGCTGCCGCATCTG
Found at i:32673565 original size:66 final size:66
Alignment explanation
Indices: 32673486--32673621 Score: 186
Period size: 66 Copynumber: 2.1 Consensus size: 66
32673476 TGCCGCCTTT
* *
32673486 GCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCTTA-CTTTTGTTGAACC
1 GCTTCTCTCGCTGCCGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTTT-TTGAACC
32673549 TCA
64 TCA
* * *
32673552 GCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTC
1 GCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTC
*
32673617 C
66 A
32673618 GCTT
1 GCTT
32673622 TAAGTTGTGT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
65 1 0.02
66 56 0.90
67 5 0.08
ACGTcount: A:0.12, C:0.27, G:0.19, T:0.42
Consensus pattern (66 bp):
GCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTC
A
Found at i:32679033 original size:9 final size:9
Alignment explanation
Indices: 32678997--32679165 Score: 71
Period size: 9 Copynumber: 20.0 Consensus size: 9
32678987 AATTGCACGG
32678997 GTAAGTTAT
1 GTAAGTTAT
*
32679006 GT-A-TTGT
1 GTAAGTTAT
*
32679013 GTAAGCTAT
1 GTAAGTTAT
*
32679022 GTAAGTTGT
1 GTAAGTTAT
32679031 GT-A-TTAT
1 GTAAGTTAT
32679038 GTAAGTTAT
1 GTAAGTTAT
32679047 -T-A-TTAT
1 GTAAGTTAT
32679053 GCTTTAAGTTAT
1 G---TAAGTTAT
*
32679065 GTAAGTAAT
1 GTAAGTTAT
32679074 GT-A-TTAT
1 GTAAGTTAT
*
32679081 GTAAGTTGT
1 GTAAGTTAT
*
32679090 GT-A-TAAT
1 GTAAGTTAT
*
32679097 GTTAGTTAT
1 GTAAGTTAT
**
32679106 CAAAGTTAT
1 GTAAGTTAT
32679115 GT-A-TTAT
1 GTAAGTTAT
***
32679122 GTGTTTCTAT
1 GTAAGT-TAT
*
32679132 TTAAGTTAT
1 GTAAGTTAT
*
32679141 GTAAGTTGT
1 GTAAGTTAT
32679150 GT-A-TTAT
1 GTAAGTTAT
32679157 GTAAGTTAT
1 GTAAGTTAT
32679166 TAAAAATTGA
Statistics
Matches: 116, Mismatches: 25, Indels: 38
0.65 0.14 0.21
Matches are distributed among these distances:
6 4 0.03
7 31 0.27
8 12 0.10
9 57 0.49
10 6 0.05
11 1 0.01
12 5 0.04
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:32679038 original size:16 final size:16
Alignment explanation
Indices: 32679019--32679105 Score: 69
Period size: 16 Copynumber: 5.8 Consensus size: 16
32679009 TTGTGTAAGC
*
32679019 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
32679035 TATGTAAGTTAT-TAT
1 TATGTAAGTTATGTAT
*
32679050 TATGCT---TTAAG--T
1 TATG-TAAGTTATGTAT
*
32679062 TATGTAAGTAATGTAT
1 TATGTAAGTTATGTAT
*
32679078 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* *
32679094 AATGTTAGTTAT
1 TATGTAAGTTAT
32679106 CAAAGTTATG
Statistics
Matches: 55, Mismatches: 9, Indels: 14
0.71 0.12 0.18
Matches are distributed among these distances:
11 1 0.02
12 5 0.09
13 3 0.05
14 3 0.05
15 7 0.13
16 36 0.65
ACGTcount: A:0.30, C:0.01, G:0.20, T:0.49
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:32679150 original size:26 final size:25
Alignment explanation
Indices: 32679057--32679165 Score: 82
Period size: 25 Copynumber: 4.3 Consensus size: 25
32679047 TATTATGCTT
*
32679057 TAAGTTATGTAAGTA-ATGTATTATG
1 TAAGTTATGT-AGTATGTGTATTATG
* *
32679082 TAAGTTGTGTA-TAATGT-TAGTTATC
1 TAAGTTATGTAGT-ATGTGTA-TTATG
* * * *
32679107 AAAGTTATGTATTATGTGTTTCTATT
1 TAAGTTATGTAGTATGTGTAT-TATG
32679133 TAAGTTATGTAAGT-TGTGTATTATG
1 TAAGTTATGT-AGTATGTGTATTATG
32679158 TAAGTTAT
1 TAAGTTAT
32679166 TAAAAATTGA
Statistics
Matches: 66, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
23 1 0.02
24 4 0.06
25 39 0.59
26 20 0.30
27 2 0.03
ACGTcount: A:0.30, C:0.02, G:0.19, T:0.49
Consensus pattern (25 bp):
TAAGTTATGTAGTATGTGTATTATG
Found at i:32679260 original size:27 final size:27
Alignment explanation
Indices: 32679222--32679277 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
32679212 TATATTAAAA
32679222 ATATAGGTTTTAATATTTAAAAATAAC
1 ATATAGGTTTTAATATTTAAAAATAAC
32679249 ATATAGGTTTTAATATTTAAAAATAAC
1 ATATAGGTTTTAATATTTAAAAATAAC
32679276 AT
1 AT
32679278 TTACAATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (27 bp):
ATATAGGTTTTAATATTTAAAAATAAC
Found at i:32679383 original size:121 final size:121
Alignment explanation
Indices: 32679249--32679472 Score: 414
Period size: 121 Copynumber: 1.9 Consensus size: 121
32679239 TAAAAATAAC
*
32679249 ATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATT-TCT
1 ATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTGAC-
32679313 AATAAAATTGAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAA
65 AATAAAATTGAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAA
*
32679370 ATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTTATTGACA
1 ATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTGACA
32679435 ATAAAATTGAAATATAGGTTATATATCCATACCATATA
66 ATAAAATTGAAATATAGGTTATATATCCATACCATATA
32679473 GCTAAATTTT
Statistics
Matches: 100, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
121 99 0.99
122 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.41
Consensus pattern (121 bp):
ATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTGACA
ATAAAATTGAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAA
Found at i:32679522 original size:121 final size:118
Alignment explanation
Indices: 32679249--32679505 Score: 333
Period size: 121 Copynumber: 2.2 Consensus size: 118
32679239 TAAAAATAAC
* * *
32679249 ATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTTCTA
1 ATATA-GTTATAAAATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTACTA
* *
32679314 ATAAAATTGAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAA
65 ATAAAATTGAAATATAGGTTATATATCCATACCATATA--GGCTGAAATATTAAAA
* * *
32679370 ATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTTATTGAC-
1 ATATA-GTTATAAAATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATT-ACT
* * *
32679434 AATAAAATTGAAATATAGGTTATATATCCATACCATATA-GCT-AAATTTTTAAT
64 AATAAAATTGAAATATAGGTTATATATCCATACCATATAGGCTGAAATATTAAAA
32679487 ATATA-TATATAAAATTTAA
1 ATATAGT-TATAAAATTTAA
32679506 GTAATGTAAT
Statistics
Matches: 125, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
115 1 0.01
116 10 0.08
117 12 0.10
118 2 0.02
121 99 0.79
122 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (118 bp):
ATATAGTTATAAAATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTACTAA
TAAAATTGAAATATAGGTTATATATCCATACCATATAGGCTGAAATATTAAAA
Found at i:32679523 original size:18 final size:18
Alignment explanation
Indices: 32679500--32679589 Score: 103
Period size: 18 Copynumber: 4.9 Consensus size: 18
32679490 TATATATAAA
32679500 ATTTAAGTAATGTAATAT
1 ATTTAAGTAATGTAATAT
32679518 ATTTAAGTAATGTAAGTTAT
1 ATTTAAGTAATGTAA--TAT
**
32679538 AAATTTTTGTAA-GTAATAT
1 --ATTTAAGTAATGTAATAT
32679557 ATTTAAGTAATGTAATAT
1 ATTTAAGTAATGTAATAT
*
32679575 ATTTTAGTAA-GTAAT
1 ATTTAAGTAATGTAAT
32679590 GTAAGTAATG
Statistics
Matches: 62, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
17 13 0.21
18 31 0.50
19 3 0.05
20 3 0.05
21 4 0.06
22 8 0.13
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (18 bp):
ATTTAAGTAATGTAATAT
Found at i:32679584 original size:31 final size:31
Alignment explanation
Indices: 32679503--32679607 Score: 100
Period size: 31 Copynumber: 3.5 Consensus size: 31
32679493 ATATAAAATT
32679503 TAAGTAATGTAATATA--TT--TAAGTAATG
1 TAAGTAATGTAATATATTTTAGTAAGTAATG
* * *
32679530 TAAGT--TATAA-ATTTTTGTAAGTAA-TATATT
1 TAAGTAATGTAATATATTT-T-AGTAAGTA-ATG
32679560 TAAGTAATGTAATATATTTTAGTAAGTAATG
1 TAAGTAATGTAATATATTTTAGTAAGTAATG
32679591 TAAGTAATGTAATATAT
1 TAAGTAATGTAATATAT
32679608 ACTTTAATTT
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
24 2 0.03
25 4 0.07
26 1 0.02
27 6 0.10
29 2 0.03
30 10 0.16
31 24 0.39
32 7 0.11
33 5 0.08
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.44
Consensus pattern (31 bp):
TAAGTAATGTAATATATTTTAGTAAGTAATG
Found at i:32679671 original size:40 final size:40
Alignment explanation
Indices: 32679579--32679689 Score: 127
Period size: 40 Copynumber: 2.8 Consensus size: 40
32679569 TAATATATTT
** * ** *
32679579 TAGTAAGTAATGTAAGTAATGTAATATA--TACTTTAATTT
1 TAGTAAGTAATGTATTTAA-GTAATATATTTAATCCAATTC
*
32679618 TAGTAAGTCATGTATTTAAGTAATATATTTAATCCAATTC
1 TAGTAAGTAATGTATTTAAGTAATATATTTAATCCAATTC
*
32679658 TAGTATGTAATGTATTTAAGTAATATATTTAA
1 TAGTAAGTAATGTATTTAAGTAATATATTTAA
32679690 GTAATGTAAG
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
38 8 0.13
39 16 0.26
40 37 0.61
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (40 bp):
TAGTAAGTAATGTATTTAAGTAATATATTTAATCCAATTC
Found at i:32679686 original size:13 final size:13
Alignment explanation
Indices: 32679664--32679694 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
32679654 ATTCTAGTAT
*
32679664 GTAATGTATTTAA
1 GTAATATATTTAA
32679677 GTAATATATTTAA
1 GTAATATATTTAA
32679690 GTAAT
1 GTAAT
32679695 GTAAGTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
GTAATATATTTAA
Found at i:32679760 original size:11 final size:11
Alignment explanation
Indices: 32679729--32679761 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
32679719 ATATATTAAT
32679729 AATTCATTGAC
1 AATTCATTGAC
32679740 -ATTCATTGAC
1 AATTCATTGAC
*
32679750 AATTCACTGAC
1 AATTCATTGAC
32679761 A
1 A
32679762 GTCAATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (11 bp):
AATTCATTGAC
Found at i:32683327 original size:7 final size:7
Alignment explanation
Indices: 32683315--32683422 Score: 67
Period size: 7 Copynumber: 15.0 Consensus size: 7
32683305 ATTAATTGAC
32683315 ACCCTAA
1 ACCCTAA
32683322 ACCCTAA
1 ACCCTAA
32683329 ATCCCTAA
1 A-CCCTAA
* *
32683337 CCCCTAG
1 ACCCTAA
*
32683344 CCCCTAA
1 ACCCTAA
32683351 ATCCCTAA
1 A-CCCTAA
*
32683359 CCCCT-A
1 ACCCTAA
*
32683365 GCTCCTAA
1 AC-CCTAA
*
32683373 CCCCTAA
1 ACCCTAA
32683380 ATCCCTAA
1 A-CCCTAA
*
32683388 CCCCTAA
1 ACCCTAA
*
32683395 CCCCTAA
1 ACCCTAA
*
32683402 ACCTTATA
1 ACCCTA-A
*
32683410 TCCC-AA
1 ACCCTAA
32683416 ACCCTAA
1 ACCCTAA
32683423 TAATCACATA
Statistics
Matches: 80, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
6 6 0.08
7 51 0.64
8 23 0.29
ACGTcount: A:0.32, C:0.46, G:0.02, T:0.19
Consensus pattern (7 bp):
ACCCTAA
Found at i:32683350 original size:29 final size:29
Alignment explanation
Indices: 32683316--32683419 Score: 105
Period size: 29 Copynumber: 3.8 Consensus size: 29
32683306 TTAATTGACA
32683316 CCCTAAACCCTAAATCCCTAACCCCTAG-
1 CCCTAAACCCTAAATCCCTAACCCCTAGC
32683344 --C----CCCTAAATCCCTAACCCCTAGC
1 CCCTAAACCCTAAATCCCTAACCCCTAGC
* * *
32683367 TCCTAACCCCTAAATCCCTAACCCCTAAC
1 CCCTAAACCCTAAATCCCTAACCCCTAGC
* * *
32683396 CCCTAAACCTTATATCCCAAACCC
1 CCCTAAACCCTAAATCCCTAACCC
32683420 TAATAATCAC
Statistics
Matches: 63, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
22 21 0.33
25 1 0.02
26 1 0.02
29 40 0.63
ACGTcount: A:0.31, C:0.48, G:0.02, T:0.19
Consensus pattern (29 bp):
CCCTAAACCCTAAATCCCTAACCCCTAGC
Found at i:32683365 original size:22 final size:22
Alignment explanation
Indices: 32683323--32683394 Score: 92
Period size: 22 Copynumber: 3.3 Consensus size: 22
32683313 ACACCCTAAA
32683323 CCCTAAATCCCTAACCCCTAGC
1 CCCTAAATCCCTAACCCCTAGC
32683345 CCCTAAATCCCTAACCCCTAGC
1 CCCTAAATCCCTAACCCCTAGC
* * * *
32683367 TCCT-AACCCCTAAATCCCTAAC
1 CCCTAAATCCCT-AACCCCTAGC
32683389 CCCTAA
1 CCCTAA
32683395 CCCCTAAACC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
21 6 0.14
22 36 0.84
23 1 0.02
ACGTcount: A:0.29, C:0.49, G:0.03, T:0.19
Consensus pattern (22 bp):
CCCTAAATCCCTAACCCCTAGC
Found at i:32683395 original size:22 final size:21
Alignment explanation
Indices: 32683316--32683401 Score: 82
Period size: 22 Copynumber: 4.0 Consensus size: 21
32683306 TTAATTGACA
* *
32683316 CCCTAAACCCTAAATCCCTAAC
1 CCCTAACCCCT-AACCCCTAAC
* *
32683338 CCCTAGCCCCTAAATCCCTAAC
1 CCCTAACCCCT-AACCCCTAAC
* * *
32683360 CCCTAGCTCCTAACCCCTAAAT
1 CCCTAACCCCTAACCCCT-AAC
32683382 CCCTAACCCCTAACCCCTAA
1 CCCTAACCCCTAACCCCTAA
32683402 ACCTTATATC
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
21 8 0.14
22 48 0.86
ACGTcount: A:0.30, C:0.49, G:0.02, T:0.19
Consensus pattern (21 bp):
CCCTAACCCCTAACCCCTAAC
Found at i:32683418 original size:22 final size:22
Alignment explanation
Indices: 32683371--32683419 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
32683361 CCTAGCTCCT
*
32683371 AACCCCTAAATCCCTAACCCCT
1 AACCCCTAAATCCCTAACCCCA
* *
32683393 AACCCCTAAA-CCTTATATCCCA
1 AACCCCTAAATCCCTA-ACCCCA
32683415 AACCC
1 AACCC
32683420 TAATAATCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.35, C:0.47, G:0.00, T:0.18
Consensus pattern (22 bp):
AACCCCTAAATCCCTAACCCCA
Found at i:32684090 original size:31 final size:31
Alignment explanation
Indices: 32684045--32684104 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
32684035 ATTTTACATG
** *
32684045 AAGAATTATTAAAATTTTAAGTAA-TATTTAA
1 AAGAATTAGAAAAATTATAA-TAATTATTTAA
32684076 AAGAATTAGAAAAATTATAATAATTATTT
1 AAGAATTAGAAAAATTATAATAATTATTT
32684105 TTTTATTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 22 0.88
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (31 bp):
AAGAATTAGAAAAATTATAATAATTATTTAA
Found at i:32684123 original size:19 final size:19
Alignment explanation
Indices: 32684099--32684138 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
32684089 ATTATAATAA
32684099 TTATTTTTTTATTTCATTT
1 TTATTTTTTTATTTCATTT
*
32684118 TTATTTTTTTATTTTATTT
1 TTATTTTTTTATTTCATTT
32684137 TT
1 TT
32684139 TCTTATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (19 bp):
TTATTTTTTTATTTCATTT
Found at i:32685555 original size:41 final size:41
Alignment explanation
Indices: 32685486--32685723 Score: 282
Period size: 41 Copynumber: 5.8 Consensus size: 41
32685476 TTATTATTAC
* * * * *
32685486 TAGCGGCACTTTTTTAAAAACGCCGCTAAAGGCCACAGCAA
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
* * * ** *
32685527 TACCGGCGCTTCTTTAAAAGCGCCGCTAAAGATCTGAGCAT
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
* * * *
32685568 TAGCGGCGCTTCTTCAAAAACGCTGCTAAAAGACAGAACAT
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
*
32685609 TAGCGGCGCTT-TTCAAAAATGCCGCTAAAGGCCAGAGCAT
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
*
32685649 TAGCGGCGCTTAC-TCAAAAACGCCGCTAAAGGCTAGAGCAT
1 TAGCGGCGCTT-CTTCAAAAACGCCGCTAAAGGCCAGAGCAT
* *
32685690 TAGCGGCGTTTATTCAAAAACGCCGCTAAAGGCC
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCC
32685724 TCAAAAACTC
Statistics
Matches: 166, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
40 35 0.21
41 131 0.79
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (41 bp):
TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
Found at i:32685656 original size:81 final size:82
Alignment explanation
Indices: 32685501--32685723 Score: 254
Period size: 81 Copynumber: 2.7 Consensus size: 82
32685491 GCACTTTTTT
* * * * * * * * * ** *
32685501 AAAAACGCCGCTAAAGGCCACAGCAATACCGGCGCTTCTTTAAAAGCGCCGCTAAAGATCTGAGC
1 AAAAACGCCGCTAAAGACTAGAACATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCAGAGC
32685566 ATTAGCGGCGCTT-CTTC
66 ATTAGCGGCGCTTAC-TC
* *
32685583 AAAAACGCTGCTAAAAGAC-AGAACATTAGCGGCGCTT-TTCAAAAATGCCGCTAAAGGCCAGAG
1 AAAAACGCCGCT-AAAGACTAGAACATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCAGAG
32685646 CATTAGCGGCGCTTACTC
65 CATTAGCGGCGCTTACTC
* * *
32685664 AAAAACGCCGCTAAAGGCTAGAGCATTAGCGGCGTTTATTCAAAAACGCCGCTAAAGGCC
1 AAAAACGCCGCTAAAGACTAGAACATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCC
32685724 TCAAAAACTC
Statistics
Matches: 120, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
80 5 0.04
81 63 0.52
82 47 0.39
83 5 0.04
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.18
Consensus pattern (82 bp):
AAAAACGCCGCTAAAGACTAGAACATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCAGAGC
ATTAGCGGCGCTTACTC
Found at i:32685718 original size:122 final size:123
Alignment explanation
Indices: 32685486--32685719 Score: 321
Period size: 122 Copynumber: 1.9 Consensus size: 123
32685476 TTATTATTAC
* * *
32685486 TAGCGGCACTTTTTTAAAAACGCCGCTAAAGGCCACAGCAATACCGGCGCTTCTTTAAAAGCGCC
1 TAGCGGCACTTTTTCAAAAACGCCGCTAAAGGCCACAGCAATACCGGCGCTTCTTCAAAAACGCC
* * *
32685551 GCTAAAGATCTGAGCATTAGCGGCGCTTCTTCAAAAACGCTGCTAAAAGACAGAACAT
66 GCTAAAGAGCTGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAAGACAGAACAT
* * * * *
32685609 TAGCGGCGC-TTTTCAAAAATGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTAC-TCAAAAACGC
1 TAGCGGCACTTTTTCAAAAACGCCGCTAAAGGCCACAGCAATACCGGCGCTT-CTTCAAAAACGC
*
32685672 CGCTAAAG-GCTAGAGCATTAGCGGCGTTTATTCAAAAACGCCGCTAAA
65 CGCTAAAGAGCT-GAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAA
32685720 GGCCTCAAAA
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
121 2 0.02
122 86 0.89
123 9 0.09
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.21
Consensus pattern (123 bp):
TAGCGGCACTTTTTCAAAAACGCCGCTAAAGGCCACAGCAATACCGGCGCTTCTTCAAAAACGCC
GCTAAAGAGCTGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAAGACAGAACAT
Found at i:32685894 original size:39 final size:39
Alignment explanation
Indices: 32685767--32685894 Score: 150
Period size: 39 Copynumber: 3.3 Consensus size: 39
32685757 GGCTTTTTGA
* *
32685767 GGCGCTTTTTAGAAAACGCCGCTAATGCT-TATTTTTAGC
1 GGCGTTTTTTA-AAAGCGCCGCTAATGCTCTATTTTTAGC
* * * **
32685806 GGCATTTTTGGATAAGCGCCGCTAATGCTCTACCTTTAGC
1 GGCGTTTTT-TAAAAGCGCCGCTAATGCTCTATTTTTAGC
* *
32685846 GGCGTTTTTTAAAAGCGCCGCTAATGCTCGATTTTTAGT
1 GGCGTTTTTTAAAAGCGCCGCTAATGCTCTATTTTTAGC
32685885 GGCGTTTTTT
1 GGCGTTTTTT
32685895 GTCCAAACGC
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 56 0.77
40 17 0.23
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (39 bp):
GGCGTTTTTTAAAAGCGCCGCTAATGCTCTATTTTTAGC
Found at i:32687976 original size:31 final size:31
Alignment explanation
Indices: 32687941--32688011 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
32687931 GTCCTAGTGA
* *
32687941 ACTATCTACTT-TGTGTTTACTGTCCCAACAG
1 ACTATCT-CTTCTATGTTTACTATCCCAACAG
32687972 ACTATCTCTTCTATGTTTACTATCCCAACAG
1 ACTATCTCTTCTATGTTTACTATCCCAACAG
32688003 ACTATCTCT
1 ACTATCTCT
32688012 ATGGATGCCA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 3 0.08
31 34 0.92
ACGTcount: A:0.24, C:0.28, G:0.08, T:0.39
Consensus pattern (31 bp):
ACTATCTCTTCTATGTTTACTATCCCAACAG
Found at i:32689087 original size:9 final size:9
Alignment explanation
Indices: 32689073--32689097 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
32689063 AAGTAACATT
32689073 ACCATTTGG
1 ACCATTTGG
32689082 ACCATTTGG
1 ACCATTTGG
32689091 ACCATTT
1 ACCATTT
32689098 CTCACATGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (9 bp):
ACCATTTGG
Found at i:32694137 original size:45 final size:44
Alignment explanation
Indices: 32694038--32694152 Score: 124
Period size: 45 Copynumber: 2.6 Consensus size: 44
32694028 TATACACCTA
* * * * * *
32694038 AAATGATTAAGACCATAGCTGAAAAATGTTATGGCATCATGATT
1 AAATGAGTAAGACTATAGTTGAAAGATGCTATGGCATCATGATG
*
32694082 AAGATAAGTAAGACTATAGTTGAAAGATGCTATGGCATCATGATGG
1 AA-ATGAGTAAGACTATAGTTGAAAGATGCTATGGCATCATGAT-G
*
32694128 AAATGAGTAAGA-TCATGGTTGAAAG
1 AAATGAGTAAGACT-ATAGTTGAAAG
32694153 TCGTTAAGAC
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
44 3 0.05
45 54 0.92
46 2 0.03
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (44 bp):
AAATGAGTAAGACTATAGTTGAAAGATGCTATGGCATCATGATG
Found at i:32695930 original size:51 final size:52
Alignment explanation
Indices: 32695804--32695932 Score: 190
Period size: 51 Copynumber: 2.5 Consensus size: 52
32695794 ACTAGTGACT
32695804 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
* * *
32695856 CAAGTGTGGTACTTTGTGAAGGCCACTTTTTGAAG-AAGGTAGCTTTGG-CTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTC-A
* *
32695907 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
32695933 CGGGTATCCG
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
50 1 0.01
51 36 0.51
52 33 0.47
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.29
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
Found at i:32702637 original size:18 final size:20
Alignment explanation
Indices: 32702602--32702640 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
32702592 TGTTCAAAAA
32702602 TTTAATGATTATATTTAATT
1 TTTAATGATTATATTTAATT
*
32702622 TTTAATTATT-TA-TTAATT
1 TTTAATGATTATATTTAATT
32702640 T
1 T
32702641 ATCCATGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTAATGATTATATTTAATT
Found at i:32704514 original size:9 final size:9
Alignment explanation
Indices: 32704502--32704549 Score: 55
Period size: 9 Copynumber: 5.2 Consensus size: 9
32704492 AAAACATTAC
32704502 TTTTAATAA
1 TTTTAATAA
32704511 TTTTAA-AA
1 TTTTAATAA
32704519 TATTT-ATAA
1 T-TTTAATAA
32704528 TTCTTAATGAA
1 TT-TTAAT-AA
32704539 TTTTAATAA
1 TTTTAATAA
32704548 TT
1 TT
32704550 CTCTCTCTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
8 5 0.15
9 18 0.53
10 7 0.21
11 4 0.12
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (9 bp):
TTTTAATAA
Found at i:32704547 original size:20 final size:18
Alignment explanation
Indices: 32704502--32704551 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
32704492 AAAACATTAC
32704502 TTTTAATAATT-TTAAAA
1 TTTTAATAATTCTTAAAA
32704519 TATTT-ATAATTCTTAATGAA
1 T-TTTAATAATTCTTAA--AA
32704539 TTTTAATAATTCT
1 TTTTAATAATTCT
32704552 CTCTCTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 7 0.25
18 7 0.25
19 3 0.11
20 11 0.39
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (18 bp):
TTTTAATAATTCTTAAAA
Found at i:32705609 original size:29 final size:28
Alignment explanation
Indices: 32705568--32705622 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
32705558 AAGGCCGGTT
32705568 TTTTTTAAAATTTACCGAAATGGGCCGG
1 TTTTTTAAAATTTACCGAAATGGGCCGG
* * *
32705596 TTTTTTAATTATTTACTGGAATGGGCC
1 TTTTTTAA-AATTTACCGAAATGGGCC
32705623 ATTTTCCGCG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (28 bp):
TTTTTTAAAATTTACCGAAATGGGCCGG
Found at i:32706618 original size:30 final size:29
Alignment explanation
Indices: 32706551--32706618 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
32706541 GATTTAGCGG
*
32706551 AAAATGGCCCATTCCGGTAAATAATTAAA
1 AAAACGGCCCATTCCGGTAAATAATTAAA
* * *
32706580 AAACCGGCCCATTTCGGTAAAT-TTTGAAAA
1 AAAACGGCCCATTCCGGTAAATAATT--AAA
32706610 AAAACGGCC
1 AAAACGGCC
32706619 TTTTTTGGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 2 0.06
29 19 0.59
30 11 0.34
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (29 bp):
AAAACGGCCCATTCCGGTAAATAATTAAA
Found at i:32707991 original size:32 final size:31
Alignment explanation
Indices: 32707928--32707995 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 31
32707918 ATTAAAAAAT
*
32707928 AATTTGATTCTTTTTGAAAGGTTAATGGTCA
1 AATTTGATTCTTTTTAAAAGGTTAATGGTCA
* *
32707959 AATTCTGATTTTTTTTAAAAGGTTGA-GTGTCA
1 AATT-TGATTCTTTTTAAAAGGTTAATG-GTCA
32707991 AATTT
1 AATTT
32707996 AACTCAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 6 0.19
32 26 0.81
ACGTcount: A:0.29, C:0.06, G:0.18, T:0.47
Consensus pattern (31 bp):
AATTTGATTCTTTTTAAAAGGTTAATGGTCA
Found at i:32708257 original size:21 final size:21
Alignment explanation
Indices: 32708231--32708271 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
32708221 TACGTGTTTA
*
32708231 GTCAAACTTATTATGGGTGAC
1 GTCAAACTTACTATGGGTGAC
*
32708252 GTCAAAGTTACTATGGGTGA
1 GTCAAACTTACTATGGGTGA
32708272 AATGATGACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (21 bp):
GTCAAACTTACTATGGGTGAC
Found at i:32713142 original size:40 final size:41
Alignment explanation
Indices: 32713068--32713149 Score: 121
Period size: 40 Copynumber: 2.0 Consensus size: 41
32713058 ATGTTTTGAG
* *
32713068 TTGCATATACGTGACCTTATTTATACTTTGGTACCCCTGAA
1 TTGCACATACGTGACCCTATTTATACTTTGGTACCCCTGAA
* *
32713109 TTGCACATACGTGCCCCTA-TTGTACTTTGGTACCCCTGAA
1 TTGCACATACGTGACCCTATTTATACTTTGGTACCCCTGAA
32713149 T
1 T
32713150 ACACTTTTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 21 0.57
41 16 0.43
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.37
Consensus pattern (41 bp):
TTGCACATACGTGACCCTATTTATACTTTGGTACCCCTGAA
Found at i:32720445 original size:40 final size:41
Alignment explanation
Indices: 32720365--32720589 Score: 224
Period size: 41 Copynumber: 5.6 Consensus size: 41
32720355 AATATTGTAC
* * *
32720365 ATTGCACATATGGGCCCCTGTTTGTACTTCGGTACTCCTAA
1 ATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTGA
* *
32720406 ACTGCACATATGTGCCCCT-TTTGTACTTCGGTACCCCTAA
1 ATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTGA
* * * * *
32720446 ATTGCACATACGTTCCCCTGTTTGTGCTTCGATACCCTTGA
1 ATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTGA
* * * * * *
32720487 ATTACAGATACGTACCCCTGTTTATACTACGGTACCCCTGA
1 ATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTGA
* *
32720528 ATTACACATATGTG-CCCT-TAGTGTACTTCGGTACCCCTGA
1 ATTGCACATATGTGCCCCTGT-TTGTACTTCGGTACCCCTGA
* * *
32720568 A-TGCACTTTTGTGCCCTTGTTT
1 ATTGCACATATGTGCCCCTGTTT
32720590 ACACTTTGGT
Statistics
Matches: 151, Mismatches: 29, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
39 10 0.07
40 62 0.41
41 79 0.52
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (41 bp):
ATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTGA
Found at i:32722444 original size:17 final size:17
Alignment explanation
Indices: 32722422--32722462 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
32722412 ATAACTGAGT
32722422 AAAGGTTTGCCGAG-GCA
1 AAAGGTTTGCC-AGTGCA
*
32722439 AAAGGTTTGTCAGTGCA
1 AAAGGTTTGCCAGTGCA
32722456 AAAGGTT
1 AAAGGTT
32722463 GGACAGTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 20 0.91
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (17 bp):
AAAGGTTTGCCAGTGCA
Found at i:32722469 original size:17 final size:17
Alignment explanation
Indices: 32722436--32722469 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32722426 GTTTGCCGAG
* *
32722436 GCAAAAGGTTTGTCAGT
1 GCAAAAGGTTGGACAGT
32722453 GCAAAAGGTTGGACAGT
1 GCAAAAGGTTGGACAGT
32722470 TTGCCATATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (17 bp):
GCAAAAGGTTGGACAGT
Found at i:32723308 original size:26 final size:25
Alignment explanation
Indices: 32723279--32723330 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
32723269 GTTTGCTCGA
*
32723279 TTATTCTTGTAATTGCCATT-GCATTT
1 TTATTATTGT-ATTGCC-TTAGCATTT
*
32723305 TTATTATTGTTTTGCCTTAGCATTT
1 TTATTATTGTATTGCCTTAGCATTT
32723330 T
1 T
32723331 CCAATATTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 2 0.09
25 12 0.52
26 9 0.39
ACGTcount: A:0.17, C:0.13, G:0.12, T:0.58
Consensus pattern (25 bp):
TTATTATTGTATTGCCTTAGCATTT
Found at i:32730150 original size:24 final size:25
Alignment explanation
Indices: 32730123--32730181 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
32730113 TCATTTCATC
*
32730123 AAAAATTGATTAAACAATAA-TCTG
1 AAAAATTGATTAAAAAATAATTCTG
* *
32730147 AAAAATT-TTTAAAAAATAATTTTG
1 AAAAATTGATTAAAAAATAATTCTG
*
32730171 AAAATTTGATT
1 AAAAATTGATT
32730182 TTAAAGATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 10 0.36
24 16 0.57
25 2 0.07
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (25 bp):
AAAAATTGATTAAAAAATAATTCTG
Found at i:32736569 original size:25 final size:25
Alignment explanation
Indices: 32736534--32736624 Score: 92
Period size: 25 Copynumber: 3.6 Consensus size: 25
32736524 GCACATATAA
* *
32736534 GCTCATACGAGCTGTAAATTGGTAT
1 GCTCACACGAGCTGTAAATCGGTAT
* *
32736559 GCTCACTCGAGCTGTAGATCGGTAT
1 GCTCACACGAGCTGTAAATCGGTAT
* * *
32736584 GCTCTCACGAGCTATTAATCGGTAT
1 GCTCACACGAGCTGTAAATCGGTAT
* * *
32736609 CCTCTCACAAGCTGTA
1 GCTCACACGAGCTGTA
32736625 GAGTATTCGC
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (25 bp):
GCTCACACGAGCTGTAAATCGGTAT
Found at i:32736783 original size:17 final size:17
Alignment explanation
Indices: 32736758--32736790 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32736748 CAATCATGTA
*
32736758 AATTTATAATAATTCAC
1 AATTCATAATAATTCAC
32736775 AATTCATAATAATTCA
1 AATTCATAATAATTCA
32736791 ATATAAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (17 bp):
AATTCATAATAATTCAC
Found at i:32741521 original size:32 final size:32
Alignment explanation
Indices: 32741480--32741544 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
32741470 GTCAACGGTG
32741480 TAGAAATCATCGAAAACCCTTTTACAAATCTC
1 TAGAAATCATCGAAAACCCTTTTACAAATCTC
*
32741512 TAGAAATCATCGAAAACCCTTTTACACATCTC
1 TAGAAATCATCGAAAACCCTTTTACAAATCTC
32741544 T
1 T
32741545 GATAATACCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.29
Consensus pattern (32 bp):
TAGAAATCATCGAAAACCCTTTTACAAATCTC
Found at i:32748110 original size:20 final size:20
Alignment explanation
Indices: 32748081--32748121 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
32748071 TATTGGCTTA
* *
32748081 GGCCGTAATGGGCGATGTTG
1 GGCCGAAATGGGCCATGTTG
32748101 GGCCGAAATGGGCCATGTTG
1 GGCCGAAATGGGCCATGTTG
32748121 G
1 G
32748122 CTCAATGGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.44, T:0.22
Consensus pattern (20 bp):
GGCCGAAATGGGCCATGTTG
Found at i:32748427 original size:27 final size:27
Alignment explanation
Indices: 32748372--32748810 Score: 529
Period size: 27 Copynumber: 16.3 Consensus size: 27
32748362 CCCCAAAATA
*
32748372 GGTAAAATGACCAAAATA-CCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
32748398 GGTAGAATAACCGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
32748425 GGTAAAATGACCAAAATACCCACATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * * * *
32748452 GGTAGAATGGCTGAAATACTCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
32748479 GGTAAAATAACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * * *
32748506 AGTAAAATGTCTGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * * *
32748533 GGTAAAATAACTGAAACACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
32748560 GGTAGAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
32748587 GGTAAAATGATCGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
32748614 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
32748641 GGTAGAATGACCGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
**
32748668 GGTAAAATGATTGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* **
32748695 GGTAAAATGACCAAAATACCCTTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
32748722 GGTAAAATGACCAAAATACCCCCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
32748749 AGTAGAATGACCAAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
32748776 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
32748803 GGTAAAAT
1 GGTAAAAT
32748811 AACTGTTATA
Statistics
Matches: 352, Mismatches: 60, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
26 15 0.04
27 337 0.96
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAG
Found at i:32752304 original size:51 final size:48
Alignment explanation
Indices: 32752173--32752356 Score: 203
Period size: 51 Copynumber: 3.7 Consensus size: 48
32752163 GAAAGTGATG
*
32752173 GTCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTT
1 GTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-G---GATA-GTT
* *
32752226 G-CA--TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTT
1 GTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-TT
*
32752272 CGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGAT
1 -G-TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT--T
*
32752324 GGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 -GTCACGTGTGTAGTACTATGTGCAGGCTACTA
32752357 TGTGAACCAG
Statistics
Matches: 116, Mismatches: 7, Indels: 18
0.82 0.05 0.13
Matches are distributed among these distances:
45 1 0.01
46 6 0.05
47 1 0.01
49 3 0.03
50 33 0.28
51 67 0.58
52 4 0.03
53 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (48 bp):
GTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTT
Done.