Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 97 of 250
Found at i:31471018 original size:40 final size:40
Alignment explanation
Indices: 31470974--31471327 Score: 246
Period size: 40 Copynumber: 8.8 Consensus size: 40
31470964 AATAGGGCTT
* *
31470974 TAGCGGCGTTTTATGAAAAAATGCCAC-AAAAATTATA-CAA
1 TAGCGGCGTTTT-TGAAAAAACGCCACTAAAAA-TAGAGCAA
** *
31471014 TAGCGGCGTTTTTGGCAAAGCGCCACTAAAAATAGAGCAA
1 TAGCGGCGTTTTTGAAAAAACGCCACTAAAAATAGAGCAA
** * * *
31471054 TAGCGGCGTTTTTGGCAAAGCACCGCTAAAAATAGAGCAA
1 TAGCGGCGTTTTTGAAAAAACGCCACTAAAAATAGAGCAA
** * *
31471094 TAGCGGCGTTTTTGGCAAAACACCGCTAAAAATAGAGCAA
1 TAGCGGCGTTTTTGAAAAAACGCCACTAAAAATAGAGCAA
* ** * * *
31471134 TAGTGGCGTTTTTGGCAAAGCACCGCTAAAAAATAGAGCAA
1 TAGCGGCGTTTTTGAAAAAACGCCACT-AAAAATAGAGCAA
** * ** * *
31471175 TAGCGATGTTTGTGTCAAAACGCCGCTAAGAAACAGAGCAA
1 TAGCGGCGTTTTTGAAAAAACGCCACTAA-AAATAGAGCAA
** * * *
31471216 TAGCGGCGTTTTTGTCAAAGCGCCGCTAAAAAACAGAGCAA
1 TAGCGGCGTTTTTGAAAAAACGCCACT-AAAAATAGAGCAA
* * ** ** * *
31471257 TAACAGCGTTTTTGGCAAAGTGCCGCTAAAAATAGAGAAA
1 TAGCGGCGTTTTTGAAAAAACGCCACTAAAAATAGAGCAA
* * *
31471297 TAGTGGCGTTTTTTG-TAAAACGCCGCTAAAA
1 TAGCGGCG-TTTTTGAAAAAACGCCACTAAAA
31471328 GTCATATAAC
Statistics
Matches: 274, Mismatches: 34, Indels: 12
0.86 0.11 0.04
Matches are distributed among these distances:
39 13 0.05
40 153 0.56
41 106 0.39
42 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (40 bp):
TAGCGGCGTTTTTGAAAAAACGCCACTAAAAATAGAGCAA
Found at i:31471095 original size:80 final size:81
Alignment explanation
Indices: 31471011--31471327 Score: 420
Period size: 81 Copynumber: 3.9 Consensus size: 81
31471001 AAAAATTATA
* *
31471011 CAATAGCGGCGTTTTTGGCAAAGCGCCACTAAAAATAGAGCAATAGCGGCGTTTTTGGCAAAGCA
1 CAATAGCGGCGTTTTTGGCAAAACGCCGCTAAAAATAGAGCAATAGCGGCGTTTTTGGCAAAGCA
31471076 CCGCT-AAAAATAGAG
66 CCGCTAAAAAATAGAG
* *
31471091 CAATAGCGGCGTTTTTGGCAAAACACCGCTAAAAATAGAGCAATAGTGGCGTTTTTGGCAAAGCA
1 CAATAGCGGCGTTTTTGGCAAAACGCCGCTAAAAATAGAGCAATAGCGGCGTTTTTGGCAAAGCA
31471156 CCGCTAAAAAATAGAG
66 CCGCTAAAAAATAGAG
** * * * *
31471172 CAATAGCGATGTTTGTGTCAAAACGCCGCTAAGAAACAGAGCAATAGCGGCGTTTTTGTCAAAGC
1 CAATAGCGGCGTTTTTGGCAAAACGCCGCTAA-AAATAGAGCAATAGCGGCGTTTTTGGCAAAGC
* *
31471237 GCCGCTAAAAAACAGAG
65 ACCGCTAAAAAATAGAG
* * ** * * * * * *
31471254 CAATAACAGCGTTTTTGGCAAAGTGCCGCTAAAAATAGAGAAATAGTGGCGTTTTTTGTAAAACG
1 CAATAGCGGCGTTTTTGGCAAAACGCCGCTAAAAATAGAGCAATAGCGGCGTTTTTGGCAAAGCA
31471319 CCGCTAAAA
66 CCGCTAAAA
31471328 GTCATATAAC
Statistics
Matches: 206, Mismatches: 29, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
80 66 0.32
81 72 0.35
82 68 0.33
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (81 bp):
CAATAGCGGCGTTTTTGGCAAAACGCCGCTAAAAATAGAGCAATAGCGGCGTTTTTGGCAAAGCA
CCGCTAAAAAATAGAG
Found at i:31471201 original size:41 final size:41
Alignment explanation
Indices: 31471011--31471327 Score: 399
Period size: 40 Copynumber: 7.8 Consensus size: 41
31471001 AAAAATTATA
*
31471011 CAATAGCGGCGTTTTTGGCAAAGCGCCACT-AAAAATAGAG
1 CAATAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAAATAGAG
*
31471051 CAATAGCGGCGTTTTTGGCAAAGCACCGCT-AAAAATAGAG
1 CAATAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAAATAGAG
* *
31471091 CAATAGCGGCGTTTTTGGCAAAACACCGCT-AAAAATAGAG
1 CAATAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAAATAGAG
* *
31471131 CAATAGTGGCGTTTTTGGCAAAGCACCGCTAAAAAATAGAG
1 CAATAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAAATAGAG
** * * * * *
31471172 CAATAGCGATGTTTGTGTCAAAACGCCGCTAAGAAACAGAG
1 CAATAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAAATAGAG
* *
31471213 CAATAGCGGCGTTTTTGTCAAAGCGCCGCTAAAAAACAGAG
1 CAATAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAAATAGAG
* * *
31471254 CAATAACAGCGTTTTTGGCAAAGTGCCGCT-AAAAATAGAG
1 CAATAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAAATAGAG
* * * * *
31471294 AAATAGTGGCGTTTTTTGTAAAACGCCGCTAAAA
1 CAATAGCGGCGTTTTTGGCAAAGCGCCGCTAAAA
31471328 GTCATATAAC
Statistics
Matches: 243, Mismatches: 32, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
40 136 0.56
41 107 0.44
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (41 bp):
CAATAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAAATAGAG
Found at i:31471430 original size:48 final size:47
Alignment explanation
Indices: 31471329--31471458 Score: 163
Period size: 46 Copynumber: 2.7 Consensus size: 47
31471319 CCGCTAAAAG
* * *
31471329 TCATATAACCCCTAAAACCTTAAACCCCCAAAAAAATCATAGACACTAG
1 TCATATAACCCCTAAAACCTTAAA--CCCAAAAAAACCATAAACACTAA
* *
31471378 TCTATATAACCCCTAAAACCCTAAACCCAAAAAAACCCTAAACACTAA
1 TC-ATATAACCCCTAAAACCTTAAACCCAAAAAAACCATAAACACTAA
* *
31471426 TC-TATAACCCCCAAAACCTTAAACCCCAAAAAA
1 TCATATAACCCCTAAAACCTTAAACCCAAAAAAA
31471459 TATCATATGG
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
46 28 0.39
48 21 0.29
49 2 0.03
50 21 0.29
ACGTcount: A:0.48, C:0.33, G:0.02, T:0.17
Consensus pattern (47 bp):
TCATATAACCCCTAAAACCTTAAACCCAAAAAAACCATAAACACTAA
Found at i:31472060 original size:19 final size:20
Alignment explanation
Indices: 31472031--31472068 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
31472021 TAAAAAATAT
31472031 ATTGATAAATAAATAAAAAC
1 ATTGATAAATAAATAAAAAC
31472051 ATTGAT-AATAAATAAAAA
1 ATTGATAAATAAATAAAAA
31472069 TAAAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (20 bp):
ATTGATAAATAAATAAAAAC
Found at i:31472095 original size:16 final size:14
Alignment explanation
Indices: 31472062--31472102 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 14
31472052 TTGATAATAA
31472062 ATAAAAAT-AAAAT
1 ATAAAAATAAAAAT
31472075 ATAAAAATAAAAATGT
1 ATAAAAATAAAAA--T
31472091 ATAAAAATAAAA
1 ATAAAAATAAAA
31472103 TGGTTAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.32
14 4 0.16
16 13 0.52
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (14 bp):
ATAAAAATAAAAAT
Found at i:31472102 original size:6 final size:6
Alignment explanation
Indices: 31472055--31472088 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
31472045 AAAAACATTG
31472055 ATAATAA ATAAAA ATAAAA TATAAAA ATAAAA AT
1 ATAA-AA ATAAAA ATAAAA -ATAAAA ATAAAA AT
31472089 GTATAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 16 0.62
7 10 0.38
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (6 bp):
ATAAAA
Found at i:31472606 original size:23 final size:22
Alignment explanation
Indices: 31472580--31472637 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
31472570 TTGAAAATTG
31472580 AAAATTGAAAATTAAAAAATAAA
1 AAAATT-AAAATTAAAAAATAAA
* *
31472603 AAAATTAAAAATTAAAAACTTAA
1 AAAATT-AAAATTAAAAAATAAA
*
31472626 AAACTTAAAATT
1 AAAATTAAAATT
31472638 TTAATATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 6 0.19
23 25 0.81
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (22 bp):
AAAATTAAAATTAAAAAATAAA
Found at i:31472625 original size:8 final size:7
Alignment explanation
Indices: 31472573--31472635 Score: 63
Period size: 7 Copynumber: 8.4 Consensus size: 7
31472563 AAAAATTTTG
*
31472573 AAAATTG
1 AAAATTA
*
31472580 AAAATTG
1 AAAATTA
31472587 AAAATTAA
1 AAAATT-A
*
31472595 AAAATAAA
1 AAAAT-TA
31472603 AAAATTA
1 AAAATTA
31472610 AAAATTA
1 AAAATTA
31472617 AAAACTTA
1 AAAA-TTA
31472625 AAAACTTA
1 AAAA-TTA
31472633 AAA
1 AAA
31472636 TTTTAATATT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
7 25 0.50
8 25 0.50
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (7 bp):
AAAATTA
Found at i:31472628 original size:16 final size:15
Alignment explanation
Indices: 31472573--31472635 Score: 65
Period size: 15 Copynumber: 4.1 Consensus size: 15
31472563 AAAAATTTTG
* *
31472573 AAAATTGAAAATT-G
1 AAAATTAAAAATTAA
*
31472587 AAAATTAAAAAATAAA
1 AAAATT-AAAAATTAA
31472603 AAAATTAAAAATTAA
1 AAAATTAAAAATTAA
*
31472618 AAACTTAAAAACTTAA
1 AAAATTAAAAA-TTAA
31472634 AA
1 AA
31472636 TTTTAATATT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
14 6 0.15
15 23 0.56
16 12 0.29
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (15 bp):
AAAATTAAAAATTAA
Found at i:31472635 original size:15 final size:16
Alignment explanation
Indices: 31472587--31472635 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
31472577 TTGAAAATTG
*
31472587 AAAATTAAAAAATAAA
1 AAAATTAAAAAATTAA
31472603 AAAATT-AAAAATTAA
1 AAAATTAAAAAATTAA
* *
31472618 AAACTTAAAAACTTAA
1 AAAATTAAAAAATTAA
31472634 AA
1 AA
31472636 TTTTAATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 13 0.45
16 16 0.55
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAATTAAAAAATTAA
Found at i:31472809 original size:41 final size:40
Alignment explanation
Indices: 31472762--31472901 Score: 113
Period size: 41 Copynumber: 3.4 Consensus size: 40
31472752 AAAAATATGT
*
31472762 TAAAAATGACAAAAAAAATTGAGCAATAGTAGCGTTTTTAG
1 TAAAAATG-CACAAAAAATTGAGCAATAGTAGCGTTTTTAG
* * * * * *
31472803 TGAAAATGCTGCAAAAAGTTAAGCTATAGTGGCGTTTTTAG
1 TAAAAATGC-ACAAAAAATTGAGCAATAGTAGCGTTTTTAG
* * * *
31472844 TAAAAACGCCACAAAAAATTGAG-ATACAATGGCGTTTTT-G
1 TAAAAATG-CACAAAAAATTGAGCA-ATAGTAGCGTTTTTAG
*
31472884 TAAAAATGCCGCAAAAAA
1 TAAAAATG-CACAAAAAA
31472902 CTTTACATCG
Statistics
Matches: 79, Mismatches: 17, Indels: 7
0.77 0.17 0.07
Matches are distributed among these distances:
40 18 0.23
41 60 0.76
42 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.26
Consensus pattern (40 bp):
TAAAAATGCACAAAAAATTGAGCAATAGTAGCGTTTTTAG
Found at i:31472899 original size:40 final size:41
Alignment explanation
Indices: 31472793--31472901 Score: 130
Period size: 41 Copynumber: 2.7 Consensus size: 41
31472783 AGCAATAGTA
* * * * * *
31472793 GCGTTTTTAGTGAAAATGCTGCAAAAAGTTAAGCTATAGTG
1 GCGTTTTTAGTAAAAATGCCGCAAAAAATTAAGATACAATG
* * *
31472834 GCGTTTTTAGTAAAAACGCCACAAAAAATTGAGATACAATG
1 GCGTTTTTAGTAAAAATGCCGCAAAAAATTAAGATACAATG
31472875 GCGTTTTT-GTAAAAATGCCGCAAAAAA
1 GCGTTTTTAGTAAAAATGCCGCAAAAAA
31472902 CTTTACATCG
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
40 17 0.30
41 40 0.70
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (41 bp):
GCGTTTTTAGTAAAAATGCCGCAAAAAATTAAGATACAATG
Found at i:31479064 original size:20 final size:20
Alignment explanation
Indices: 31479022--31479078 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 20
31479012 TTTAATCTAA
* **
31479022 TTTTTATTAT-TTATTTTAG
1 TTTTTATTATAATATTTTTC
*
31479041 TTTTGATTATAA-ATTTTTC
1 TTTTTATTATAATATTTTTC
*
31479060 TTTTTATTTTAATATTTTT
1 TTTTTATTATAATATTTTT
31479079 AGTTAAAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 24 0.80
20 6 0.20
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.72
Consensus pattern (20 bp):
TTTTTATTATAATATTTTTC
Found at i:31479199 original size:19 final size:17
Alignment explanation
Indices: 31479176--31479212 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
31479166 ATTTTTCATG
* *
31479176 ATTTTTTATAATATTTT
1 ATTTTTTTTAAAATTTT
31479193 ATTTTTTTTAAAATTTT
1 ATTTTTTTTAAAATTTT
31479210 ATT
1 ATT
31479213 ACATTTAGCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTTTTTAAAATTTT
Found at i:31479282 original size:43 final size:43
Alignment explanation
Indices: 31479216--31479347 Score: 176
Period size: 43 Copynumber: 3.0 Consensus size: 43
31479206 TTTTATTACA
*
31479216 TTTAGCGGCGTTTGTGGGAAAAGCG-TCGCTAAAGGTGATGACT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCT-GCTAAAGGTCATGACT
* * * *
31479259 TTTAGCGGCGTTTTTGGGTAAAGCGCTGCGAAAGGTCATGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCATGACT
* *
31479302 TTTAGCGGCATTTGCGGGAAAAGCGCTGCTAAAGGTCATGATCT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCATGA-CT
31479346 TT
1 TT
31479348 AGCTGCATTT
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
43 72 0.95
44 4 0.05
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCATGACT
Found at i:31483559 original size:9 final size:9
Alignment explanation
Indices: 31483545--31483671 Score: 68
Period size: 9 Copynumber: 14.1 Consensus size: 9
31483535 TATGTATTAC
*
31483545 GTAAGTTAA
1 GTAAGTTAT
*
31483554 GTAAGTTTT
1 GTAAGTTAT
31483563 GTAAGTTAT
1 GTAAGTTAT
31483572 GTAAGTTAT
1 GTAAGTTAT
*
31483581 G-ATA-TGAT
1 GTA-AGTTAT
* *
31483589 ATACATTTAT
1 GTA-AGTTAT
*
31483599 GT-A-TTAC
1 GTAAGTTAT
31483606 GTAAGTTAT
1 GTAAGTTAT
31483615 GTAAGTTAAGAT
1 GTAAGTT---AT
* *
31483627 ATATATTTAT
1 GTA-AGTTAT
31483637 GT-A-TTAT
1 GTAAGTTAT
*
31483644 GTAAGTTTT
1 GTAAGTTAT
*
31483653 GTAAGTTAC
1 GTAAGTTAT
31483662 GTAAGTTAT
1 GTAAGTTAT
31483671 G
1 G
31483672 ATATGATATA
Statistics
Matches: 90, Mismatches: 17, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
7 11 0.12
8 8 0.09
9 57 0.63
10 7 0.08
12 4 0.04
13 3 0.03
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:31483611 original size:43 final size:40
Alignment explanation
Indices: 31483563--31483660 Score: 128
Period size: 38 Copynumber: 2.4 Consensus size: 40
31483553 AGTAAGTTTT
31483563 GTAAGTTATGTAAGTTATGATATGATATACATTTATGTATTAC
1 GTAAGTTATGTAAGTTAT-A-A-GATATACATTTATGTATTAC
* *
31483606 GTAAGTTATGTAAG-T-TAAGATATATATTTATGTATTAT
1 GTAAGTTATGTAAGTTATAAGATATACATTTATGTATTAC
*
31483644 GTAAGTTTTGTAAGTTA
1 GTAAGTTATGTAAGTTA
31483661 CGTAAGTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
38 31 0.62
39 2 0.04
40 1 0.02
41 1 0.02
42 1 0.02
43 14 0.28
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (40 bp):
GTAAGTTATGTAAGTTATAAGATATACATTTATGTATTAC
Found at i:31484998 original size:29 final size:30
Alignment explanation
Indices: 31484966--31485031 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
31484956 AAATAATATG
31484966 ATATAT-AAATTTTGA-TTTAATTTAATTAT
1 ATATATGAAATTTT-ATTTTAATTTAATTAT
*
31484995 ATATATGAAATTTTATTTTTTATTTAATTAT
1 ATATATGAAATTTTA-TTTTAATTTAATTAT
*
31485026 ACATAT
1 ATATAT
31485032 TTTAAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 7 0.22
30 7 0.22
31 18 0.56
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (30 bp):
ATATATGAAATTTTATTTTAATTTAATTAT
Found at i:31485576 original size:257 final size:258
Alignment explanation
Indices: 31485276--31485792 Score: 928
Period size: 257 Copynumber: 2.0 Consensus size: 258
31485266 GCAAACAAAC
31485276 AAACAACAAATTGGAACAGTGCACGTAGACTTCTGCTGCTGCCTTAACTTGCTTTAGACTAAATT
1 AAACAACAAATTGGAACAGTGCACGTAGACTTCTGCTGCTGCCTTAACTTGCTTTAGACTAAATT
*
31485341 AGTAATAATCCCTGCGGGGTTTTTAAATTTTCTTTATATTATCTACATTCTCTTTAGTGTCTACT
66 AGTAATAATCCCTGCAGGGTTTTTAAATTTTCTTTATATTATCTACATTCTCTTTAGTGTCTACT
* * * *
31485406 TGATACCAACTTAATTAAAAAAATTTCTGATTTTAATTATAATAAACTGATCAAAAAATGCAGTT
131 TGATACCAACTTAATTAAAAAAAATTCAGAATTTAATTACAATAAACTGATCAAAAAATGCAGTT
31485471 AATAAATAGATTTGTTTATGAATGTATTTAAACTTTCTAA-TTTTCATCCGAATATGAAGTTG
196 AATAAATAGATTTGTTTATGAATGTATTTAAACTTTCTAATTTTTCATCCGAATATGAAGTTG
*
31485533 AAACAACAAATTGGAACAGTGCACGTAGACTTCTGCTGCTGCCTTAACTTGGTTTAGACTAAATT
1 AAACAACAAATTGGAACAGTGCACGTAGACTTCTGCTGCTGCCTTAACTTGCTTTAGACTAAATT
*
31485598 AGTAATAATCCCTGCAGGGTTTTTAAATTTTCTTTATGTTATCTACATTCTCTTTAGTGTCTACT
66 AGTAATAATCCCTGCAGGGTTTTTAAATTTTCTTTATATTATCTACATTCTCTTTAGTGTCTACT
* *
31485663 TGATATCAACTTAATTAAAAAAAATTCAGAATTTAATTACAATAAACTGATCAATAAATGCAGTT
131 TGATACCAACTTAATTAAAAAAAATTCAGAATTTAATTACAATAAACTGATCAAAAAATGCAGTT
* *
31485728 AATAAATAGATTTGTTTATGAATGTGTTTAAACTTTCTAATTTTTCATCTGAATATGAAGTTG
196 AATAAATAGATTTGTTTATGAATGTATTTAAACTTTCTAATTTTTCATCCGAATATGAAGTTG
31485791 AA
1 AA
31485793 TTTTTTTTAA
Statistics
Matches: 248, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
257 225 0.91
258 23 0.09
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.39
Consensus pattern (258 bp):
AAACAACAAATTGGAACAGTGCACGTAGACTTCTGCTGCTGCCTTAACTTGCTTTAGACTAAATT
AGTAATAATCCCTGCAGGGTTTTTAAATTTTCTTTATATTATCTACATTCTCTTTAGTGTCTACT
TGATACCAACTTAATTAAAAAAAATTCAGAATTTAATTACAATAAACTGATCAAAAAATGCAGTT
AATAAATAGATTTGTTTATGAATGTATTTAAACTTTCTAATTTTTCATCCGAATATGAAGTTG
Found at i:31486198 original size:18 final size:18
Alignment explanation
Indices: 31486175--31486218 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
31486165 AGGGATTTTG
* *
31486175 GGGGAAATTTAG-GGATT
1 GGGGAAATGTAGAGAATT
31486192 AGGGGAAATGTAGAGAATT
1 -GGGGAAATGTAGAGAATT
31486211 GGGGAAAT
1 GGGGAAAT
31486219 CTGTTTGGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.41, T:0.23
Consensus pattern (18 bp):
GGGGAAATGTAGAGAATT
Found at i:31487370 original size:14 final size:14
Alignment explanation
Indices: 31487351--31487406 Score: 69
Period size: 14 Copynumber: 4.1 Consensus size: 14
31487341 AACCCCTATC
31487351 CTCTAAACCTTAAA
1 CTCTAAACCTTAAA
*
31487365 CTCTAAACCCTAAA
1 CTCTAAACCTTAAA
* *
31487379 C-ATAAACCTTAGA
1 CTCTAAACCTTAAA
*
31487392 CTCTAAACCATAAA
1 CTCTAAACCTTAAA
31487406 C
1 C
31487407 CTTTAACCCT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
13 10 0.29
14 24 0.71
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (14 bp):
CTCTAAACCTTAAA
Found at i:31487394 original size:27 final size:27
Alignment explanation
Indices: 31487354--31487406 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
31487344 CCCTATCCTC
*
31487354 TAAACCTTAAACTCTAAACCCTAAACA
1 TAAACCTTAAACTCTAAACCATAAACA
*
31487381 TAAACCTTAGACTCTAAACCATAAAC
1 TAAACCTTAAACTCTAAACCATAAAC
31487407 CTTTAACCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.23
Consensus pattern (27 bp):
TAAACCTTAAACTCTAAACCATAAACA
Found at i:31487414 original size:7 final size:7
Alignment explanation
Indices: 31487404--31487466 Score: 58
Period size: 7 Copynumber: 9.3 Consensus size: 7
31487394 CTAAACCATA
*
31487404 AACCTTT
1 AACCCTT
31487411 AACCCTT
1 AACCCTT
*
31487418 AACCCCT
1 AACCCTT
*
31487425 -ACCCCT
1 AACCCTT
31487431 AACCCTT
1 AACCCTT
*
31487438 AACCCCT
1 AACCCTT
31487445 AACCC-T
1 AACCCTT
*
31487451 AACCCCT
1 AACCCTT
*
31487458 AAACCTT
1 AACCCTT
31487465 AA
1 AA
31487467 ACCCCAACTA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
6 12 0.25
7 36 0.75
ACGTcount: A:0.32, C:0.46, G:0.00, T:0.22
Consensus pattern (7 bp):
AACCCTT
Found at i:31487421 original size:21 final size:20
Alignment explanation
Indices: 31487356--31487421 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 20
31487346 CTATCCTCTA
* *
31487356 AACCTTAAACTCTAAACCC-T
1 AACCATAAAC-CTTAACCCTT
* * *
31487376 AAACATAAACCTTAGACTCTA
1 AACCATAAACCTTA-ACCCTT
31487397 AACCATAAACCTTTAACCCTT
1 AACCATAAACC-TTAACCCTT
31487418 AACC
1 AACC
31487422 CCTACCCCTA
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
19 3 0.09
20 11 0.31
21 18 0.51
22 3 0.09
ACGTcount: A:0.42, C:0.32, G:0.02, T:0.24
Consensus pattern (20 bp):
AACCATAAACCTTAACCCTT
Found at i:31487430 original size:6 final size:7
Alignment explanation
Indices: 31487410--31487459 Score: 68
Period size: 7 Copynumber: 7.4 Consensus size: 7
31487400 CATAAACCTT
*
31487410 TAACCCT
1 TAACCCC
31487417 TAACCCC
1 TAACCCC
31487424 T-ACCCC
1 TAACCCC
*
31487430 TAACCCT
1 TAACCCC
31487437 TAACCCC
1 TAACCCC
31487444 TAA-CCC
1 TAACCCC
31487450 TAACCCC
1 TAACCCC
31487457 TAA
1 TAA
31487460 ACCTTAAACC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
6 12 0.32
7 26 0.68
ACGTcount: A:0.30, C:0.50, G:0.00, T:0.20
Consensus pattern (7 bp):
TAACCCC
Found at i:31487433 original size:13 final size:14
Alignment explanation
Indices: 31487410--31487459 Score: 68
Period size: 13 Copynumber: 3.7 Consensus size: 14
31487400 CATAAACCTT
*
31487410 TAACCCTTAACCCC
1 TAACCCCTAACCCC
*
31487424 T-ACCCCTAACCCT
1 TAACCCCTAACCCC
31487437 TAACCCCTAA-CCC
1 TAACCCCTAACCCC
31487450 TAACCCCTAA
1 TAACCCCTAA
31487460 ACCTTAAACC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 23 0.72
14 9 0.28
ACGTcount: A:0.30, C:0.50, G:0.00, T:0.20
Consensus pattern (14 bp):
TAACCCCTAACCCC
Found at i:31487435 original size:20 final size:20
Alignment explanation
Indices: 31487410--31487455 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
31487400 CATAAACCTT
*
31487410 TAACCCTTAACCCCTACCCC
1 TAACCCTTAACCCCTAACCC
31487430 TAACCCTTAACCCCTAACCC
1 TAACCCTTAACCCCTAACCC
31487450 TAACCC
1 TAACCC
31487456 CTAAACCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.52, G:0.00, T:0.20
Consensus pattern (20 bp):
TAACCCTTAACCCCTAACCC
Found at i:31487439 original size:27 final size:27
Alignment explanation
Indices: 31487404--31487471 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
31487394 CTAAACCATA
* *
31487404 AACCTTTAACCCTTAACCCCT-ACCCCT
1 AACCCTTAACCCCTAA-CCCTAACCCCT
31487431 AACCCTTAACCCCTAACCCTAACCCCT
1 AACCCTTAACCCCTAACCCTAACCCCT
*
31487458 AAACCTTAAACCCC
1 AACCCTT-AACCCC
31487472 AACTATTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.11
27 26 0.72
28 6 0.17
ACGTcount: A:0.31, C:0.49, G:0.00, T:0.21
Consensus pattern (27 bp):
AACCCTTAACCCCTAACCCTAACCCCT
Found at i:31487488 original size:7 final size:7
Alignment explanation
Indices: 31487478--31487588 Score: 55
Period size: 7 Copynumber: 15.6 Consensus size: 7
31487468 CCCCAACTAT
31487478 TAAACCA
1 TAAACCA
*
31487485 TAAACTA
1 TAAACCA
31487492 TAAACCA
1 TAAACCA
*
31487499 TAAGCCA
1 TAAACCA
* *
31487506 TAACCCC
1 TAAACCA
31487513 TAAACTCA
1 TAAAC-CA
**
31487521 TAATTCA
1 TAAACCA
*
31487528 TAAACCT
1 TAAACCA
31487535 TAAA--A
1 TAAACCA
*
31487540 TAGTAACTCC
1 TA--AAC-CA
*
31487550 TAAACCT
1 TAAACCA
31487557 TAAACCA
1 TAAACCA
* *
31487564 TGAATCA
1 TAAACCA
* *
31487571 TATACCC
1 TAAACCA
31487578 TAAACCA
1 TAAACCA
31487585 TAAA
1 TAAA
31487589 TCCTAAATTA
Statistics
Matches: 74, Mismatches: 24, Indels: 12
0.67 0.22 0.11
Matches are distributed among these distances:
5 2 0.03
7 63 0.85
8 7 0.09
10 2 0.03
ACGTcount: A:0.48, C:0.26, G:0.03, T:0.23
Consensus pattern (7 bp):
TAAACCA
Found at i:31487495 original size:14 final size:15
Alignment explanation
Indices: 31487472--31487501 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
31487462 CTTAAACCCC
31487472 AACTATTAAACCATA
1 AACTATTAAACCATA
31487487 AACTA-TAAACCATA
1 AACTATTAAACCATA
31487501 A
1 A
31487502 GCCATAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (15 bp):
AACTATTAAACCATA
Found at i:31487538 original size:22 final size:20
Alignment explanation
Indices: 31487483--31487587 Score: 68
Period size: 22 Copynumber: 5.0 Consensus size: 20
31487473 ACTATTAAAC
*
31487483 CATAAA-CTATAAACCATAAGC
1 CATAAACCT-TAAACCATAA-T
* *
31487504 CATAACCCCTAAACTCATAATT
1 CATAAACCTTAAAC-CATAA-T
**
31487526 CATAAACCTTAAAATAGTAACT
1 CATAAACCTTAAACCA-TAA-T
*
31487548 CCTAAACCTTAAACCATGAAT
1 CATAAACCTTAAACCAT-AAT
* *
31487569 CATATACCCTAAACCATAA
1 CATAAACCTTAAACCATAA
31487588 ATCCTAAATT
Statistics
Matches: 65, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
20 2 0.03
21 27 0.42
22 36 0.55
ACGTcount: A:0.47, C:0.27, G:0.03, T:0.24
Consensus pattern (20 bp):
CATAAACCTTAAACCATAAT
Found at i:31487915 original size:40 final size:40
Alignment explanation
Indices: 31487870--31487954 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
31487860 GAAAAACGCT
* * *
31487870 GCTAATGCTCGACCTATAGTGGCGTTTTTCAAAAAGCACA
1 GCTAATGCTCGACCTACAGCGGCATTTTTCAAAAAGCACA
* * *
31487910 GCTAATGCTCGATCTACAGCGGCATTTTTCAAAAGGCACC
1 GCTAATGCTCGACCTACAGCGGCATTTTTCAAAAAGCACA
31487950 GCTAA
1 GCTAA
31487955 AGCCACTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (40 bp):
GCTAATGCTCGACCTACAGCGGCATTTTTCAAAAAGCACA
Found at i:31488045 original size:151 final size:153
Alignment explanation
Indices: 31487843--31488260 Score: 429
Period size: 151 Copynumber: 2.7 Consensus size: 153
31487833 TAAATTATAC
* * * * *
31487843 TTTTTGCGGTGCATTTTGAAAAA-CGCTGCTAATGCTCGACCTATAGTGGCGTTTTTCAAAAAGC
1 TTTTTGCGGCG-ATTTTCAAAAAGCGCCGCTAATGGTCGACCTATAGCGGCGTTTTT-AAAAAGC
* * *
31487907 ACAGCTAATGCTCGATCTACAGCGGCATTTTTCAAAAGGCACCGCTAAAGCCACTAAAGCT-AA-
64 AC-GCTAATGCTAGATCTATAGCGGCATTTTTCAAAAAGCACCGCTAAAGCCACTAAAGCTCAAC
*
31487970 A-AAAACCGACGGCGTTGTGCTTAG-T
128 ATAAAA-CGACGGCGTGGTGCTTAGTT
* ** * * *
31487995 TTTTTGTGGC-ATTTTCAAATTGCGCCGCTAATGGTCGACCTATAGCGGCGTTTTTAGAGAGCGT
1 TTTTTGCGGCGATTTTCAAAAAGCGCCGCTAATGGTCGACCTATAGCGGCGTTTTTAAAAAGC-A
* * * * *
31488059 CGCTAATGGTTGATCTATAGCGG-ATTTTTTTCAAAAAGCGCCTCTAATGCCACTAAAGCTCAAC
65 CGCTAATGCTAGATCTATAGCGGCA--TTTTTCAAAAAGCACCGCTAAAGCCACTAAAGCTCAAC
*
31488123 ATAAAACGACGTCGTGGTGCTTAGTT
128 ATAAAACGACGGCGTGGTGCTTAGTT
* * * *
31488149 TTTTTGCGGCGTTTTTGAAAAAGCGCCGCTAATGGTCGAACTACAGCGGCGTTTCTTAAAAAGCA
1 TTTTTGCGGCGATTTTCAAAAAGCGCCGCTAATGGTCGACCTATAGCGGCGTTT-TTAAAAAGCA
* * * *
31488214 CCGCTAATACTATATCTATAGCGGCGTTTTT-AAGAAAGCGCCGCTAA
65 -CGCTAATGCTAGATCTATAGCGGCATTTTTCAA-AAAGCACCGCTAA
31488261 TGCTAGTTCT
Statistics
Matches: 217, Mismatches: 36, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
149 1 0.00
150 32 0.15
151 61 0.28
152 10 0.05
153 17 0.08
154 16 0.07
155 54 0.25
156 26 0.12
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (153 bp):
TTTTTGCGGCGATTTTCAAAAAGCGCCGCTAATGGTCGACCTATAGCGGCGTTTTTAAAAAGCAC
GCTAATGCTAGATCTATAGCGGCATTTTTCAAAAAGCACCGCTAAAGCCACTAAAGCTCAACATA
AAACGACGGCGTGGTGCTTAGTT
Found at i:31488210 original size:40 final size:39
Alignment explanation
Indices: 31488154--31488322 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 39
31488144 TAGTTTTTTT
* *
31488154 GCGGCGTTTTTGAAAAAGCGCCGCTAATGGTCGAACTACA
1 GCGGCGTTTTT-AAAAAGCGCCGCTAATGCTAGAACTACA
* * * * *
31488194 GCGGCGTTTCTTAAAAAGCACCGCTAATACTATATCTATA
1 GCGGCGTTT-TTAAAAAGCGCCGCTAATGCTAGAACTACA
** *
31488234 GCGGCGTTTTTAAGAAAGCGCCGCTAATGCTAGTTCTATA
1 GCGGCGTTTTTAA-AAAGCGCCGCTAATGCTAGAACTACA
* * * * * *
31488274 GTGGCATTTTTCAAAAAGCGTCGCTAATGCTCGATCTATA
1 GCGGCGTTTTT-AAAAAGCGCCGCTAATGCTAGAACTACA
*
31488314 GTGGCGTTT
1 GCGGCGTTT
31488323 GTTTTCTAAA
Statistics
Matches: 109, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
39 4 0.04
40 101 0.93
41 4 0.04
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (39 bp):
GCGGCGTTTTTAAAAAGCGCCGCTAATGCTAGAACTACA
Found at i:31488290 original size:80 final size:80
Alignment explanation
Indices: 31488154--31488322 Score: 189
Period size: 80 Copynumber: 2.1 Consensus size: 80
31488144 TAGTTTTTTT
* * *
31488154 GCGGCGTTTTTGAAAAAGCGCCGCTAATGGTCGAACTACAGCGGCGTTTCTTAAAAAGCACCGCT
1 GCGGCGTTTTTGAAAAAGCGCCGCTAATGCTAGAACTACAGCGGCATTTCTTAAAAAGCACCGCT
*
31488219 AATACTATATCTATA
66 AATACTAGATCTATA
** * * **
31488234 GCGGCGTTTTT-AAGAAAGCGCCGCTAATGCTAGTTCTATAGTGGCATTT-TTCAAAAAGCGTCG
1 GCGGCGTTTTTGAA-AAAGCGCCGCTAATGCTAGAACTACAGCGGCATTTCTT-AAAAAGCACCG
* *
31488297 CTAATGCTCGATCTATA
64 CTAATACTAGATCTATA
*
31488314 GTGGCGTTT
1 GCGGCGTTT
31488323 GTTTTCTAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
79 4 0.05
80 70 0.95
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (80 bp):
GCGGCGTTTTTGAAAAAGCGCCGCTAATGCTAGAACTACAGCGGCATTTCTTAAAAAGCACCGCT
AATACTAGATCTATA
Found at i:31496160 original size:21 final size:22
Alignment explanation
Indices: 31496116--31496162 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
31496106 TGATCTATTT
*
31496116 ACATTAAGATTAACATAGCAAA
1 ACATTAAGATTAACATAACAAA
31496138 ACATTCAA-ATTAA-ATAACAAA
1 ACATT-AAGATTAACATAACAAA
31496159 ACAT
1 ACAT
31496163 AGCAAAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 11 0.48
22 10 0.43
23 2 0.09
ACGTcount: A:0.57, C:0.15, G:0.04, T:0.23
Consensus pattern (22 bp):
ACATTAAGATTAACATAACAAA
Found at i:31496162 original size:31 final size:32
Alignment explanation
Indices: 31496126--31496193 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 32
31496116 ACATTAAGAT
31496126 TAACATAGCAAAACATTCAAATTAAATAACAA
1 TAACATAGCAAAACATTCAAATTAAATAACAA
31496158 -AACATAGCAAAACATTCAAATTAAATAACAA
1 TAACATAGCAAAACATTCAAATTAAATAACAA
31496189 TAACA
1 TAACA
31496194 CAATAAACGT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 31 0.89
32 4 0.11
ACGTcount: A:0.60, C:0.16, G:0.03, T:0.21
Consensus pattern (32 bp):
TAACATAGCAAAACATTCAAATTAAATAACAA
Found at i:31496168 original size:22 final size:22
Alignment explanation
Indices: 31496124--31496168 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
31496114 TTACATTAAG
* *
31496124 ATTAACATAGCAAAACATTCAA
1 ATTAACATAACAAAACATGCAA
31496146 ATTAA-ATAACAAAACATAGCAA
1 ATTAACATAACAAAACAT-GCAA
31496168 A
1 A
31496169 ACATTCAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.60, C:0.16, G:0.04, T:0.20
Consensus pattern (22 bp):
ATTAACATAACAAAACATGCAA
Found at i:31497350 original size:47 final size:47
Alignment explanation
Indices: 31497296--31497434 Score: 208
Period size: 47 Copynumber: 3.0 Consensus size: 47
31497286 ACAGTAATGT
*
31497296 AGATAAACTGCCACTTAATAATATTGTGGACAAGCCACCACTTTTGC
1 AGATAAACTACCACTTAATAATATTGTGGACAAGCCACCACTTTTGC
* *
31497343 AGATAAACTACCACTTAATAAAATTGTGGACAATCCACCACTTTTGC
1 AGATAAACTACCACTTAATAATATTGTGGACAAGCCACCACTTTTGC
* * *
31497390 AGATAAACTATCACTTTATAATATAT-TGGACAAGCCAACACTTTT
1 AGATAAACTACCACTTAATAATAT-TGTGGACAAGCCACCACTTTT
31497435 TATATGTAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
47 82 0.99
48 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (47 bp):
AGATAAACTACCACTTAATAATATTGTGGACAAGCCACCACTTTTGC
Found at i:31498506 original size:13 final size:15
Alignment explanation
Indices: 31498476--31498507 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
31498466 ACCCACTTAA
31498476 AAGAGAAGAAAGAAT
1 AAGAGAAGAAAGAAT
31498491 AAGAG-AGAAA-AAT
1 AAGAGAAGAAAGAAT
31498504 AAGA
1 AAGA
31498508 AAAAGAGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 5 0.29
15 5 0.29
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.06
Consensus pattern (15 bp):
AAGAGAAGAAAGAAT
Found at i:31500045 original size:16 final size:16
Alignment explanation
Indices: 31500014--31500050 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
31500004 ATGTGAAGAA
31500014 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
31500030 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
31500046 TATTA
1 TATTA
31500051 AAATATTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:31501143 original size:24 final size:24
Alignment explanation
Indices: 31501111--31501170 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
31501101 AATCTAAACT
31501111 AATAGAGTTTAATTAAAACAAATA
1 AATAGAGTTTAATTAAAACAAATA
* *
31501135 AATAGAGTTTGATTGAAACAAATA
1 AATAGAGTTTAATTAAAACAAATA
*
31501159 AACAGAGTTTAA
1 AATAGAGTTTAA
31501171 CTGGAAGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.53, C:0.05, G:0.13, T:0.28
Consensus pattern (24 bp):
AATAGAGTTTAATTAAAACAAATA
Found at i:31533340 original size:23 final size:22
Alignment explanation
Indices: 31533294--31533341 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
31533284 GGTTTAAAAT
*
31533294 AAATATTTTTTATAAAATTATA
1 AAATATTTATTATAAAATTATA
* *
31533316 AAATATTTAATTATAAACTTCTA
1 AAATATTT-ATTATAAAATTATA
31533339 AAA
1 AAA
31533342 AGGTATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
AAATATTTATTATAAAATTATA
Found at i:31535809 original size:12 final size:12
Alignment explanation
Indices: 31535792--31535816 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31535782 ATCGTAAAGA
31535792 ATTGATAAATTG
1 ATTGATAAATTG
31535804 ATTGATAAATTG
1 ATTGATAAATTG
31535816 A
1 A
31535817 ATATGATGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (12 bp):
ATTGATAAATTG
Found at i:31540509 original size:21 final size:21
Alignment explanation
Indices: 31540462--31540519 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
31540452 GGAAAGAAAC
*
31540462 TTCT-TTTGAATTGATTTTCT
1 TTCTGTTTGAATCGATTTTCT
31540482 TTCTGTTTGAATCGATTGTT-T
1 TTCTGTTTGAATCGATT-TTCT
* *
31540503 TTTTGTTAGAATCGATT
1 TTCTGTTTGAATCGATT
31540520 CCTTATTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.12
21 27 0.82
22 2 0.06
ACGTcount: A:0.17, C:0.09, G:0.16, T:0.59
Consensus pattern (21 bp):
TTCTGTTTGAATCGATTTTCT
Found at i:31540567 original size:102 final size:101
Alignment explanation
Indices: 31540406--31540588 Score: 260
Period size: 102 Copynumber: 1.8 Consensus size: 101
31540396 TATTTTTCTA
* * *
31540406 TTAGAATTGATTCATTATTGTTATTGATGTGTTTGTGGAAAATGTTGGAAAGAAACTTCTTTTGA
1 TTAGAATCGATTCATTATTGTTATTAATGTGTTTGTAGAAAATGTTGGAAAGAAACTTCTTTT-A
* *
31540471 ATTGATTTTCTTTCTGTTTGAATCGATTGTTTTTTTG
65 ATCGATTATCTTTCTGTTTGAATCGATTGTTTTTTTG
* ***
31540508 TTAGAATCGATTCCTTATTGTTATTAATGTGTTTGTAGAAAATGTTGGGAAA-CTGCTTCTTTTA
1 TTAGAATCGATTCATTATTGTTATTAATGTGTTTGTAGAAAATGTT-GGAAAGAAACTTCTTTTA
31540572 ATCGATTATCTTTCTGT
65 ATCGATTATCTTTCTGT
31540589 AACATCCCGA
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
101 16 0.23
102 50 0.70
103 5 0.07
ACGTcount: A:0.24, C:0.08, G:0.19, T:0.49
Consensus pattern (101 bp):
TTAGAATCGATTCATTATTGTTATTAATGTGTTTGTAGAAAATGTTGGAAAGAAACTTCTTTTAA
TCGATTATCTTTCTGTTTGAATCGATTGTTTTTTTG
Found at i:31561210 original size:18 final size:16
Alignment explanation
Indices: 31561173--31561212 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
31561163 GCAATGAACC
*
31561173 ATTTTGCTAAAACCAT
1 ATTTTGCTAAAACAAT
31561189 ATTTTGCTAAAAATCAAT
1 ATTTTGCT-AAAA-CAAT
31561207 ATTTTG
1 ATTTTG
31561213 TGTAATTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 4 0.19
18 9 0.43
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.42
Consensus pattern (16 bp):
ATTTTGCTAAAACAAT
Found at i:31561877 original size:22 final size:24
Alignment explanation
Indices: 31561849--31561894 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
31561839 AAGATGCCAT
31561849 GTAGGTTG-GGAT-AAACCACCAA
1 GTAGGTTGTGGATGAAACCACCAA
31561871 GTAGGTTGTGGATGAAACCACCAA
1 GTAGGTTGTGGATGAAACCACCAA
31561895 TATTTACGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 8 0.36
23 4 0.18
24 10 0.45
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (24 bp):
GTAGGTTGTGGATGAAACCACCAA
Found at i:31565942 original size:27 final size:27
Alignment explanation
Indices: 31565908--31566081 Score: 197
Period size: 27 Copynumber: 6.4 Consensus size: 27
31565898 TAAATTGTAC
31565908 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
31565935 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31565961 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
31565989 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
31566017 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31566044 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31566071 AGCACTGAGTG
1 AGCACTAAGTG
31566082 AGCAGACTCA
Statistics
Matches: 125, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:31566022 original size:82 final size:81
Alignment explanation
Indices: 31565909--31566064 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31565899 AAATTGTACA
* *
31565909 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
31565973 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
31565990 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
31566055 TGCGAGTTGA
65 TGCGAATTGA
31566065 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:31576295 original size:46 final size:46
Alignment explanation
Indices: 31576242--31576417 Score: 184
Period size: 46 Copynumber: 3.8 Consensus size: 46
31576232 TATTTGGGCA
31576242 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
31576288 TCCGAACTCGTTGAGTTGAGTCCAAGTT---TGA-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* *
31576333 CATCCGAGCTCGTTGAGTTGAGTCCTAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
31576381 -CCCAAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31576418 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 11, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
42 3 0.03
43 7 0.07
45 4 0.04
46 56 0.52
47 26 0.24
48 1 0.01
50 7 0.07
51 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:31576376 original size:93 final size:93
Alignment explanation
Indices: 31576238--31576408 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
31576228 AGGATATTTG
* *
31576238 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAA-CTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CCCAAGCTCATTGA
31576302 GTTGAGTCCAAGTTTGAGAGATGTAACTA
65 GTTGAGTCCAAGTTTGAGAGATGTAACTA
* *
31576331 GGCATCCGAGCTCGTTGAGTTGAGTCCTAGTTCACTTATGGATGCGAATGCCCAAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCAAGCTCATTGAG
*
31576396 TTGAGTCCGAGTT
66 TTGAGTCCAAGTT
31576409 CACTTATGGG
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 4 0.06
93 68 0.94
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCAAGCTCATTGAG
TTGAGTCCAAGTTTGAGAGATGTAACTA
Found at i:31579365 original size:15 final size:15
Alignment explanation
Indices: 31579345--31579413 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
31579335 GTATCTTGGG
31579345 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
31579360 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
31579375 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
31579390 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
31579405 TTTCTTTAT
1 TTTCTTTAT
31579414 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:31579414 original size:30 final size:30
Alignment explanation
Indices: 31579336--31579423 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
31579326 CATAGTATCG
* * * *
31579336 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
31579366 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
31579396 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
31579424 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:31581853 original size:46 final size:45
Alignment explanation
Indices: 31581800--31581975 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
31581790 TATTTGGGCA
31581800 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
31581846 TCCGAACTCGTTGAGTTGAGTTCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
31581893 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
31581939 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31581976 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:31581955 original size:93 final size:93
Alignment explanation
Indices: 31581796--31581967 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
31581786 AGGATATTTG
* *
31581796 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
31581861 TTGAGTTCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
31581889 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
31581954 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
31581968 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:31584365 original size:40 final size:40
Alignment explanation
Indices: 31584282--31584501 Score: 259
Period size: 40 Copynumber: 5.5 Consensus size: 40
31584272 ACCCAAGTAT
** * *
31584282 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
31584320 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
31584360 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
31584400 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
31584440 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
31584480 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
31584502 CATTCGAATA
Statistics
Matches: 154, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.10
40 125 0.81
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:31588488 original size:40 final size:40
Alignment explanation
Indices: 31588394--31588538 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
31588384 TACTCGAATG
*
31588394 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
31588435 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
31588475 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
31588515 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
31588539 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:31596002 original size:40 final size:40
Alignment explanation
Indices: 31595908--31596052 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
31595898 TACTCGAATG
*
31595908 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
31595949 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
31595989 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
31596029 ATATCTGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
31596053 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:31598070 original size:22 final size:22
Alignment explanation
Indices: 31598025--31598070 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
31598015 ATAATTCATA
**
31598025 ATTATAATAAAGCATTTATCAC
1 ATTATAATAAAGCATTTAAAAC
*
31598047 ATTATATTAAAGCATTTAAAAC
1 ATTATAATAAAGCATTTAAAAC
31598069 AT
1 AT
31598071 ACTACCATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (22 bp):
ATTATAATAAAGCATTTAAAAC
Found at i:31603598 original size:46 final size:46
Alignment explanation
Indices: 31603496--31603624 Score: 177
Period size: 46 Copynumber: 2.8 Consensus size: 46
31603486 TATGAGGCAT
* * * *
31603496 CCAAACTCGTTGAGTTGCGTTCCGATTTCACCTATGGATGCAAGCAT
1 CCAAACTCGTTGAGTTGCGTTCCGAGTTCA-TTATGGATGCAAACAC
*
31603543 CCAAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGCAAACAC
1 CCAAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGCAAACAC
* * *
31603589 CCGAGCTCGTTGAGTTGCGTTCCAAGTTCATTATGG
1 CCAAACTCGTTGAGTTGCGTTCCGAGTTCATTATGG
31603625 GTGAGATTAT
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
46 45 0.62
47 28 0.38
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.31
Consensus pattern (46 bp):
CCAAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGCAAACAC
Found at i:31614769 original size:18 final size:18
Alignment explanation
Indices: 31614746--31614784 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
31614736 TTTCGGGTAA
*
31614746 AATCAAATT-AATTCTGTT
1 AATC-AATTGAATTCGGTT
31614764 AATCAATTGAATTCGGTT
1 AATCAATTGAATTCGGTT
31614782 AAT
1 AAT
31614785 TGGTCGGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (18 bp):
AATCAATTGAATTCGGTT
Found at i:31617939 original size:19 final size:20
Alignment explanation
Indices: 31617895--31617940 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
31617885 AAAATTAGAC
31617895 TTTAAAT-TATAAAAATTTT
1 TTTAAATGTATAAAAATTTT
** *
31617914 TAAAAATGTAT-ATAATTTT
1 TTTAAATGTATAAAAATTTT
31617933 TTTAAATG
1 TTTAAATG
31617941 ATTTAGGTGC
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (20 bp):
TTTAAATGTATAAAAATTTT
Found at i:31618473 original size:17 final size:17
Alignment explanation
Indices: 31618427--31618475 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
31618417 AATTTTGGTT
31618427 TTTTAAAAAATA-TAT-
1 TTTTAAAAAATATTATA
* * *
31618442 TTTT-TAATATTTTATA
1 TTTTAAAAAATATTATA
31618458 TTTTAAAAAATATTATA
1 TTTTAAAAAATATTATA
31618475 T
1 T
31618476 GTTTGTAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
14 4 0.16
15 7 0.28
16 4 0.16
17 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTAAAAAATATTATA
Found at i:31618669 original size:18 final size:18
Alignment explanation
Indices: 31618648--31618682 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31618638 TTTATAATTT
31618648 ATAAAAATTCTAATTTAG
1 ATAAAAATTCTAATTTAG
**
31618666 ATAAATTTTCTAATTTA
1 ATAAAAATTCTAATTTA
31618683 AATTGTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (18 bp):
ATAAAAATTCTAATTTAG
Found at i:31622720 original size:39 final size:39
Alignment explanation
Indices: 31622676--31622912 Score: 402
Period size: 39 Copynumber: 6.1 Consensus size: 39
31622666 ATGCAAGACA
31622676 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
31622715 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
31622754 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
31622793 CTGGAAATGTATCCGGGCTAAAGTTCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
31622832 CTAGAAATGTATCCAGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
31622871 CTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
31622910 CTG
1 CTG
31622913 ATAATATAAT
Statistics
Matches: 184, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 184 1.00
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:31626270 original size:42 final size:42
Alignment explanation
Indices: 31626214--31626331 Score: 130
Period size: 44 Copynumber: 2.8 Consensus size: 42
31626204 CTTGCCACTA
* * *
31626214 TCCCAGACAGGGTCTTACATGAAATCATATACGATGCCAATG
1 TCCCAGACATGGTCTTACACGAAATCATATACGATGCCAACG
*
31626256 TCCCAGACATGGTCTTACACGTAAATC-TCAAATCGATGCCAACG
1 TCCCAGACATGGTCTTACACG-AAATCAT-ATA-CGATGCCAACG
* * * *
31626300 TCCTAGACGTGGTCCTACACGAAATCACATAC
1 TCCCAGACATGGTCTTACACGAAATCATATAC
31626332 TGGGATCCTA
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
42 21 0.33
43 14 0.22
44 28 0.44
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAATCATATACGATGCCAACG
Found at i:31626472 original size:79 final size:80
Alignment explanation
Indices: 31626340--31626499 Score: 286
Period size: 79 Copynumber: 2.0 Consensus size: 80
31626330 ACTGGGATCC
* *
31626340 TATGTCATATGTATCCTAACTATTTCCTATGGTACTTACGGGGCTTTCGGACGCCATAATTCGAT
1 TATGTCATATGTATCCTAACTATTTCCTATGGTACGTACGGGGCTTTCGGACGCCATAATTCAAT
31626405 CGATGTTTTCTCAAT
66 CGATGTTTTCTCAAT
*
31626420 TATGTCATATGTATCCTAACTA-TTCCTATGGTTCGTACGGGGCTTTCGGACGCCATAATTCAAT
1 TATGTCATATGTATCCTAACTATTTCCTATGGTACGTACGGGGCTTTCGGACGCCATAATTCAAT
31626484 CGATGTTTTCTCAAT
66 CGATGTTTTCTCAAT
31626499 T
1 T
31626500 TCACATATTC
Statistics
Matches: 77, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
79 55 0.71
80 22 0.29
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (80 bp):
TATGTCATATGTATCCTAACTATTTCCTATGGTACGTACGGGGCTTTCGGACGCCATAATTCAAT
CGATGTTTTCTCAAT
Found at i:31631497 original size:40 final size:40
Alignment explanation
Indices: 31631327--31631497 Score: 260
Period size: 40 Copynumber: 4.4 Consensus size: 40
31631317 CGGATGTAAC
*
31631327 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
31631367 AA----CACGAATACCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* * *
31631403 AACCCGCACGAATACCTTCGGAACTTAACCCAGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
31631443 AACCCGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
31631483 AACCCGCACGAATGC
1 AACCCGCACGAATGC
31631498 TATGCACATA
Statistics
Matches: 119, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
36 35 0.29
40 84 0.71
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:31635443 original size:40 final size:40
Alignment explanation
Indices: 31635388--31635611 Score: 168
Period size: 39 Copynumber: 5.7 Consensus size: 40
31635378 ATTTGATGTG
*
31635388 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGACTTAAAGACCCGCAGGCT-TCATGCTGGAATTA
* * * *
31635428 TATCCGGGCTTAAAGACCTGCGGGCTTCATGCTGGAATTG
1 TATCCGGACTTAAAGACCCGCAGGCTTCATGCTGGAATTA
* * ** * *
31635468 TATCCAGACCT-AAGGTCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAAGACCCGCAGGCTTCATGCTGGAATTA
* * * * *
31635507 TATCCGGACTT-GAGATCCGCAGGCTTCGTGCTGGTACTA
1 TATCCGGACTTAAAGACCCGCAGGCTTCATGCTGGAATTA
** * * * * *
31635546 TATCCGGACTT-AAGGTCCACAGGCTTCGTACTGGTACTA
1 TATCCGGACTTAAAGACCCGCAGGCTTCATGCTGGAATTA
* * * *
31635585 TATCTGGGCTTAAAGTCCCGTAGGCTT
1 TATCCGGACTTAAAGACCCGCAGGCTT
31635612 TGTTTTGGTG
Statistics
Matches: 154, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
39 100 0.65
40 54 0.35
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (40 bp):
TATCCGGACTTAAAGACCCGCAGGCTTCATGCTGGAATTA
Found at i:31635504 original size:39 final size:39
Alignment explanation
Indices: 31635386--31635579 Score: 183
Period size: 39 Copynumber: 4.9 Consensus size: 39
31635376 ATATTTGATG
* ** *
31635386 TGTATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAAT
1 TGTATCCGGACTT-AAGGTCCGCAGGCT-TCGTGCTGGAAT
* * * * * *
31635426 TATATCCGGGCTTAAAGACCTGCGGGCTTCATGCTGGAAT
1 TGTATCCGGACTTAAGGTCC-GCAGGCTTCGTGCTGGAAT
* *
31635466 TGTATCCAGACCTAAGGTCCGCAGGCTTCGTGCTGGAAT
1 TGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAT
* * * *
31635505 TGTATCCGGACTTGAGATCCGCAGGCTTCGTGCTGGTAC
1 TGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAT
* * *
31635544 TATATCCGGACTTAAGGTCCACAGGCTTCGTACTGG
1 TGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGG
31635580 TACTATATCT
Statistics
Matches: 128, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 86 0.67
40 42 0.33
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
TGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAT
Found at i:31635569 original size:78 final size:79
Alignment explanation
Indices: 31635417--31635599 Score: 199
Period size: 78 Copynumber: 2.3 Consensus size: 79
31635407 GCAGGCTATA
* * * *
31635417 TGCTGGAATTATATCCGGGCTTAAAGACCTGCGGGCTTCATGCTGGAATTGTATCCAGACCTAAG
1 TGCTGGAATTATATCCGGACTTAAAGACCTGCAGGCTTCATGCTGGAACTATATCCAGACCTAAG
*
31635482 GTCCGCAGGCTTCG
66 GTCCACAGGCTTCG
* * * * * *
31635496 TGCTGGAATTGTATCCGGACTT-GAGATCC-GCAGGCTTCGTGCTGGTACTATATCCGGACTTAA
1 TGCTGGAATTATATCCGGACTTAAAGA-CCTGCAGGCTTCATGCTGGAACTATATCCAGACCTAA
31635559 GGTCCACAGGCTTCG
65 GGTCCACAGGCTTCG
* * * * *
31635574 TACTGGTACTATATCTGGGCTTAAAG
1 TGCTGGAATTATATCCGGACTTAAAG
31635600 TCCCGTAGGC
Statistics
Matches: 84, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 60 0.71
79 24 0.29
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.28
Consensus pattern (79 bp):
TGCTGGAATTATATCCGGACTTAAAGACCTGCAGGCTTCATGCTGGAACTATATCCAGACCTAAG
GTCCACAGGCTTCG
Found at i:31641774 original size:43 final size:42
Alignment explanation
Indices: 31641704--31641838 Score: 114
Period size: 43 Copynumber: 3.1 Consensus size: 42
31641694 AACTCGTACA
* **
31641704 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTTATCAAATATCG
1 ATGCC-ACTGTCCCAGACAG-GGTCTTACAAGAAATCAAATA-CG
* **
31641747 ATGCCACTGTCCCAGACAGGGTTTTACAAGAAATCATGTACG
1 ATGCCACTGTCCCAGACAGGGTCTTACAAGAAATCAAATACG
* * *
31641789 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAAAT-CG
1 ATGCCACTGTCCCAGACAGGGTCTTACAAG-AAA--TCAAATACG
31641833 ATGCCA
1 ATGCCA
31641839 ACATCCCAGA
Statistics
Matches: 75, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
42 30 0.40
43 32 0.43
44 9 0.12
45 4 0.05
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACAGGGTCTTACAAGAAATCAAATACG
Found at i:31641866 original size:86 final size:85
Alignment explanation
Indices: 31641699--31641868 Score: 191
Period size: 86 Copynumber: 2.0 Consensus size: 85
31641689 TTGTAAACTC
* * * *
31641699 GTACAATGCCAACGTCCCAGACGTGGTCTTACATGTTATCAAATATCGATGCCACTGTCCCAGAC
1 GTACAATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTATCCCAGAC
*
31641764 AGGGTTTTACAAGAAATCAT
66 AGGGTCTTACAAGAAATCAT
* * *
31641784 GTACGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAC-ATCCCA
1 GTACAATGCCAACGTCCCAGACATGGTCTTACACGT-AATC-AAATATCGATGCC-ACTATCCCA
*** *
31641847 GAGTTGGTCTTACACGAAATCA
63 GACAGGGTCTTACAAGAAATCA
31641869 CGTAACGGAA
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
85 32 0.46
86 34 0.49
87 4 0.06
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (85 bp):
GTACAATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTATCCCAGAC
AGGGTCTTACAAGAAATCAT
Found at i:31645499 original size:18 final size:18
Alignment explanation
Indices: 31645476--31645514 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
31645466 ATATCACAAA
31645476 ATGACCAAGTTCCTATAC
1 ATGACCAAGTTCCTATAC
31645494 ATGACCAAGTTCCTATAC
1 ATGACCAAGTTCCTATAC
31645512 ATG
1 ATG
31645515 CCATACTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (18 bp):
ATGACCAAGTTCCTATAC
Found at i:31646055 original size:51 final size:51
Alignment explanation
Indices: 31646000--31646099 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
31645990 GCTACCAATA
*
31646000 ACATGTAA-CACATCCATAATGAAA-TCAGACCTCTAAATGAGCTCGGATGTT
1 ACATG-AATCACATCCATAAT-AAACTCAGACCACTAAATGAGCTCGGATGTT
* * *
31646051 ACATGAATCACATCCATCATAAACTTAGACCACTCAATGAGCTCGGATG
1 ACATGAATCACATCCATAATAAACTCAGACCACTAAATGAGCTCGGATG
31646100 CTCGCATCCA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 5 0.12
51 38 0.88
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (51 bp):
ACATGAATCACATCCATAATAAACTCAGACCACTAAATGAGCTCGGATGTT
Found at i:31646130 original size:43 final size:43
Alignment explanation
Indices: 31646061--31646144 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
31646051 ACATGAATCA
* *
31646061 CATCCATCATAAACTTAGACCACTCAATGAGCTCGGATGCTCG
1 CATCCATAATAAACTTAGACCACTCAACGAGCTCGGATGCTCG
* * *
31646104 CATCCATAATGAACTTGGACCTCTCAACGAGCTCGGATGCT
1 CATCCATAATAAACTTAGACCACTCAACGAGCTCGGATGCT
31646145 ATATACCTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.24
Consensus pattern (43 bp):
CATCCATAATAAACTTAGACCACTCAACGAGCTCGGATGCTCG
Found at i:31646923 original size:16 final size:16
Alignment explanation
Indices: 31646902--31646936 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
31646892 GGGACTTCAA
31646902 AAATACAAAGAACATT
1 AAATACAAAGAACATT
31646918 AAATACAAAGAACATT
1 AAATACAAAGAACATT
31646934 AAA
1 AAA
31646937 AACGGGGCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.66, C:0.11, G:0.06, T:0.17
Consensus pattern (16 bp):
AAATACAAAGAACATT
Found at i:31651763 original size:40 final size:40
Alignment explanation
Indices: 31651726--31651910 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
31651716 GCTACTCGTT
*
31651726 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
31651766 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
31651806 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
31651845 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
31651886 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31651911 CATCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 74 0.61
41 13 0.11
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:31680149 original size:38 final size:38
Alignment explanation
Indices: 31680073--31680151 Score: 115
Period size: 39 Copynumber: 2.1 Consensus size: 38
31680063 TTGAATATCA
*
31680073 CATGTAGGGAATAACTCAACCTGTACCAACCAAGCTCTC
1 CATGTAGGGAATAACTCAACC-GCACCAACCAAGCTCTC
*
31680112 CATGTGGGGAATAACTCAACC-CACCCAACCAAGCTCTC
1 CATGTAGGGAATAACTCAACCGCA-CCAACCAAGCTCTC
31680150 CA
1 CA
31680152 CTGGCAGCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
37 1 0.03
38 16 0.43
39 20 0.54
ACGTcount: A:0.33, C:0.34, G:0.15, T:0.18
Consensus pattern (38 bp):
CATGTAGGGAATAACTCAACCGCACCAACCAAGCTCTC
Found at i:31680524 original size:54 final size:54
Alignment explanation
Indices: 31680419--31680748 Score: 417
Period size: 54 Copynumber: 6.1 Consensus size: 54
31680409 GGGCAAAATG
* * * *
31680419 GTAATTTTACCCCATAAGGGTATCTCGGTAATTCTATCTTATAGGGGTATTTCA
1 GTAATTCTACCCTATAAGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
* * * * *
31680473 GTATTTCTATCCTATAAGGGTATTTCGGTAATTCTACCTTACAGGGATATTTTA
1 GTAATTCTACCCTATAAGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
* * *
31680527 GTAATTCTACCTTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
1 GTAATTCTACCCTATAAGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
* **
31680581 GTAATTCTACCCTATAGGGGTATTTCGACAATTCTACCTTATAGGGGTATTTCA
1 GTAATTCTACCCTATAAGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
** * * * *
31680635 GTAATTCTACCCTGCAGGGGTATTTCGATAATTCTACCTTACAGGGGTATTTTA
1 GTAATTCTACCCTATAAGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
* * ** * *
31680689 GTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTATAAGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
31680743 GTAATT
1 GTAATT
31680749 TTACAAACCA
Statistics
Matches: 244, Mismatches: 32, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 244 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (54 bp):
GTAATTCTACCCTATAAGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
Found at i:31680761 original size:54 final size:54
Alignment explanation
Indices: 31680446--31680802 Score: 389
Period size: 54 Copynumber: 6.6 Consensus size: 54
31680436 GGGTATCTCG
* * * * * * **
31680446 GTAATTCTATCTTATAGGGGTATTTCAGTATTTCTATCCTATAAGGGTATTTCG
1 GTAATTCTACCTTATAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTTA
* * * **
31680500 GTAATTCTACCTTACAGGGATATTTTAGTAATTCTACCTTACAGGGGTATTTCG
1 GTAATTCTACCTTATAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTTA
* * *
31680554 GTAATTCTACCTTATAGGGGTATTTCAGTAATTCTACCCTATAGGGGTA-TTTC
1 GTAATTCTACCTTATAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTTA
* * * *
31680607 GACAATTCTACCTTATAGGGGTATTTCAGTAATTCTACCCTGCAGGGGTA-TTTC
1 G-TAATTCTACCTTATAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTTA
*
31680661 GATAATTCTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTTA
1 G-TAATTCTACCTTATAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTTA
* * **
31680716 GTAATTCTACCCTATAGGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTA
1 GTAATTCTACCTTATAGGGGTATTTTAGTAATTCTACCCTA-CAGGGGTATTTTA
* * * *
31680770 GTAATTTTA-CTGATTGAGGGTATTTTGGTAATT
1 GTAATTCTACCTTATAG-GGGTATTTTAGTAATT
31680803 TTGTAAATCG
Statistics
Matches: 265, Mismatches: 34, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
53 9 0.03
54 252 0.95
55 4 0.02
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (54 bp):
GTAATTCTACCTTATAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTTA
Found at i:31680779 original size:27 final size:27
Alignment explanation
Indices: 31680446--31680775 Score: 333
Period size: 27 Copynumber: 12.2 Consensus size: 27
31680436 GGGTATCTCG
* * * *
31680446 GTAATTCTATCTTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTTA
* * * * **
31680473 GTATTTCTATCCTATAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTTA
* *
31680500 GTAATTCTACCTTACAGGGATATTTTA
1 GTAATTCTACCCTACAGGGGTATTTTA
* **
31680527 GTAATTCTACCTTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTTA
* * *
31680554 GTAATTCTACCTTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTTA
* *
31680581 GTAATTCTACCCTATAGGGGTA-TTTC
1 GTAATTCTACCCTACAGGGGTATTTTA
* * * *
31680607 GACAATTCTACCTTATAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTTA
* *
31680635 GTAATTCTACCCTGCAGGGGTA-TTTC
1 GTAATTCTACCCTACAGGGGTATTTTA
*
31680661 GATAATTCTACCTTACAGGGGTATTTTA
1 G-TAATTCTACCCTACAGGGGTATTTTA
31680689 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTTA
*
31680716 GTAATTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTTA
* **
31680743 GTAATTTTA-CAAACCAGGGGTATTTTA
1 GTAATTCTACCCTA-CAGGGGTATTTTA
31680770 GTAATT
1 GTAATT
31680776 TTACTGATTG
Statistics
Matches: 259, Mismatches: 39, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
26 8 0.03
27 244 0.94
28 7 0.03
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTTA
Found at i:31680790 original size:27 final size:26
Alignment explanation
Indices: 31680679--31680804 Score: 105
Period size: 27 Copynumber: 4.7 Consensus size: 26
31680669 TACCTTACAG
* *
31680679 GGGTATTTTAGTAATTCTACCCTACAG-
1 GGGTATTTTAGTAATTTTA--CTATAGA
*
31680706 GGGTATTTTAGTAATTCTACCCTATAG-
1 GGGTATTTTAGTAATTTTA--CTATAGA
* *
31680733 GGGTATTTTAGTAATTTTAC-AAACCA
1 GGGTATTTTAGTAATTTTACTATA-GA
*
31680759 GGGGTATTTTAGTAATTTTACTGATTGA
1 -GGGTATTTTAGTAATTTTACT-ATAGA
*
31680787 GGGTATTTTGGTAATTTT
1 GGGTATTTTAGTAATTTT
31680805 GTAAATCGAG
Statistics
Matches: 86, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
24 2 0.02
25 1 0.01
27 81 0.94
28 1 0.01
29 1 0.01
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (26 bp):
GGGTATTTTAGTAATTTTACTATAGA
Found at i:31680795 original size:81 final size:81
Alignment explanation
Indices: 31680446--31680775 Score: 414
Period size: 81 Copynumber: 4.1 Consensus size: 81
31680436 GGGTATCTCG
* * * * * *
31680446 GTAATTCTATCTTATAGGGGTATTTCAGTATTTCTATCCTATAAGGGTATTTCGGTAATTCTACC
1 GTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACC
*
31680511 TTACAGGGATATTTTA
66 TTACAGGGGTATTTTA
* *
31680527 GTAATTCTACCTTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCAGTAATTCTACC
1 GTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACC
* * *
31680592 CTATAGGGGTA-TTTC
66 TTACAGGGGTATTTTA
* * **
31680607 GACAATTCTACCTTATAGGGGTATTTCAGTAATTCTACCCTGCAGGGGTATTTC-GATAATTCTA
1 G-TAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAG-TAATTCTA
31680671 CCTTACAGGGGTATTTTA
64 CCTTACAGGGGTATTTTA
* * * *
31680689 GTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTTAGTAATTTTA-C
1 GTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACC
**
31680753 AAACCAGGGGTATTTTA
66 TTA-CAGGGGTATTTTA
31680770 GTAATT
1 GTAATT
31680776 TTACTGATTG
Statistics
Matches: 213, Mismatches: 31, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
80 7 0.03
81 201 0.94
82 5 0.02
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (81 bp):
GTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACC
TTACAGGGGTATTTTA
Found at i:31680815 original size:27 final size:27
Alignment explanation
Indices: 31680733--31680819 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
31680723 TACCCTATAG
* *
31680733 GGGTATTTTAGTAATTTTACAAA-CCA
1 GGGTATTTTAGTAATTTTATAAATCGA
* *
31680759 GGGGTATTTTAGTAATTTTACT-GATTGA
1 -GGGTATTTTAGTAATTTTA-TAAATCGA
* *
31680787 GGGTATTTTGGTAATTTTGTAAATCGA
1 GGGTATTTTAGTAATTTTATAAATCGA
31680814 -GGTATT
1 GGGTATT
31680820 CTAAACAGGG
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
26 7 0.14
27 41 0.84
28 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.23, T:0.44
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTATAAATCGA
Found at i:31682676 original size:21 final size:21
Alignment explanation
Indices: 31682650--31682710 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
31682640 CACAGCCTGT
31682650 TCACACGGCCGTGT-CC-CAGG
1 TCACACGGCCGTGTGCCTCA-G
* *
31682670 CTCACACGGGCATGTGCCTCAG
1 -TCACACGGCCGTGTGCCTCAG
*
31682692 TCACACGGCCGTGTACCTC
1 TCACACGGCCGTGTGCCTC
31682711 CCTCCACATG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 28 0.85
22 3 0.09
23 2 0.06
ACGTcount: A:0.16, C:0.39, G:0.26, T:0.18
Consensus pattern (21 bp):
TCACACGGCCGTGTGCCTCAG
Found at i:31685173 original size:40 final size:40
Alignment explanation
Indices: 31685129--31685288 Score: 189
Period size: 40 Copynumber: 4.0 Consensus size: 40
31685119 CTCGATATAT
*
31685129 TGTATATCCAGGTTAAATCCCGTAGGCTTCGTGCTGGTAA
1 TGTATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
31685169 TGTATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TGTATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* * * * *
31685209 AGTATATCCGGGTTAAATCCTGCAGGCTTAGTGTTGGT-A
1 TGTATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* * * * *
31685248 -CTATATCCGGGCCTAAAGTCCCGCAGGCTTTGTGCTAGTAA
1 TGTATATCCAGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAA
31685289 CTGGATTCAG
Statistics
Matches: 105, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
38 10 0.10
39 5 0.05
40 89 0.85
41 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (40 bp):
TGTATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
Found at i:31688702 original size:26 final size:25
Alignment explanation
Indices: 31688664--31688732 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 25
31688654 GACTCACCGT
31688664 AGCTCATATGAGCTTACTGATATATC
1 AGCTCATATGAGCTTACTGAT-TATC
* * * *
31688690 AGCTCGTAAGAGCTTAAT-ATTCTC
1 AGCTCATATGAGCTTACTGATTATC
31688714 AGCTCATATGAGCTTACTG
1 AGCTCATATGAGCTTACTG
31688733 TTTAGCACGT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
24 18 0.51
25 2 0.06
26 15 0.43
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (25 bp):
AGCTCATATGAGCTTACTGATTATC
Found at i:31696971 original size:19 final size:19
Alignment explanation
Indices: 31696947--31696984 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
31696937 CGAAAGTTTT
31696947 ACTTAGAATCCAAAACCAA
1 ACTTAGAATCCAAAACCAA
31696966 ACTTAGAATCCAAAACCAA
1 ACTTAGAATCCAAAACCAA
31696985 CTTTGAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.26, G:0.05, T:0.16
Consensus pattern (19 bp):
ACTTAGAATCCAAAACCAA
Found at i:31699290 original size:48 final size:48
Alignment explanation
Indices: 31699213--31699344 Score: 185
Period size: 48 Copynumber: 2.8 Consensus size: 48
31699203 ACCACGATTA
*
31699213 ATGAGAGCCAGTGTAAGACCATATCTGGGACATGGCATCAGCATTGAT
1 ATGATAGCCAGTGTAAGACCATATCTGGGACATGGCATCAGCATTGAT
* *
31699261 ATGATAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCATTGAT
1 ATGATAGCCAGTGTAAGACCATATCTGGGACATGGCATCAGCATTGAT
* * * *
31699309 ATG-TGTGCCAGTATAAGACCATATCTAGGATATGGC
1 ATGAT-AGCCAGTGTAAGACCATATCTGGGACATGGC
31699345 GTCGGCCTCG
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
47 1 0.01
48 73 0.99
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (48 bp):
ATGATAGCCAGTGTAAGACCATATCTGGGACATGGCATCAGCATTGAT
Found at i:31699506 original size:90 final size:90
Alignment explanation
Indices: 31699400--31699566 Score: 210
Period size: 90 Copynumber: 1.9 Consensus size: 90
31699390 GACATTGATA
* * * * * * **
31699400 TGAGATTTCGTGTAAGACCATGTCTGAGACATGGCATCGATGTG-AGGTCCTGTGTAAAACCATG
1 TGAGATTTCGTATAAGACCATATCTGAGACATGACATCAATATGTA-GACCCATGTAAAACCATG
31699464 TTTGGGACATGGCATCGGCACTGACG
65 TTTGGGACATGGCATCGGCACTGACG
* * * *
31699490 TGAGGTTTCGTATAAGACCATATCTGGGATATGACATCAATATGTAGACCCATGTAAGACCATGT
1 TGAGATTTCGTATAAGACCATATCTGAGACATGACATCAATATGTAGACCCATGTAAAACCATGT
31699555 TTGGGACATGGC
66 TTGGGACATGGC
31699567 TTTGGAATTC
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
90 63 0.98
91 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (90 bp):
TGAGATTTCGTATAAGACCATATCTGAGACATGACATCAATATGTAGACCCATGTAAAACCATGT
TTGGGACATGGCATCGGCACTGACG
Found at i:31716150 original size:43 final size:43
Alignment explanation
Indices: 31716103--31716202 Score: 114
Period size: 42 Copynumber: 2.3 Consensus size: 43
31716093 TCCCGAACGT
* * **
31716103 GGTCTTACATGTAATTC-AGTATCAATGCCTCTGTCCCAGACAG
1 GGTCTTACATGTAAATCAAATA-CAATGCCAATGTCCCAGACAG
* *
31716146 GGTCTTACATG-AAATCAAATACGATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAAATCAAATACAATGCCAATGTCCCAGACAG
*
31716188 GGTCTTACACGTAAA
1 GGTCTTACATGTAAA
31716203 ATCCCAAATC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 31 0.65
43 17 0.35
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGTAAATCAAATACAATGCCAATGTCCCAGACAG
Found at i:31723005 original size:32 final size:32
Alignment explanation
Indices: 31722968--31723046 Score: 113
Period size: 32 Copynumber: 2.5 Consensus size: 32
31722958 TAGTTGTGCT
* *
31722968 ACAAAGGCTATCTTTTACATTCAGTACTCGCC
1 ACAAAGGCTATCCTTTACATTCAATACTCGCC
* *
31723000 ACAAAGGCTTTCCTTTACATTCAATACTCTCC
1 ACAAAGGCTATCCTTTACATTCAATACTCGCC
*
31723032 ACAAAGGCTTTCCTT
1 ACAAAGGCTATCCTT
31723047 CTCGTGGTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (32 bp):
ACAAAGGCTATCCTTTACATTCAATACTCGCC
Found at i:31734194 original size:40 final size:40
Alignment explanation
Indices: 31734134--31734355 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
31734124 TATTCGGATG
*
31734134 ATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
31734174 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
31734214 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
31734254 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
31734294 ATAACCGGGCTAAATCCCGAAGGCATTTGAGTGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
31734334 ATATCC-GGCTAATTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
31734356 TACTTGGTTT
Statistics
Matches: 173, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 17 0.10
40 156 0.90
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:31746289 original size:39 final size:40
Alignment explanation
Indices: 31746233--31746465 Score: 193
Period size: 39 Copynumber: 5.6 Consensus size: 40
31746223 ATTTGAATAC
* *
31746233 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCTAGATGATAT
* *
31746272 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAAGGCATTTGTGCAGTTGAT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGC-TA-G-A----TG-A--T-AT
* * *
31746323 ATTCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 A-TCCGGGCTAAGACCCGAAGGCATTTATGCTAGATGATAT
* *
31746364 ATCCGGGCTAAGACCC-AAGGCATTTGTGCGAGATGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCTAGATGATAT
** * * *
31746403 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCTAGATGATAT
*
31746443 A-CTCGGGTTAAGACCCGAAGGCA
1 ATC-CGGGCTAAGACCCGAAGGCA
31746466 ATTGTGCTTG
Statistics
Matches: 168, Mismatches: 11, Indels: 29
0.81 0.05 0.14
Matches are distributed among these distances:
39 66 0.39
40 56 0.33
41 4 0.02
42 1 0.01
44 1 0.01
45 2 0.01
47 2 0.01
48 1 0.01
50 2 0.01
51 4 0.02
52 29 0.17
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCTAGATGATAT
Found at i:31746306 original size:14 final size:14
Alignment explanation
Indices: 31746287--31746315 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
31746277 GGCTAAGACC
31746287 CGAAGGCATTTGTG
1 CGAAGGCATTTGTG
31746301 CGAAGGCATTTGTG
1 CGAAGGCATTTGTG
31746315 C
1 C
31746316 AGTTGATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.28
Consensus pattern (14 bp):
CGAAGGCATTTGTG
Found at i:31746335 original size:52 final size:53
Alignment explanation
Indices: 31746248--31746353 Score: 171
Period size: 52 Copynumber: 2.0 Consensus size: 53
31746238 GGCTAAGTCC
*
31746248 CGAAGGCATTTATGCTAGTGATTTATCCGGGCTAAGACCCGAAGGCATTTGTG
1 CGAAGGCATTTATGCTAGTGATATATCCGGGCTAAGACCCGAAGGCATTTGTG
*
31746301 CGAAGGCATTTGTGC-AGTTGATAT-TCCGGGCTAAGACCCGAAGGCATTTGTG
1 CGAAGGCATTTATGCTAG-TGATATATCCGGGCTAAGACCCGAAGGCATTTGTG
31746353 C
1 C
31746354 AAGTTGATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
52 31 0.62
53 19 0.38
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (53 bp):
CGAAGGCATTTATGCTAGTGATATATCCGGGCTAAGACCCGAAGGCATTTGTG
Found at i:31746435 original size:40 final size:40
Alignment explanation
Indices: 31746301--31746472 Score: 253
Period size: 40 Copynumber: 4.4 Consensus size: 40
31746291 GGCATTTGTG
31746301 CGAAGGCATTTGTGC-AGTTGATAT-TCCGGGCTAAGACC
1 CGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACC
*
31746339 CGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACC
1 CGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACC
*
31746379 C-AAGGCATTTGTGCGAGATGATATATCCGGGCTAAGACC
1 CGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACC
* * *
31746418 CGAAGGCATTCGTGCGAGTTGCTATA-CTCGGGTTAAGACC
1 CGAAGGCATTTGTGCGAGTTGATATATC-CGGGCTAAGACC
*
31746458 CGAAGGCAATTGTGC
1 CGAAGGCATTTGTGC
31746473 TTGTGGTTAT
Statistics
Matches: 122, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
38 15 0.12
39 47 0.39
40 60 0.49
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACC
Found at i:31746438 original size:79 final size:78
Alignment explanation
Indices: 31746301--31746472 Score: 249
Period size: 79 Copynumber: 2.2 Consensus size: 78
31746291 GGCATTTGTG
* *
31746301 CGAAGGCATTTGTGCAGTTGATATTCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATA-
1 CGAAGGCATTTGTGCAGATGATATTCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGATATAC
31746365 TCCGGGCTAAGACC
66 T-CGGGCTAAGACC
* *
31746379 C-AAGGCATTTGTGCGAGATGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 CGAAGGCATTTGTGC-AGATGATAT-TCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGATAT
*
31746443 ACTCGGGTTAAGACC
64 ACTCGGGCTAAGACC
*
31746458 CGAAGGCAATTGTGC
1 CGAAGGCATTTGTGC
31746473 TTGTGGTTAT
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
77 13 0.15
78 9 0.11
79 49 0.58
80 13 0.15
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (78 bp):
CGAAGGCATTTGTGCAGATGATATTCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGATATAC
TCGGGCTAAGACC
Found at i:31748848 original size:40 final size:40
Alignment explanation
Indices: 31748445--31748836 Score: 649
Period size: 40 Copynumber: 9.8 Consensus size: 40
31748435 GAGAATTGAG
31748445 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
31748485 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
31748525 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
31748565 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
31748605 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
31748645 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
31748685 AGTGATGTATCCGGGCTAAGTCTCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
31748725 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * **
31748765 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
31748805 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
31748837 ATCATGCTGG
Statistics
Matches: 334, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 334 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:31752918 original size:47 final size:47
Alignment explanation
Indices: 31752864--31753220 Score: 608
Period size: 47 Copynumber: 7.6 Consensus size: 47
31752854 ATATTTGAAT
31752864 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
31752911 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31752960 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
31753007 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
31753054 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31753101 AATGTGAAAGTGTATATATGTGATAAGGCC-AATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
31753147 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
31753194 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
31753221 TCCCGAAGGG
Statistics
Matches: 298, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
46 44 0.15
47 207 0.69
49 47 0.16
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:31757097 original size:37 final size:37
Alignment explanation
Indices: 31757047--31757125 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
31757037 TTATTACGAA
* * *
31757047 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
31757084 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
31757121 GTCTT
1 GTCTT
31757126 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:31757331 original size:47 final size:47
Alignment explanation
Indices: 31757244--31757929 Score: 986
Period size: 47 Copynumber: 14.4 Consensus size: 47
31757234 CCTTTCGGGA
* * * * * * * *
31757244 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31757291 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31757338 CTTATCACATATATACACTTTCACATTCAT--CATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31757383 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31757430 CTTAT--CATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
31757475 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31757522 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31757569 CTTATTACATATATACATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31757620 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31757667 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31757714 CTTATTACATATATACATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATAC----ACTTTCACATTCATCACATCGGCCATTAGGC
31757765 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
31757816 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31757865 CTTAT-ACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31757911 CTTATCACACATATACACT
1 CTTATCACATATATACACT
31757930 CTCTTGGCTA
Statistics
Matches: 596, Mismatches: 26, Indels: 34
0.91 0.04 0.05
Matches are distributed among these distances:
45 89 0.15
46 39 0.07
47 281 0.47
48 7 0.01
49 56 0.09
50 1 0.00
51 115 0.19
53 4 0.01
55 4 0.01
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31757634 original size:98 final size:94
Alignment explanation
Indices: 31757244--31757929 Score: 995
Period size: 92 Copynumber: 7.2 Consensus size: 94
31757234 CCTTTCGGGA
* * * * * * * * * *
31757244 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
31757309 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
31757338 CTTATCACATATATACACTTTCACATTCAT--CATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
31757401 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
* *
31757430 CTTAT--CATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
31757493 TTTCACATTCATCACGTCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
* * *
31757522 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATACAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA-T-CACATAT--AT
31757587 ACACTTTCACATTCATCACATCGGCTATTAGGC
62 ACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
31757620 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
31757685 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCTATTAGGC
*
31757714 CTTATTACATATATACATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 CTTATCACATATATAC----ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATAT
*
31757779 ACATACACTTTCACATTCATCACATCGGCCATTAGGC
60 --ATACACTTTCACATTCATCACATCGGCTATTAGGC
31757816 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-ACATATATAC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
31757880 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCTATTAGGC
*
31757911 CTTATCACACATATACACT
1 CTTATCACATATATACACT
31757930 CTCTTGGCTA
Statistics
Matches: 547, Mismatches: 27, Indels: 37
0.90 0.04 0.06
Matches are distributed among these distances:
90 23 0.04
92 124 0.23
93 7 0.01
94 119 0.22
95 46 0.08
96 10 0.02
97 5 0.01
98 123 0.22
99 2 0.00
100 39 0.07
102 45 0.08
104 4 0.01
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCTATTAGGC
Found at i:31757651 original size:145 final size:140
Alignment explanation
Indices: 31757297--31757929 Score: 1002
Period size: 145 Copynumber: 4.4 Consensus size: 140
31757287 CGGCCCTGTC
* *
31757297 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
1 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCAC
*
31757362 ATTCAT--CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCAT
66 ATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCAT
31757425 TAGGCCTTAT
131 TAGGCCTTAT
31757435 -CATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCAC
1 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCAC
* * *
31757499 ATTCATCACGTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTAT
66 ATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCAT
31757564 TAGGCCTTATT
131 TAGGCCTTA-T
31757575 ACATATATACATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
1 AC--ATAT--ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
*
31757640 TCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGG
62 TCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGG
*
31757705 CTATTAGGCCTTATT
127 CCATTAGGCCTTA-T
* *
31757720 ACATATATACATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATAC
1 ACATATATAC----ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ACAT--ATAC
*
31757785 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCA
58 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACAT--ATACACTTTCACATTCATCA
31757850 CATCGGCCATTAGGCCTTAT
121 CATCGGCCATTAGGCCTTAT
31757870 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
1 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
31757930 CTCTTGGCTA
Statistics
Matches: 463, Mismatches: 14, Indels: 32
0.91 0.03 0.06
Matches are distributed among these distances:
137 68 0.15
139 62 0.13
140 1 0.00
141 5 0.01
142 7 0.02
143 8 0.02
144 3 0.01
145 174 0.38
146 38 0.08
147 3 0.01
149 45 0.10
150 11 0.02
151 38 0.08
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (140 bp):
ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCAC
ATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCAT
TAGGCCTTAT
Found at i:31760577 original size:40 final size:40
Alignment explanation
Indices: 31760539--31760847 Score: 336
Period size: 40 Copynumber: 7.7 Consensus size: 40
31760529 ACGTCACCAA
* * * * * * *
31760539 CATGATTGCTCTTTGGGACCTAGCCCGGACATAACACCAG
1 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
* ** * *
31760579 CACGAATGCTCTTCGGGGTTTAGCACGGATATATCACTAG
1 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
* *
31760619 CACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAG
1 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
31760659 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
1 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
31760699 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
1 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
** * *
31760739 CATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCG
1 CATGAATGCTCTTCGGGACTTAGCCCGGATACA-TCACTAG
** * * **
31760780 CACCAATGC-CTTCGGGTCTTAGTCCGGATATGGTCACTTAG
1 CATGAATGCTCTTCGGGACTTAGCCCGGATA-CATCAC-TAG
* *
31760821 CA-CAAAGC-CTTCGGGACTTAGCCCGGA
1 CATGAATGCTCTTCGGGACTTAGCCCGGA
31760848 CATCATTCAA
Statistics
Matches: 233, Mismatches: 33, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
40 217 0.93
41 16 0.07
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAG
Found at i:31761194 original size:29 final size:29
Alignment explanation
Indices: 31761155--31761233 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
31761145 CTTAATAATC
*
31761155 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
31761185 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
31761214 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
31761234 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:31763168 original size:37 final size:37
Alignment explanation
Indices: 31763118--31763196 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
31763108 TTATTACGAA
* * *
31763118 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
31763155 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
31763192 GTCTT
1 GTCTT
31763197 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:31763401 original size:47 final size:47
Alignment explanation
Indices: 31763315--31763996 Score: 978
Period size: 47 Copynumber: 14.4 Consensus size: 47
31763305 CCTTTCGGGA
* * * * * * * *
31763315 CTTATCACATTTATGCAC-TTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31763361 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31763408 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31763455 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31763502 CTTAT-ACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
31763548 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31763595 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31763642 CTTAT-ACATATACATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
31763690 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31763737 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31763784 CTTATACATATATCATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT-CACATAT-ATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31763833 CTTATCACATATATACATACACTTTCTCATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
31763884 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31763933 CTTATTAC--ATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31763978 CTTATCACACATATACACT
1 CTTATCACATATATACACT
31763997 CTCTTGGCTG
Statistics
Matches: 591, Mismatches: 33, Indels: 23
0.91 0.05 0.04
Matches are distributed among these distances:
45 41 0.07
46 64 0.11
47 303 0.51
48 47 0.08
49 90 0.15
50 4 0.01
51 42 0.07
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31763698 original size:142 final size:140
Alignment explanation
Indices: 31763367--31763996 Score: 1003
Period size: 140 Copynumber: 4.4 Consensus size: 140
31763357 CGGCCCTGTC
* *
31763367 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
1 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCAC
* *
31763432 ATTCATCGCATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCAT
66 ATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCAT
31763497 TAGGCCTTAT
131 TAGGCCTTAT
31763507 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCAC
1 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCAC
* * *
31763572 ATTCATCACGTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTAT
66 ATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCAT
31763637 TAGGCCTTAT
131 TAGGCCTTAT
31763647 ACATATACATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTC
1 ACATAT--ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTC
* * *
31763712 ACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCT
64 ACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCC
31763777 ATTAGGCCTTAT
129 ATTAGGCCTTAT
* * *
31763789 ACATATATCATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATACA
1 AC--ATAT-ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ACAT--ATACA
* *
31763854 CTTTCTCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCAC
59 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACAT--ATACACTTTCACATTCATCAC
31763919 ATCGGCCATTAGGCCTTATT
122 ATCGGCCATTAGGCCTTA-T
31763939 AC--ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
1 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
31763997 CTCTTGGCTG
Statistics
Matches: 461, Mismatches: 18, Indels: 21
0.92 0.04 0.04
Matches are distributed among these distances:
140 139 0.30
141 7 0.02
142 136 0.30
143 45 0.10
144 4 0.01
145 44 0.10
146 2 0.00
147 43 0.09
149 38 0.08
150 3 0.01
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (140 bp):
ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCAC
ATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCAT
TAGGCCTTAT
Found at i:31766790 original size:18 final size:18
Alignment explanation
Indices: 31766763--31766816 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
31766753 TCAGGTTCTC
*
31766763 ATAATTATAATGAAAATA
1 ATAATAATAATGAAAATA
** *
31766781 ATAATAATAATTCAAGTA
1 ATAATAATAATGAAAATA
31766799 ATAATAACTTAATGAAAA
1 ATAATAA--TAATGAAAA
31766817 CCTTGTTACA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 21 0.78
20 6 0.22
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (18 bp):
ATAATAATAATGAAAATA
Found at i:31767716 original size:29 final size:29
Alignment explanation
Indices: 31767650--31767768 Score: 136
Period size: 29 Copynumber: 4.2 Consensus size: 29
31767640 TACACACATG
*
31767650 CATATGGCCCATTAGGCCC-AATCTTATT
1 CATATGGCCCATTAGGCCCAAATCATATT
* * **
31767678 CAAATGGCCCATTTGGCCCAGTTCATATT
1 CATATGGCCCATTAGGCCCAAATCATATT
* * *
31767707 CTTATGGCCCACTAGGCCCAATTC-TCATT
1 CATATGGCCCATTAGGCCCAAATCAT-ATT
31767736 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCATTAGGCCCAAATCATATT
31767765 -ATAT
1 CATAT
31767769 TCATGCTCAC
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
28 22 0.29
29 52 0.69
30 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCATATT
Found at i:31767754 original size:58 final size:57
Alignment explanation
Indices: 31767652--31767764 Score: 163
Period size: 58 Copynumber: 2.0 Consensus size: 57
31767642 CACACATGCA
* * * **
31767652 TATGGCCCATTAGGCCCAATCTTATTCAAATGGCCCATTTGGCCCAGTTCATATTCT
1 TATGGCCCACTAGGCCCAATCTCATTCAAATGGCCCATTAGGCCCAAATCATATTCT
*
31767709 TATGGCCCACTAGGCCCAATTCTCATTCATATGGCCCATTAGGCCCAAATCATATT
1 TATGGCCCACTAGGCCCAA-TCTCATTCAAATGGCCCATTAGGCCCAAATCATATT
31767765 ATATTCATGC
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
57 18 0.37
58 31 0.63
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCTCATTCAAATGGCCCATTAGGCCCAAATCATATTCT
Found at i:31767882 original size:19 final size:19
Alignment explanation
Indices: 31767846--31767882 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31767836 TAACCCATCA
*
31767846 GGCCCATTTAGCCCATTCC
1 GGCCCATTTAGCCAATTCC
*
31767865 GGCCCATTTGGCCAATTC
1 GGCCCATTTAGCCAATTC
31767883 TCAACCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.38, G:0.19, T:0.27
Consensus pattern (19 bp):
GGCCCATTTAGCCAATTCC
Found at i:31768028 original size:24 final size:24
Alignment explanation
Indices: 31767980--31768030 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
31767970 GTAGCCCAAC
* *
31767980 TTTCGGCTTTTCGACATTCTGGCT
1 TTTCAGCTTTTCGACATTCTAGCT
31768004 TTTCAGCTTTTCGACATT-TCAGCT
1 TTTCAGCTTTTCGACATTCT-AGCT
31768028 TTT
1 TTT
31768031 TTCGATTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.12, C:0.24, G:0.16, T:0.49
Consensus pattern (24 bp):
TTTCAGCTTTTCGACATTCTAGCT
Found at i:31770208 original size:29 final size:29
Alignment explanation
Indices: 31770171--31770281 Score: 111
Period size: 29 Copynumber: 3.9 Consensus size: 29
31770161 TGAATGTGAC
* *
31770171 TGGGCCTAACGGGCCATATAAATGTCATT
1 TGGGCCTAATGGGCCATATAAAGGTCATT
* * *
31770200 TGGGCCTAATGGGCCATGTATAGGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTCATT
31770229 TGGGCCTAATGGGCCATATGAATAGG--A-T
1 TGGGCCTAATGGGCCATAT-AA-AGGTCATT
* * *
31770257 TGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAATGGGCCATATAAAGGT
31770282 ATGTGAAATT
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
26 3 0.04
27 1 0.01
28 18 0.26
29 43 0.62
30 1 0.01
31 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAAGGTCATT
Found at i:31775567 original size:42 final size:42
Alignment explanation
Indices: 31775504--31775587 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
31775494 CCATATCTAA
**
31775504 CATAACCTAATTAACTGCATTTCCAACATGCCAACTCTCACT
1 CATAACCTAATTAACCACATTTCCAACATGCCAACTCTCACT
31775546 CATAACCTAATTAACCACATTTCCAACATGCCAACTCTCACT
1 CATAACCTAATTAACCACATTTCCAACATGCCAACTCTCACT
31775588 ACTTTGATCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.35, C:0.35, G:0.04, T:0.27
Consensus pattern (42 bp):
CATAACCTAATTAACCACATTTCCAACATGCCAACTCTCACT
Found at i:31776849 original size:21 final size:20
Alignment explanation
Indices: 31776821--31776860 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
31776811 TATGTATGAG
31776821 TTTTAATGATTGATGATAGA
1 TTTTAATGATTGATGATAGA
* *
31776841 TTTTGAATGTTTGGTGATAG
1 TTTT-AATGATTGATGATAG
31776861 TTATACAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (20 bp):
TTTTAATGATTGATGATAGA
Done.