Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 245 of 352
Found at i:81241841 original size:45 final size:45
Alignment explanation
Indices: 81241753--81241867 Score: 119
Period size: 45 Copynumber: 2.5 Consensus size: 45
81241743 TTACGATATA
* *
81241753 TCAACTCGTAAGAGCTTACTGTTTTTAGCACATTAGAGCTTACC-ATT
1 TCAACTCGTATGAGCTTACTG--TTTAGCACATTAGAACTTACCGA-T
* *
81241800 TCAGCTCGTATGAGCTTACTGTTTAGCTCGA-TAGAACTTACCGAT
1 TCAACTCGTATGAGCTTACTGTTTAGCAC-ATTAGAACTTACCGAT
*
81241845 TCAACTC-AATAGAGCTTACTGTT
1 TCAACTCGTAT-GAGCTTACTGTT
81241868 CATCAGCTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
44 2 0.03
45 36 0.61
46 2 0.03
47 19 0.32
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.35
Consensus pattern (45 bp):
TCAACTCGTATGAGCTTACTGTTTAGCACATTAGAACTTACCGAT
Found at i:81244474 original size:13 final size:13
Alignment explanation
Indices: 81244456--81244480 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81244446 GTAAGTGGTT
81244456 TTGATGATTTTTA
1 TTGATGATTTTTA
81244469 TTGATGATTTTT
1 TTGATGATTTTT
81244481 TGCATTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTA
Found at i:81245256 original size:47 final size:47
Alignment explanation
Indices: 81245188--81245495 Score: 219
Period size: 47 Copynumber: 6.6 Consensus size: 47
81245178 TTTGTGTGCT
*
81245188 AGTGTAAGA-CATGTCTAGGACAT-GCATCGACCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACA-TATGAGAGCC
* * * * * *
81245234 AGTGTAAAACCATGTCTGGGACATGGCATCG-GCATTAAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCA--CATATGAGAGCC
* * *
81245282 AGTGTAAGA-CATGTCTGGGACAT-GCATC-AGCCTCGAGATGTA-AGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CCAC-ATATG-AGAGCC
* * * * * * *
81245328 AGTGTACGA-CATATCTGGGACAT-GCATCGGCTACA-A-AATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATATGA-GAGCC
* ***
81245372 AATGTAAGACCATGTCTGGGACATGGCATCGACTTGATA-GATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATATGA-GAGCC
* ***
81245419 AGTGTAAGACCATATCTGGGACATGGCATCGACTTGATA-GATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATATGA-GAGCC
81245466 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
81245496 AGCATTATAC
Statistics
Matches: 215, Mismatches: 33, Indels: 27
0.78 0.12 0.10
Matches are distributed among these distances:
42 1 0.00
44 9 0.04
45 14 0.07
46 58 0.27
47 111 0.52
48 21 0.10
49 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATATGAGAGCC
Found at i:81245470 original size:138 final size:139
Alignment explanation
Indices: 81245236--81245495 Score: 325
Period size: 138 Copynumber: 1.9 Consensus size: 139
81245226 TGAGAGCCAG
* * *
81245236 TGTAAAACCATGTCTGGGACATGGCATCGGCATTAAGACGAGAGCTAGTGTAAGACATGTCTGGG
1 TGTAAAACCATGTCTGGGACATGGCATCGACATTAAGACGAGAGCCAGTGTAAGACATATCTGGG
* * *
81245301 ACATGCATCAGCCTCGAGATGTAAGCTAGTGTACGA-CATATCTGGGACAT-GCATCGGCTACAA
66 ACATGCATCAGACTCGAGATG-AAGCCAGTGTAAGACCATATCTGGGACATGGCATCGGCTACAA
81245364 AATGTGTCAA
130 AATGTGTCAA
* * *
81245374 TGTAAGACCATGTCTGGGACATGGCATCGAC-TTGATA-GATGAGCCAGTGTAAGACCATATCTG
1 TGTAAAACCATGTCTGGGACATGGCATCGACATTAAGACGA-GAGCCAGTGTAAGA-CATATCTG
* *
81245437 GGACATGGCATC-GACTTGATAGATG-AGCCAGTGTAAGACCATGTCTGGGACATGGCATC
64 GGACAT-GCATCAGACTCG--AGATGAAGCCAGTGTAAGACCATATCTGGGACATGGCATC
81245496 AGCATTATAC
Statistics
Matches: 104, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
136 2 0.02
137 17 0.16
138 57 0.55
139 18 0.17
140 10 0.10
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (139 bp):
TGTAAAACCATGTCTGGGACATGGCATCGACATTAAGACGAGAGCCAGTGTAAGACATATCTGGG
ACATGCATCAGACTCGAGATGAAGCCAGTGTAAGACCATATCTGGGACATGGCATCGGCTACAAA
ATGTGTCAA
Found at i:81245487 original size:94 final size:91
Alignment explanation
Indices: 81245188--81245495 Score: 288
Period size: 94 Copynumber: 3.3 Consensus size: 91
81245178 TTTGTGTGCT
* * * * *
81245188 AGTGTAAGACATGTCTAGGACATGCATCGACCACATTATGA-GAGCCAGTGTAAAACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGACTAGA-TA-GATGAGCCAGTGTAAGACCATATCTG
*
81245252 GGACATGGCATCGGCATTAAGACGA-GAGCT
64 GGACATGGCATCGGC-TTAA-A-GATGAGCC
* * * *
81245282 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGAT-G-TAAGCTAGTGTACGA-CATATCT
1 AGTGTAAGACATGTCTGGGACATGCATC-GACT--AGATAGATGAGCCAGTGTAAGACCATATCT
* * *
81245344 GGGACAT-GCATCGGC-TACAAAATGTGTC
63 GGGACATGGCATCGGCTTA-AAGATGAGCC
* *
81245372 AATGTAAGACCATGTCTGGGACATGGCATCGACTTGATAGATGAGCCAGTGTAAGACCATATCTG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACTAGATAGATGAGCCAGTGTAAGACCATATCTG
* *
81245437 GGACATGGCATCGACTTGATAGATGAGCC
64 GGACATGGCATCGGCTT-AAAGATGAGCC
81245466 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
81245496 AGCATTATAC
Statistics
Matches: 175, Mismatches: 25, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
89 4 0.02
90 14 0.08
91 30 0.17
92 27 0.15
93 20 0.11
94 74 0.42
95 3 0.02
96 1 0.01
97 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (91 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACTAGATAGATGAGCCAGTGTAAGACCATATCTGGG
ACATGGCATCGGCTTAAAGATGAGCC
Found at i:81250351 original size:25 final size:25
Alignment explanation
Indices: 81250317--81250371 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
81250307 AGTTTTAAAG
*
81250317 CTGAAGTAAGGTCATAGGACGGTGA
1 CTGACGTAAGGTCATAGGACGGTGA
81250342 CTGACGTAAGGTCATAGGACGGTGA
1 CTGACGTAAGGTCATAGGACGGTGA
81250367 CTGAC
1 CTGAC
81250372 TATGAACGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.29, C:0.16, G:0.35, T:0.20
Consensus pattern (25 bp):
CTGACGTAAGGTCATAGGACGGTGA
Found at i:81255671 original size:47 final size:44
Alignment explanation
Indices: 81255602--81255724 Score: 131
Period size: 47 Copynumber: 2.7 Consensus size: 44
81255592 TTTGTGTGCT
* * *
81255602 AGTGTAAGACATGTCTGAGACATGCATTGGCCACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG---CATTGACGAGAGCC
* *
81255648 AGTGTAAGACCATGTATGGGACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATT--GACGAGAGCC
81255696 AGTGTAAGACATGTCTGGGACATGCATCG
1 AGTGTAAGACATGTCTGGGACATGCATCG
81255725 ACTACAAAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
45 4 0.06
46 15 0.23
47 25 0.38
48 22 0.33
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATTGACGAGAGCC
Found at i:81255787 original size:94 final size:93
Alignment explanation
Indices: 81255599--81255821 Score: 225
Period size: 94 Copynumber: 2.4 Consensus size: 93
81255589 TTATTTGTGT
* * * ** *
81255599 GCTAGTGTAAGACATGTCTGAGACATGCATTGGCCACATTATGAGAGCCAGTGTAAGACCATGTA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACAAAAT-AGAGCCAATGTAAGACCATGTA
* **
81255664 TGGGACATGGCATCGGCATTGAGACGAGA
65 TGGGACATGGCATCAGCACGGAGACGAGA
* * * *
81255693 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACAAAAT-GTGTCAATGTAAGACCATGTCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACAAAATAGAGCCAATGTAAGACCATGTAT
* * *
81255757 GGGACATGGGATCAGCACGGATATGTGAGA
66 GGGACATGGCATCAGCACGGAGA--CGAGA
*
81255787 G-TCAGTGTAAGACCATGTCTAGGACATGGCATCGA
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGA
81255822 TTTGATAGAT
Statistics
Matches: 107, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
92 36 0.34
93 1 0.01
94 50 0.47
95 13 0.12
96 7 0.07
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACAAAATAGAGCCAATGTAAGACCATGTAT
GGGACATGGCATCAGCACGGAGACGAGA
Found at i:81256609 original size:16 final size:16
Alignment explanation
Indices: 81256588--81256618 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
81256578 GCCGTGTGTG
*
81256588 ACACACGGCCAGCCCA
1 ACACACAGCCAGCCCA
81256604 ACACACAGCCAGCCC
1 ACACACAGCCAGCCC
81256619 CATGGGCGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.52, G:0.16, T:0.00
Consensus pattern (16 bp):
ACACACAGCCAGCCCA
Found at i:81257617 original size:177 final size:177
Alignment explanation
Indices: 81257321--81257651 Score: 644
Period size: 177 Copynumber: 1.9 Consensus size: 177
81257311 ATACGAGTGA
81257321 ATTAATTCACTCAAATATGTTATATCATTTACTATCCCCGATGAACGTTGTAATGGACTCAGATA
1 ATTAATTCACTCAAATATGTTATATCATTTACTATCCCCGATGAACGTTGTAATGGACTCAGATA
81257386 TACGGTTAACCAACCAAACACACTAAATAGCTCAAATTAGCTAACCAACTGAGAACACACCTAGG
66 TACGGTTAACCAACCAAACACACTAAATAGCTCAAATTAGCTAACCAACTGAGAACACACCTAGG
* *
81257451 CACCAGGTGCCAAGCTCGTAGGCTAACATCCCTCTAAAACACACCTC
131 CACCAAGTGCCAAGCCCGTAGGCTAACATCCCTCTAAAACACACCTC
81257498 ATTAATTCACTCAAATATGTTATATCATTTACTATCCCCGATGAACGTTGTAATGGACTCAGATA
1 ATTAATTCACTCAAATATGTTATATCATTTACTATCCCCGATGAACGTTGTAATGGACTCAGATA
81257563 TACGGTTAACCAACCAAACACACTAAATAGCTCAAATTAGCTAACCAACTGAGAACACACCTAGG
66 TACGGTTAACCAACCAAACACACTAAATAGCTCAAATTAGCTAACCAACTGAGAACACACCTAGG
81257628 CACCAAGTGCCAAGCCCGTAGGCT
131 CACCAAGTGCCAAGCCCGTAGGCT
81257652 TTACATCCAC
Statistics
Matches: 152, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
177 152 1.00
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (177 bp):
ATTAATTCACTCAAATATGTTATATCATTTACTATCCCCGATGAACGTTGTAATGGACTCAGATA
TACGGTTAACCAACCAAACACACTAAATAGCTCAAATTAGCTAACCAACTGAGAACACACCTAGG
CACCAAGTGCCAAGCCCGTAGGCTAACATCCCTCTAAAACACACCTC
Found at i:81263001 original size:7 final size:7
Alignment explanation
Indices: 81262984--81263026 Score: 68
Period size: 7 Copynumber: 6.0 Consensus size: 7
81262974 ATTATTTATA
81262984 ATTATTTT
1 ATTA-TTT
81262992 ATTATTT
1 ATTATTT
*
81262999 ATTGTTT
1 ATTATTT
81263006 ATTATTT
1 ATTATTT
81263013 ATTATTT
1 ATTATTT
81263020 ATTATTT
1 ATTATTT
81263027 TTAATTGTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
7 29 0.88
8 4 0.12
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (7 bp):
ATTATTT
Found at i:81263789 original size:21 final size:22
Alignment explanation
Indices: 81263765--81263811 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
81263755 GTCCCTGCAC
*
81263765 CACACGGAC-GTGTGCC-TCTGT
1 CACACGG-CTGTGTGCCACCTGT
*
81263786 CACATGGCTGTGTGCCACCTGT
1 CACACGGCTGTGTGCCACCTGT
81263808 CACA
1 CACA
81263812 TGGGCGTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 1 0.05
21 13 0.59
22 8 0.36
ACGTcount: A:0.17, C:0.34, G:0.26, T:0.23
Consensus pattern (22 bp):
CACACGGCTGTGTGCCACCTGT
Found at i:81263810 original size:22 final size:21
Alignment explanation
Indices: 81263774--81263814 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
81263764 CCACACGGAC
*
81263774 GTGTGCCTCTGTCACATGGCT
1 GTGTGCCCCTGTCACATGGCT
81263795 GTGTGCCACCTGTCACATGG
1 GTGTGCC-CCTGTCACATGG
81263815 GCGTTTCGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.29, G:0.29, T:0.29
Consensus pattern (21 bp):
GTGTGCCCCTGTCACATGGCT
Found at i:81267571 original size:79 final size:81
Alignment explanation
Indices: 81267435--81267619 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
81267425 TTGAATGATG
* *
81267435 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
81267499 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
81267514 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
81267576 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
81267594 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
81267620 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:81267633 original size:40 final size:40
Alignment explanation
Indices: 81267436--81267619 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
81267426 TGAATGATGT
* * * *
81267436 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
81267476 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
81267516 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
81267554 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
81267595 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
81267620 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:81267641 original size:79 final size:79
Alignment explanation
Indices: 81267488--81267652 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
81267478 GGACTAAGAT
* * **
81267488 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
81267553 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
81267567 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
81267630 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
81267646 CCGAAGG
1 CCGAAGG
81267653 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:81275542 original size:79 final size:81
Alignment explanation
Indices: 81275406--81275590 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
81275396 TTGAATGATG
* *
81275406 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
81275470 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
81275485 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
81275547 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
81275565 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
81275591 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:81275604 original size:40 final size:40
Alignment explanation
Indices: 81275407--81275590 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
81275397 TGAATGATGT
* * * *
81275407 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
81275447 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
81275487 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
81275525 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
81275566 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
81275591 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:81275612 original size:79 final size:79
Alignment explanation
Indices: 81275459--81275623 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
81275449 GGACTAAGAT
* * **
81275459 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
81275524 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
81275538 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
81275601 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
81275617 CCGAAGG
1 CCGAAGG
81275624 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:81278766 original size:31 final size:30
Alignment explanation
Indices: 81278714--81278790 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 30
81278704 TATAATAAAT
* * *
81278714 TAATATATTACTAAT-CAATAAAATAATATTA
1 TAATATATAACTATTACAATAAAAT-AT-TAA
81278745 TAATATATAACTATTAC-ATAAAATATTAA
1 TAATATATAACTATTACAATAAAATATTAA
81278774 TACATATATAACTATTA
1 TA-ATATATAACTATTA
81278791 TTATACTATA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
29 4 0.10
30 16 0.39
31 20 0.49
32 1 0.02
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (30 bp):
TAATATATAACTATTACAATAAAATATTAA
Found at i:81278898 original size:16 final size:15
Alignment explanation
Indices: 81278855--81278903 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
81278845 ATCATCGATG
*
81278855 TATATATATAAATTA
1 TATATATATATATTA
*
81278870 TAAATATATTATATTA
1 TATATATA-TATATTA
*
81278886 TATATATCATATAATA
1 TATATAT-ATATATTA
81278902 TA
1 TA
81278904 ATAGGAGAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 7 0.25
16 20 0.71
17 1 0.04
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
TATATATATATATTA
Found at i:81279240 original size:17 final size:17
Alignment explanation
Indices: 81279218--81279254 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
81279208 AGAATAAAAA
81279218 AATAATACATAATATAT
1 AATAATACATAATATAT
**
81279235 AATAATATGTAATATAT
1 AATAATACATAATATAT
81279252 AAT
1 AAT
81279255 GTATTACTAT
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:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
AATAATACATAATATAT
Found at i:81280466 original size:34 final size:34
Alignment explanation
Indices: 81280379--81280530 Score: 196
Period size: 34 Copynumber: 4.4 Consensus size: 34
81280369 TATTTATGGC
* *
81280379 AGGTACATGCGAACTGTATATGTGTGCAAACCCT
1 AGGTACATGTGAACTGTATATGTGTGCGAACCCT
* *
81280413 AGGTGACATGTGAATTGTATATGTGTGCGAACTCT
1 AGGT-ACATGTGAACTGTATATGTGTGCGAACCCT
*
81280448 AGGTACATGTGAACTGTATATGTGTACGAACCCT
1 AGGTACATGTGAACTGTATATGTGTGCGAACCCT
* * * * *
81280482 AGGTATATGCGAACTGTATATATATGTGAACCCT
1 AGGTACATGTGAACTGTATATGTGTGCGAACCCT
*
81280516 ATGTACATGTGAACT
1 AGGTACATGTGAACT
81280531 ATGCAAAACC
Statistics
Matches: 101, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
34 71 0.70
35 30 0.30
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (34 bp):
AGGTACATGTGAACTGTATATGTGTGCGAACCCT
Found at i:81280849 original size:34 final size:34
Alignment explanation
Indices: 81280811--81280969 Score: 174
Period size: 35 Copynumber: 4.6 Consensus size: 34
81280801 TATTTATGGC
*
81280811 AGGTACATGCAAACTGTATATGTATGCGAACCCT
1 AGGTACATGCAAACTGTATATGTGTGCGAACCCT
*** **
81280845 AGGTAACATATGAACTGTATATGTGTATGAACCCT
1 AGGT-ACATGCAAACTGTATATGTGTGCGAACCCT
***
81280880 AGGTAACATGTGGACTGTATATGTGTGCGAACCCT
1 AGGT-ACATGCAAACTGTATATGTGTGCGAACCCT
*
81280915 AGGTATATGCAAACTGTATATGTGTGCGAACCCT
1 AGGTACATGCAAACTGTATATGTGTGCGAACCCT
* * * *
81280949 AGATATATGCTAACTATATAT
1 AGGTACATGCAAACTGTATAT
81280970 ATATGTAAAC
Statistics
Matches: 107, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
34 48 0.45
35 59 0.55
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.30
Consensus pattern (34 bp):
AGGTACATGCAAACTGTATATGTGTGCGAACCCT
Found at i:81280981 original size:34 final size:34
Alignment explanation
Indices: 81280909--81280983 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
81280899 TATGTGTGCG
* * * * *
81280909 AACCCTAGGTATATGCAAACTGTATATGTGTGCG
1 AACCCTAGATATATGCAAACTATATATATATGCA
* *
81280943 AACCCTAGATATATGCTAACTATATATATATGTA
1 AACCCTAGATATATGCAAACTATATATATATGCA
81280977 AACCCTA
1 AACCCTA
81280984 TGTACATATG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.31
Consensus pattern (34 bp):
AACCCTAGATATATGCAAACTATATATATATGCA
Found at i:81282429 original size:55 final size:55
Alignment explanation
Indices: 81282362--81282472 Score: 186
Period size: 55 Copynumber: 2.0 Consensus size: 55
81282352 ATATATATAA
* *
81282362 ATTGTTAATATATTTTATACTATATGATATGATATAACATTATAGTAGAAGAGTT
1 ATTGTTAATATATTATACACTATATGATATGATATAACATTATAGTAGAAGAGTT
* *
81282417 ATTGTTAATATATTATACATTATATGATATGATATAACATTATAGTAGAAGGGTT
1 ATTGTTAATATATTATACACTATATGATATGATATAACATTATAGTAGAAGAGTT
81282472 A
1 A
81282473 ACTTCCAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.42
Consensus pattern (55 bp):
ATTGTTAATATATTATACACTATATGATATGATATAACATTATAGTAGAAGAGTT
Found at i:81282753 original size:8 final size:8
Alignment explanation
Indices: 81282735--81282764 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
81282725 AAATATATAA
81282735 AATATTATT
1 AATA-TATT
81282744 AATATATT
1 AATATATT
81282752 AATATATT
1 AATATATT
81282760 AATAT
1 AATAT
81282765 TTTTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
AATATATT
Found at i:81283740 original size:21 final size:21
Alignment explanation
Indices: 81283716--81283766 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
81283706 TAAGTACTTG
*
81283716 ATTTATTATACCTCAAGTTTT
1 ATTTATTACACCTCAAGTTTT
81283737 ATTTATTACACCTCAAGTTTT
1 ATTTATTACACCTCAAGTTTT
81283758 ATTTATTAC
1 ATTTATTAC
81283767 CTAGAAGCGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.29, C:0.16, G:0.04, T:0.51
Consensus pattern (21 bp):
ATTTATTACACCTCAAGTTTT
Found at i:81288985 original size:32 final size:32
Alignment explanation
Indices: 81288949--81289014 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
81288939 AAATATTAAT
81288949 TTATTGGGAAAAAGAAAAAGAAAAAATAGAAG
1 TTATTGGGAAAAAGAAAAAGAAAAAATAGAAG
81288981 TTATTGGGAAAAAGAAAAAGAAAAAATAGAAG
1 TTATTGGGAAAAAGAAAAAGAAAAAATAGAAG
81289013 TT
1 TT
81289015 GGAAAATTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.61, C:0.00, G:0.21, T:0.18
Consensus pattern (32 bp):
TTATTGGGAAAAAGAAAAAGAAAAAATAGAAG
Found at i:81292251 original size:17 final size:17
Alignment explanation
Indices: 81292225--81292260 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
81292215 AGTTGAATAA
*
81292225 TTCAATAAAGTAAGATT
1 TTCAACAAAGTAAGATT
81292242 TTCAACAAAGTAAGATT
1 TTCAACAAAGTAAGATT
81292259 TT
1 TT
81292261 AAAAGACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.36
Consensus pattern (17 bp):
TTCAACAAAGTAAGATT
Found at i:81295545 original size:26 final size:25
Alignment explanation
Indices: 81295499--81295561 Score: 90
Period size: 26 Copynumber: 2.5 Consensus size: 25
81295489 GCCTCACACG
* *
81295499 TTCTCTTTTTCTTTTATTTTCATAT
1 TTCTTTTTTTTTTTTATTTTCATAT
*
81295524 TTCTTTTGTTTTTTTTATTTTCTTAT
1 TTCTTTT-TTTTTTTTATTTTCATAT
81295550 TTCTTTTTTTTT
1 TTCTTTTTTTTT
81295562 ACTTTTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 11 0.32
26 23 0.68
ACGTcount: A:0.08, C:0.11, G:0.02, T:0.79
Consensus pattern (25 bp):
TTCTTTTTTTTTTTTATTTTCATAT
Found at i:81295560 original size:22 final size:22
Alignment explanation
Indices: 81295502--81295573 Score: 74
Period size: 26 Copynumber: 3.0 Consensus size: 22
81295492 TCACACGTTC
*
81295502 TCTTTTTCTTTTATTTTCATATT
1 TCTTTTT-TTTTATTTTCTTATT
81295525 TCTTTTGTTTTTTTTATTTTCTTATT
1 TC---T-TTTTTTTTATTTTCTTATT
81295551 TCTTTTTTTTTACTTTT-TTATT
1 TCTTTTTTTTTA-TTTTCTTATT
81295573 T
1 T
81295574 TGTTCCTTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
22 15 0.35
23 7 0.16
26 17 0.40
27 4 0.09
ACGTcount: A:0.10, C:0.10, G:0.01, T:0.79
Consensus pattern (22 bp):
TCTTTTTTTTTATTTTCTTATT
Found at i:81295631 original size:24 final size:24
Alignment explanation
Indices: 81295594--81295654 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
81295584 TAAATTGTCT
* * *
81295594 TTTTATTTTTTTTCCTTTT-TTGA
1 TTTTGTTTTATTTCATTTTGTTGA
* *
81295617 TTTTTTTCTTATTTCATTTTGTTTA
1 TTTTGTT-TTATTTCATTTTGTTGA
81295642 TTTTGTTTTATTT
1 TTTTGTTTTATTT
81295655 TTTATTATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 6 0.19
24 16 0.52
25 9 0.29
ACGTcount: A:0.10, C:0.07, G:0.05, T:0.79
Consensus pattern (24 bp):
TTTTGTTTTATTTCATTTTGTTGA
Found at i:81295718 original size:23 final size:22
Alignment explanation
Indices: 81295653--81295746 Score: 59
Period size: 22 Copynumber: 4.2 Consensus size: 22
81295643 TTTGTTTTAT
* **
81295653 TTTTTATTATTAACTTTAAAAA
1 TTTTTATAATTATTTTTAAAAA
* * *
81295675 -ATTTGTAATGTATATTT-AAAA
1 TTTTTATAAT-TATTTTTAAAAA
81295696 TGTTTTATAA-TATTTTTTAAAAA
1 T-TTTTATAATTA-TTTTTAAAAA
* *
81295719 TTTTAATTATTATTTTTAAAAA
1 TTTTTATAATTATTTTTAAAAA
81295741 TATTTT
1 T-TTTT
81295747 TTTTAACTTT
Statistics
Matches: 54, Mismatches: 11, Indels: 13
0.69 0.14 0.17
Matches are distributed among these distances:
21 12 0.22
22 26 0.48
23 16 0.30
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.56
Consensus pattern (22 bp):
TTTTTATAATTATTTTTAAAAA
Found at i:81295875 original size:34 final size:36
Alignment explanation
Indices: 81295832--81295903 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 36
81295822 TTTTAAAATT
*
81295832 AATAATAT-AAA-TTAAATAAACAAAATAAA-TAAGA
1 AATAATATAAAACTTAAA-AAACAAAAAAAATTAAGA
*
81295866 AATAATATAAAACTTAAAAAAGAAAAAAAATTAAGA
1 AATAATATAAAACTTAAAAAACAAAAAAAATTAAGA
81295902 AA
1 AA
81295904 AAGACAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 8 0.24
35 13 0.39
36 12 0.36
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (36 bp):
AATAATATAAAACTTAAAAAACAAAAAAAATTAAGA
Found at i:81296011 original size:20 final size:20
Alignment explanation
Indices: 81295979--81296018 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
81295969 ATGACTCCAC
*
81295979 TAAAAAAAGTTAAA-AAATT
1 TAAAAAAAATTAAAGAAATT
81295998 TAAAAAGAAATTAAAGAAATT
1 TAAAAA-AAATTAAAGAAATT
81296019 GTATTTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 7 0.39
21 5 0.28
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (20 bp):
TAAAAAAAATTAAAGAAATT
Found at i:81296089 original size:14 final size:14
Alignment explanation
Indices: 81296070--81296096 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
81296060 AAAAATATGG
81296070 TTAATATTTAAAAA
1 TTAATATTTAAAAA
81296084 TTAATATTTAAAA
1 TTAATATTTAAAA
81296097 TTTTCAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAATATTTAAAAA
Found at i:81296296 original size:18 final size:18
Alignment explanation
Indices: 81296275--81296315 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
81296265 ATAAAACTTA
81296275 AAAAAGAAAAAAATTAAG
1 AAAAAGAAAAAAATTAAG
* * *
81296293 AAAAAGACAAAATTTAAT
1 AAAAAGAAAAAAATTAAG
81296311 AAAAA
1 AAAAA
81296316 AAGTAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (18 bp):
AAAAAGAAAAAAATTAAG
Found at i:81296433 original size:20 final size:19
Alignment explanation
Indices: 81296402--81296448 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
81296392 CCAACTTTTT
81296402 AAAAATTTAAAA-AAAGTTA
1 AAAAATTTAAAAGAAA-TTA
81296421 AAAAATTTAAAAAGAAATTA
1 AAAAATTT-AAAAGAAATTA
81296441 AAGAAATT
1 AA-AAATT
81296449 GTATTTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.32
20 9 0.36
21 8 0.32
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (19 bp):
AAAAATTTAAAAGAAATTA
Found at i:81296519 original size:14 final size:14
Alignment explanation
Indices: 81296500--81296526 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
81296490 AAAAATATGG
81296500 TTAATATTTAAAAA
1 TTAATATTTAAAAA
81296514 TTAATATTTAAAA
1 TTAATATTTAAAA
81296527 TTTTCAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAATATTTAAAAA
Found at i:81296541 original size:14 final size:14
Alignment explanation
Indices: 81296524--81296562 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
81296514 TTAATATTTA
81296524 AAATTTTCAAAAAT
1 AAATTTTCAAAAAT
*
81296538 AAA-TTTGAAAAAT
1 AAATTTTCAAAAAT
*
81296551 AAATTTTTAAAA
1 AAATTTTCAAAA
81296563 TATATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (14 bp):
AAATTTTCAAAAAT
Found at i:81296572 original size:36 final size:35
Alignment explanation
Indices: 81296505--81296634 Score: 102
Period size: 37 Copynumber: 3.7 Consensus size: 35
81296495 TATGGTTAAT
* *
81296505 ATTTAAAAATTAATATTTAAAATTTTCAAAAATAA
1 ATTTAAAAATAAATATTTAAAATTATCAAAAATAA
* * *
81296540 ATTTGAAAAATAAATTTTTAAAATATATAAAAAATTA
1 ATTT-AAAAATAAATATTTAAAAT-TATCAAAAATAA
* * * * * *
81296577 ATTTCACAAATATATATCTAAAGTTA-AAAAAATAT
1 ATTT-AAAAATAAATATTTAAAATTATCAAAAATAA
* *
81296612 TTTTAAAAAT-AATAATTAAAATT
1 ATTTAAAAATAAATATTTAAAATT
81296635 TTAAAAAAAT
Statistics
Matches: 74, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
33 9 0.12
34 5 0.07
35 14 0.19
36 19 0.26
37 27 0.36
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (35 bp):
ATTTAAAAATAAATATTTAAAATTATCAAAAATAA
Found at i:81296639 original size:35 final size:35
Alignment explanation
Indices: 81296506--81296647 Score: 96
Period size: 36 Copynumber: 4.0 Consensus size: 35
81296496 ATGGTTAATA
*
81296506 TTTAAAAATTAATATTTAAAATTTTCAAAAATAA-A-T
1 TTTAAAAA-TAATAATTAAAATTTT-AAAAA-AATATT
* ** * * *
81296542 TTGAAAAATAAATTTTTAAAATATATAAAAAATTAAT
1 TTTAAAAAT-AATAATTAAAAT-TTTAAAAAAATATT
* * *
81296579 TTCACAAAT-ATATATCT-AAA-GTTAAAAAAATATT
1 TTTAAAAATAATA-AT-TAAAATTTTAAAAAAATATT
81296613 TTTAAAAATAATAATTAAAATTTTAAAAAAATATT
1 TTTAAAAATAATAATTAAAATTTTAAAAAAATATT
81296648 ATAAAACATT
Statistics
Matches: 82, Mismatches: 15, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
33 1 0.01
34 22 0.27
35 20 0.24
36 28 0.34
37 11 0.13
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (35 bp):
TTTAAAAATAATAATTAAAATTTTAAAAAAATATT
Found at i:81296652 original size:21 final size:23
Alignment explanation
Indices: 81296612--81296662 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
81296602 AAAAAAATAT
81296612 TTTTAAAAATAATAATT-AAA-A
1 TTTTAAAAATAATAATTAAAACA
*
81296633 TTTTAAAAA-AATATTATAAAACA
1 TTTTAAAAATAATAAT-TAAAACA
81296656 TTTTAAA
1 TTTTAAA
81296663 TATACATTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 5 0.19
21 10 0.38
22 3 0.12
23 8 0.31
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
TTTTAAAAATAATAATTAAAACA
Found at i:81296658 original size:23 final size:21
Alignment explanation
Indices: 81296612--81296698 Score: 59
Period size: 21 Copynumber: 4.0 Consensus size: 21
81296602 AAAAAAATAT
*
81296612 TTTTAAAAATAATAATTAAAA
1 TTTTAAAAATAATAATAAAAA
81296633 TTTTAAAAA-AATATTATAAAACA
1 TTTTAAAAATAATA--ATAAAA-A
* * * **
81296656 TTTTAAATATACATTACAAATT
1 TTTTAAAAATA-ATAATAAAAA
**
81296678 TTTTAAAGTTAATAATAAAAA
1 TTTTAAAAATAATAATAAAAA
81296699 ATAAAACAAA
Statistics
Matches: 49, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
20 4 0.08
21 15 0.31
22 14 0.29
23 13 0.27
24 1 0.02
25 2 0.04
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.39
Consensus pattern (21 bp):
TTTTAAAAATAATAATAAAAA
Found at i:81296790 original size:16 final size:16
Alignment explanation
Indices: 81296769--81296801 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
81296759 ATTAAGGAAC
81296769 AAAATAA-AAAAGTAAA
1 AAAATAAGAAAA-TAAA
81296785 AAAATAAGAAAATAAA
1 AAAATAAGAAAATAAA
81296801 A
1 A
81296802 GAAAAAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (16 bp):
AAAATAAGAAAATAAA
Found at i:81296807 original size:22 final size:25
Alignment explanation
Indices: 81296776--81296838 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 25
81296766 AACAAAATAA
*
81296776 AAAAGTAAAAAA-ATAAGAAA-AT-
1 AAAAGAAAAAAACATAAGAAATATG
*
81296798 AAAAGAAAAAAACAAAAGAAATATG
1 AAAAGAAAAAAACATAAGAAATATG
*
81296823 AAAA-AAAAAAAGATAA
1 AAAAGAAAAAAACATAA
81296839 CGTGTCAGGC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
22 11 0.32
23 7 0.21
24 12 0.35
25 4 0.12
ACGTcount: A:0.79, C:0.02, G:0.10, T:0.10
Consensus pattern (25 bp):
AAAAGAAAAAAACATAAGAAATATG
Found at i:81297215 original size:44 final size:46
Alignment explanation
Indices: 81297156--81297243 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 46
81297146 AGCCAATAAA
81297156 ATTACAATATAAATTTATCTTTTTCA-TTTTTTATCAAATAAAATT
1 ATTACAATATAAATTTATCTTTTTCATTTTTTTATCAAATAAAATT
81297201 ATTAC-ATATAAATTTATCTTTTTCATTTTTTTATCAAATAAAA
1 ATTACAATATAAATTTATCTTTTTCATTTTTTTATCAAATAAAA
81297244 ATTCATTAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
44 20 0.48
45 22 0.52
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (46 bp):
ATTACAATATAAATTTATCTTTTTCATTTTTTTATCAAATAAAATT
Found at i:81300456 original size:22 final size:24
Alignment explanation
Indices: 81300429--81300474 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
81300419 GATGTGAATG
81300429 AAAAAATTG-TATAAAAAT-ATAA
1 AAAAAATTGATATAAAAATCATAA
*
81300451 AAAAAATTGATATCAAAATCATAA
1 AAAAAATTGATATAAAAATCATAA
81300475 TAGATGTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.43
23 8 0.38
24 4 0.19
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (24 bp):
AAAAAATTGATATAAAAATCATAA
Found at i:81303920 original size:13 final size:13
Alignment explanation
Indices: 81303902--81303928 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
81303892 AAATTATACT
81303902 AGTAATTTTATTA
1 AGTAATTTTATTA
81303915 AGTAATTTTATTA
1 AGTAATTTTATTA
81303928 A
1 A
81303929 AATAATACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (13 bp):
AGTAATTTTATTA
Found at i:81304754 original size:6 final size:6
Alignment explanation
Indices: 81304736--81304776 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
81304726 TAATATTGGA
* * *
81304736 GGAGAT GGGGAT GGAGAT GGAGAT GGGGAT GAAGAT GGAGA
1 GGAGAT GGAGAT GGAGAT GGAGAT GGAGAT GGAGAT GGAGA
81304777 GGAAAGCTGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.32, C:0.00, G:0.54, T:0.15
Consensus pattern (6 bp):
GGAGAT
Found at i:81304759 original size:18 final size:18
Alignment explanation
Indices: 81304736--81304776 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
81304726 TAATATTGGA
*
81304736 GGAGATGGGGATGGAGAT
1 GGAGATGGGGATGAAGAT
81304754 GGAGATGGGGATGAAGAT
1 GGAGATGGGGATGAAGAT
81304772 GGAGA
1 GGAGA
81304777 GGAAAGCTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.54, T:0.15
Consensus pattern (18 bp):
GGAGATGGGGATGAAGAT
Found at i:81305755 original size:18 final size:19
Alignment explanation
Indices: 81305727--81305771 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
81305717 TATCAAATAA
*
81305727 ATTTATTAAATATAAATTC
1 ATTTATTAAATAAAAATTC
81305746 ATTT-TTAAATAAAAATT-
1 ATTTATTAAATAAAAATTC
81305763 ATTATATTA
1 ATT-TATTA
81305772 TAACACTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 3 0.13
18 13 0.57
19 7 0.30
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTATTAAATAAAAATTC
Found at i:81313971 original size:9 final size:9
Alignment explanation
Indices: 81313957--81313990 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
81313947 GGCTGTTTTA
81313957 TTTTTTCTC
1 TTTTTTCTC
*
81313966 TTTTTTCTT
1 TTTTTTCTC
81313975 TTTTTTCTC
1 TTTTTTCTC
81313984 TTTTTTC
1 TTTTTTC
81313991 CCTTGTGGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTCTC
Found at i:81320980 original size:122 final size:122
Alignment explanation
Indices: 81320834--81321087 Score: 476
Period size: 122 Copynumber: 2.1 Consensus size: 122
81320824 AGAATTTTGA
81320834 AAGAACA--AAGAAATTGAAATGAAAGTAACAAAATTCTCACGCCAAATTGAAAGGAAAAGGAAA
1 AAGAACATTAAGAAATTGAAATGAAAGTAACAAAATTCTCACGCCAAATTGAAAGGAAAAGGAAA
*
81320897 ATAATTCTATTCAATTCCAAATTGAAGTCAGAATGTAAGATTAGATGTGTCTTTCCT
66 ATAATTCTATTCAATTCCAAATTGAAGTCAGAATATAAGATTAGATGTGTCTTTCCT
*
81320954 AAGAACATTAAGAAATTGAAATGAAAGTAACAGAATTCTCACGCCAAATTGAAAGGAAAAGGAAA
1 AAGAACATTAAGAAATTGAAATGAAAGTAACAAAATTCTCACGCCAAATTGAAAGGAAAAGGAAA
81321019 ATAATTCTATTCAATTCCAAATTGAAGTCAGAATATAAGATTAGATGTGTCTTTCCT
66 ATAATTCTATTCAATTCCAAATTGAAGTCAGAATATAAGATTAGATGTGTCTTTCCT
81321076 AAGAACATTAAG
1 AAGAACATTAAG
81321088 GCTTTATTTA
Statistics
Matches: 130, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
120 7 0.05
122 123 0.95
ACGTcount: A:0.46, C:0.12, G:0.16, T:0.26
Consensus pattern (122 bp):
AAGAACATTAAGAAATTGAAATGAAAGTAACAAAATTCTCACGCCAAATTGAAAGGAAAAGGAAA
ATAATTCTATTCAATTCCAAATTGAAGTCAGAATATAAGATTAGATGTGTCTTTCCT
Found at i:81322173 original size:87 final size:86
Alignment explanation
Indices: 81321992--81322152 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 86
81321982 GGTTAGATGA
*** * * * *
81321992 ATTCATCAAGTTTGTCTTAATAGGACCACCCAAACTTTGGGCTATGAACTCATTAAGAGTAATAA
1 ATTCATCAAGTCCATCTCAATAAGACCACCCAAACTCTGGGCTATGAACTCAATAAGAGTAATAA
81322057 ACTCAACCTTTCAAGTCAGTG
66 ACTCAACCTTTCAAGTCAGTG
81322078 ATTTCATCAAGTCCATCTCAATAAGACCACCCAAACTCTGGGCTATGAA-TCCAATAAGAGTAA-
1 A-TTCATCAAGTCCATCTCAATAAGACCACCCAAACTCTGGGCTATGAACT-CAATAAGAGTAAT
*
81322141 GAACTCAACCTT
64 AAACTCAACCTT
81322153 ATGCATGTAC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
86 13 0.20
87 52 0.80
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (86 bp):
ATTCATCAAGTCCATCTCAATAAGACCACCCAAACTCTGGGCTATGAACTCAATAAGAGTAATAA
ACTCAACCTTTCAAGTCAGTG
Found at i:81325288 original size:18 final size:18
Alignment explanation
Indices: 81325252--81325290 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
81325242 GTGACCCCTA
81325252 TTTTCAAAATTTTCATGT
1 TTTTCAAAATTTTCATGT
81325270 TTTTCCAAAATTTTC-TGT
1 TTTT-CAAAATTTTCATGT
81325288 TTT
1 TTT
81325291 GTTTCAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.23, C:0.13, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTTCAAAATTTTCATGT
Found at i:81332737 original size:48 final size:48
Alignment explanation
Indices: 81332664--81333035 Score: 390
Period size: 48 Copynumber: 7.7 Consensus size: 48
81332654 TGTGGGCCAA
* * *
81332664 TGTAAGACCATGTTTGGAATATGGCATCGGCATTAATATGAGAGCTAG
1 TGTAAGACCATGTTTGGGACATGGCATCGGCATCAATATGAGAGCTAG
* * * * * * *
81332712 TGTAAGACCATATCTGGGACCTGGCATCGGCCTCGATATGTGAGCCAG
1 TGTAAGACCATGTTTGGGACATGGCATCGGCATCAATATGAGAGCTAG
* * * *
81332760 TATAAGACCATGTTTGGAACATGGCATCAGCATTAATATGAGAGCTAG
1 TGTAAGACCATGTTTGGGACATGGCATCGGCATCAATATGAGAGCTAG
* * * *
81332808 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTGAGCTAG
1 TGTAAGACCATGTTTGGGACATGGCATCGGCATCAATATGAGAGCTAG
* * * *
81332856 TGTAAGACTATGTTTGGAACATGGCATCGGCGTTAATATGAGAGCTAG
1 TGTAAGACCATGTTTGGGACATGGCATCGGCATCAATATGAGAGCTAG
* * * *
81332904 TGTAAGACTATGTTTAGGACATGGCAACGG-ACTCCACATCTG-G-GCTAG
1 TGTAAGACCATGTTTGGGACATGGCATCGGCA-T-CA-ATATGAGAGCTAG
* * * *
81332952 TGTAAGACCATGTTTGGAACATGGCATCGACACTGATATATGAGAGCCAG
1 TGTAAGACCATGTTTGGGACATGGCATCGGCA-TCA-ATATGAGAGCTAG
* *
81333002 TGTAAGACCATGTCTAGGACATGGCATCGGCATC
1 TGTAAGACCATGTTTGGGACATGGCATCGGCATC
81333036 TTACCCTTTG
Statistics
Matches: 262, Mismatches: 56, Indels: 11
0.80 0.17 0.03
Matches are distributed among these distances:
48 219 0.84
49 7 0.03
50 36 0.14
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26
Consensus pattern (48 bp):
TGTAAGACCATGTTTGGGACATGGCATCGGCATCAATATGAGAGCTAG
Found at i:81332816 original size:96 final size:96
Alignment explanation
Indices: 81332652--81333032 Score: 528
Period size: 96 Copynumber: 3.9 Consensus size: 96
81332642 ATATTAGGGT
* * *
81332652 TATGTGGGCCAATGTAAGACCATGTTTGGAATATGGCATCGGCATTAATATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTAATATGAGAGCTAGTGTAA
* * *
81332717 GACCATATCTGGGACCTGGCATCGGCCTCGA
66 GACCATGTCTAGGACATGGCATCGGCCTCGA
* *
81332748 TATGTGAGCCAGTATAAGACCATGTTTGGAACATGGCATCAGCATTAATATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTAATATGAGAGCTAGTGTAA
*
81332813 GACCATGTCTGGGACATGGCATCGGCCTCGA
66 GACCATGTCTAGGACATGGCATCGGCCTCGA
* * *
81332844 TATGTGAGCTAGTGTAAGACTATGTTTGGAACATGGCATCGGCGTTAATATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTAATATGAGAGCTAGTGTAA
* * * * *
81332909 GACTATGTTTAGGACATGGCAACGGACTCCA
66 GACCATGTCTAGGACATGGCATCGGCCTCGA
* * * * * * *
81332940 CATCTGGGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACACTGATATATGAGAGCCAGTGT
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCA-TTA-ATATGAGAGCTAGTGT
81333005 AAGACCATGTCTAGGACATGGCATCGGC
64 AAGACCATGTCTAGGACATGGCATCGGC
81333033 ATCTTACCCT
Statistics
Matches: 253, Mismatches: 30, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
96 212 0.84
97 2 0.01
98 39 0.15
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (96 bp):
TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTAATATGAGAGCTAGTGTAA
GACCATGTCTAGGACATGGCATCGGCCTCGA
Found at i:81341579 original size:19 final size:18
Alignment explanation
Indices: 81341555--81341622 Score: 68
Period size: 18 Copynumber: 3.7 Consensus size: 18
81341545 TATGTGTTAA
81341555 AAAATTCTAAAAAATAATT
1 AAAATTCTAAAAAA-AATT
*
81341574 AAAATT-TTAAAAAAATT
1 AAAATTCTAAAAAAAATT
*
81341591 AAAAATTC-AAAAGAAATTT
1 -AAAATTCTAAAA-AAAATT
*
81341610 AAAATTATAAAAA
1 AAAATTCTAAAAA
81341623 CTAAAAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
17 4 0.10
18 22 0.54
19 15 0.37
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.29
Consensus pattern (18 bp):
AAAATTCTAAAAAAAATT
Found at i:81341631 original size:36 final size:35
Alignment explanation
Indices: 81341553--81341632 Score: 83
Period size: 36 Copynumber: 2.2 Consensus size: 35
81341543 GTTATGTGTT
*
81341553 AAAAAATTCTAAAAAATAATTAAAATTTTAAAAAA
1 AAAAAATTCTAAAAAATAATTAAAATTATAAAAAA
*
81341588 ATTAAAAATTC-AAAAGAA-ATTTAAAATTATAAAAACTA
1 A--AAAAATTCTAAAA-AATAATTAAAATTATAAAAA--A
81341626 AAAAAAT
1 AAAAAAT
81341633 AAAAATATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
35 1 0.03
36 25 0.66
37 10 0.26
38 2 0.05
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.28
Consensus pattern (35 bp):
AAAAAATTCTAAAAAATAATTAAAATTATAAAAAA
Found at i:81341789 original size:21 final size:19
Alignment explanation
Indices: 81341749--81341794 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 19
81341739 GGAATTTGGT
81341749 TTTTA-GAAAATTTTAGAA
1 TTTTATGAAAATTTTAGAA
81341767 TTTTATGAAAATTTTAAAGAA
1 TTTTATGAAAATTTT--AGAA
81341788 TTTTATG
1 TTTTATG
81341795 GTTTGTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.20
19 9 0.36
21 11 0.44
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (19 bp):
TTTTATGAAAATTTTAGAA
Found at i:81342055 original size:19 final size:20
Alignment explanation
Indices: 81342031--81342073 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
81342021 AAAATAGATT
* *
81342031 AATAATTTT-TTAGTTTTTA
1 AATAATTTTATGAGTTTTAA
81342050 AATAATTTTATGAGTTTTAA
1 AATAATTTTATGAGTTTTAA
81342070 AATA
1 AATA
81342074 TTTGGGAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (20 bp):
AATAATTTTATGAGTTTTAA
Found at i:81346590 original size:4 final size:4
Alignment explanation
Indices: 81346581--81346622 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
81346571 TACAAACTAT
*
81346581 TTTA TTTA TTCT- TTTA TTTA TTTA TTTA TTCA TTTA -TTA TTT
1 TTTA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
81346623 CTTCAACCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 4 0.12
4 28 0.85
5 1 0.03
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:81346691 original size:3 final size:3
Alignment explanation
Indices: 81346678--81346714 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
81346668 TTATGTACTT
81346678 TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
81346715 GTGTGATGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:81347273 original size:30 final size:27
Alignment explanation
Indices: 81347210--81347274 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 27
81347200 TTCTTGATTT
*
81347210 ATATTATAAAAATATTATTTAATTAAA
1 ATATTATAAAAATATTATTAAATTAAA
* *
81347237 ATATTATAAATTATATTAATTAAAGTTAAG
1 ATATTATAAA-AATATT-ATTAAA-TTAAA
81347267 ATATTATA
1 ATATTATA
81347275 TTATAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.31
28 5 0.16
29 5 0.16
30 12 0.38
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (27 bp):
ATATTATAAAAATATTATTAAATTAAA
Found at i:81347625 original size:16 final size:16
Alignment explanation
Indices: 81347587--81347628 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
81347577 TATAGTGTAT
81347587 TATT-ATTATTAATTTA
1 TATTAATTA-TAATTTA
*
81347603 T-TAAATTATAATTTA
1 TATTAATTATAATTTA
81347618 TATTAATTATA
1 TATTAATTATA
81347629 TTATGAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTAATTATAATTTA
Found at i:81347936 original size:16 final size:16
Alignment explanation
Indices: 81347905--81347935 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
81347895 ACATGGGAAG
81347905 GAAAGAAAGAAGAAAA
1 GAAAGAAAGAAGAAAA
81347921 GAAAGAAA-AAGAAAA
1 GAAAGAAAGAAGAAAA
81347936 ATTAAGGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
GAAAGAAAGAAGAAAA
Found at i:81348397 original size:21 final size:21
Alignment explanation
Indices: 81348373--81348433 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
81348363 GTCATATTTG
81348373 AGGCACCTTGTGTGTCGTATC
1 AGGCACCTTGTGTGTCGTATC
* *
81348394 AGGCACCTCGTGTGTCGTTTC
1 AGGCACCTTGTGTGTCGTATC
*
81348415 AGGCA-CTTATGTGTCGTAT
1 AGGCACCTTGTGTGTCGTAT
81348434 ACTGATCAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
20 11 0.31
21 24 0.69
ACGTcount: A:0.15, C:0.23, G:0.28, T:0.34
Consensus pattern (21 bp):
AGGCACCTTGTGTGTCGTATC
Found at i:81353129 original size:3 final size:3
Alignment explanation
Indices: 81353114--81353305 Score: 125
Period size: 3 Copynumber: 64.3 Consensus size: 3
81353104 AAATTTAATC
81353114 TAT TAT T-T CTAT TAT TAT TA- TAT T-T CTAT GTAT TA- TAT T-T CTAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT -TAT -TAT TAT TAT TAT -TAT
* * * *
81353158 T-T GTATT TAT GTAT TAA TAT CAT TAT T-T TTT TAT T-T T-T TA- CAT
1 TAT -TA-T TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
81353201 TAT TAT TAT TAT TAT TAT CAT TAT TAT TAC TAT TAG TAC TAT TAG TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
81353249 TAT TAT TAT TTT CTAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
81353295 TAT TAT CTAT T
1 TAT TAT -TAT T
81353306 GTGTATTTAT
Statistics
Matches: 150, Mismatches: 22, Indels: 34
0.73 0.11 0.17
Matches are distributed among these distances:
2 15 0.10
3 118 0.79
4 16 0.11
5 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:81357581 original size:27 final size:27
Alignment explanation
Indices: 81357543--81357594 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
81357533 CCTCGATTTG
*
81357543 TAAAATTACCAAAATACCCTTGTAGCA
1 TAAAATGACCAAAATACCCTTGTAGCA
81357570 TAAAATGACCAAAATACCCTTGTAG
1 TAAAATGACCAAAATACCCTTGTAG
81357595 TATTTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.25
Consensus pattern (27 bp):
TAAAATGACCAAAATACCCTTGTAGCA
Found at i:81358495 original size:32 final size:32
Alignment explanation
Indices: 81358454--81358526 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
81358444 TGAAATAGGT
* *
81358454 TAGGCCCAACTGATATTGGTTTTGATATGGGC
1 TAGGCCCAACTGATATTGATTTTGAGATGGGC
*
81358486 TAGGGCCAACTGATATTGATTTTGAGATGGGC
1 TAGGCCCAACTGATATTGATTTTGAGATGGGC
81358518 TAGGCCCAA
1 TAGGCCCAA
81358527 TTGAGACTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (32 bp):
TAGGCCCAACTGATATTGATTTTGAGATGGGC
Found at i:81360220 original size:24 final size:24
Alignment explanation
Indices: 81360187--81360358 Score: 107
Period size: 24 Copynumber: 6.8 Consensus size: 24
81360177 AAAACGACTC
*
81360187 AAAATGAATAATAATAAAAAGTTT
1 AAAATAAATAATAATAAAAAGTTT
* *
81360211 CAAATAAATAATATATGAAAAA-CTT
1 AAAATAAATAATA-AT-AAAAAGTTT
* * * *
81360236 AAAATTATTCATAATGAAACAGTTT
1 AAAATAAATAATAAT-AAAAAGTTT
* * * *
81360261 AATATAAACAATGTATAAAAA-CTT
1 AAAATAAATAAT-AATAAAAAGTTT
*
81360285 AAAATAGATAATACATATAAAATAGTTT
1 AAAATAAATAAT--A-ATAAAA-AGTTT
81360313 AAAATAAATAATAA-ATAAAAGATATT
1 AAAATAAATAATAATA-AAAAG-T-TT
81360339 AAAATAAATAATATATAAAA
1 AAAATAAATAATA-ATAAAA
81360359 TGAAGCTAAA
Statistics
Matches: 111, Mismatches: 24, Indels: 23
0.70 0.15 0.15
Matches are distributed among these distances:
24 32 0.29
25 31 0.28
26 29 0.26
27 5 0.05
28 14 0.13
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.30
Consensus pattern (24 bp):
AAAATAAATAATAATAAAAAGTTT
Found at i:81360231 original size:26 final size:25
Alignment explanation
Indices: 81360157--81360358 Score: 130
Period size: 25 Copynumber: 8.0 Consensus size: 25
81360147 AGTAAATAAT
*
81360157 AGTTTAAAATAAATCAT-TA-AAAA
1 AGTTTAAAATAAATAATATATAAAA
* * *
81360180 ACGACTCAAAATGAATAATA-ATAAAA
1 A-G-TTTAAAATAAATAATATATAAAA
*
81360206 AGTTTCAAATAAATAATATATGAAAA
1 AGTTTAAAATAAATAATATAT-AAAA
* * * * *
81360232 A-CTTAAAATTATTCATA-ATGAAAC
1 AGTTTAAAATAAATAATATAT-AAAA
* * *
81360256 AGTTTAATATAAACAATGTATAAAA
1 AGTTTAAAATAAATAATATATAAAA
* *
81360281 A-CTTAAAATAGATAATACATATAAAA
1 AGTTTAAAATAAATAAT--ATATAAAA
*
81360307 TAGTTTAAAATAAATAATAAAT-AAA
1 -AGTTTAAAATAAATAATATATAAAA
81360332 AGATATTAAAATAAATAATATATAAAA
1 AG-T-TTAAAATAAATAATATATAAAA
81360359 TGAAGCTAAA
Statistics
Matches: 133, Mismatches: 31, Indels: 26
0.70 0.16 0.14
Matches are distributed among these distances:
23 1 0.01
24 33 0.25
25 43 0.32
26 39 0.29
27 4 0.03
28 13 0.10
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (25 bp):
AGTTTAAAATAAATAATATATAAAA
Found at i:81360315 original size:28 final size:27
Alignment explanation
Indices: 81360283--81360359 Score: 97
Period size: 26 Copynumber: 2.9 Consensus size: 27
81360273 GTATAAAAAC
*
81360283 TTAAAATAGATAATACATATAAAATAGT-
1 TTAAAATAAATAATA-ATATAAAATA-TA
*
81360311 TTAAAATAAATAATAA-ATAAAAGATA
1 TTAAAATAAATAATAATATAAAATATA
81360337 TTAAAATAAATAAT-ATATAAAAT
1 TTAAAATAAATAATAATATAAAAT
81360360 GAAGCTAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
25 2 0.05
26 27 0.61
27 1 0.02
28 14 0.32
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (27 bp):
TTAAAATAAATAATAATATAAAATATA
Found at i:81361988 original size:44 final size:44
Alignment explanation
Indices: 81361927--81362137 Score: 169
Period size: 45 Copynumber: 4.8 Consensus size: 44
81361917 GAGTTGCTAT
*
81361927 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGG
** * * * *
81361971 CTTCAATCTGCTCCACTGCAA-GACA-AGATCCGCCATAA--ATTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGA---G--ATAAGGCTGGTGG
* * * * ** * *
81362016 CTTCAATCTGTTCCACTACAACTTTAGGGAAATAAGATTCGCTGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCT-GGTGG
* * *
81362061 TTTCAGTCTGATCCACTGCAACTTCAGGGAGATAAGGCTGGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGG
*
81362105 CTTCAATCTGCTCCACTGCAACTTCAGGAAGAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGAT
81362138 GAGATCCGCC
Statistics
Matches: 124, Mismatches: 33, Indels: 20
0.70 0.19 0.11
Matches are distributed among these distances:
42 6 0.05
43 2 0.02
44 53 0.43
45 56 0.45
46 1 0.01
47 6 0.05
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGG
Found at i:81362033 original size:134 final size:139
Alignment explanation
Indices: 81361876--81362238 Score: 470
Period size: 134 Copynumber: 2.6 Consensus size: 139
81361866 GATCCGTAAC
* * * * *
81361876 TTGTAGCTTTAATCTGCTCCACTATAACTTCAGCGAAATGAGAGTT-GCTATCTTCAGTCTGCTC
1 TTGTAGCTTCAATCTGTTCCACTATAACTTCAGGGAAATAAGA-TTCGCTGTCTTCAGTCTGCTC
81361940 CACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGC-A-A-G-ACA-AGAT
65 CACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACAGGAACAGAGAT
81362000 CCGCCATAAA
130 CCGCCATAAA
* * * *
81362010 TTGTAGCTTCAATCTGTTCCACTACAACTTTAGGGAAATAAGATTCGCTGTTTTCAGTCTGATCC
1 TTGTAGCTTCAATCTGTTCCACTATAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
*
81362075 ACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATGA
66 ACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAA---CAGGAACA-GA
*
81362140 GATCCGCCATAAT
127 GATCCGCCATAAA
* * *
81362153 TTGTAGCTTCAATTTGTTCTACTGTAACTTCAGGGAAATAAGATTCGCTGTCTTC-GATCTGCTC
1 TTGTAGCTTCAATCTGTTCCACTATAACTTCAGGGAAATAAGATTCGCTGTCTTCAG-TCTGCTC
* * *
81362217 CACAGGAACTTCAAGGAGATAA
65 CACTGCAACTTCAGGGAGATAA
81362239 AATCTACAAC
Statistics
Matches: 197, Mismatches: 21, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
133 2 0.01
134 102 0.52
135 1 0.01
139 1 0.01
140 1 0.01
141 2 0.01
142 1 0.01
143 87 0.44
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (139 bp):
TTGTAGCTTCAATCTGTTCCACTATAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
ACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACAGGAACAGAGATC
CGCCATAAA
Found at i:81362096 original size:45 final size:44
Alignment explanation
Indices: 81361881--81362375 Score: 156
Period size: 45 Copynumber: 10.9 Consensus size: 44
81361871 GTAACTTGTA
* * ** * * * *
81361881 GCTTTAATCTGCTCCACTATAACTTCAGCGAAATGAGAGTTGCTA
1 GCTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGA-TTGCTG
* * * ** *
81361926 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTG
1 GCTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGATTGCTG
* ** * *
81361970 GCTTCAATCTGCTCCACTGCAA-GACA-AGATCCGCCATAA-ATTG-TA
1 GCTTCAATCTGATCCACTGCAACTTCAGGGA---G--ATAAGATTGCTG
* * * *
81362015 GCTTCAATCTGTTCCACTACAACTTTAGGGAAATAAGATTCGCTG
1 GCTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGATT-GCTG
** * ** *
81362060 TTTTCAGTCTGATCCACTGCAACTTCAGGGAGATAAGGCTGGTG
1 GCTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGATTGCTG
* * * *
81362104 GCTTCAATCTGCTCCACTGCAACTTCAGGAAGATGAGATCCGCCATAATTTG
1 GCTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGAT-TG-C------TG
* * * * *
81362156 TAGCTTCAATTTGTTCTACTGTAACTTCAGGGAAATAAGATTCGCTG
1 --GCTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGATT-GCTG
* * * * * * * * *
81362203 TCTTCGATCTGCTCCACAGGAACTTCAAGGAGATAAAATCTAC-A
1 GCTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGAT-TGCTG
* * * * * * *
81362247 ACTTTAATTTGCTCCACTGCTACTTCAGGGAGATGAGATTCGCTA
1 GCTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGATT-GCTG
* * ** * * * ** *
81362292 TCTTCAGTCT-ACTCTGCTGTAACTTTAGAGAGATAAGGCTGGTG
1 GCTTCAATCTGA-TCCACTGCAACTTCAGGGAGATAAGATTGCTG
* * *
81362336 GCTTCAATCTGCTCCATTGCAACTTCAGGGAGATGAGATT
1 GCTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGATT
81362376 TGTGGATTCA
Statistics
Matches: 317, Mismatches: 107, Indels: 53
0.66 0.22 0.11
Matches are distributed among these distances:
42 6 0.02
43 6 0.02
44 117 0.37
45 140 0.44
46 4 0.01
47 8 0.03
52 2 0.01
53 1 0.00
54 33 0.10
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
GCTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGATTGCTG
Found at i:81362260 original size:143 final size:143
Alignment explanation
Indices: 81361996--81362285 Score: 359
Period size: 143 Copynumber: 2.0 Consensus size: 143
81361986 CTGCAAGACA
*
81361996 AGATCCGCCATAAATTGTAGCTTCAATCTGTTCCACTACAACTTTAGGGAAATAAGATTCGCTGT
1 AGATCCGCCATAAATTGTAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTGT
* * * * ****
81362061 TTTCAGTCTGATCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAA
66 CTTCAGTCTGATCCACAGCAACTTCAAGGAGATAAAGCTGACAACTTCAATCTGCTCCACTGCAA
81362126 CTTCAGGAAGATG
131 CTTCAGGAAGATG
* * * **
81362139 AGATCCGCCATAATTTGTAGCTTCAATTTGTTCTACTGTAACTTCAGGGAAATAAGATTCGCTGT
1 AGATCCGCCATAAATTGTAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTGT
* * * * *
81362204 CTTC-GATCTGCTCCACAGGAACTTCAAGGAGATAAAATCT-ACAACTTTAATTTGCTCCACTGC
66 CTTCAG-TCTGATCCACAGCAACTTCAAGGAGAT-AAAGCTGACAACTTCAATCTGCTCCACTGC
* *
81362267 TACTTCAGGGAGATG
129 AACTTCAGGAAGATG
81362282 AGAT
1 AGAT
81362286 TCGCTATCTT
Statistics
Matches: 124, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
142 1 0.01
143 119 0.96
144 4 0.03
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (143 bp):
AGATCCGCCATAAATTGTAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTGT
CTTCAGTCTGATCCACAGCAACTTCAAGGAGATAAAGCTGACAACTTCAATCTGCTCCACTGCAA
CTTCAGGAAGATG
Found at i:81362833 original size:42 final size:42
Alignment explanation
Indices: 81362774--81362855 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
81362764 CAAGGGGTAA
81362774 AGGATTTGTTGCTTCTTCAATCAATTAATCTGGGTAACATAT
1 AGGATTTGTTGCTTCTTCAATCAATTAATCTGGGTAACATAT
*
81362816 AGGATTTGTTGCTTCTTCAATCAATTGATCTGGGTAACAT
1 AGGATTTGTTGCTTCTTCAATCAATTAATCTGGGTAACAT
81362856 GACTAGATGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (42 bp):
AGGATTTGTTGCTTCTTCAATCAATTAATCTGGGTAACATAT
Found at i:81363321 original size:26 final size:27
Alignment explanation
Indices: 81363292--81363383 Score: 77
Period size: 26 Copynumber: 3.5 Consensus size: 27
81363282 AAATTAACTC
81363292 AAAATG-AATAAGTTAATCAAAGATAG
1 AAAATGTAATAAGTTAATCAAAGATAG
** * *
81363318 AAAATGTAATAAG--AAGGAAATTAACTTG
1 AAAATGTAATAAGTTAATCAAA--GA-TAG
81363346 -AAATG-AATAAGTTAATCAAAGATAG
1 AAAATGTAATAAGTTAATCAAAGATAG
*
81363371 CAAATGTAATAAG
1 AAAATGTAATAAG
81363384 AAGGAAATTG
Statistics
Matches: 50, Mismatches: 8, Indels: 15
0.68 0.11 0.21
Matches are distributed among these distances:
25 7 0.14
26 18 0.36
27 18 0.36
28 7 0.14
ACGTcount: A:0.55, C:0.04, G:0.16, T:0.24
Consensus pattern (27 bp):
AAAATGTAATAAGTTAATCAAAGATAG
Found at i:81363323 original size:53 final size:53
Alignment explanation
Indices: 81363240--81363392 Score: 252
Period size: 53 Copynumber: 2.9 Consensus size: 53
81363230 GCATAGCTCG
* * *
81363240 AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGAAAATTAACTCA
1 AAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATTAACTCA
* **
81363293 AAATGAATAAGTTAATCAAAGATAGAAAATGTAATAAGAAGGAAATTAACTTG
1 AAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATTAACTCA
81363346 AAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATT
1 AAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATT
81363393 GATTGGGACT
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 93 1.00
ACGTcount: A:0.56, C:0.06, G:0.15, T:0.23
Consensus pattern (53 bp):
AAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATTAACTCA
Found at i:81369783 original size:28 final size:25
Alignment explanation
Indices: 81369652--81369828 Score: 141
Period size: 26 Copynumber: 7.0 Consensus size: 25
81369642 TTAAAAAATT
**
81369652 ATTTAAAATGCATAATAATAATAAAA
1 ATTTAAAATAAATAATAAT-ATAAAA
* *
81369678 GTTTCAAATAAATAAT-ATATGAAAA
1 ATTTAAAATAAATAATAATAT-AAAA
* * *
81369703 ACTTAAAA-AAATCATAATGA-AACA
1 ATTTAAAATAAATAATAAT-ATAAAA
* * *
81369727 GTTTAATATAAATAAT-GTATAAAA
1 ATTTAAAATAAATAATAATATAAAA
*
81369751 ATTTAAAATAGATAATACATATAAAA
1 ATTTAAAATAAATAATA-ATATAAAA
81369777 TAGTTTAAAATAAATAATAA-ATAAAA
1 -A-TTTAAAATAAATAATAATATAAAA
81369803 GATATTAAAATAAATAAT-ATATAAAA
1 -AT-TTAAAATAAATAATAATATAAAA
81369829 CGAAGCTAAA
Statistics
Matches: 119, Mismatches: 21, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
23 1 0.01
24 33 0.28
25 21 0.18
26 47 0.39
27 2 0.02
28 15 0.13
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (25 bp):
ATTTAAAATAAATAATAATATAAAA
Found at i:81369801 original size:52 final size:49
Alignment explanation
Indices: 81369626--81369828 Score: 146
Period size: 52 Copynumber: 4.0 Consensus size: 49
81369616 AGTAAATAAC
** *
81369626 AGTTTAAAATAAATCTTTAAA-AAATTATTTAAAAT-GCATAATA-ATAATAAA
1 AGTTTAAAATAAAT-AATAAATAAA-AATTTAAAATAG-ATAATATAT-A-AAA
* * * * * *
81369677 AGTTTCAAATAAATAATATATGAAAAACTTAAAA-AAATCATA-ATGAAAC
1 AGTTTAAAATAAATAATAAAT-AAAAATTTAAAATAGATAATATAT-AAAA
* **
81369726 AGTTTAATATAAATAATGTATAAAAATTTAAAATAGATAATACATATAAAA
1 AGTTTAAAATAAATAATAAATAAAAATTTAAAATAGATAAT--ATATAAAA
*
81369777 TAGTTTAAAATAAATAATAAATAAAAGATATTAAAATAAATAATATATAAAA
1 -AGTTTAAAATAAATAATAAATAAAA-AT-TTAAAATAGATAATATATAAAA
81369829 CGAAGCTAAA
Statistics
Matches: 121, Mismatches: 21, Indels: 19
0.75 0.13 0.12
Matches are distributed among these distances:
48 11 0.09
49 25 0.21
50 11 0.09
51 24 0.20
52 35 0.29
53 2 0.02
54 13 0.11
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (49 bp):
AGTTTAAAATAAATAATAAATAAAAATTTAAAATAGATAATATATAAAA
Found at i:81375110 original size:29 final size:29
Alignment explanation
Indices: 81375065--81375120 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
81375055 TTTGTTTCTT
*
81375065 TTTAATAATATAAGGACTAAATTGATCCA
1 TTTAACAATATAAGGACTAAATTGATCCA
*
81375094 TTTAACAATA-AATGGACTAATTTGATC
1 TTTAACAATATAA-GGACTAAATTGATC
81375121 AAATCCTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (29 bp):
TTTAACAATATAAGGACTAAATTGATCCA
Found at i:81375883 original size:18 final size:18
Alignment explanation
Indices: 81375837--81375884 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
81375827 CCACACCAAC
81375837 AAATGAATTTAAACTTAAA
1 AAAT-AATTTAAACTTAAA
*
81375856 AAATAA-TTAAAGTTTAAA
1 AAATAATTTAAA-CTTAAA
81375874 AAA-AATTTAAA
1 AAATAATTTAAA
81375885 ACCCCAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 7 0.27
18 15 0.58
19 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (18 bp):
AAATAATTTAAACTTAAA
Found at i:81377981 original size:70 final size:69
Alignment explanation
Indices: 81377868--81378023 Score: 222
Period size: 70 Copynumber: 2.2 Consensus size: 69
81377858 TATACATCTT
* * *
81377868 TCAACAAATCATTTCAAAAAATAAACAAAATATGTTATACTAACAAAATGATCCTATAGTAGTAA
1 TCAACCAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAGCAGTAA
81377933 AATG
66 AATG
* * *
81377937 TCAACCAATCATTTCAAGAAAACATACAAAATATGTTATGCTAACAAACTGATCCTATAGCAGTA
1 TCAACCAATCATTTCAA-AAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAGCAGTA
*
81378002 AGATG
65 AAATG
* *
81378007 TTAACCAACCATTTCAA
1 TCAACCAATCATTTCAA
81378024 CAAATCATTT
Statistics
Matches: 77, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
69 16 0.21
70 61 0.79
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.27
Consensus pattern (69 bp):
TCAACCAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAGCAGTAA
AATG
Found at i:81378377 original size:161 final size:157
Alignment explanation
Indices: 81378132--81378592 Score: 430
Period size: 161 Copynumber: 2.9 Consensus size: 157
81378122 TATGCTATCC
*** * * * *
81378132 TTTTTT-GGCTTCCAGTTCCCATACTCAAACCAG-AT-TGAGAACAAAAATTAGAACCCCAAATT
1 TTTTTTGGGCTTCCAGTTCTTGTACTCATACCAGAATAAGAAAAAAAAAATTAGAA-CCCAAATT
*
81378194 AGATTTAAATAATTTGGAATTGACATTAAAAAAGTGTTTACGATATACCTGTGATCCAGTTGTGT
65 AGATTTAAATAATTTGGAATTGACATTAAAAAA-TATTTACGATATACCTGTGATCCAGTTGTGT
* *
81378259 TAGGCTGAATGCATGGTGTTCTGTCATTC
129 TAGGCTGAATGCATGGTGTTATGTCATTA
* * * * *
81378288 TTTTTTTGGCTTCTAGTT-TGTGTACTCGTACCTGAATAAGATTAAAAAAAAATTAGAACACAAA
1 TTTTTTGGGCTTCCAGTTCT-TGTACTCATACCAGAATAAGA--AAAAAAAAATTAGAAC-CCAA
* * * ** * *
81378352 ATTAGATTAAAATATTTTTGAATTGACATT-AAAAATAACCTAGACGGTATACCTGCGATCCAGT
62 ATTAGATTTAAATAATTTGGAATTGACATTAAAAAAT-A--TTTACGATATACCTGTGATCCAGT
* * * * **
81378416 TGTATTAGACTGAATAC-TTGTGTTATGTTGTTA
124 TGTGTTAGGCTGAATGCATGGTGTTATGTCATTA
* ** *
81378449 TTTTTTGGGCTTCCAGTTCTTGTACTCATACCAGACTAAGACCAAAAAAATCAGAACCCAAATTA
1 TTTTTTGGGCTTCCAGTTCTTGTACTCATACCAGAATAAGAAAAAAAAAATTAGAACCCAAATTA
* * * * * * *
81378514 GATTTTAATAGTTTGGAATTGACAATGAAAAAATATTTATGATATACTTGTGTTCCCGTTGTGTT
66 GATTTAAATAATTTGGAATTGAC-ATTAAAAAATATTTACGATATACCTGTGATCCAGTTGTGTT
*
81378579 AGGTTGAATGCATG
130 AGGCTGAATGCATG
81378593 ATCTTTTGTT
Statistics
Matches: 237, Mismatches: 54, Indels: 26
0.75 0.17 0.08
Matches are distributed among these distances:
156 6 0.03
157 48 0.20
158 29 0.12
159 19 0.08
160 12 0.05
161 88 0.37
162 35 0.15
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (157 bp):
TTTTTTGGGCTTCCAGTTCTTGTACTCATACCAGAATAAGAAAAAAAAAATTAGAACCCAAATTA
GATTTAAATAATTTGGAATTGACATTAAAAAATATTTACGATATACCTGTGATCCAGTTGTGTTA
GGCTGAATGCATGGTGTTATGTCATTA
Found at i:81381028 original size:39 final size:39
Alignment explanation
Indices: 81380953--81381068 Score: 153
Period size: 39 Copynumber: 2.9 Consensus size: 39
81380943 TGACCTTCAA
* * *
81380953 CACCCTCATCACCTTTATTGCCAAGCAACCTCACCACCCT
1 CACCCTCACCACTTTTACTGCCAA-CAACCTCACCACCCT
*
81380993 CTCCCTCACCACTTTTACTGCCAACAACCTCACCACCCT
1 CACCCTCACCACTTTTACTGCCAACAACCTCACCACCCT
* *
81381032 CACCCTCGCCA-TATTTACTGCCAATAACCTCACCACC
1 CACCCTCACCACT-TTTACTGCCAACAACCTCACCACC
81381069 ATCGCCATAT
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 47 0.69
40 20 0.29
ACGTcount: A:0.25, C:0.48, G:0.04, T:0.22
Consensus pattern (39 bp):
CACCCTCACCACTTTTACTGCCAACAACCTCACCACCCT
Found at i:81381032 original size:33 final size:34
Alignment explanation
Indices: 81380998--81381109 Score: 129
Period size: 33 Copynumber: 3.2 Consensus size: 34
81380988 ACCCTCTCCC
* *
81380998 TCACCACT-TTTACTGCCAACAACCTCACCACCC
1 TCACCACTATTTACTGCCAATAACCTCACCACCA
*
81381031 TCACCCTCGCCATATTTACTGCCAATAACCTCACCACCA
1 TCA--C-C-AC-TATTTACTGCCAATAACCTCACCACCA
*
81381070 TCGCCA-TATTTACTGCCAATAACCTCACCACCA
1 TCACCACTATTTACTGCCAATAACCTCACCACCA
81381103 TCACCAC
1 TCACCAC
81381110 CTTCATTACC
Statistics
Matches: 66, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
33 35 0.53
35 1 0.02
36 2 0.03
37 2 0.03
38 1 0.02
39 25 0.38
ACGTcount: A:0.29, C:0.45, G:0.04, T:0.22
Consensus pattern (34 bp):
TCACCACTATTTACTGCCAATAACCTCACCACCA
Found at i:81381721 original size:48 final size:47
Alignment explanation
Indices: 81381620--81381721 Score: 116
Period size: 48 Copynumber: 2.1 Consensus size: 47
81381610 TCGTGCAGTG
* * * * * *
81381620 AAAAATCTAAAATTATTGCCCCCACTAAGAGTTATTACTAAGTACAT
1 AAAAATCTAAAATTATTGCCCCCACCAAGAGTTATCACAAAATAAAC
81381667 AGAAAATCTAAAATTATTGCCCCCACCAA-AGTTATCAGCAACAATAAAC
1 A-AAAATCTAAAATTATTGCCCCCACCAAGAGTTATCA-CAA-AATAAAC
81381716 AAAAAT
1 AAAAAT
81381722 AGTAACCAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
47 8 0.17
48 33 0.72
49 5 0.11
ACGTcount: A:0.47, C:0.21, G:0.08, T:0.25
Consensus pattern (47 bp):
AAAAATCTAAAATTATTGCCCCCACCAAGAGTTATCACAAAATAAAC
Found at i:81383340 original size:43 final size:43
Alignment explanation
Indices: 81383269--81383366 Score: 133
Period size: 43 Copynumber: 2.3 Consensus size: 43
81383259 CAATAAGGGG
** *
81383269 CACACGGCCAAGGCACACGCCCGTGGCCATAGGCCGTATCCTC
1 CACACGGCTGAGGCACACGCCCATGGCCATAGGCCGTATCCTC
* * * *
81383312 TACATGGCTGAGGCACACGCCCATGGCCATAGGCTGTGTCCTC
1 CACACGGCTGAGGCACACGCCCATGGCCATAGGCCGTATCCTC
81383355 CACACGGCTGAG
1 CACACGGCTGAG
81383367 ATATACGGCC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.20, C:0.37, G:0.28, T:0.15
Consensus pattern (43 bp):
CACACGGCTGAGGCACACGCCCATGGCCATAGGCCGTATCCTC
Found at i:81399452 original size:21 final size:21
Alignment explanation
Indices: 81399423--81399515 Score: 73
Period size: 22 Copynumber: 4.3 Consensus size: 21
81399413 CCTGTAGTAT
81399423 GGGCGTGTCCTAGAGTCACAC
1 GGGCGTGTCCTAGAGTCACAC
* * *
81399444 GGGCATGTCCCTTAGA-CCATAC
1 GGGCGTGT-CC-TAGAGTCACAC
* * *
81399466 GAGCGTGTGCTAGGGTCACAC
1 GGGCGTGTCCTAGAGTCACAC
*
81399487 GGGCGTGTCCTTTAG-GCCACAC
1 GGGCGTGTCC--TAGAGTCACAC
81399509 GGGCGTG
1 GGGCGTG
81399516 CGAGCCTTGT
Statistics
Matches: 55, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
20 3 0.05
21 20 0.36
22 25 0.45
23 7 0.13
ACGTcount: A:0.17, C:0.28, G:0.34, T:0.20
Consensus pattern (21 bp):
GGGCGTGTCCTAGAGTCACAC
Found at i:81399473 original size:43 final size:43
Alignment explanation
Indices: 81399425--81399515 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 43
81399415 TGTAGTATGG
*
81399425 GCGTGTCCTAGAGTCACACGGGCATGTCCCTTAGACCATACGA
1 GCGTGTCCTAGAGTCACACGGGCATGTCCCTTAGACCACACGA
* * * * * *
81399468 GCGTGTGCTAGGGTCACACGGGCGTGTCCTTTAGGCCACACGG
1 GCGTGTCCTAGAGTCACACGGGCATGTCCCTTAGACCACACGA
81399511 GCGTG
1 GCGTG
81399516 CGAGCCTTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.18, C:0.29, G:0.33, T:0.21
Consensus pattern (43 bp):
GCGTGTCCTAGAGTCACACGGGCATGTCCCTTAGACCACACGA
Found at i:81401349 original size:19 final size:19
Alignment explanation
Indices: 81401327--81401373 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
81401317 AGGACATGCC
*
81401327 CGTGTTCCCTTGACACGCT
1 CGTGTCCCCTTGACACGCT
81401346 CGTGTCCCCTTGACACGCT
1 CGTGTCCCCTTGACACGCT
*
81401365 CATGTCCCC
1 CGTGTCCCC
81401374 AGGCCATGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.11, C:0.43, G:0.19, T:0.28
Consensus pattern (19 bp):
CGTGTCCCCTTGACACGCT
Found at i:81402937 original size:48 final size:48
Alignment explanation
Indices: 81402804--81402983 Score: 168
Period size: 48 Copynumber: 3.8 Consensus size: 48
81402794 TCATATCAGC
** * *
81402804 GCCATATCCCAGATATGGTCTTACA-T-GAAATCACATACCGATGCCGAT
1 GCCATATCCCAGATATGGTCTTACACTGGCTAT--CATATCGACGCCGAT
* * * * *
81402852 GCCATATCCTAGATATGGTCTTACACTAGC-ACACATATCGAGGCCGCT
1 GCCATATCCCAGATATGGTCTTACACTGGCTA-TCATATCGACGCCGAT
* * * *
81402900 GCCATGTCCCAGATATGGTCTTACACTGGCTATCATATCAACACCGGT
1 GCCATATCCCAGATATGGTCTTACACTGGCTATCATATCGACGCCGAT
* * *
81402948 GCCATGTCCCAAACATGGTCTTACACTGGCTATCAT
1 GCCATATCCCAGATATGGTCTTACACTGGCTATCAT
81402984 TAACCATGGT
Statistics
Matches: 112, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
48 108 0.96
49 3 0.03
50 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (48 bp):
GCCATATCCCAGATATGGTCTTACACTGGCTATCATATCGACGCCGAT
Found at i:81414046 original size:41 final size:41
Alignment explanation
Indices: 81413970--81414083 Score: 137
Period size: 41 Copynumber: 2.8 Consensus size: 41
81413960 TGATATTCTG
* *
81413970 ATCTGTATTCTGTATCTGA-TTAGGCTGAGGCCCTAATATAT
1 ATCTG-ATTCTGTATCTGAGTTGGGCTAAGGCCCTAATATAT
*
81414011 -TCTTGACTT-TGTATCTGAGTTGGGCTAAGGCCCTAATTTAT
1 ATC-TGA-TTCTGTATCTGAGTTGGGCTAAGGCCCTAATATAT
*
81414052 ATCTGATTCTGTATCTGAG-TGAGCTAAGGCCC
1 ATCTGATTCTGTATCTGAGTTGGGCTAAGGCCC
81414084 ACACTAATTC
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
40 26 0.41
41 36 0.56
42 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (41 bp):
ATCTGATTCTGTATCTGAGTTGGGCTAAGGCCCTAATATAT
Found at i:81428130 original size:6 final size:6
Alignment explanation
Indices: 81428097--81428204 Score: 65
Period size: 6 Copynumber: 17.7 Consensus size: 6
81428087 AAAGAAATTG
* * * ** *
81428097 AAAG-A AAACAA AAAGAA AACGAA GAAGAA AAAGAA ATTGCA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
** ** * * *
81428144 AAAGAA ATCGAA AAAGTG AGAGAA AAAGAA AATGAAGA AAAGAA AATTGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA
81428195 AAAGAA AAAG
1 AAAGAA AAAG
81428205 CGAAAAAAGA
Statistics
Matches: 73, Mismatches: 26, Indels: 7
0.69 0.25 0.07
Matches are distributed among these distances:
5 3 0.04
6 59 0.81
7 7 0.10
8 4 0.05
ACGTcount: A:0.70, C:0.04, G:0.19, T:0.06
Consensus pattern (6 bp):
AAAGAA
Found at i:81428158 original size:18 final size:18
Alignment explanation
Indices: 81428101--81428159 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
81428091 AAATTGAAAG
* *
81428101 AAAACAAAAAGAAAACGA
1 AAAAGAAAAAGAAATCGA
* * *
81428119 AGAAGAAAAAGAAATTGC
1 AAAAGAAAAAGAAATCGA
81428137 AAAAGAAAAAGAAATCGA
1 AAAAGAAAAAGAAATCGA
81428155 AAAAG
1 AAAAG
81428160 TGAGAGAAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.71, C:0.07, G:0.17, T:0.05
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCGA
Found at i:81428186 original size:14 final size:13
Alignment explanation
Indices: 81428165--81428202 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
81428155 AAAAGTGAGA
81428165 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
81428177 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
81428192 GAAAAAGAAAA
1 GAAAAAGAAAA
81428203 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:81428216 original size:21 final size:21
Alignment explanation
Indices: 81428166--81428216 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
81428156 AAAGTGAGAG
*
81428166 AAAAAGAAAATGAAGAAAAGA
1 AAAAAGAAAAAGAAGAAAAGA
** *
81428187 AAATTGAAAAAGAA-AAAGCGA
1 AAAAAGAAAAAGAAGAAA-AGA
81428208 AAAAAGAAA
1 AAAAAGAAA
81428217 TTGAAAGAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.06
Consensus pattern (21 bp):
AAAAAGAAAAAGAAGAAAAGA
Found at i:81428220 original size:27 final size:27
Alignment explanation
Indices: 81428118--81428222 Score: 77
Period size: 27 Copynumber: 3.8 Consensus size: 27
81428108 AAAGAAAACG
* *
81428118 AAGAAGAAAAAGAAATTGCAAAAGAAA
1 AAGAAGAAAAAAAAATTGAAAAAGAAA
*** **
81428145 AAGAAATCGAAAAAGTGAGAGAAAAAGAAA
1 AAG-AA--GAAAAAAAAATTGAAAAAGAAA
* *
81428175 ATGAAGAAAAGAAAATTGAAAAAGAAA
1 AAGAAGAAAAAAAAATTGAAAAAGAAA
*
81428202 AAG-CGAAAAAAGAAATTGAAA
1 AAGAAGAAAAAA-AAATTGAAA
81428223 GAGAGCTTGA
Statistics
Matches: 59, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
26 6 0.10
27 30 0.51
28 2 0.03
29 2 0.03
30 19 0.32
ACGTcount: A:0.69, C:0.03, G:0.20, T:0.09
Consensus pattern (27 bp):
AAGAAGAAAAAAAAATTGAAAAAGAAA
Found at i:81428256 original size:33 final size:33
Alignment explanation
Indices: 81428219--81428281 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
81428209 AAAAGAAATT
81428219 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTGT-AAAAGAAA-CAAGTGAAAAA
*
81428252 GAAAGAGAGTCTGTAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTGTAAAAGAAACAAGTGAA
81428282 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.27, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTGTAAAAGAAACAAGTGAAAAA
Found at i:81433616 original size:24 final size:24
Alignment explanation
Indices: 81433567--81433619 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
81433557 ATCGAATTTA
*
81433567 CACACATAGTGCTCGTCACACACG
1 CACACATAGTGCTAGTCACACACG
81433591 CACACATAGTGCCATAGT-ACAC-CG
1 CACACATAGTG-C-TAGTCACACACG
81433615 CACAC
1 CACAC
81433620 TCAGTGCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 18 0.69
25 5 0.19
26 3 0.12
ACGTcount: A:0.32, C:0.38, G:0.15, T:0.15
Consensus pattern (24 bp):
CACACATAGTGCTAGTCACACACG
Found at i:81435201 original size:40 final size:40
Alignment explanation
Indices: 81435155--81435260 Score: 133
Period size: 41 Copynumber: 2.6 Consensus size: 40
81435145 TGATCTACAT
* * *
81435155 TCTGTATCTGATTAGGCTGAGGCCCTAATATAT-TCCTGAC
1 TCTGTATCTGAGTGGGCTAAGGCCCTAATATATAT-CTGAC
* * *
81435195 TCTGTATCTGAGGTGGGCTAAGACCCTAATTTATATCTGAT
1 TCTGTATCTGA-GTGGGCTAAGGCCCTAATATATATCTGAC
81435236 TCTGTATCTGAGTGGGCTAAGGCCC
1 TCTGTATCTGAGTGGGCTAAGGCCC
81435261 ACACTGATTC
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
40 24 0.42
41 32 0.56
42 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.34
Consensus pattern (40 bp):
TCTGTATCTGAGTGGGCTAAGGCCCTAATATATATCTGAC
Found at i:81447891 original size:28 final size:28
Alignment explanation
Indices: 81447858--81447915 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
81447848 TTTGAATCAT
* **
81447858 TCAATATTTCGCACACTAAGTTTCATTC
1 TCAATATCTCGCACACTAAGTGCCATTC
81447886 TCAATATCTCGCACACTAAGTGCCATTC
1 TCAATATCTCGCACACTAAGTGCCATTC
81447914 TC
1 TC
81447916 GCAATTTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (28 bp):
TCAATATCTCGCACACTAAGTGCCATTC
Found at i:81447929 original size:28 final size:26
Alignment explanation
Indices: 81447863--81447939 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 26
81447853 ATCATTCAAT
**
81447863 ATTTCGCACACTAAGTTTCATTCTCA
1 ATTTCGCACACTAAGTGCCATTCTCA
81447889 ATATCTCGCACACTAAGTGCCATTCTCGCA
1 AT-T-TCGCACACTAAGTGCCATTCT--CA
* *
81447919 ATTTCGTACACTGAGTGCCAT
1 ATTTCGCACACTAAGTGCCAT
81447940 ATTTGATTGC
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
26 2 0.05
27 1 0.02
28 35 0.81
29 1 0.02
30 4 0.09
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.32
Consensus pattern (26 bp):
ATTTCGCACACTAAGTGCCATTCTCA
Found at i:81457066 original size:17 final size:18
Alignment explanation
Indices: 81457038--81457071 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
81457028 CTGGTTAGTG
81457038 TTTAACTTGTTTTAATTT
1 TTTAACTTGTTTTAATTT
81457056 TTTAA-TTGTTTTAATT
1 TTTAACTTGTTTTAATT
81457072 GTGGGTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.68
Consensus pattern (18 bp):
TTTAACTTGTTTTAATTT
Found at i:81457067 original size:9 final size:9
Alignment explanation
Indices: 81457038--81457073 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
81457028 CTGGTTAGTG
81457038 TTTAACTTGT
1 TTTAA-TTGT
81457048 TTTAATT-T
1 TTTAATTGT
81457056 TTTAATTGT
1 TTTAATTGT
81457065 TTTAATTGT
1 TTTAATTGT
81457074 GGGTAAATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.32
9 12 0.48
10 5 0.20
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.67
Consensus pattern (9 bp):
TTTAATTGT
Found at i:81457517 original size:148 final size:147
Alignment explanation
Indices: 81457248--81457529 Score: 501
Period size: 148 Copynumber: 1.9 Consensus size: 147
81457238 GGCCATGTCG
* *
81457248 GGAAGTCCTTTAAAAAATGACCAATTTGACCTAAAAAACAAAGTTATGTATGAAAGTGCTCCAAA
1 GGAAGACCTTTAAAAAATGACCAATTTGACCCAAAAAACAAAGTTATGTATGAAAGTGCTCCAAA
* *
81457313 AAACCCTTAAGGGCCAAAGTGACCAAACACCCAAATGTTAGGGGCTAATTTTGTCATTATGCCAT
66 AAAACCTTAAGGGCCAAAGTGACCAAACACCCAAACGTTAGGGGCTAATTTTGTCATTATGCCAT
81457378 TCAACAAGTGTTCTATA
131 TCAACAAGTGTTCTATA
*
81457395 GGAAGACCTTTAAAAAATGACCAATTTGACCCAAAGAACAAAGTTATGTATGAAAGTGCTCCAAA
1 GGAAGACCTTTAAAAAATGACCAATTTGACCCAAAAAACAAAGTTATGTATGAAAGTGCTCC-AA
*
81457460 AAAAACCTTAAGGGCCAAAGTGACCCAACACCCAAACGTTAGGGGCTAATTTTGTCATTATGCCA
65 AAAAACCTTAAGGGCCAAAGTGACCAAACACCCAAACGTTAGGGGCTAATTTTGTCATTATGCCA
81457525 TTCAA
130 TTCAA
81457530 TAAACGTTCT
Statistics
Matches: 128, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
147 59 0.46
148 69 0.54
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (147 bp):
GGAAGACCTTTAAAAAATGACCAATTTGACCCAAAAAACAAAGTTATGTATGAAAGTGCTCCAAA
AAAACCTTAAGGGCCAAAGTGACCAAACACCCAAACGTTAGGGGCTAATTTTGTCATTATGCCAT
TCAACAAGTGTTCTATA
Found at i:81463179 original size:26 final size:26
Alignment explanation
Indices: 81463134--81463207 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
81463124 TATTTTCTAG
* *
81463134 AAATTTTACC-AGGGACAAAATCTTCA
1 AAATTTTACCAAGGG-TAAAATCATCA
81463160 AAATTTTACCAAGGGTAAAATCATCA
1 AAATTTTACCAAGGGTAAAATCATCA
* *
81463186 ACAAATTTACTAAGGGTAAAAT
1 A-AATTTTACCAAGGGTAAAAT
81463208 AAGGATGAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 20 0.48
27 22 0.52
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (26 bp):
AAATTTTACCAAGGGTAAAATCATCA
Found at i:81467860 original size:47 final size:48
Alignment explanation
Indices: 81467770--81467895 Score: 134
Period size: 47 Copynumber: 2.7 Consensus size: 48
81467760 GGGTAAGGTG
* * * **
81467770 CCGATGCCATGTCCCAGACACGGTCTTTCATTGGCTCATATCTC-AAA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAACTCATATCTCGAAA
* * *
81467817 TCGATGCCATGTCCCAGACATGGTCTTACACTAACT-ATCATCTCGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAACTCAT-ATCTCGAAA
*
81467865 CCAATG-CATGTCCCAGACAT-GTCTTACACTA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTA
81467896 TGTCACACAA
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
46 13 0.19
47 49 0.73
48 5 0.07
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAACTCATATCTCGAAA
Found at i:81476728 original size:20 final size:20
Alignment explanation
Indices: 81476703--81476740 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
81476693 CTGGCCCACA
**
81476703 AGGCCTATTTCGGCCCAACG
1 AGGCCTATAACGGCCCAACG
81476723 AGGCCTATAACGGCCCAA
1 AGGCCTATAACGGCCCAA
81476741 GCCCTCAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.24, T:0.16
Consensus pattern (20 bp):
AGGCCTATAACGGCCCAACG
Found at i:81482534 original size:16 final size:16
Alignment explanation
Indices: 81482513--81482545 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
81482503 TATAAATTAG
81482513 CTTAGTTTAATCTAAC
1 CTTAGTTTAATCTAAC
81482529 CTTAGTTTAATCTAAC
1 CTTAGTTTAATCTAAC
81482545 C
1 C
81482546 ATACCATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.42
Consensus pattern (16 bp):
CTTAGTTTAATCTAAC
Found at i:81497276 original size:17 final size:17
Alignment explanation
Indices: 81497254--81497290 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
81497244 TGACTGTGTA
81497254 TGTGTCCGATAATGCCT
1 TGTGTCCGATAATGCCT
81497271 TGTGTCCGATAATGCCT
1 TGTGTCCGATAATGCCT
81497288 TGT
1 TGT
81497291 ATCCTATCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (17 bp):
TGTGTCCGATAATGCCT
Found at i:81506823 original size:9 final size:9
Alignment explanation
Indices: 81506809--81506837 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
81506799 CTCTTGGTTA
81506809 TTCCTCTTC
1 TTCCTCTTC
81506818 TTCCTCTTC
1 TTCCTCTTC
81506827 TTCCTCTTC
1 TTCCTCTTC
81506836 TT
1 TT
81506838 TTCCTTTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (9 bp):
TTCCTCTTC
Found at i:81507307 original size:83 final size:84
Alignment explanation
Indices: 81507167--81507342 Score: 279
Period size: 83 Copynumber: 2.1 Consensus size: 84
81507157 AAGCTCCTAC
* *
81507167 GAAGACATCATCTTTGAGCCACTAAAGCACCAACTAAAGCTTCTTTAGAAAGCCAAGAAACATGC
1 GAAGACACCATCTTTGAGCCACTAAAGCACCAACTAAAGCTTCCTTAGAAAGCCAAGAAACATGC
81507232 CAA-AAAATATCAATGGAAA
66 CAAGAAAA-ATCAATGGAAA
*
81507251 GAAGACACCATCTTTGAGCCAC-CAAGCACCAACTAAAG-TTGCCTTAGAAAGCCAAGAAACATG
1 GAAGACACCATCTTTGAGCCACTAAAGCACCAACTAAAGCTT-CCTTAGAAAGCCAAGAAACATG
81507314 CCAAGAAAAATCAATGGAAA
65 CCAAGAAAAATCAATGGAAA
81507334 GAA-ACACCA
1 GAAGACACCA
81507343 AGAACACTGG
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
82 8 0.09
83 54 0.62
84 25 0.29
ACGTcount: A:0.45, C:0.23, G:0.15, T:0.16
Consensus pattern (84 bp):
GAAGACACCATCTTTGAGCCACTAAAGCACCAACTAAAGCTTCCTTAGAAAGCCAAGAAACATGC
CAAGAAAAATCAATGGAAA
Found at i:81509218 original size:51 final size:51
Alignment explanation
Indices: 81509149--81509250 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
81509139 AATAAATATT
81509149 TTATTCACCCTCAGTATGGGCATGATGGTGGTGGTGAGATGCAGTATTTTC
1 TTATTCACCCTCAGTATGGGCATGATGGTGGTGGTGAGATGCAGTATTTTC
*
81509200 TTATTCACCCTCAGTATGGGCATTATGGTGGTGGTGAGATGCAGTATTTTC
1 TTATTCACCCTCAGTATGGGCATGATGGTGGTGGTGAGATGCAGTATTTTC
81509251 CCAGATATGG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (51 bp):
TTATTCACCCTCAGTATGGGCATGATGGTGGTGGTGAGATGCAGTATTTTC
Found at i:81511537 original size:2 final size:2
Alignment explanation
Indices: 81511530--81511554 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
81511520 TTAAGGACCT
81511530 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
81511555 GTTGTAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:81519858 original size:39 final size:39
Alignment explanation
Indices: 81519804--81519884 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
81519794 AAGTGGTAAG
*
81519804 GTGTTAGCTTACCTTAGGGTCTTGTGTTTGAACTTCCAT
1 GTGTTAGCTTACCTTAGGGTCTTGTATTTGAACTTCCAT
81519843 GTGTTAGCTTACCTTAGGGTCTTGTATTTGAACTTCCAT
1 GTGTTAGCTTACCTTAGGGTCTTGTATTTGAACTTCCAT
81519882 GTG
1 GTG
81519885 AGTGAAATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.16, C:0.17, G:0.23, T:0.43
Consensus pattern (39 bp):
GTGTTAGCTTACCTTAGGGTCTTGTATTTGAACTTCCAT
Done.