Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 340 of 425
Found at i:105350843 original size:22 final size:21
Alignment explanation
Indices: 105350818--105350872 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
105350808 ATTTTAAGTT
*
105350818 TTATGGATTATGGGTTTAGGGA
1 TTATGGATTAAGGG-TTAGGGA
* *
105350840 TTATGGTTTAAGGGTTAGGGG
1 TTATGGATTAAGGGTTAGGGA
105350861 TCTA-GGATTAAG
1 T-TATGGATTAAG
105350873 AGTTTATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.24, C:0.02, G:0.36, T:0.38
Consensus pattern (21 bp):
TTATGGATTAAGGGTTAGGGA
Found at i:105351052 original size:14 final size:14
Alignment explanation
Indices: 105351035--105351072 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
105351025 ATCATTATAG
105351035 TTTAGGGTTTATGA
1 TTTAGGGTTTATGA
*
105351049 TTTAGGG-ATATGA
1 TTTAGGGTTTATGA
*
105351062 TTAAGGGTTTA
1 TTTAGGGTTTA
105351073 AGGTTTATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:105351184 original size:7 final size:7
Alignment explanation
Indices: 105351174--105351198 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
105351164 ATGGGTTCAG
105351174 GGTTAAT
1 GGTTAAT
105351181 GGTTAAT
1 GGTTAAT
105351188 GGTTAAT
1 GGTTAAT
105351195 GGTT
1 GGTT
105351199 TATATTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (7 bp):
GGTTAAT
Found at i:105351184 original size:14 final size:14
Alignment explanation
Indices: 105351134--105351198 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 14
105351124 GGTTTAAAGT
* *
105351134 TTAAGGGTTAGGGG
1 TTAATGGTTAAGGG
** *
105351148 TTAGGGGTTATGGG
1 TTAATGGTTAAGGG
*
105351162 TT-ATGGGTTCAGGG
1 TTAAT-GGTTAAGGG
*
105351176 TTAATGGTTAATGG
1 TTAATGGTTAAGGG
105351190 TTAATGGTT
1 TTAATGGTT
105351199 TATATTTTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
14 39 0.95
15 2 0.05
ACGTcount: A:0.20, C:0.02, G:0.40, T:0.38
Consensus pattern (14 bp):
TTAATGGTTAAGGG
Found at i:105351524 original size:11 final size:11
Alignment explanation
Indices: 105351508--105351537 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
105351498 TATTAGATTT
105351508 TAAAAAAATAA
1 TAAAAAAATAA
105351519 TAAAAAAATAA
1 TAAAAAAATAA
105351530 -AAAAAAAT
1 TAAAAAAAT
105351538 TGATAACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
TAAAAAAATAA
Found at i:105351567 original size:19 final size:19
Alignment explanation
Indices: 105351508--105351584 Score: 59
Period size: 19 Copynumber: 3.9 Consensus size: 19
105351498 TATTAGATTT
*
105351508 TAAAAA-AATAATAAAAAAA
1 TAAAAATAA-AATACAAAAA
*
105351527 TAAAAA-AAAATTGATAACAAA
1 TAAAAATAAAA-T-ACAA-AAA
*
105351548 TAAAAATGAAATACAAAAA
1 TAAAAATAAAATACAAAAA
* *
105351567 TGAAAATAAAATATAAAA
1 TAAAAATAAAATACAAAA
105351585 TAGAGATTAG
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
18 2 0.04
19 27 0.56
20 6 0.12
21 10 0.21
22 3 0.06
ACGTcount: A:0.75, C:0.03, G:0.04, T:0.18
Consensus pattern (19 bp):
TAAAAATAAAATACAAAAA
Found at i:105354563 original size:30 final size:30
Alignment explanation
Indices: 105354529--105354588 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
105354519 AGTTATGGTC
* * * *
105354529 TTTAGTGGCGTTTTTGAGAAAAGCGCCGCT
1 TTTAGCGGCGTTTGTGAAAAAAGCGACGCT
105354559 TTTAGCGGCGTTTGTGAAAAAAGCGACGCT
1 TTTAGCGGCGTTTGTGAAAAAAGCGACGCT
105354589 AAAGGTCATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (30 bp):
TTTAGCGGCGTTTGTGAAAAAAGCGACGCT
Found at i:105355645 original size:76 final size:76
Alignment explanation
Indices: 105355512--105355653 Score: 257
Period size: 76 Copynumber: 1.9 Consensus size: 76
105355502 ACCTAAATTT
* *
105355512 GGGTTTGACACATTTGAAAACTTTAGTTTCTCCCTCGATGTCCATAGTAAATTCTCCCCATCCTA
1 GGGTTTGACACATTTGAAAACTTTAGTTTCTCCCTCAATGTCCATAGTAAATGCTCCCCATCCTA
105355577 CATTTATGGTC
66 CATTTATGGTC
*
105355588 GGGTTTGACACATTTGAAAACTTTAGTTTCTCCCTCAATGTCCATAGTGAATGCTCCCCATCCTA
1 GGGTTTGACACATTTGAAAACTTTAGTTTCTCCCTCAATGTCCATAGTAAATGCTCCCCATCCTA
105355653 C
66 C
105355654 GTCTATAGTG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 63 1.00
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (76 bp):
GGGTTTGACACATTTGAAAACTTTAGTTTCTCCCTCAATGTCCATAGTAAATGCTCCCCATCCTA
CATTTATGGTC
Found at i:105361599 original size:47 final size:47
Alignment explanation
Indices: 105361545--105361782 Score: 336
Period size: 47 Copynumber: 5.1 Consensus size: 47
105361535 GATTTTATGA
** * * *
105361545 GATGAATGTGAATGTGTATATATGAGATAAGGCTTAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCAATGT
* * *
105361592 GATGAATGTGAACATGCATATGTGTGACAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCAATGT
105361639 GATGAATGTGAACATGCATATATGTGATAAGG-TCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCT-GAATGGCCAATGT
* *
105361686 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCAATGT
* *
105361733 GATGAATGTGAACATGCATATGTGTGATAAGG-TAGAATGGCTAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCT-GAATGGCCAATGT
105361780 GAT
1 GAT
105361783 AAACGTGGAA
Statistics
Matches: 173, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
47 173 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCAATGT
Found at i:105361646 original size:94 final size:94
Alignment explanation
Indices: 105361545--105361782 Score: 370
Period size: 94 Copynumber: 2.5 Consensus size: 94
105361535 GATTTTATGA
** * *
105361545 GATGAATGTGAATGTGTATATATGAGATAAGG-CTTAATGGCCAATGTGATGAATGTGAACATGC
1 GATGAATGTGAACATGCATATATGAGATAAGGTC-GAATGGCCAATGTGATGAATGTGAACATGC
105361609 ATATGTGTGACAAGGCCGAATGGCCAATGT
65 ATATGTGTGACAAGGCCGAATGGCCAATGT
*
105361639 GATGAATGTGAACATGCATATATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATATGAGATAAGGTCGAATGGCCAATGTGATGAATGTGAACATGCA
*
105361704 TATGTGTGATAAGGCCGAATGGCCAATGT
66 TATGTGTGACAAGGCCGAATGGCCAATGT
* * * *
105361733 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCTAATGTGAT
1 GATGAATGTGAACATGCATATATGAGATAAGGTCGAATGGCCAATGTGAT
105361783 AAACGTGGAA
Statistics
Matches: 134, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
94 133 0.99
95 1 0.01
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (94 bp):
GATGAATGTGAACATGCATATATGAGATAAGGTCGAATGGCCAATGTGATGAATGTGAACATGCA
TATGTGTGACAAGGCCGAATGGCCAATGT
Found at i:105361688 original size:22 final size:22
Alignment explanation
Indices: 105361660--105361735 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
105361650 ACATGCATAT
105361660 ATGTGATAAGGTCGAATGGCCA
1 ATGTGATAAGGTCGAATGGCCA
*
105361682 ATGTGATGAATGT-GAACAT-G-CA
1 ATGTGAT-AAGGTCG-A-ATGGCCA
*
105361704 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGTCGAATGGCCA
105361729 ATGTGAT
1 ATGTGAT
105361736 GAATGTGAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 16 0.38
23 9 0.21
24 8 0.19
25 9 0.21
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGTCGAATGGCCA
Found at i:105361815 original size:94 final size:94
Alignment explanation
Indices: 105361545--105361828 Score: 340
Period size: 94 Copynumber: 3.0 Consensus size: 94
105361535 GATTTTATGA
** * * * * *
105361545 GATGAATGTGAATGTGTATATATGAGATAAGGCT-TAATGGCCAATGTGATGAATGTGAACATGC
1 GATGAATGTGAACATGCATATATGTGATAAGG-TAGAATGGCCAATGTGATAAACGTGAACATGC
* *
105361609 ATATGTGTGACAAGGCCGAATGGCCAATGT
65 ATATATGTGAGAAGGCCGAATGGCCAATGT
* * *
105361639 GATGAATGTGAACATGCATATATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGTGATAAACGTGAACATGCA
* *
105361704 TATGTGTGATAAGGCCGAATGGCCAATGT
66 TATATGTGAGAAGGCCGAATGGCCAATGT
* * * *
105361733 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCTAATGTGATAAACGTGGAA-GTGT
1 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGTGATAAACGT-GAACATGC
* *
105361797 ATATATGTGGCGAA-GCCGAATGGCTAATGT
65 ATATATGT-GAGAAGGCCGAATGGCCAATGT
105361827 GA
1 GA
105361829 GATATGTATG
Statistics
Matches: 170, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
93 1 0.01
94 163 0.96
95 6 0.04
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (94 bp):
GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGTGATAAACGTGAACATGCA
TATATGTGAGAAGGCCGAATGGCCAATGT
Found at i:105361817 original size:141 final size:141
Alignment explanation
Indices: 105361545--105361828 Score: 365
Period size: 141 Copynumber: 2.0 Consensus size: 141
105361535 GATTTTATGA
** * **
105361545 GATGAATGTGAATGTGTATATATGAGATAAGGCTTAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
* * * * *
105361610 TATGTGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGTCGA
66 TATGTGTGACAAGGCAGAATGGCCAATGTGATAAACGTGAACATGCATATATGTGAGAAGGCCGA
105361675 ATGGCCAATGT
131 ATGGCCAATGT
* *
105361686 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
* * * * * *
105361751 TATGTGTGATAAGGTAGAATGGCTAATGTGATAAACGTGGAA-GTGTATATATGTGGCGAA-GCC
66 TATGTGTGACAAGGCAGAATGGCCAATGTGATAAACGT-GAACATGCATATATGT-GAGAAGGCC
*
105361814 GAATGGCTAATGT
129 GAATGGCCAATGT
105361827 GA
1 GA
105361829 GATATGTATG
Statistics
Matches: 122, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
141 116 0.95
142 6 0.05
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (141 bp):
GATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
TATGTGTGACAAGGCAGAATGGCCAATGTGATAAACGTGAACATGCATATATGTGAGAAGGCCGA
ATGGCCAATGT
Found at i:105367292 original size:23 final size:23
Alignment explanation
Indices: 105367266--105367309 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
105367256 TGAAGATTCC
*
105367266 TAATATGAAAAGATTTGATTTTT
1 TAATATGAAAAGATATGATTTTT
* *
105367289 TAATCTTAAAAGATATGATTT
1 TAATATGAAAAGATATGATTT
105367310 GTAGATTGCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.45
Consensus pattern (23 bp):
TAATATGAAAAGATATGATTTTT
Found at i:105369598 original size:19 final size:18
Alignment explanation
Indices: 105369556--105369655 Score: 67
Period size: 19 Copynumber: 5.3 Consensus size: 18
105369546 TAAAAATAAA
* *
105369556 TATAAAATTTGTAAAAAAT
1 TATAAAATTTAT-AAAATT
* *
105369575 AATAAAATTTGTAAAATT
1 TATAAAATTTATAAAATT
* *
105369593 T-TATAAATATAATAAAAAT
1 TATA-AAAT-TTATAAAATT
* *
105369612 TATAAAATATATAGAAATA
1 TATAAAATTTATA-AAATT
*
105369631 TATAAAAATTATAAAATTT
1 TATAAAATTTATAAAA-TT
105369650 TATAAA
1 TATAAA
105369656 GTCGTAAGAA
Statistics
Matches: 63, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
17 2 0.03
18 15 0.24
19 44 0.70
20 2 0.03
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
TATAAAATTTATAAAATT
Found at i:105369600 original size:9 final size:9
Alignment explanation
Indices: 105369556--105369655 Score: 67
Period size: 9 Copynumber: 10.7 Consensus size: 9
105369546 TAAAAATAAA
105369556 TATAAAATT
1 TATAAAATT
* *
105369565 TGTAAAAAAT
1 TAT-AAAATT
*
105369575 AATAAAATT
1 TATAAAATT
*
105369584 TGTAAAATT
1 TATAAAATT
105369593 T-TATAAATAT
1 TATA-AAAT-T
* *
105369603 AATAAAAAT
1 TATAAAATT
*
105369612 TATAAAATA
1 TATAAAATT
*
105369621 TATAGAAATA
1 TATA-AAATT
*
105369631 TATAAAAAT
1 TATAAAATT
105369640 TATAAAATTT
1 TATAAAA-TT
105369650 TATAAA
1 TATAAA
105369656 GTCGTAAGAA
Statistics
Matches: 70, Mismatches: 15, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
8 2 0.03
9 40 0.57
10 26 0.37
11 2 0.03
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (9 bp):
TATAAAATT
Found at i:105369604 original size:28 final size:28
Alignment explanation
Indices: 105369556--105369655 Score: 123
Period size: 28 Copynumber: 3.6 Consensus size: 28
105369546 TAAAAATAAA
* *
105369556 TATAAAATTTGTA-AAAAATAATAAAATT
1 TATAAAATTT-TATAAATATAATAAAAAT
*
105369584 TGTAAAATTTTATAAATATAATAAAAAT
1 TATAAAATTTTATAAATATAATAAAAAT
* *
105369612 TATAAAATATATAGAAATAT-ATAAAAAT
1 TATAAAAT-TTTATAAATATAATAAAAAT
105369640 TATAAAATTTTATAAA
1 TATAAAATTTTATAAA
105369656 GTCGTAAGAA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
27 8 0.13
28 45 0.73
29 9 0.15
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (28 bp):
TATAAAATTTTATAAATATAATAAAAAT
Found at i:105370111 original size:85 final size:84
Alignment explanation
Indices: 105370012--105370205 Score: 230
Period size: 85 Copynumber: 2.3 Consensus size: 84
105370002 TAAGAGTAGG
* *
105370012 GGCTTAATTGTTTTTTTGAAAAATTTTGAG-GGTCTTTTTGATGCATTTTAAAAGTTCAAGTATT
1 GGCTTAATTGTTTTTTTGAAAAAGTTTGAGAGAT-TTTTTGATGCATTTTAAAAGTTCAAGTATT
* *
105370076 CAATTGAGTG-AAAAAAATA
65 CAATTAAGTGCAAAAAAAAA
* * * * * *
105370095 GGCTTAATTGCTTTTTTTTGAAGAAGTTTGCGAGATTTTTTTATGTATTTTGAAAGTTCAAGTGT
1 GGCTTAATTG--TTTTTTTGAAAAAGTTTGAGAGATTTTTTGATGCATTTTAAAAGTTCAAGTAT
105370160 TCAATTAAGTGCAAAAAAAAA
64 TCAATTAAGTGCAAAAAAAAA
* *
105370181 GACTTAATTAATTTTTTTGAAAAAG
1 GGCTTAATT-GTTTTTTTGAAAAAG
105370206 CTTAATAGCT
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
83 10 0.11
85 65 0.70
86 18 0.19
ACGTcount: A:0.34, C:0.06, G:0.18, T:0.42
Consensus pattern (84 bp):
GGCTTAATTGTTTTTTTGAAAAAGTTTGAGAGATTTTTTGATGCATTTTAAAAGTTCAAGTATTC
AATTAAGTGCAAAAAAAAA
Found at i:105372084 original size:22 final size:21
Alignment explanation
Indices: 105372059--105372099 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
105372049 CATTGTATTT
* *
105372059 ATTGTTGATTTTCTGGTTTTTG
1 ATTGATGAATTTCT-GTTTTTG
105372081 ATTGATGAATTTCTGTTTT
1 ATTGATGAATTTCTGTTTT
105372100 GTAGGTGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.15, C:0.05, G:0.20, T:0.61
Consensus pattern (21 bp):
ATTGATGAATTTCTGTTTTTG
Found at i:105372287 original size:18 final size:18
Alignment explanation
Indices: 105372264--105372301 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
105372254 AGATCAGCAG
105372264 TGGTTTAACACCAGTCGA
1 TGGTTTAACACCAGTCGA
105372282 TGGTTTAACACCAGTCGA
1 TGGTTTAACACCAGTCGA
105372300 TG
1 TG
105372302 TTCCAGCAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (18 bp):
TGGTTTAACACCAGTCGA
Found at i:105376717 original size:126 final size:126
Alignment explanation
Indices: 105376491--105376873 Score: 615
Period size: 126 Copynumber: 3.0 Consensus size: 126
105376481 TTTCTACAAG
* * * * * *
105376491 AATAATTCTAAGCAGATGTTTCTTAAAAAATAGTGTCGGAAAACGCTTCAAGCAGGATGCACTGT
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTG-CCGAAAACGCTTCAAGCAGGATGCACTGT
* * *
105376556 CAGCAAAATTTCTGGGAAAAGCTCCCACGTGGACGCTCTTTTGCTACAATAATTCGTAGAAA
65 CAGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* *
105376618 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGCCGAAAACACTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTC
*
105376683 AGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCAACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* *
105376744 AATAATTCTGAATAGACGTTTCTGAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTATC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTC
*
105376809 AGCAAACTTTCTGGAAAAAGCTCCCACGTGGACGCT-TTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
105376869 AATAA
1 AATAA
105376874 GGCTATAAAT
Statistics
Matches: 238, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
125 28 0.12
126 181 0.76
127 29 0.12
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTC
AGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:105379493 original size:18 final size:18
Alignment explanation
Indices: 105379472--105379506 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
105379462 AAAAGGAAAC
*
105379472 ATATAAGGGTTAGGATAT
1 ATATAAGGGCTAGGATAT
105379490 ATATAAGGGCTAGGATA
1 ATATAAGGGCTAGGATA
105379507 CGTACCTGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.29, T:0.29
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAT
Found at i:105381169 original size:48 final size:48
Alignment explanation
Indices: 105381101--105381203 Score: 147
Period size: 48 Copynumber: 2.1 Consensus size: 48
105381091 ATGCAAACAT
*
105381101 CATAAATGAAAAAAAAATCAAGCAGTATTG-AAATTGTAATTATAA-TTG
1 CATAAATGAAAAAAAAATCAAACAGTATTGCAAATT-TAATTA-AATTTG
* *
105381149 CATAAATGAATAAAATATCAAACAGTATTGCAAATTTAATTAAATTTG
1 CATAAATGAAAAAAAAATCAAACAGTATTGCAAATTTAATTAAATTTG
105381197 CATAAAT
1 CATAAAT
105381204 TAAATTAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
47 2 0.04
48 43 0.86
49 5 0.10
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (48 bp):
CATAAATGAAAAAAAAATCAAACAGTATTGCAAATTTAATTAAATTTG
Found at i:105381214 original size:48 final size:47
Alignment explanation
Indices: 105381101--105381235 Score: 132
Period size: 48 Copynumber: 2.8 Consensus size: 47
105381091 ATGCAAACAT
* *
105381101 CATAAATGAAA-AAAAAATCAAGCAGTATTGAAATTGTAATTATAATTG
1 CATAAAT-AAATAAAATATCAAACAGTATTGAAATT-TAATTATAATTG
*
105381149 CATAAATGAATAAAATATCAAACAGTATTGCAAATTTAATTA-AATTTG
1 CATAAATAAATAAAATATCAAACAGTATTG-AAATTTAATTATAA-TTG
* * * *
105381197 CATAAATTAAAT-TAATATCGAATAATATTGAAAATTTAA
1 CATAAA-TAAATAAAATATCAAACAGTATTG-AAATTTAA
105381236 AATTATCACT
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
47 4 0.05
48 61 0.82
49 9 0.12
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.33
Consensus pattern (47 bp):
CATAAATAAATAAAATATCAAACAGTATTGAAATTTAATTATAATTG
Found at i:105383524 original size:14 final size:14
Alignment explanation
Indices: 105383482--105383527 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
105383472 TTAAAACAAA
105383482 TCAAA-TTTAAGTTT
1 TCAAATTTTAA-TTT
105383496 TCTAAATTTTAATTT
1 TC-AAATTTTAATTT
105383511 TCAAATTATT-ATTT
1 TCAAATT-TTAATTT
105383525 TCA
1 TCA
105383528 TACACTTCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 14 0.48
15 10 0.34
16 5 0.17
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (14 bp):
TCAAATTTTAATTT
Found at i:105384116 original size:20 final size:20
Alignment explanation
Indices: 105384074--105384116 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
105384064 GGACTAATTA
* ** *
105384074 GAATTAAAACGGATTAATTT
1 GAATTAAAACAGACAAATAT
105384094 GAATTAAAACAGACAAATAT
1 GAATTAAAACAGACAAATAT
105384114 GAA
1 GAA
105384117 AATTTTGAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (20 bp):
GAATTAAAACAGACAAATAT
Found at i:105386844 original size:26 final size:26
Alignment explanation
Indices: 105386814--105386869 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
105386804 TGAAATTCCC
105386814 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
105386840 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
105386866 ATCA
1 ATCA
105386870 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:105393026 original size:13 final size:13
Alignment explanation
Indices: 105393008--105393051 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
105392998 AATGTGTAAA
105393008 ATGAAATGGTTAT
1 ATGAAATGGTTAT
*
105393021 ATGAAATGGATAT
1 ATGAAATGGTTAT
**
105393034 ACAAAATGGTTAT
1 ATGAAATGGTTAT
105393047 ATGAA
1 ATGAA
105393052 TCAATTATAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.45, C:0.02, G:0.20, T:0.32
Consensus pattern (13 bp):
ATGAAATGGTTAT
Found at i:105393444 original size:17 final size:17
Alignment explanation
Indices: 105393422--105393455 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
105393412 CTTGTAGATC
*
105393422 ATTGGAAGTTTATGTCG
1 ATTGGAAGTTTAAGTCG
105393439 ATTGGAAGTTTAAGTCG
1 ATTGGAAGTTTAAGTCG
105393456 GAGCTCACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.29, T:0.38
Consensus pattern (17 bp):
ATTGGAAGTTTAAGTCG
Found at i:105404802 original size:49 final size:50
Alignment explanation
Indices: 105404722--105404819 Score: 162
Period size: 49 Copynumber: 2.0 Consensus size: 50
105404712 ATAATATGAA
*
105404722 CATACTGAAAGATAGCAAATAAGCTTCAGCACTAGTGAGTGAAATCACAG
1 CATACTGAAAGATAGCAAATAAGCTTCAGCACTACTGAGTGAAATCACAG
* *
105404772 CATATTGAAAGAT-GCAAATAAGCTTTAGCACTACTGAGTGAAATCACA
1 CATACTGAAAGATAGCAAATAAGCTTCAGCACTACTGAGTGAAATCACA
105404820 TGCCTTGTGC
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 33 0.73
50 12 0.27
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.22
Consensus pattern (50 bp):
CATACTGAAAGATAGCAAATAAGCTTCAGCACTACTGAGTGAAATCACAG
Found at i:105407485 original size:4 final size:4
Alignment explanation
Indices: 105407470--105407514 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
105407460 TCCTTAGCCA
* * * *
105407470 TATG TTTG TATG TATG TATG TATG TATG TTTA TATG TATG AATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
105407515 GTTTAGGTAC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.24, C:0.00, G:0.22, T:0.53
Consensus pattern (4 bp):
TATG
Found at i:105407485 original size:12 final size:12
Alignment explanation
Indices: 105407470--105407509 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
105407460 TCCTTAGCCA
105407470 TATGTTTGTATG
1 TATGTTTGTATG
*
105407482 TATGTATGTATG
1 TATGTTTGTATG
*
105407494 TATGTTTATATG
1 TATGTTTGTATG
105407506 TATG
1 TATG
105407510 AATGTGTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.55
Consensus pattern (12 bp):
TATGTTTGTATG
Found at i:105417880 original size:8 final size:9
Alignment explanation
Indices: 105417849--105417890 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
105417839 CTTCATTTAT
105417849 TTAATATAA
1 TTAATATAA
*
105417858 TAAATA-AA
1 TTAATATAA
105417866 TTAATATAA
1 TTAATATAA
105417875 TTATATATTAA
1 TTA-ATA-TAA
105417886 TTAAT
1 TTAAT
105417891 CAAAATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 7 0.25
9 10 0.36
10 5 0.18
11 6 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
TTAATATAA
Found at i:105418774 original size:35 final size:35
Alignment explanation
Indices: 105418698--105418774 Score: 100
Period size: 36 Copynumber: 2.2 Consensus size: 35
105418688 CACCCCATGT
* * * * *
105418698 CAAATAAAAAATTTTGTTTAAAAATTTAAAAAAAG
1 CAAAAAAAAAACTCTGTTTAAAAATTAAAAAAAAA
105418733 CTAAAAAAAAAACTCTGTTTAAAAATTAAAAAAAAA
1 C-AAAAAAAAAACTCTGTTTAAAAATTAAAAAAAAA
105418769 CAAAAA
1 CAAAAA
105418775 CCTAAAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
35 6 0.17
36 30 0.83
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.25
Consensus pattern (35 bp):
CAAAAAAAAAACTCTGTTTAAAAATTAAAAAAAAA
Found at i:105418857 original size:27 final size:27
Alignment explanation
Indices: 105418826--105418912 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 27
105418816 GAGGGGGTGC
*
105418826 CAGAGGTGGCATTGGTTGTGCCTCTGA
1 CAGAGGTGGCACTGGTTGTGCCTCTGA
* **
105418853 CAGAGGCGGCACTGGTTGCACCTCTAGA
1 CAGAGGTGGCACTGGTTGTGCCTCT-GA
* * *
105418881 -AGAGATGACACTGGTTGTGCCTCTGG
1 CAGAGGTGGCACTGGTTGTGCCTCTGA
105418907 CAGAGG
1 CAGAGG
105418913 CAGCACCTTG
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
26 1 0.02
27 44 0.94
28 2 0.04
ACGTcount: A:0.20, C:0.22, G:0.36, T:0.23
Consensus pattern (27 bp):
CAGAGGTGGCACTGGTTGTGCCTCTGA
Found at i:105418965 original size:3 final size:3
Alignment explanation
Indices: 105418945--105418985 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
105418935 TACCTTTTCA
* *
105418945 CTT CTC CTT CTC CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
105418986 CTTATCCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (3 bp):
CTT
Found at i:105418966 original size:12 final size:12
Alignment explanation
Indices: 105418945--105419018 Score: 69
Period size: 12 Copynumber: 6.2 Consensus size: 12
105418935 TACCTTTTCA
*
105418945 CTTCTCCTTCTC
1 CTTCTTCTTCTC
*
105418957 CTTCTTCTTCTT
1 CTTCTTCTTCTC
*
105418969 CTTCTTCTTCTT
1 CTTCTTCTTCTC
*
105418981 CTTC-TCTTATC
1 CTTCTTCTTCTC
* *
105418992 CTTTTTTTTTCTC
1 C-TTCTTCTTCTC
*
105419005 ATTCTTCTTCTC
1 CTTCTTCTTCTC
105419017 CT
1 CT
105419019 CCTTGCTATT
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
11 6 0.12
12 38 0.78
13 5 0.10
ACGTcount: A:0.03, C:0.35, G:0.00, T:0.62
Consensus pattern (12 bp):
CTTCTTCTTCTC
Found at i:105419215 original size:22 final size:22
Alignment explanation
Indices: 105419171--105419215 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
105419161 CCCCTCAATC
**
105419171 TGCCAGCTTTTGTTTTTTTTTT
1 TGCCAGCTTTTGTTTTTGCTTT
105419193 TGCCAGCTTTT-TTTTTAGCTTT
1 TGCCAGCTTTTGTTTTT-GCTTT
105419215 T
1 T
105419216 TGTTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.07, C:0.16, G:0.13, T:0.64
Consensus pattern (22 bp):
TGCCAGCTTTTGTTTTTGCTTT
Found at i:105420350 original size:21 final size:21
Alignment explanation
Indices: 105420255--105420352 Score: 72
Period size: 21 Copynumber: 4.7 Consensus size: 21
105420245 ACGAGCTTTT
* *
105420255 GTTCAACTCATATGAGTTTCC
1 GTTCAACTCTTATGAGCTTCC
* **
105420276 GTTCAACTCTTTTGAGCTTTT
1 GTTCAACTCTTATGAGCTTCC
* * * *
105420297 GTTTAAC-CATTATGGGTTTTC
1 GTTCAACTC-TTATGAGCTTCC
* *
105420318 ATTCAGCTCTTATGAGCTTCC
1 GTTCAACTCTTATGAGCTTCC
*
105420339 GTTCAACCCTTATG
1 GTTCAACTCTTATG
105420353 GGTTTTTGTT
Statistics
Matches: 56, Mismatches: 19, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
20 1 0.02
21 54 0.96
22 1 0.02
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.43
Consensus pattern (21 bp):
GTTCAACTCTTATGAGCTTCC
Found at i:105420385 original size:42 final size:42
Alignment explanation
Indices: 105420247--105420385 Score: 127
Period size: 42 Copynumber: 3.3 Consensus size: 42
105420237 TAGCTCTCAC
* * * * * *
105420247 GAGCTTTTGTTCAACTCA-TATGAGTTTCCGTTCAACTCTTTT
1 GAGCTTTTGTTCAAC-CATTATGGGTTTTCATTCAGCACTTAT
* *
105420289 GAGCTTTTGTTTAACCATTATGGGTTTTCATTCAGCTCTTAT
1 GAGCTTTTGTTCAACCATTATGGGTTTTCATTCAGCACTTAT
** * ** *
105420331 GAGCTTCCGTTCAACCCTTATGGGTTTTTGTTTAGCACTTAT
1 GAGCTTTTGTTCAACCATTATGGGTTTTCATTCAGCACTTAT
*
105420373 GTGCTTTTGTTCA
1 GAGCTTTTGTTCA
105420386 GCTTTCGGGC
Statistics
Matches: 79, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 2 0.03
42 77 0.97
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.46
Consensus pattern (42 bp):
GAGCTTTTGTTCAACCATTATGGGTTTTCATTCAGCACTTAT
Found at i:105420386 original size:63 final size:62
Alignment explanation
Indices: 105420249--105420388 Score: 156
Period size: 63 Copynumber: 2.2 Consensus size: 62
105420239 GCTCTCACGA
* * * *
105420249 GCTTTTGTTCAACTCATATGAGTTTCCGTTCAACTCTTTTGAGCTTTTGTTTAACCATTATG
1 GCTTTTGTTCAGCTCATATGAGCTTCCGTTCAACCCTTATGAGCTTTTGTTTAACCATTATG
* * * * * *
105420311 GGTTTTCATTCAGCTCTTATGAGCTTCCGTTCAACCCTTATGGGTTTTTGTTT-AGCACTTATG
1 GCTTTT-GTTCAGCTCATATGAGCTTCCGTTCAACCCTTATGAGCTTTTGTTTAACCA-TTATG
105420374 TGCTTTTGTTCAGCT
1 -GCTTTTGTTCAGCT
105420389 TTCGGGCTTC
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
62 8 0.13
63 50 0.79
64 5 0.08
ACGTcount: A:0.16, C:0.20, G:0.17, T:0.46
Consensus pattern (62 bp):
GCTTTTGTTCAGCTCATATGAGCTTCCGTTCAACCCTTATGAGCTTTTGTTTAACCATTATG
Found at i:105421048 original size:14 final size:14
Alignment explanation
Indices: 105421029--105421056 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
105421019 TTGGTCAAAT
105421029 CCTTGTAATAGCCC
1 CCTTGTAATAGCCC
105421043 CCTTGTAATAGCCC
1 CCTTGTAATAGCCC
105421057 GTTTTTGGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.36, G:0.14, T:0.29
Consensus pattern (14 bp):
CCTTGTAATAGCCC
Found at i:105430403 original size:14 final size:14
Alignment explanation
Indices: 105430384--105430418 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
105430374 GAAATTGCAA
* *
105430384 GAAGCTTTAGGTAC
1 GAAGCTATAAGTAC
105430398 GAAGCTATAAGTAC
1 GAAGCTATAAGTAC
105430412 GAAGCTA
1 GAAGCTA
105430419 CATTTTAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (14 bp):
GAAGCTATAAGTAC
Found at i:105435364 original size:30 final size:32
Alignment explanation
Indices: 105435330--105435389 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 32
105435320 TACATAATCA
*
105435330 AATCAAAATTAAAA-TTT-CATATATATATTG
1 AATCAAAATCAAAATTTTACATATATATATTG
*
105435360 AATCACAATCAAAATTTTACATATATATAT
1 AATCAAAATCAAAATTTTACATATATATAT
105435390 ATTAAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 12 0.46
31 3 0.12
32 11 0.42
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (32 bp):
AATCAAAATCAAAATTTTACATATATATATTG
Found at i:105443443 original size:8 final size:8
Alignment explanation
Indices: 105443413--105443442 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
105443403 ACATTTTATG
105443413 TTTTTTTC
1 TTTTTTTC
105443421 TTTTTTTC
1 TTTTTTTC
105443429 TTTTTTT-
1 TTTTTTTC
105443436 TTTTTTT
1 TTTTTTT
105443443 TGTGTGTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (8 bp):
TTTTTTTC
Found at i:105443443 original size:16 final size:16
Alignment explanation
Indices: 105443413--105443442 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
105443403 ACATTTTATG
105443413 TTTTTTTCTTTTTTTC
1 TTTTTTTCTTTTTTTC
105443429 TTTTTTT-TTTTTTT
1 TTTTTTTCTTTTTTT
105443443 TGTGTGTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (16 bp):
TTTTTTTCTTTTTTTC
Found at i:105453099 original size:58 final size:58
Alignment explanation
Indices: 105452979--105453100 Score: 133
Period size: 58 Copynumber: 2.1 Consensus size: 58
105452969 AGAAATAGTG
* * * * *
105452979 AAAATGGAGAAATGGGAAACATTTAGAAATGATTATGGTTTTCTTCAAAGTGAAATTG
1 AAAATGGAGAAATGGGAAACATTTAGAAATGATGATGGTTTTCTCCAAAATGAAAATA
* *
105453037 AAAATGGAGAAAT-GGAATCATTTGGAAATGAATGA-GGTTTT-TCCCAAAATAGAAAATA
1 AAAATGGAGAAATGGGAAACATTTAGAAATG-ATGATGGTTTTCT-CCAAAAT-GAAAATA
105453095 AAAATG
1 AAAATG
105453101 ATCTGAAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
56 1 0.02
57 26 0.48
58 27 0.50
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.28
Consensus pattern (58 bp):
AAAATGGAGAAATGGGAAACATTTAGAAATGATGATGGTTTTCTCCAAAATGAAAATA
Found at i:105456570 original size:44 final size:44
Alignment explanation
Indices: 105456521--105456612 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 44
105456511 CAGCCTGGCG
* *
105456521 ACACGGTCGTGTAACCCTATATTCGAATTCTACACAGTATGAGA
1 ACACGGACCTGTAACCCTATATTCGAATTCTACACAGTATGAGA
* * * * ** *
105456565 ACACGGACCTGTGATCCTATATTTGAATTGTACATGGTATGAGC
1 ACACGGACCTGTAACCCTATATTCGAATTCTACACAGTATGAGA
105456609 ACAC
1 ACAC
105456613 AGACATGTGG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (44 bp):
ACACGGACCTGTAACCCTATATTCGAATTCTACACAGTATGAGA
Found at i:105461062 original size:11 final size:11
Alignment explanation
Indices: 105461046--105461070 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
105461036 CTTCAAATAT
105461046 CATTACCAAAA
1 CATTACCAAAA
105461057 CATTACCAAAA
1 CATTACCAAAA
105461068 CAT
1 CAT
105461071 AGCTCATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.20
Consensus pattern (11 bp):
CATTACCAAAA
Found at i:105468685 original size:43 final size:42
Alignment explanation
Indices: 105468638--105468772 Score: 100
Period size: 41 Copynumber: 3.2 Consensus size: 42
105468628 CCAGACGTGA
*
105468638 TCTTACATGTAATCAAATATCGATGCCACTGTCCTAGACAGGG
1 TCTTACATGTAATCAAATATCGATGCCA-TGTCCCAGACAGGG
* * *
105468681 TCTTACACT-AAATCAAATA--GATGTCGATGTCCCAGACATGG
1 TCTTACA-TGTAATCAAATATCGATG-CCATGTCCCAGACAGGG
* * **
105468722 TCTTACACGTAAATCTCAA-ATCGATGCCAACATCCCAGAC-GTGG
1 TCTTACATGT-AATC-AAATATCGATGCC-ATGTCCCAGACAG-GG
105468766 TCTTACA
1 TCTTACA
105468773 CAAAATCACA
Statistics
Matches: 72, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
41 23 0.32
42 7 0.10
43 19 0.26
44 23 0.32
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (42 bp):
TCTTACATGTAATCAAATATCGATGCCATGTCCCAGACAGGG
Found at i:105468724 original size:41 final size:41
Alignment explanation
Indices: 105468617--105468780 Score: 132
Period size: 43 Copynumber: 3.9 Consensus size: 41
105468607 AGCTAGTACA
** * * *
105468617 ATGCCAACATCCCAGACGTGATCTTACA-TGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACT-AAATCAAATA--G
* * *
105468660 ATGCCACTGTCCTAGACAGGGTCTTACACTAAATCAAATAG
1 ATGCCAATGTCCCAGACATGGTCTTACACTAAATCAAATAG
* * *
105468701 ATGTCGATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACAC-TAAA--TCAAATAG
** * *
105468745 ATGCCAACATCCCAGACGTGGTCTTACACAAAATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACTAAATCA
105468781 CATATCGGAA
Statistics
Matches: 97, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
41 28 0.29
42 4 0.04
43 33 0.34
44 32 0.33
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACATGGTCTTACACTAAATCAAATAG
Found at i:105472121 original size:33 final size:33
Alignment explanation
Indices: 105472079--105472145 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
105472069 TCAACTCGGA
105472079 TACCAGATGCTGACACAACATGTCCTAGAAAAC
1 TACCAGATGCTGACACAACATGTCCTAGAAAAC
105472112 TACCAGATGCTGACACAACATGTCCTAGAAAAC
1 TACCAGATGCTGACACAACATGTCCTAGAAAAC
105472145 T
1 T
105472146 GACTTCTCGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.39, C:0.27, G:0.15, T:0.19
Consensus pattern (33 bp):
TACCAGATGCTGACACAACATGTCCTAGAAAAC
Found at i:105474390 original size:14 final size:16
Alignment explanation
Indices: 105474356--105474386 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
105474346 TATGTAAACT
*
105474356 TTATTTATGTTTTATA
1 TTATATATGTTTTATA
105474372 TTATATATGTTTTAT
1 TTATATATGTTTTAT
105474387 TATAATAGTT
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:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (16 bp):
TTATATATGTTTTATA
Found at i:105486699 original size:26 final size:26
Alignment explanation
Indices: 105486663--105486772 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
105486653 CATGAAATTC
105486663 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
105486689 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
105486715 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
105486741 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
105486767 TTATCA
1 TTATCA
105486773 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:105488450 original size:42 final size:42
Alignment explanation
Indices: 105488414--105488495 Score: 130
Period size: 42 Copynumber: 1.9 Consensus size: 42
105488404 TCTTACATGT
105488414 ATCAAATATCGATACC-ACTGTCCCAGACAGGGTCTTACACAAA
1 ATCAAATA-CGATACCGA-TGTCCCAGACAGGGTCTTACACAAA
*
105488457 ATCAAATACGATACCGATGTCCCAGACATGGTCTTACAC
1 ATCAAATACGATACCGATGTCCCAGACAGGGTCTTACAC
105488496 GTAAATCTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
42 28 0.76
43 9 0.24
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (42 bp):
ATCAAATACGATACCGATGTCCCAGACAGGGTCTTACACAAA
Found at i:105491308 original size:17 final size:16
Alignment explanation
Indices: 105491264--105491310 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
105491254 TTTTTATTAA
105491264 TTTATCAATTAATTACC
1 TTTAT-AATTAATTACC
*
105491281 TATT-TACTTAATTAACC
1 T-TTATAATTAATT-ACC
105491298 TTTATAATTAATT
1 TTTATAATTAATT
105491311 CAAATTACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 9 0.36
17 14 0.56
18 2 0.08
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTATAATTAATTACC
Found at i:105497979 original size:2 final size:2
Alignment explanation
Indices: 105497972--105498002 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
105497962 GAAATTGGAT
105497972 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
105498003 TAAATAGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:105506262 original size:2 final size:2
Alignment explanation
Indices: 105506250--105506283 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
105506240 CAAACATGTG
105506250 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
105506284 TATTAAGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:105507141 original size:8 final size:8
Alignment explanation
Indices: 105507128--105507196 Score: 66
Period size: 8 Copynumber: 8.0 Consensus size: 8
105507118 ATTGAATTGA
105507128 ATATATGT
1 ATATATGT
105507136 ATATATGT
1 ATATATGT
*
105507144 GATAATGTGT
1 -AT-ATATGT
*
105507154 ATATATGGA
1 ATATAT-GT
105507163 ATATATGT
1 ATATATGT
105507171 ATATATGT
1 ATATATGT
*
105507179 GATAATGTGT
1 -AT-ATATGT
105507189 ATATATGT
1 ATATATGT
105507197 GAAATTGAGA
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
8 25 0.50
9 15 0.30
10 10 0.20
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.45
Consensus pattern (8 bp):
ATATATGT
Found at i:105507156 original size:18 final size:18
Alignment explanation
Indices: 105507133--105507198 Score: 100
Period size: 18 Copynumber: 3.7 Consensus size: 18
105507123 ATTGAATATA
105507133 TGTATATATGTGATAATG
1 TGTATATATGTGATAATG
*
105507151 TGTATATATG-GA-ATATA
1 TGTATATATGTGATA-ATG
105507168 TGTATATATGTGATAATG
1 TGTATATATGTGATAATG
105507186 TGTATATATGTGA
1 TGTATATATGTGA
105507199 AATTGAGACA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.02
17 14 0.33
18 27 0.63
19 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (18 bp):
TGTATATATGTGATAATG
Found at i:105507166 original size:35 final size:35
Alignment explanation
Indices: 105507126--105507195 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
105507116 AGATTGAATT
105507126 GAATATATGTATATATGTGATAATGTGTATATATG
1 GAATATATGTATATATGTGATAATGTGTATATATG
105507161 GAATATATGTATATATGTGATAATGTGTATATATG
1 GAATATATGTATATATGTGATAATGTGTATATATG
105507196 TGAAATTGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (35 bp):
GAATATATGTATATATGTGATAATGTGTATATATG
Found at i:105507593 original size:20 final size:20
Alignment explanation
Indices: 105507542--105507599 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
105507532 AATGGCAAAG
*
105507542 ATGATG-AATG-AATATGAG
1 ATGATGAAATGTAATATGAA
*
105507560 ATGA-GAATTGTAATATGAA
1 ATGATGAAATGTAATATGAA
*
105507579 ATGATGAAATGTAATGTGAA
1 ATGATGAAATGTAATATGAA
105507599 A
1 A
105507600 CTTGAAATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 1 0.03
18 7 0.21
19 11 0.33
20 14 0.42
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (20 bp):
ATGATGAAATGTAATATGAA
Found at i:105507695 original size:2 final size:2
Alignment explanation
Indices: 105507688--105507717 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
105507678 AATGCCTTTG
105507688 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
105507718 TAACATATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:105507828 original size:27 final size:28
Alignment explanation
Indices: 105507780--105507834 Score: 103
Period size: 27 Copynumber: 2.0 Consensus size: 28
105507770 GATTTGAAAC
105507780 ATAAGTGCATAATATTTCTTGTTACATT
1 ATAAGTGCATAATATTTCTTGTTACATT
105507808 ATAAGTGCAT-ATATTTCTTGTTACATT
1 ATAAGTGCATAATATTTCTTGTTACATT
105507835 CTCACACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (28 bp):
ATAAGTGCATAATATTTCTTGTTACATT
Found at i:105512589 original size:5 final size:5
Alignment explanation
Indices: 105512579--105512603 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
105512569 TTTGTGGAGG
105512579 AGACA AGACA AGACA AGACA AGACA
1 AGACA AGACA AGACA AGACA AGACA
105512604 GTTTTATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.20, T:0.00
Consensus pattern (5 bp):
AGACA
Found at i:105512977 original size:2 final size:2
Alignment explanation
Indices: 105512970--105513003 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
105512960 CATTTTAACA
*
105512970 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
105513004 AAGGGAGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:105516777 original size:11 final size:11
Alignment explanation
Indices: 105516745--105516778 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
105516735 TTTTTGTTCC
105516745 TTTCTTC-TCT
1 TTTCTTCTTCT
105516755 TTTCTATCTTCT
1 TTTCT-TCTTCT
105516767 TTTCTTCTTCT
1 TTTCTTCTTCT
105516778 T
1 T
105516779 CTCCCTATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.23
11 9 0.41
12 8 0.36
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTCTTCTTCT
Found at i:105518275 original size:25 final size:23
Alignment explanation
Indices: 105518247--105518340 Score: 66
Period size: 25 Copynumber: 3.9 Consensus size: 23
105518237 AATGTGTAAA
*
105518247 AAAAGTTTGAAATATATAATATAT
1 AAAA-TTTGAAATAAATAATATAT
105518271 GAAAATATT-AAAGTAAATAATATAT
1 -AAAAT-TTGAAA-TAAATAATATAT
*
105518296 AAAAATTTGAAATGAGAATTATATA-
1 -AAAATTTGAAAT-A-AATAATATAT
* * *
105518321 AAAAGTTAAAATAGATAATA
1 AAAATTTGAAATAAATAATA
105518341 ACCAAAAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
22 5 0.09
23 1 0.02
24 17 0.30
25 26 0.46
26 8 0.14
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.32
Consensus pattern (23 bp):
AAAATTTGAAATAAATAATATAT
Found at i:105518470 original size:15 final size:15
Alignment explanation
Indices: 105518446--105518491 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
105518436 ATATAAATAG
*
105518446 AAATAAAAATATAAT
1 AAATAGAAATATAAT
105518461 AAATAGAAATATAAT
1 AAATAGAAATATAAT
105518476 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
105518492 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:105518494 original size:44 final size:44
Alignment explanation
Indices: 105518440--105518526 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
105518430 ATTAGGATAT
105518440 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
105518484 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTA
105518527 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:105518511 original size:15 final size:14
Alignment explanation
Indices: 105518438--105518563 Score: 64
Period size: 15 Copynumber: 8.7 Consensus size: 14
105518428 ATATTAGGAT
*
105518438 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
105518451 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
105518467 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
105518481 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
105518496 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
105518511 ATAAATAATAATAG
1 ATAAATAAAAATAG
*
105518525 TATTAGAATAACAA-A-
1 -A-TA-AATAAAAATAG
*
105518540 ATAAATATAAATAG
1 ATAAATAAAAATAG
105518554 A-AACATAAAA
1 ATAA-ATAAAA
105518564 TAATAGCAAT
Statistics
Matches: 89, Mismatches: 12, Indels: 23
0.72 0.10 0.19
Matches are distributed among these distances:
12 6 0.07
13 8 0.09
14 27 0.30
15 35 0.39
16 6 0.07
17 7 0.08
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.25
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:105518516 original size:29 final size:28
Alignment explanation
Indices: 105518459--105518563 Score: 67
Period size: 29 Copynumber: 3.6 Consensus size: 28
105518449 TAAAAATATA
* * *
105518459 ATAAATAGAAATATAATAATAGTAGAAAT
1 ATAAATAGAAACATAAAAATAG-ATAAAT
105518488 ATAAATAGATAA-ATAAAAATTAGATAAAT
1 ATAAATAGA-AACATAAAAA-TAGATAAAT
*
105518517 A-ATAATAGTATTAGA-ATAACAA-A-ATAAAT
1 ATA-AATAG-A--A-ACATAAAAATAGATAAAT
105518546 ATAAATAGAAACATAAAA
1 ATAAATAGAAACATAAAA
105518564 TAATAGCAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
25 1 0.02
26 6 0.09
28 2 0.03
29 38 0.59
30 8 0.12
31 2 0.03
32 7 0.11
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.26
Consensus pattern (28 bp):
ATAAATAGAAACATAAAAATAGATAAAT
Found at i:105519812 original size:86 final size:86
Alignment explanation
Indices: 105519525--105520289 Score: 1108
Period size: 86 Copynumber: 8.9 Consensus size: 86
105519515 TTACCCTACT
** * * * * **
105519525 GTTAAGGCTCATTGTCCTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATATGTA--ACTCAG
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTA-GG-GATAAGATCTGTATTTTTCAG
105519588 CCTGTTACCCTACTGCTTAGGGG
64 CCTGTTACCCTACTGCTTAGGGG
* * *
105519611 GTTAAGGCTCACTGTCTTCAATCTGCTCCACTACTGTTTAGGGATAAGATCTGTA-CTTTCAGCC
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTTCAGCC
105519675 TGTTACCCTACTGCTTAGGGG
66 TGTTACCCTACTGCTTAGGGG
* * * *
105519696 GTTAGGGCTTGCTGTCTTCAATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTTCAACC
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTTCAGCC
*
105519761 TGTTACCCTACTGCTTAGGAG
66 TGTTACCCTACTGCTTAGGGG
* * *
105519782 GTTAAGGCTCACCGTCTTCGATCTACTCCACTACTGTTTAGGGATAAGATCTGTATTTTTCAGCC
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTTCAGCC
*
105519847 TGTTACCCTACTGCTTAAGGG
66 TGTTACCCTACTGCTTAGGGG
* *
105519868 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTATTGTTTAGGGATAAGATCTGTATTTTCCAGCC
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTTCAGCC
105519933 TGTTACCCTACTGCTTAGGGG
66 TGTTACCCTACTGCTTAGGGG
* * * *
105519954 GTTAAGGTTCGCTGTCTTCGATCTGCTCCACTATTGTTTAGGGATAATATCTGTATTTTCCAGCC
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTTCAGCC
*
105520019 TGTTGCCCTACTGCTTAGGGG
66 TGTTACCCTACTGCTTAGGGG
* * *
105520040 GTTAAGGCTCGCTGTCTTCGATCTACTCCACTACTGTTTAGGGATAATATCTGTATTTTCCAGCC
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTTCAGCC
*
105520105 TATTACCCTACTGCTTAGGGG
66 TGTTACCCTACTGCTTAGGGG
* * * * * *
105520126 ATCAAGGCTAGTTGTCTTCGATCTGTTCCACTACTATTTAGGGATAAGATCTGTATTTTT-AGCC
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTTCAGCC
105520190 TGTTACCCTACTGCTTAGGGG
66 TGTTACCCTACTGCTTAGGGG
* * * *
105520211 GTTAAGGCTCGTTGTCTTTGATCTGTTCCACTACTGTTTATGGATAAGATCTGTA-TTTTCAGCC
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTTCAGCC
105520275 TGTTACCCTACTGCT
66 TGTTACCCTACTGCT
105520290 CGCTGTTTTC
Statistics
Matches: 623, Mismatches: 53, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
84 16 0.03
85 173 0.28
86 434 0.70
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (86 bp):
GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTTCAGCC
TGTTACCCTACTGCTTAGGGG
Found at i:105520519 original size:84 final size:84
Alignment explanation
Indices: 105520378--105520772 Score: 603
Period size: 84 Copynumber: 4.7 Consensus size: 84
105520368 AAGGTTCGCT
* * *
105520378 CCTGTTACCCTACTACTTAGGGGGTTAAGGCTTACTGTCTTCGATCTGCACCACTACTGTTTAGG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
*
105520443 GGAGATCTGTATTTTCTAG
66 GGAGATCTGTATTTTCCAG
*
105520462 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAAG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
*
105520527 GGAGATCTATATTTTCCAG
66 GGAGATCTGTATTTTCCAG
* * * *
105520546 CCTATTACCCTACTGCTTAAGGGGTTAAGGCTTGCTGTCTTCAATCTGCTCCACTACTATTTAGG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
105520611 GGAGATCTGTATTTTCCAG
66 GGAGATCTGTATTTTCCAG
* * *
105520630 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTATCTTTGAACTGCTCCACTACTGTTTAGG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
105520695 GGAGATCTGTATTCTT-CAG
66 GGAGATCTGTATT-TTCCAG
* * ** *
105520714 CCCGTTACCCTACTACTTAGGGGGGTTAAGGCTCACTGTCTTCGATCCGCTCCACTACT
1 CCTGTTACCCTACTGCTTA-GGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACT
105520773 ACTTAGGAAG
Statistics
Matches: 282, Mismatches: 27, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
84 247 0.88
85 35 0.12
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (84 bp):
CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
GGAGATCTGTATTTTCCAG
Found at i:105520852 original size:44 final size:46
Alignment explanation
Indices: 105520777--105520878 Score: 124
Period size: 44 Copynumber: 2.3 Consensus size: 46
105520767 ACTACTACTT
*
105520777 AGGAAGATAAGA-TCTGTAATCTTCAGCCTGCT-TTCTTGCTACCTC
1 AGGAAGATAAGACTCTGTAATCTTCAACCTGCTCTT-TTGCTACCTC
* *
105520822 AGGAAGATAAGACT-TGT-ATCTTCAATCTGCTCTTTTGCTATCTC
1 AGGAAGATAAGACTCTGTAATCTTCAACCTGCTCTTTTGCTACCTC
105520866 AGAGAA-ATAAGAC
1 AG-GAAGATAAGAC
105520879 CGGTGGCTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
44 30 0.59
45 20 0.39
46 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (46 bp):
AGGAAGATAAGACTCTGTAATCTTCAACCTGCTCTTTTGCTACCTC
Found at i:105520977 original size:45 final size:44
Alignment explanation
Indices: 105520890--105520986 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 44
105520880 GGTGGCTAAA
* *
105520890 ATCTACTCCATAGCCGATACATAGAGATAAGACTCGTCATTTTC
1 ATCTGCTCCATAGCCGATACATAGAGATAAGACTCGTAATTTTC
*
105520934 GATCTGCTCCATAGCCGATACATGGAGATAAGA-TCTGTAATTTTC
1 -ATCTGCTCCATAGCCGATACATAGAGATAAGACTC-GTAATTTTC
105520979 AGTCTGCT
1 A-TCTGCT
105520987 TTCTTGCTAC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
44 3 0.06
45 44 0.94
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCATAGCCGATACATAGAGATAAGACTCGTAATTTTC
Found at i:105521080 original size:178 final size:178
Alignment explanation
Indices: 105520781--105521194 Score: 625
Period size: 178 Copynumber: 2.3 Consensus size: 178
105520771 CTACTTAGGA
* *
105520781 AGATAAGATCTGTAATCTTCAGCCTGCTTTCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
1 AGATAAGATCTGTAATTTTCAGTCTGCTTTCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
* ** *
105520846 ATCTGCTCTTTTGCTATCTCAGAGAAATAAGACCGGTGGCTAAAATCTACTCCATAGCCGATACA
66 AGCTGCTCTCCTGCTACCTCAGAGAAATAAGACCGGTGGCTAAAATCTACTCCATAGCCGATACA
* *
105520911 TAGAGATAAGACTC-GTCATTTTCGATCTGCTCCATAGCCGATACATGG
131 TAGAGATAAAACTCACT-ATTTTCGATCTGCTCCATAGCCGATACATGG
105520959 AGATAAGATCTGTAATTTTCAGTCTGCTTTCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
1 AGATAAGATCTGTAATTTTCAGTCTGCTTTCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
* * * * *
105521024 AGCTGTTCTCCTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATATA
66 AGCTGCTCTCCTGCTACCTCAGAGAAATAAGACCGGTGGCTAAAATCTACTCCATAGCCGATACA
* ** *
105521089 TGGAGATAAAACTCACTATTTTTTATCTGCTCCATAGCCGATACGTGG
131 TAGAGATAAAACTCACTATTTTCGATCTGCTCCATAGCCGATACATGG
* *
105521137 AGATAAGATCTGTAATTTTCAGTCTGC-TTCTTTGCTACTTTAGGAAGATAAGACTTGT
1 AGATAAGATCTGTAATTTTCAGTCTGCTTTC-TTGCTACCTCAGGAAGATAAGACTTGT
105521195 GAATTCACCG
Statistics
Matches: 215, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
177 3 0.01
178 211 0.98
179 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (178 bp):
AGATAAGATCTGTAATTTTCAGTCTGCTTTCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
AGCTGCTCTCCTGCTACCTCAGAGAAATAAGACCGGTGGCTAAAATCTACTCCATAGCCGATACA
TAGAGATAAAACTCACTATTTTCGATCTGCTCCATAGCCGATACATGG
Found at i:105521163 original size:45 final size:45
Alignment explanation
Indices: 105521068--105521164 Score: 115
Period size: 45 Copynumber: 2.2 Consensus size: 45
105521058 GGTGGCTAAA
* * *
105521068 ATCTGCTCCATAGCCGATATATGGAGATAAAACTCACTATTTTTT
1 ATCTGCTCCATAGCCGATACATGGAGATAAAACTCACTAATTTTC
* * **
105521113 ATCTGCTCCATAGCCGATACGTGGAGATAAGA-TCTGTAATTTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAAACTCACTAATTTTC
105521157 AGTCTGCT
1 A-TCTGCT
105521165 TCTTTGCTAC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 9 0.20
45 35 0.80
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.34
Consensus pattern (45 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAAACTCACTAATTTTC
Found at i:105527136 original size:27 final size:27
Alignment explanation
Indices: 105527105--105527157 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
105527095 AGCCAAATTT
* *
105527105 TATATGAATAATTTTA-AGGAAAATATA
1 TATAT-AATAAGTTTAGAAGAAAATATA
105527132 TATATAATAAGTTTAGAAGAAAATAT
1 TATATAATAAGTTTAGAAGAAAATAT
105527158 TTACATAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (27 bp):
TATATAATAAGTTTAGAAGAAAATATA
Found at i:105527198 original size:28 final size:24
Alignment explanation
Indices: 105527167--105527219 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 24
105527157 TTTACATAAC
105527167 AGATTTGAAAAGAAAACATATATTAAAT
1 AGATTT-AAAAG-AAAC-TATA-TAAAT
105527195 AGATTTAAAAGAAACTATATAAAT
1 AGATTTAAAAGAAACTATATAAAT
105527219 A
1 A
105527220 AAATAACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 6 0.24
25 4 0.16
26 4 0.16
27 5 0.20
28 6 0.24
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.28
Consensus pattern (24 bp):
AGATTTAAAAGAAACTATATAAAT
Found at i:105527221 original size:28 final size:28
Alignment explanation
Indices: 105527167--105527221 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
105527157 TTTACATAAC
*
105527167 AGATTTGAAAAGAAAACATATATTAAAT
1 AGATTTGAAAAGAAAACATATAATAAAT
105527195 AGATTT-AAAAG-AAACTATATAAATAAA
1 AGATTTGAAAAGAAAAC-ATAT-AATAAA
105527222 ATAACATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 4 0.17
27 9 0.38
28 11 0.46
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.27
Consensus pattern (28 bp):
AGATTTGAAAAGAAAACATATAATAAAT
Found at i:105529834 original size:125 final size:125
Alignment explanation
Indices: 105529694--105529924 Score: 300
Period size: 125 Copynumber: 1.8 Consensus size: 125
105529684 TCATGCATTT
** * * ** * * * * *
105529694 GAAATTTCAAAAGGATATTTGGCTATTTGGTCAAATGGCAAGTCGAAATCTAACACGATTGGGCA
1 GAAATTTCAAAAGGATATTCAGCTATTCGGTCAAACGAAAAATCAAAACCCAACACGATAGGGCA
105529759 CGATTTCTCGAATTTCCAAACACAAAATATTGCCTCATTTTAATTTAAGAAAACATGGAC
66 CGATTTCTCGAATTTCCAAACACAAAATATTGCCTCATTTTAATTTAAGAAAACATGGAC
* ** *
105529819 GAAATTTCAAAAGGATATTCAGTTATTCGGTTGAACGAAAAATCAAAACCCAACACGGTAGGGCA
1 GAAATTTCAAAAGGATATTCAGCTATTCGGTCAAACGAAAAATCAAAACCCAACACGATAGGGCA
* * *
105529884 CGATTTCTCGAATTTCCAAACACGAAATATTTCCTTATTTT
66 CGATTTCTCGAATTTCCAAACACAAAATATTGCCTCATTTT
105529925 GAGAGGTTTT
Statistics
Matches: 88, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
125 88 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (125 bp):
GAAATTTCAAAAGGATATTCAGCTATTCGGTCAAACGAAAAATCAAAACCCAACACGATAGGGCA
CGATTTCTCGAATTTCCAAACACAAAATATTGCCTCATTTTAATTTAAGAAAACATGGAC
Found at i:105530297 original size:15 final size:15
Alignment explanation
Indices: 105530273--105530318 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
105530263 ATATAAATAG
*
105530273 AAATAAAAATATAAT
1 AAATAGAAATATAAT
105530288 AAATAGAAATATAAT
1 AAATAGAAATATAAT
105530303 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
105530319 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:105530306 original size:23 final size:23
Alignment explanation
Indices: 105530240--105530306 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
105530230 TATAAGAAAA
*
105530240 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
105530260 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
105530283 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
105530306 A
1 A
105530307 GTAGAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:105530321 original size:44 final size:44
Alignment explanation
Indices: 105530267--105530353 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
105530257 ATTAGTATAT
105530267 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
105530311 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTA
105530354 TTAGAAAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:105530338 original size:15 final size:14
Alignment explanation
Indices: 105530265--105530393 Score: 63
Period size: 15 Copynumber: 8.9 Consensus size: 14
105530255 ATATTAGTAT
*
105530265 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
105530278 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
105530294 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
105530308 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
105530323 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
105530338 ATAAATAATAATAG
1 ATAAATAAAAATAG
105530352 TATTAGAA-AAACAA-A-
1 -A-TA-AATAAA-AATAG
*
105530367 ATAAATATAAATAG
1 ATAAATAAAAATAG
105530381 A-AACATAAAAATA
1 ATAA-ATAAAAATA
105530394 ATGGCAATAA
Statistics
Matches: 91, Mismatches: 11, Indels: 27
0.71 0.09 0.21
Matches are distributed among these distances:
12 4 0.04
13 10 0.11
14 30 0.33
15 35 0.38
16 8 0.09
17 4 0.04
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.25
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:105530343 original size:29 final size:29
Alignment explanation
Indices: 105530286--105530392 Score: 76
Period size: 29 Copynumber: 3.7 Consensus size: 29
105530276 TAAAAATATA
* * *
105530286 ATAAATAGAAATATAATAA-TAGTAGAAAT
1 ATAAATAGAAACATAAAAATTAG-ATAAAT
105530315 ATAAATAGATAA-ATAAAAATTAGATAAAT
1 ATAAATAGA-AACATAAAAATTAGATAAAT
* ** * ** *
105530344 A-ATAATAGTATTAGAAAAACAAAATAAAT
1 ATA-AATAGAAACATAAAAATTAGATAAAT
105530373 ATAAATAGAAACATAAAAAT
1 ATAAATAGAAACATAAAAAT
105530393 AATGGCAATA
Statistics
Matches: 60, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
28 2 0.03
29 52 0.87
30 6 0.10
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.25
Consensus pattern (29 bp):
ATAAATAGAAACATAAAAATTAGATAAAT
Found at i:105536435 original size:19 final size:21
Alignment explanation
Indices: 105536411--105536455 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
105536401 CAGGAAAAGA
105536411 ATAAATTTATATTA-AA-TAT
1 ATAAATTTATATTATAATTAT
*
105536430 ATAAATTTATTTTATAATTAT
1 ATAAATTTATATTATAATTAT
105536451 ATAAA
1 ATAAA
105536456 AATTTTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.57
20 2 0.09
21 8 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAAATTTATATTATAATTAT
Found at i:105536505 original size:21 final size:21
Alignment explanation
Indices: 105536479--105536519 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
105536469 AAAAAATATA
*
105536479 TAAAATTAT-TAAATATTAAAT
1 TAAAATAATATAAA-ATTAAAT
105536500 TAAAATAATATAAAATTAAA
1 TAAAATAATATAAAATTAAA
105536520 ATGGGCGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAAATAATATAAAATTAAAT
Found at i:105536521 original size:16 final size:16
Alignment explanation
Indices: 105536471--105536521 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
105536461 TAATAAATAA
105536471 AAAAT-ATATAAAATT
1 AAAATAATATAAAATT
** *
105536486 ATTA-AATATTAAATT
1 AAAATAATATAAAATT
105536501 AAAATAATATAAAATT
1 AAAATAATATAAAATT
105536517 AAAAT
1 AAAAT
105536522 GGGCGAAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 13 0.46
16 15 0.54
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATAATATAAAATT
Found at i:105542898 original size:46 final size:44
Alignment explanation
Indices: 105542812--105542903 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 44
105542802 ATATCTATTT
* *
105542812 CATTCAACCAAACACAATAATATTATTACAGATTTATTCCATTA
1 CATTCAACCAAACACAATAATATGATTACAGATCTATTCCATTA
* *
105542856 CATTCAACCAAACA-ATTGAATTACTGATTACAGCTCTATTCCATTA
1 CATTCAACCAAACACAAT-AA-TA-TGATTACAGATCTATTCCATTA
105542902 CA
1 CA
105542904 GCTCTATTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 2 0.05
44 16 0.39
45 2 0.05
46 21 0.51
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (44 bp):
CATTCAACCAAACACAATAATATGATTACAGATCTATTCCATTA
Found at i:105542903 original size:16 final size:16
Alignment explanation
Indices: 105542882--105542932 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
105542872 TGAATTACTG
105542882 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
105542898 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCC
*
105542914 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
105542930 ATT
1 ATT
105542933 CCAGTGAACC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.25, C:0.29, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:105546811 original size:14 final size:14
Alignment explanation
Indices: 105546792--105546819 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
105546782 GGGTAGAAAC
105546792 CCTAAACCTATAGT
1 CCTAAACCTATAGT
105546806 CCTAAACCTATAGT
1 CCTAAACCTATAGT
105546820 TTAATTATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (14 bp):
CCTAAACCTATAGT
Found at i:105552054 original size:2 final size:2
Alignment explanation
Indices: 105552049--105552080 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
105552039 AAAAAAAAAA
105552049 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
105552081 GCAGTCACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:105554239 original size:29 final size:30
Alignment explanation
Indices: 105554175--105554239 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
105554165 TTATGGATTC
*
105554175 AAAGTGTGAATATTCAAAAGTTGAGAGGTT
1 AAAGTGTGAATATTCAAAAGTTGAGAGGCT
*
105554205 ACAGTGT-AA-ATTCAAAAAGTTGA-AGGGCT
1 AAAGTGTGAATATTC-AAAAGTTGAGA-GGCT
105554234 AAAGTG
1 AAAGTG
105554240 AAAAAAACCA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 5 0.17
29 19 0.63
30 6 0.20
ACGTcount: A:0.42, C:0.06, G:0.26, T:0.26
Consensus pattern (30 bp):
AAAGTGTGAATATTCAAAAGTTGAGAGGCT
Found at i:105557281 original size:129 final size:129
Alignment explanation
Indices: 105557051--105557291 Score: 340
Period size: 129 Copynumber: 1.9 Consensus size: 129
105557041 AAAAGCAACA
** * *
105557051 AAGCTTGTTAAGTCATCAGAGAGGCTTTTACCTAAGGAAGAGGTGACTTGTGCATTAGACTTCGA
1 AAGCTTGTTAAGTCATCAGAGAGGCTTCCACCCAAGGAAGAGGTGACTTGTGCATCAGACTTCGA
** *
105557116 GGAAAAAGTAGCTATGCAAACATTGAAACTAAGATCAATGAGGCTCAGTTTTGGGAAAGTGACG
66 GGAAAAAGTAGCTACACAAACATTGAAACGAAGATCAATGAGGCTCAGTTTTGGGAAAGTGACG
* * * * *
105557180 AAGCTTGTTGAGTCATCGGAGAGGCTTCCACCCAAGGTATAGGTGAGTTGTGCATCAGACTTCGA
1 AAGCTTGTTAAGTCATCAGAGAGGCTTCCACCCAAGGAAGAGGTGACTTGTGCATCAGACTTCGA
* *
105557245 GGAAAAAGTA-CTGACACAAATATTGAAACGATGATCAATGAGGCTCA
66 GGAAAAAGTAGCT-ACACAAACATTGAAACGAAGATCAATGAGGCTCA
105557292 TTTCTGTTGA
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
128 2 0.02
129 95 0.98
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (129 bp):
AAGCTTGTTAAGTCATCAGAGAGGCTTCCACCCAAGGAAGAGGTGACTTGTGCATCAGACTTCGA
GGAAAAAGTAGCTACACAAACATTGAAACGAAGATCAATGAGGCTCAGTTTTGGGAAAGTGACG
Found at i:105557764 original size:12 final size:12
Alignment explanation
Indices: 105557747--105557771 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
105557737 ATTTAATCAC
105557747 TTTAATATTAAA
1 TTTAATATTAAA
105557759 TTTAATATTAAA
1 TTTAATATTAAA
105557771 T
1 T
105557772 ATTATTAAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:105557857 original size:20 final size:18
Alignment explanation
Indices: 105557810--105557858 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
105557800 AAAAATAAAC
105557810 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
105557827 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
105557847 ATTAAATTAATA
1 ATTAAATTAATA
105557859 AAATAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:105559523 original size:16 final size:16
Alignment explanation
Indices: 105559502--105559535 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
105559492 CTATGCATGC
*
105559502 AAAATATAAAAGACAA
1 AAAATACAAAAGACAA
105559518 AAAATACAAAAGACAA
1 AAAATACAAAAGACAA
105559534 AA
1 AA
105559536 TAGTGAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.76, C:0.09, G:0.06, T:0.09
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:105563760 original size:2 final size:2
Alignment explanation
Indices: 105563753--105563794 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
105563743 TTTAAATTTA
* *
105563753 AT AT AT AT AT -T AA AT TT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
105563793 AT
1 AT
105563795 GATTCATATC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:105563767 original size:18 final size:18
Alignment explanation
Indices: 105563744--105563780 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
105563734 TTATGAATCT
105563744 TTAAATTTAATATATATA
1 TTAAATTTAATATATATA
105563762 TTAAATTTAATATATATA
1 TTAAATTTAATATATATA
105563780 T
1 T
105563781 ATATATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAAATTTAATATATATA
Found at i:105564139 original size:9 final size:9
Alignment explanation
Indices: 105564119--105564165 Score: 67
Period size: 9 Copynumber: 5.2 Consensus size: 9
105564109 AGTATAAAAC
*
105564119 TAACCAAAT
1 TAACCGAAT
*
105564128 TAATCGAAT
1 TAACCGAAT
105564137 TAACCGAAT
1 TAACCGAAT
*
105564146 TACCCGAAT
1 TAACCGAAT
105564155 TAACCGAAT
1 TAACCGAAT
105564164 TA
1 TA
105564166 TTTGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.45, C:0.21, G:0.09, T:0.26
Consensus pattern (9 bp):
TAACCGAAT
Found at i:105564246 original size:13 final size:13
Alignment explanation
Indices: 105564228--105564258 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
105564218 TTTATGATTT
105564228 GGTTGGGTAATTG
1 GGTTGGGTAATTG
*
105564241 GGTTGGGTACTTG
1 GGTTGGGTAATTG
105564254 GGTTG
1 GGTTG
105564259 ATATATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.10, C:0.03, G:0.48, T:0.39
Consensus pattern (13 bp):
GGTTGGGTAATTG
Found at i:105566351 original size:26 final size:26
Alignment explanation
Indices: 105566322--105566378 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
105566312 AGATTAATTA
*
105566322 TTTAATAA-TAAATTTTAATTGATAGT
1 TTTAA-AATTAAATTTTAATTGATAAT
** *
105566348 TTTAAAATTATTTTTTAATTTATAAT
1 TTTAAAATTAAATTTTAATTGATAAT
105566374 TTTAA
1 TTTAA
105566379 GTGAAAGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (26 bp):
TTTAAAATTAAATTTTAATTGATAAT
Found at i:105566537 original size:2 final size:2
Alignment explanation
Indices: 105566530--105566555 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
105566520 ACCCTTACGA
105566530 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
105566556 TGATTCCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:105575837 original size:16 final size:16
Alignment explanation
Indices: 105575786--105575840 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
105575776 GGCATAATTT
*
105575786 AAAATAAAAATTTTAA
1 AAAATAAATATTTTAA
* *
105575802 GAAAATTGAATATTAT-A
1 -AAAA-TAAATATTTTAA
105575819 AAAATAAATATTTTAA
1 AAAATAAATATTTTAA
105575835 AAAATA
1 AAAATA
105575841 TTAGTTTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 8 0.26
16 11 0.35
17 5 0.16
18 7 0.23
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (16 bp):
AAAATAAATATTTTAA
Found at i:105577028 original size:19 final size:16
Alignment explanation
Indices: 105576992--105577024 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
105576982 ATTCCTTTTG
105576992 AATATTATTTAAAACT
1 AATATTATTTAAAACT
105577008 AATATTATTTAAAACT
1 AATATTATTTAAAACT
105577024 A
1 A
105577025 CTAAGTTGTC
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:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
AATATTATTTAAAACT
Found at i:105582568 original size:48 final size:48
Alignment explanation
Indices: 105582504--105582707 Score: 176
Period size: 48 Copynumber: 4.4 Consensus size: 48
105582494 GGTTATGTGT
* *
105582504 GATCCCATGTAAGACCAT-TTTGGGACATGGCATTTTGCATCGTTATGA
1 GATCCCATGTAAGACCATGTTTGGGACATGGC-TTTGGCATCGATATGA
105582552 GATCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCATCGATATGTA
1 GATCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCATCGATATG-A
* * * * * * *
105582601 -ATTTCC-TATAAGACCATAG-CTAGG---TTG--TTGCCATCGATCT-A
1 GA-TCCCATGTAAGACCAT-GTTTGGGACATGGCTTTGGCATCGATATGA
* * *
105582642 CGATCCCATGTAAGACCATGTTTGGAACATGGCATTGGCATCGATATGT
1 -GATCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCATCGATATGA
*
105582691 GATCCCATGTAATACCA
1 GATCCCATGTAAGACCA
105582708 CATCCGGGAT
Statistics
Matches: 123, Mismatches: 19, Indels: 28
0.72 0.11 0.16
Matches are distributed among these distances:
41 1 0.01
42 4 0.03
43 24 0.20
45 2 0.02
46 2 0.02
48 72 0.59
49 18 0.15
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCATCGATATGA
Found at i:105590463 original size:74 final size:74
Alignment explanation
Indices: 105590342--105590493 Score: 277
Period size: 74 Copynumber: 2.1 Consensus size: 74
105590332 ATGTAAGACC
*
105590342 ATGTCTAGGACATGGCACTGGCATCGTTATGAGATCCCATATAAGACCATGTTTGGGATATGACT
1 ATGTCTAGGACATGGCACTGGCATCGTTATGAGATCCCATATAAGACCATGTTTGGGATATGAAT
105590407 TTGGCATCG
66 TTGGCATCG
* *
105590416 ATGTCTAGGACATGGCACTGGCATCGTTTTGAGATCTCATATAAGACCATGTTTGGGATATGAAT
1 ATGTCTAGGACATGGCACTGGCATCGTTATGAGATCCCATATAAGACCATGTTTGGGATATGAAT
105590481 TTGGCATCG
66 TTGGCATCG
105590490 ATGT
1 ATGT
105590494 GTAATTTCGT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (74 bp):
ATGTCTAGGACATGGCACTGGCATCGTTATGAGATCCCATATAAGACCATGTTTGGGATATGAAT
TTGGCATCG
Found at i:105592511 original size:33 final size:32
Alignment explanation
Indices: 105592472--105592595 Score: 103
Period size: 33 Copynumber: 3.9 Consensus size: 32
105592462 AGTATAAATG
105592472 TGTAAGACCATAGCTGGGCTATGGCATCTTGA
1 TGTAAGACCATAGCTGGGCTATGGCATCTTGA
* *
105592504 TGATAAGACCATAACTGGG-TAATGGCAT-TACGA
1 TG-TAAGACCATAGCTGGGCT-ATGGCATCT-TGA
* * * *
105592537 GTGTAAGACCATTGCAGGGCCATGGCA-ATTG-
1 -TGTAAGACCATAGCTGGGCTATGGCATCTTGA
* **
105592568 TGTAAGACCATAGTTGGATTATGGCATC
1 TGTAAGACCATAGCTGGGCTATGGCATC
105592596 AAAAAACAAT
Statistics
Matches: 71, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
30 20 0.28
32 5 0.07
33 44 0.62
34 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (32 bp):
TGTAAGACCATAGCTGGGCTATGGCATCTTGA
Found at i:105592517 original size:101 final size:100
Alignment explanation
Indices: 105592338--105592523 Score: 259
Period size: 101 Copynumber: 1.8 Consensus size: 100
105592328 AATTGACGGA
* *
105592338 TAAAACCATGGTTGAACCATAAGAATGTTTAAATGTAAGACCATAGCTGAGCTATGGCATTTTAA
1 TAAAACCATGGTTGAACCAT-AGAATGTATAAATGTAAGACCATAGCTGAGCTATGGCATCTTAA
105592403 TGAAAAGAACATAACTGGGTTATGACACTTTGGACG
65 TGAAAAGAACATAACTGGGTTATGACACTTTGGACG
* *
105592439 TAAAACCATGGTTGGACCAT-GACA-GTATAAATGTGTAAGACCATAGCTGGGCTATGGCATCTT
1 TAAAACCATGGTTGAACCATAGA-ATGTATAAA--TGTAAGACCATAGCTGAGCTATGGCATCTT
* * *
105592502 GATGATAAGACCATAACTGGGT
63 AATGAAAAGAACATAACTGGGT
105592524 AATGGCATTA
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
99 8 0.11
100 1 0.01
101 66 0.88
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (100 bp):
TAAAACCATGGTTGAACCATAGAATGTATAAATGTAAGACCATAGCTGAGCTATGGCATCTTAAT
GAAAAGAACATAACTGGGTTATGACACTTTGGACG
Found at i:105592560 original size:101 final size:101
Alignment explanation
Indices: 105592371--105592560 Score: 229
Period size: 101 Copynumber: 1.9 Consensus size: 101
105592361 AATGTTTAAA
* * **
105592371 TGTAAGACCATAGCTGAGCTATGGCATTTTAATGAAAAGAACATAACTGGGTTATGACACTTTGG
1 TGTAAGACCATAGCTGAGCTATGGCATCTTAATGAAAAGAACATAACTGGGTAATGACACTTACG
**
105592436 ACGTAAAACCATGGTTGGACCATGACAGTATAAATG
66 ACGTAAAACCATGGCAGGACCATGACAGTATAAATG
* * * * *
105592472 TGTAAGACCATAGCTGGGCTATGGCATCTTGATGATAAGACCATAACTGGGTAATGGCA-TTACG
1 TGTAAGACCATAGCTGAGCTATGGCATCTTAATGAAAAGAACATAACTGGGTAATGACACTTACG
* * * *
105592536 AGTGTAAGACCATTGCAGGGCCATG
66 A-CGTAAAACCATGGCAGGACCATG
105592561 GCAATTGTGT
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
100 4 0.05
101 69 0.95
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (101 bp):
TGTAAGACCATAGCTGAGCTATGGCATCTTAATGAAAAGAACATAACTGGGTAATGACACTTACG
ACGTAAAACCATGGCAGGACCATGACAGTATAAATG
Found at i:105597997 original size:30 final size:30
Alignment explanation
Indices: 105597961--105598021 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
105597951 TTCCCGAGCC
*
105597961 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
105597991 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
105598021 T
1 T
105598022 GTATTAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:105600514 original size:19 final size:19
Alignment explanation
Indices: 105600487--105600523 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
105600477 TTTTCTATGC
105600487 CTATCAGCTTACTAAGCTT
1 CTATCAGCTTACTAAGCTT
*
105600506 CTATGAGCTTACTAAGCT
1 CTATCAGCTTACTAAGCT
105600524 ACTTGTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (19 bp):
CTATCAGCTTACTAAGCTT
Found at i:105601054 original size:13 final size:13
Alignment explanation
Indices: 105601036--105601060 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105601026 GGGCTTTAAC
105601036 ATGGCCGTGTGAT
1 ATGGCCGTGTGAT
105601049 ATGGCCGTGTGA
1 ATGGCCGTGTGA
105601061 AGTCTACACC
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:0.16, C:0.16, G:0.40, T:0.28
Consensus pattern (13 bp):
ATGGCCGTGTGAT
Found at i:105604814 original size:26 final size:26
Alignment explanation
Indices: 105604785--105604838 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
105604775 TTCATGTAAG
105604785 TTCATTTCTTGCTCTTTTCTTGAATT
1 TTCATTTCTTGCTCTTTTCTTGAATT
105604811 TTCATTTCTTGCTCTTTTCTTGAATT
1 TTCATTTCTTGCTCTTTTCTTGAATT
105604837 TT
1 TT
105604839 TTGTGTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.11, C:0.19, G:0.07, T:0.63
Consensus pattern (26 bp):
TTCATTTCTTGCTCTTTTCTTGAATT
Found at i:105605741 original size:33 final size:33
Alignment explanation
Indices: 105605664--105605741 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
105605654 GTATATATAT
*
105605664 GTGTAAGACCATAACTGGGTTATGACATCCTGA
1 GTGTAAGACCATAACTGGGTTATGACATACTGA
* *
105605697 -TGATAAAACCATAACTGGGTTATGGCATTAC-GA
1 GTG-TAAGACCATAACTGGGTTATGACA-TACTGA
105605730 GTGTAAGACCAT
1 GTGTAAGACCAT
105605742 GGCAGGGCCA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
32 2 0.05
33 32 0.84
34 4 0.11
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (33 bp):
GTGTAAGACCATAACTGGGTTATGACATACTGA
Found at i:105612341 original size:25 final size:23
Alignment explanation
Indices: 105612303--105612391 Score: 88
Period size: 26 Copynumber: 3.6 Consensus size: 23
105612293 TTTACATCTC
*
105612303 AAAAAATTACAAAAAAATATTTATAT
1 AAAAATTTA-AAAAAAATA--TATAT
*
105612329 AAAAATTTAAAAATAATAATATATT
1 AAAAATTTAAAAAAAAT-ATATA-T
* *
105612354 AAAAATTTTAAAAATAATATATAA
1 AAAAA-TTTAAAAAAAATATATAT
105612378 AAAAATTTAAAAAA
1 AAAAATTTAAAAAA
105612392 TTATAAAACA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
23 8 0.14
24 9 0.16
25 18 0.32
26 21 0.38
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAAATTTAAAAAAAATATATAT
Found at i:105612373 original size:23 final size:23
Alignment explanation
Indices: 105612315--105612390 Score: 82
Period size: 23 Copynumber: 3.2 Consensus size: 23
105612305 AAAATTACAA
* *
105612315 AAAAAT-ATTTATATAAAAATTTAA
1 AAAAATAATATAT-TAAAAATTT-T
105612339 AAATAATAATATATTAAAAATTTT
1 AAA-AATAATATATTAAAAATTTT
* *
105612363 AAAAATAATATATAAAAAAATTT
1 AAAAATAATATATTAAAAATTTT
105612386 AAAAA
1 AAAAA
105612391 ATTATAAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
23 23 0.50
24 6 0.13
25 12 0.26
26 5 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
AAAAATAATATATTAAAAATTTT
Found at i:105613297 original size:29 final size:30
Alignment explanation
Indices: 105613246--105613306 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
105613236 ACTTATTTTA
105613246 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* *
105613276 TTGTTAATTTT-TTATTATTTTAGAGGTAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
105613305 TT
1 TT
105613307 TCTTGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 18 0.62
30 11 0.38
ACGTcount: A:0.25, C:0.02, G:0.13, T:0.61
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Done.