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 140 of 425
Found at i:42279638 original size:28 final size:27
Alignment explanation
Indices: 42279606--42279673 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 27
42279596 GCGTAGATCA
42279606 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAG-AAAATTAC
42279634 CGAAATTACCCCTAAAGAGAAAATTAC
1 CGAAATTACCCCTAAAGAGAAAATTAC
*
42279661 CGATA-TACCCCTA
1 CGAAATTACCCCTA
42279674 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 8 0.21
27 12 0.31
28 19 0.49
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.19
Consensus pattern (27 bp):
CGAAATTACCCCTAAAGAGAAAATTAC
Found at i:42293113 original size:40 final size:40
Alignment explanation
Indices: 42293040--42293215 Score: 286
Period size: 40 Copynumber: 4.5 Consensus size: 40
42293030 CGGATGATAA
*
42293040 CGGGCTAAGTCCCGAAGG-ATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
42293079 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
42293119 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
42293159 CGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
*
42293199 C-GGCTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
42293216 TACTTGGTTT
Statistics
Matches: 131, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
39 35 0.27
40 96 0.73
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:42302304 original size:39 final size:39
Alignment explanation
Indices: 42302250--42302402 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
42302240 GAATGTTCGA
*
42302250 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
42302289 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
42302328 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
42302367 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
42302403 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:42302418 original size:40 final size:39
Alignment explanation
Indices: 42302251--42302432 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
42302241 AATGTTCGAG
* *
42302251 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
42302290 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
42302329 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
42302368 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
42302408 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
42302433 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:42304404 original size:40 final size:40
Alignment explanation
Indices: 42304316--42304451 Score: 215
Period size: 39 Copynumber: 3.5 Consensus size: 40
42304306 GGATGATAAT
42304316 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
42304355 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
42304395 CGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
*
42304435 C-GGCTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
42304452 TACTTGGTTT
Statistics
Matches: 92, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
39 50 0.54
40 42 0.46
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:42311209 original size:6 final size:6
Alignment explanation
Indices: 42311179--42311303 Score: 87
Period size: 6 Copynumber: 20.3 Consensus size: 6
42311169 AAGAAACATG
* * *
42311179 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
42311228 ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA
*
42311277 ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
42311304 GTGAATGCAA
Statistics
Matches: 92, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
5 5 0.05
6 75 0.82
7 9 0.10
8 3 0.03
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:42311223 original size:31 final size:31
Alignment explanation
Indices: 42311188--42311303 Score: 124
Period size: 31 Copynumber: 3.5 Consensus size: 31
42311178 GATCAGAACT
*
42311188 AGAATCAAAATGAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGGTGAC
*
42311219 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATC---A--A-AATCAGAATCAGAATCAGGTGAC
* * * *
42311256 AGAATTAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTGAC
42311287 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
42311304 GTGAATGCAA
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
31 41 0.59
34 2 0.03
36 1 0.01
37 26 0.37
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.19
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGAATCAGGTGAC
Found at i:42311303 original size:37 final size:36
Alignment explanation
Indices: 42311190--42311303 Score: 130
Period size: 37 Copynumber: 3.2 Consensus size: 36
42311180 TCAGAACTAG
* *
42311190 AATCAAAATGAGAATCAGAATCAGGTGACAGAATCA
1 AATCAGAATCAGAATCAGAATCAGGTGACAGAATCA
*
42311226 GAATCAGAATCAGAATCAGAATTAGGTGACAGAAT--
1 -AATCAGAATCAGAATCAGAATCAGGTGACAGAATCA
* *
42311261 --T-AGAATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGAATCAGAATCAGGTGACAGAATC-A
42311295 AATCAGAAT
1 AATCAGAAT
42311304 GTGAATGCAA
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
31 27 0.42
32 1 0.02
36 1 0.02
37 36 0.55
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (36 bp):
AATCAGAATCAGAATCAGAATCAGGTGACAGAATCA
Found at i:42311470 original size:27 final size:26
Alignment explanation
Indices: 42311422--42311481 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
42311412 GCGAGGCTGC
*
42311422 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
42311449 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
42311475 CAGATAT
1 CAGATAT
42311482 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:42311567 original size:27 final size:26
Alignment explanation
Indices: 42311529--42311579 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
42311519 CGAGGTTGCC
*
42311529 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
*
42311555 AGATATATGTGACGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
42311580 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:42312127 original size:27 final size:27
Alignment explanation
Indices: 42311816--42312116 Score: 314
Period size: 27 Copynumber: 11.1 Consensus size: 27
42311806 ACACCCTAGA
* * *
42311816 GGTAAAATGGTAATTTTATAAATTGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
* * * *
42311843 GGTAAAACGATAATTTTGTAAATCAAG
1 GGTAAAACGGTAATTCTATAAATCGAG
** *
42311870 GGTAAAACAATAATTCTATAAATTGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
** * *
42311897 CATAAAACAGTAATTCTATAAATCGAA
1 GGTAAAACGGTAATTCTATAAATCGAG
** *
42311924 GGTAAAATAGTAATTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
** * *
42311951 GGTAAAATAGTAATTTTGTAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
* * ** *
42311978 GGTAAAATGGTAATTTTGCAAATCAAG
1 GGTAAAACGGTAATTCTATAAATCGAG
* *
42312005 GGTAAAACGATAATTCTATAAATTGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
*
42312032 GGTAAAACGGTAATTTTATAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
* *
42312059 GGTAAAACAGTAATTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
*
42312086 GGTAAAACGGAAATTCTATAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
42312113 GGTA
1 GGTA
42312117 CTTTGGTAAT
Statistics
Matches: 234, Mismatches: 40, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 234 1.00
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.29
Consensus pattern (27 bp):
GGTAAAACGGTAATTCTATAAATCGAG
Found at i:42312161 original size:81 final size:80
Alignment explanation
Indices: 42311841--42312161 Score: 270
Period size: 81 Copynumber: 4.0 Consensus size: 80
42311831 TTATAAATTG
* * * ** * * * **
42311841 AGGGTAAAACGATAATTTTGTAAATCAAGGGTAAAACAATAATTCTATAAATTGAGCATAAAACA
1 AGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACA
*
42311906 GTAATTCTATAAATCGA
66 GTAATT-TGTAAATC-A
* * ** ** *
42311923 A-GGTAAAA-TAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAAT
1 AGGGTAAAACGA-TAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAAC
* *
42311986 GGTAATTTTGCAAATCA
65 AGTAA-TTTGTAAATCA
* *
42312003 AGGGTAAAACGATAATTCTATAAATTGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACA
1 AGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACA
*
42312068 GTAATTCTGTAAATCG
66 GTAATT-TGTAAATCA
**** * * ***
42312084 AGGGTAAAACGGA-AATTCTATAAATCGAGGGTACTTTGGTAATTTTACAAGTCGATGGTATTTC
1 AGGGTAAAAC-GATAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAAC
42312148 AGTAATTTGGTAAA
65 AGTAATTT-GTAAA
42312162 CTAAAGTATT
Statistics
Matches: 197, Mismatches: 35, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
80 6 0.03
81 185 0.94
82 6 0.03
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.30
Consensus pattern (80 bp):
AGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACA
GTAATTTGTAAATCA
Found at i:42316486 original size:27 final size:27
Alignment explanation
Indices: 42316449--42316560 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
42316439 AGCATGGCTG
* * *
42316449 CCAGAACAGATA-ATGTGACATAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
*
42316475 CCAGATACAGATATTTGTGGCAGAGCCA
1 CCAGA-ACAGATATATGTGGCAGAGCCA
*
42316503 CCAGAACAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* *
42316530 CTAGAACAGATA-ATTGTGGCATAGCCA
1 CCAGAACAGATATA-TGTGGCAGAGCCA
42316557 CCAG
1 CCAG
42316561 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:42316539 original size:54 final size:54
Alignment explanation
Indices: 42316449--42316560 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
42316439 AGCATGGCTG
* * *
42316449 CCAGAACAGATAATGTGACATAGTCACCAGATACAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATTGTGGCAGAGCCA
* * * *
42316503 CCAGAACAGATATTTGTGGCAGAGCCACTAGA-ACAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATTGTGGCAGAGCCA
42316557 CCAG
1 CCAG
42316561 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 36 0.72
55 14 0.28
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATTGTGGCAGAGCCA
Found at i:42319672 original size:30 final size:30
Alignment explanation
Indices: 42319633--42319695 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
42319623 TATGATATGC
* * *
42319633 TATCTTGGATTTCTGTACCTTGGA-TATCTT
1 TATCATGGATTCCTCTACCTTGGACT-TCTT
*
42319663 TATCATGGATTCCTCTATCTTGGACTTCTT
1 TATCATGGATTCCTCTACCTTGGACTTCTT
42319693 TAT
1 TAT
42319696 TCTAGTTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.49
Consensus pattern (30 bp):
TATCATGGATTCCTCTACCTTGGACTTCTT
Found at i:42322171 original size:11 final size:11
Alignment explanation
Indices: 42322155--42322184 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
42322145 GTTCATATGT
42322155 CAATGATAATG
1 CAATGATAATG
42322166 CAATGATAATG
1 CAATGATAATG
42322177 CAATGATA
1 CAATGATA
42322185 TTATTGTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.27
Consensus pattern (11 bp):
CAATGATAATG
Found at i:42326835 original size:29 final size:29
Alignment explanation
Indices: 42326671--42326834 Score: 274
Period size: 29 Copynumber: 5.7 Consensus size: 29
42326661 GCTTGGAAGG
42326671 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
42326700 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
42326729 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
42326758 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
42326787 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
42326816 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
42326835 GATCGTTTAT
Statistics
Matches: 127, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 127 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:42330237 original size:40 final size:40
Alignment explanation
Indices: 42330171--42330337 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
42330161 AAATTGAATG
* * *
42330171 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
42330210 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
42330250 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
42330290 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
42330330 ATATCCGG
1 ATATCCGG
42330338 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:42333511 original size:46 final size:46
Alignment explanation
Indices: 42333456--42333635 Score: 226
Period size: 45 Copynumber: 3.9 Consensus size: 46
42333446 TAGGATGGTT
42333456 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
42333502 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
42333548 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* *
42333595 AACGC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42333636 GCGGGTTACA
Statistics
Matches: 117, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
43 4 0.03
45 37 0.32
46 35 0.30
47 35 0.30
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:42333576 original size:47 final size:45
Alignment explanation
Indices: 42333456--42333630 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
42333446 TAGGATGGTT
*
42333456 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGC
* *
42333502 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATG---C
* *
42333548 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGC
* *
42333595 AACGC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
42333631 TATGGGCGGG
Statistics
Matches: 112, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
43 4 0.04
45 32 0.29
46 35 0.31
47 35 0.31
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (45 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGC
Found at i:42335236 original size:23 final size:23
Alignment explanation
Indices: 42335188--42335253 Score: 89
Period size: 23 Copynumber: 2.8 Consensus size: 23
42335178 AAGCTCCTCC
*
42335188 TGAGCTGATGAACAGTAAGCTCTAT
1 TGAGCTGA--AACAGTAAGCTTTAT
*
42335213 TGAGCTGAAACGGTAAGCTTTAT
1 TGAGCTGAAACAGTAAGCTTTAT
42335236 TGAGCTG-AACAGTAAGCT
1 TGAGCTGAAACAGTAAGCT
42335254 CATATGAGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 10 0.26
23 20 0.53
25 8 0.21
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTTTAT
Found at i:42335253 original size:22 final size:22
Alignment explanation
Indices: 42335196--42335263 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 22
42335186 CCTGAGCTGA
42335196 TGAACAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTATTGAGC
* *
42335218 TGAAACGGTAAGCTTTATTGAGC
1 TG-AACAGTAAGCTCTATTGAGC
42335241 TGAACAGTAAGCTC-ATATGAGC
1 TGAACAGTAAGCTCTAT-TGAGC
42335263 T
1 T
42335264 AAAATGGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.05
22 18 0.45
23 20 0.50
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATTGAGC
Found at i:42335285 original size:45 final size:45
Alignment explanation
Indices: 42335196--42335302 Score: 126
Period size: 45 Copynumber: 2.3 Consensus size: 45
42335186 CCTGAGCTGA
* ** *
42335196 TGAACAGTAAGCTCTATTGAGCTGAAACGGTAAGCTTTATTGAGC
1 TGAACAGTAAGCTCTATTGAGCTAAAACGGTAAGCTCCAATGAGC
*
42335241 TGAACAGTAAGCTC-ATATGAGCTAAAATGGTAAGCTCCAATGAGC
1 TGAACAGTAAGCTCTAT-TGAGCTAAAACGGTAAGCTCCAATGAGC
*
42335286 TAAAAACAGTAAGCTCT
1 T--GAACAGTAAGCTCT
42335303 TACAAGCTGA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
44 2 0.04
45 38 0.73
47 12 0.23
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.25
Consensus pattern (45 bp):
TGAACAGTAAGCTCTATTGAGCTAAAACGGTAAGCTCCAATGAGC
Found at i:42335297 original size:24 final size:24
Alignment explanation
Indices: 42335198--42335301 Score: 92
Period size: 23 Copynumber: 4.5 Consensus size: 24
42335188 TGAGCTGATG
* *
42335198 AACAGTAAGCTCTAT-TGAGCTGA
1 AACAGTAAGCTCCATATGAGCTAA
* ** *
42335221 AACGGTAAGCTTTAT-TGAGCT-G
1 AACAGTAAGCTCCATATGAGCTAA
42335243 AACAGTAAGCT-CATATGAGCTAA
1 AACAGTAAGCTCCATATGAGCTAA
**
42335266 AATGGTAAGCTCCA-ATGAGCTAAA
1 AACAGTAAGCTCCATATGAGCT-AA
42335290 AACAGTAAGCTC
1 AACAGTAAGCTC
42335302 TTACAAGCTG
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
21 2 0.03
22 16 0.24
23 35 0.52
24 14 0.21
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (24 bp):
AACAGTAAGCTCCATATGAGCTAA
Found at i:42344207 original size:15 final size:16
Alignment explanation
Indices: 42344189--42344229 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
42344179 ATAAATAAAA
42344189 ATTAAATAAAA-TTAC
1 ATTAAATAAAATTTAC
42344204 ATTATAA-AAAATTTAC
1 ATTA-AATAAAATTTAC
42344220 ATT-AATAAAA
1 ATTAAATAAAA
42344230 AAATCACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 2 0.09
15 12 0.52
16 9 0.39
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (16 bp):
ATTAAATAAAATTTAC
Found at i:42344219 original size:16 final size:16
Alignment explanation
Indices: 42344196--42344231 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
42344186 AAAATTAAAT
42344196 AAAATTACATT-ATAA
1 AAAATTACATTAATAA
42344211 AAAATTTACATTAATAA
1 AAAA-TTACATTAATAA
42344228 AAAA
1 AAAA
42344232 ATCACAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 7 0.37
17 8 0.42
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAATTACATTAATAA
Found at i:42344348 original size:97 final size:93
Alignment explanation
Indices: 42344215--42344483 Score: 285
Period size: 97 Copynumber: 2.9 Consensus size: 93
42344205 TTATAAAAAA
* *
42344215 TTTACATTAATAAAAAAATCACAAAACACTATACTAAACACTAACAATTTATAACCTAATCATAA
1 TTTAAATTAAT-AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAA
* ** **
42344280 ATTACTAACAAAATAACT-ATAATTTTTT
65 ATTACTAACAAAATAACTAAGAAAATAAT
* **
42344308 TTTAAAATTACATTGCTAAAAAATCA-AAAACACTAAACTAAACACTAACAAATTATAACCTACC
1 TTT-AAATTA-A----TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAAT
* *
42344372 CATAAATTACTAAAAAAATAATTAAGAAAATAAT
60 CATAAATTACTAACAAAATAACTAAGAAAATAAT
* ** ** *
42344406 TTTACATTAAT-AAATTTCACAAAACACTAAACTAAACAC-AACAATTTATAATGTAATCCTAAA
1 TTTAAATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAA
42344469 TTACTAACAAAATAA
66 TTACTAACAAAATAA
42344484 TTTTAAAATA
Statistics
Matches: 146, Mismatches: 22, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
91 38 0.26
92 20 0.14
93 3 0.02
94 5 0.03
95 1 0.01
96 1 0.01
97 60 0.41
98 17 0.12
99 1 0.01
ACGTcount: A:0.54, C:0.16, G:0.01, T:0.29
Consensus pattern (93 bp):
TTTAAATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAA
TTACTAACAAAATAACTAAGAAAATAAT
Found at i:42344670 original size:12 final size:11
Alignment explanation
Indices: 42344650--42344687 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
42344640 ATATATTCTT
42344650 TTTTTTCTTTC
1 TTTTTTCTTTC
42344661 TTTCTTTC-TTC
1 TTT-TTTCTTTC
42344672 TTTTTTCTTCTC
1 TTTTTTCTT-TC
42344684 TTTT
1 TTTT
42344688 CTCTCCTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 4 0.17
11 10 0.42
12 10 0.42
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:42344675 original size:21 final size:23
Alignment explanation
Indices: 42344645--42344686 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
42344635 AATATATATA
42344645 TTCTT-TTTTTTCTT-TCTTTCT
1 TTCTTCTTTTTTCTTCTCTTTCT
42344666 TTCTTCTTTTTTCTTCTCTTT
1 TTCTTCTTTTTTCTTCTCTTT
42344687 TCTCTCCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 5 0.26
22 9 0.47
23 5 0.26
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (23 bp):
TTCTTCTTTTTTCTTCTCTTTCT
Found at i:42345876 original size:34 final size:35
Alignment explanation
Indices: 42345809--42345876 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 35
42345799 GTGCGGGAGT
* * * *
42345809 GAAGAAAAAAAGAGGGAAAGAAAGGAGAGAAAGGA
1 GAAGAAAAAAAGAGAGAAAGAAAGAAAAAAAAGGA
42345844 GAAGAAAAAAAGA-AGAAAGAAAGAAAAAAAAGG
1 GAAGAAAAAAAGAGAGAAAGAAAGAAAAAAAAGG
42345877 GGGATATGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (35 bp):
GAAGAAAAAAAGAGAGAAAGAAAGAAAAAAAAGGA
Found at i:42346041 original size:11 final size:12
Alignment explanation
Indices: 42346015--42346046 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
42346005 TTTATGAATG
42346015 TAATT-TTTTAA
1 TAATTATTTTAA
42346026 TAATTATTTTAA
1 TAATTATTTTAA
42346038 -AATTATTTT
1 TAATTATTTT
42346047 GTTAGTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TAATTATTTTAA
Found at i:42346135 original size:12 final size:12
Alignment explanation
Indices: 42346118--42346149 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
42346108 ATTAATGTAA
42346118 AATTATTTTGTT
1 AATTATTTTGTT
42346130 AATTATTTTGTT
1 AATTATTTTGTT
*
42346142 AATAATTT
1 AATTATTT
42346150 ATGATTAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (12 bp):
AATTATTTTGTT
Found at i:42346156 original size:92 final size:92
Alignment explanation
Indices: 42346027--42346322 Score: 301
Period size: 92 Copynumber: 3.1 Consensus size: 92
42346017 ATTTTTTAAT
** * * *
42346027 AATTATTTTAAAATTATTTTGTTAGTAATTTAGGATTATGTTATAAATTGTT-GTGTTCAGTTTA
1 AATTATTTTTTAATTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTAGTTTA
* *
42346091 GTGTTTTGTGATTTTTTATTAATGTAA
66 GTATTTTGTGATTTTTTAGTAATGTAA
* * *
42346118 AATTATTTTGTTAATTATTTTGTTAATAATTTATGATTAGGTTCTAAATTGTTAGTATTTAGTTT
1 AATTATTTT-TTAATTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTAGTTT
* * *
42346183 TGAATTTTGTGATTTTTAGTAATGTAATTTTTAAAAAA
65 AGTATTTTGTGATTTTT--T-A-GTAA--TGT----AA
* * * *
42346221 AATAATTTTATAGTTATTTTATTAGTAATTTATGATTAGGTTATAAAATTGTTAGTGTTTAGTTT
1 AATTATTTTTTAATTATTTTGTTAGTAATTTATGATTAGGTTAT-AAATTGTTAGTGTTTAGTTT
42346286 AGTATTTTGTGATTTTTTTAGTAATGT-A
65 AGTATTTTGTGA-TTTTTTAGTAATGTAA
42346314 AA-TATTTTT
1 AATTATTTTT
42346323 AAAAATAATT
Statistics
Matches: 166, Mismatches: 25, Indels: 27
0.76 0.11 0.12
Matches are distributed among these distances:
91 9 0.05
92 42 0.25
93 26 0.16
95 1 0.01
96 1 0.01
97 3 0.02
98 2 0.01
99 2 0.01
100 4 0.02
101 1 0.01
102 31 0.19
103 39 0.23
104 5 0.03
ACGTcount: A:0.30, C:0.01, G:0.14, T:0.55
Consensus pattern (92 bp):
AATTATTTTTTAATTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTAGTTTA
GTATTTTGTGATTTTTTAGTAATGTAA
Found at i:42346345 original size:105 final size:101
Alignment explanation
Indices: 42346132--42346544 Score: 521
Period size: 105 Copynumber: 4.0 Consensus size: 101
42346122 ATTTTGTTAA
* * * * *
42346132 TTATTTTGTTAATAATTTATGATTAGGTTCTAAATTGTTAGTATTTAGTTTTGAATTTTGTGATT
1 TTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTAGTTTAGTATTTTGTGATT
*
42346197 TTTAGTAATGT-AATTTTTAAAAAAAATAATTTTATAG
66 TTTAGTAATGTAAATTTTT--TAAAAATAATTTTATAG
*
42346234 TTATTTTATTAGTAATTTATGATTAGGTTATAAAATTGTTAGTGTTTAGTTTAGTATTTTGTGAT
1 TTATTTTGTTAGTAATTTATGATTAGGTTAT-AAATTGTTAGTGTTTAGTTTAGTATTTTGTGA-
42346299 TTTTTTAGTAATGTAAATATTTTTAAAAATAATTTTATAG
64 -TTTTTAGTAATGTAAAT-TTTTTAAAAATAATTTTATAG
* * * *
42346339 TAATTTTGTTAGTAATTTATGATTAGGTGATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTAATT
1 TTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTAGTTTAGTATTTTGTGA-T
42346404 TTTTAGTAATGTAAACTTTTATTTTTTTAAAAA-AA--TTATAG
65 TTTTAGTAATGT-AA-----A-TTTTTTAAAAATAATTTTATAG
*
42346445 TTATTTTGTTAGTAATTTATGATTAGGTTA-AAATTTGTTATTGTTTAGTTTAGTATTTTGTGAT
1 TTATTTTGTTAGTAATTTATGATTAGGTTATAAA-TTGTTAGTGTTTAGTTTAGTATTTTGTGAT
**
42346509 TTTTAGTAATGTAAATTTTTTATAATGTAATTTTAT
65 TTTTAGTAATGTAAATTTTTTA-AAAATAATTTTAT
42346545 TTGATTTTTA
Statistics
Matches: 275, Mismatches: 19, Indels: 34
0.84 0.06 0.10
Matches are distributed among these distances:
98 7 0.03
99 3 0.01
100 2 0.01
102 32 0.12
103 43 0.16
104 34 0.12
105 73 0.27
106 63 0.23
107 4 0.01
108 2 0.01
109 11 0.04
110 1 0.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.54
Consensus pattern (101 bp):
TTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTAGTTTAGTATTTTGTGATT
TTTAGTAATGTAAATTTTTTAAAAATAATTTTATAG
Found at i:42346540 original size:15 final size:17
Alignment explanation
Indices: 42346508--42346542 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
42346498 TATTTTGTGA
42346508 TTTTTAGTAATGTAAAT
1 TTTTTAGTAATGTAAAT
42346525 TTTTTA-TAATGT-AAT
1 TTTTTAGTAATGTAAAT
42346540 TTT
1 TTT
42346543 ATTTGATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 6 0.33
17 6 0.33
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (17 bp):
TTTTTAGTAATGTAAAT
Found at i:42348412 original size:33 final size:33
Alignment explanation
Indices: 42348369--42348488 Score: 116
Period size: 33 Copynumber: 3.6 Consensus size: 33
42348359 CAGCCGAATA
*
42348369 CCACCTCAGTACTCCACTCCTCTCGACCCGTAT
1 CCACCGCAGTACTCCACTCCTCTCGACCCGTAT
* * * * *
42348402 CCACCACAGTACTCTACTTCTC-CCAGCTCGTAT
1 CCACCGCAGTACTCCACTCCTCTCGA-CCCGTAT
* * * * * *
42348435 CCACTGCAGTACTCTACTCTTTTCGGCCCATAT
1 CCACCGCAGTACTCCACTCCTCTCGACCCGTAT
42348468 CCACCGCAGTACTCCACTCCT
1 CCACCGCAGTACTCCACTCCT
42348489 TAAAACTCAA
Statistics
Matches: 68, Mismatches: 17, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
32 2 0.03
33 65 0.96
34 1 0.01
ACGTcount: A:0.19, C:0.44, G:0.10, T:0.27
Consensus pattern (33 bp):
CCACCGCAGTACTCCACTCCTCTCGACCCGTAT
Found at i:42351269 original size:38 final size:39
Alignment explanation
Indices: 42351180--42351279 Score: 125
Period size: 38 Copynumber: 2.6 Consensus size: 39
42351170 ATTAAATGAT
* * *
42351180 ATCCGGGCTAAG-TCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCAATTATGCTAGTAG-TAA
*
42351219 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGT-G-ACA
1 ATCCGGGCTAAGACCCGAAGGCAATTATGCTAGTAGTA-A
42351257 ATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCA
42351280 TCTCGTGCAT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
37 1 0.02
38 23 0.43
39 12 0.22
40 18 0.33
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCAATTATGCTAGTAGTAA
Found at i:42360306 original size:40 final size:40
Alignment explanation
Indices: 42360171--42360308 Score: 217
Period size: 40 Copynumber: 3.5 Consensus size: 40
42360161 AAACCAAGTA
* * *
42360171 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
42360210 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42360250 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42360290 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
42360309 TTATCATCCG
Statistics
Matches: 92, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 14 0.15
40 78 0.85
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:42363842 original size:38 final size:39
Alignment explanation
Indices: 42363798--42363952 Score: 239
Period size: 38 Copynumber: 4.1 Consensus size: 39
42363788 AATTATATTA
*
42363798 CCAGCACAAAGCCTGCGGGAC-TTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
42363836 CCAGCACGAAGCCTACGGGACTTTAG-CCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
42363874 CCAGCACGAA--CTGCAGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
42363911 CTAGCACGAAGCCTGCGGGACTTTAGCCC-GATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
42363949 CCAG
1 CCAG
42363953 TGTCTTGCAT
Statistics
Matches: 106, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
36 12 0.11
37 21 0.20
38 53 0.50
39 20 0.19
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:42363901 original size:75 final size:74
Alignment explanation
Indices: 42363810--42363952 Score: 241
Period size: 75 Copynumber: 1.9 Consensus size: 74
42363800 AGCACAAAGC
* *
42363810 CTGCGGGACTTAGCCCGGATACATTTCCAGCACGAAGCCTACGGGACTTTAGCCGGATACATTTC
1 CTGCAGGACTTAGCCCGGATACATTTCCAGCACGAAGCCTACGGGACTTTAGCCCGATACATTTC
42363875 CAGCACGAA
66 CAGCACGAA
* *
42363884 CTGCAGGACTTTAGCCCGGATACATTTCTAGCACGAAGCCTGCGGGACTTTAGCCCGATACATTT
1 CTGCAGGAC-TTAGCCCGGATACATTTCCAGCACGAAGCCTACGGGACTTTAGCCCGATACATTT
42363949 CCAG
65 CCAG
42363953 TGTCTTGCAT
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
74 8 0.12
75 56 0.88
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.22
Consensus pattern (74 bp):
CTGCAGGACTTAGCCCGGATACATTTCCAGCACGAAGCCTACGGGACTTTAGCCCGATACATTTC
CAGCACGAA
Found at i:42367396 original size:31 final size:29
Alignment explanation
Indices: 42367273--42367460 Score: 164
Period size: 29 Copynumber: 6.5 Consensus size: 29
42367263 GATCTCATTT
* *
42367273 CACACACTTAGTGCCCCAACAACCGATCTTG
1 CACACAC--AGTGCCTCAACAACCGATCTCG
**** ** *
42367304 CACACACAGTG-CTCGGTTATAGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
*
42367332 CACACACATTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
* * *
42367361 CACACACAGTGCTTCAATAACCGATTTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
**** * *
42367390 CACACACAGTG-CTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
*
42367418 CACACACAGTGCCTCAACAACCGATCTCA
1 CACACACAGTGCCTCAACAACCGATCTCG
42367447 CACACACAGTGCCT
1 CACACACAGTGCCT
42367461 ATGTTCACTT
Statistics
Matches: 120, Mismatches: 35, Indels: 6
0.75 0.22 0.04
Matches are distributed among these distances:
28 39 0.32
29 74 0.62
31 7 0.06
ACGTcount: A:0.30, C:0.36, G:0.15, T:0.19
Consensus pattern (29 bp):
CACACACAGTGCCTCAACAACCGATCTCG
Found at i:42367420 original size:86 final size:86
Alignment explanation
Indices: 42367293--42367458 Score: 280
Period size: 86 Copynumber: 1.9 Consensus size: 86
42367283 GTGCCCCAAC
* *
42367293 AACCGATCTTGCACACACAGTGCTCGGTTATAGAACTCGCACACACATTGCCTCAACAACCGATC
1 AACCGATCTTGCACACACAGTGCTCGGTTACAGAACTCGCACACACAGTGCCTCAACAACCGATC
*
42367358 TCGCACACACAGTGCTTCAAT
66 TCACACACACAGTGCTTCAAT
*
42367379 AACCGAT-TTCGCACACACAGTGCTCGGTTACGGAACTCGCACACACAGTGCCTCAACAACCGAT
1 AACCGATCTT-GCACACACAGTGCTCGGTTACAGAACTCGCACACACAGTGCCTCAACAACCGAT
42367443 CTCACACACACAGTGC
65 CTCACACACACAGTGC
42367459 CTATGTTCAC
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
85 2 0.03
86 73 0.97
ACGTcount: A:0.30, C:0.35, G:0.16, T:0.19
Consensus pattern (86 bp):
AACCGATCTTGCACACACAGTGCTCGGTTACAGAACTCGCACACACAGTGCCTCAACAACCGATC
TCACACACACAGTGCTTCAAT
Found at i:42369529 original size:46 final size:46
Alignment explanation
Indices: 42369473--42369648 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
42369463 TATTTGGGCA
42369473 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * * *
42369519 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
42369566 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
42369612 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42369649 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.60
47 32 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:42369628 original size:93 final size:93
Alignment explanation
Indices: 42369469--42369640 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
42369459 GGGATATTTG
* * *
42369469 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
42369534 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
42369562 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
42369627 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
42369641 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:42372510 original size:39 final size:39
Alignment explanation
Indices: 42372439--42372597 Score: 257
Period size: 39 Copynumber: 4.1 Consensus size: 39
42372429 AATTATATTA
*
42372439 CCAGCACAAAGCCTGCGGG-CTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
42372477 CCAGCACGAAGCCTACGGGACTTTAGCCTGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
42372516 CCAACACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
42372555 CTAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
42372594 CCAG
1 CCAG
42372598 TGTCTTGCAT
Statistics
Matches: 109, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
38 17 0.16
39 92 0.84
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:42374884 original size:205 final size:205
Alignment explanation
Indices: 42374526--42374938 Score: 763
Period size: 205 Copynumber: 2.0 Consensus size: 205
42374516 TATTTTCAAT
* * * *
42374526 ATAAGCTAAATCATGACCGAATTATCACTATAAGTGACAGCATTAACAAACCATTTCCAAAATAT
1 ATAAGCTAAATCATGACCGAATTATAACCATAAGTGACAACATTAACAAACCATTTCCAAAACAT
* *
42374591 ATAACACCTTCAATGACATCCATACAACCCATAGCCAAATGCATCATTTCAAATCAATAACAAAA
66 ATAACACCTTCAAAGACATCCATACAACCCATAGCCAAATGCATCAGTTCAAATCAATAACAAAA
42374656 ATTAAGTCATGGGCTATGAAAGGAGCTTAGCAATTAACTCAATTTCACATAAATTATCAAGAAAT
131 ATTAAGTCATGGGCTATGAAAGGAGCTTAGCAATTAACTCAATTTCACATAAATTATCAAGAAAT
42374721 AAAATCAAAC
196 AAAATCAAAC
*
42374731 ATAAGTTAAATCATGACCGAATTATAACCATAAGTGACAACATTAACAAACCATTTCCAAAACAT
1 ATAAGCTAAATCATGACCGAATTATAACCATAAGTGACAACATTAACAAACCATTTCCAAAACAT
42374796 ATAACACCTTCAAAGACATCCATACAACCCATAGCCAAATGCATCAGTTCAAATCAATAACAAAA
66 ATAACACCTTCAAAGACATCCATACAACCCATAGCCAAATGCATCAGTTCAAATCAATAACAAAA
42374861 ATTAAGTCATGGGCTATGAAAGGAGCTTAGCAATTAACTCAATTTCACATAAATTATCAAGAAAT
131 ATTAAGTCATGGGCTATGAAAGGAGCTTAGCAATTAACTCAATTTCACATAAATTATCAAGAAAT
42374926 AAAATCAAAC
196 AAAATCAAAC
42374936 ATA
1 ATA
42374939 CCTCCAATTA
Statistics
Matches: 201, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
205 201 1.00
ACGTcount: A:0.46, C:0.20, G:0.09, T:0.24
Consensus pattern (205 bp):
ATAAGCTAAATCATGACCGAATTATAACCATAAGTGACAACATTAACAAACCATTTCCAAAACAT
ATAACACCTTCAAAGACATCCATACAACCCATAGCCAAATGCATCAGTTCAAATCAATAACAAAA
ATTAAGTCATGGGCTATGAAAGGAGCTTAGCAATTAACTCAATTTCACATAAATTATCAAGAAAT
AAAATCAAAC
Found at i:42376171 original size:16 final size:15
Alignment explanation
Indices: 42376152--42376187 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
42376142 ATTTAAATAT
42376152 CATATAATCAAAACTA
1 CATATAAT-AAAACTA
*
42376168 CATATCATAAAACTA
1 CATATAATAAAACTA
42376183 CATAT
1 CATAT
42376188 CATTCATAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (15 bp):
CATATAATAAAACTA
Found at i:42376181 original size:15 final size:15
Alignment explanation
Indices: 42376161--42376190 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
42376151 TCATATAATC
42376161 AAAACTACATATCAT
1 AAAACTACATATCAT
42376176 AAAACTACATATCAT
1 AAAACTACATATCAT
42376191 TCATAGCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAACTACATATCAT
Found at i:42377651 original size:45 final size:45
Alignment explanation
Indices: 42377610--42377761 Score: 261
Period size: 45 Copynumber: 3.4 Consensus size: 45
42377600 CTATAGTATA
*
42377610 TTTCAACTATGGTCTTATTCGA-TTCCAGTATAGTGCCATAGTGTC
1 TTTCAACTATGGTCTTATTC-ATTTCCGGTATAGTGCCATAGTGTC
42377655 TTTCAACTATGGTCTTATTCATTTCCGGTATAGTGCCATAGTGTC
1 TTTCAACTATGGTCTTATTCATTTCCGGTATAGTGCCATAGTGTC
* *
42377700 TTTCAACTATGGTCTTATTCATTTCTGGTATAATGCCATAGTGTC
1 TTTCAACTATGGTCTTATTCATTTCCGGTATAGTGCCATAGTGTC
42377745 TTTCAACTATGGTCTTA
1 TTTCAACTATGGTCTTA
42377762 CTCGTTTGAT
Statistics
Matches: 103, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
44 1 0.01
45 102 0.99
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (45 bp):
TTTCAACTATGGTCTTATTCATTTCCGGTATAGTGCCATAGTGTC
Found at i:42377724 original size:21 final size:21
Alignment explanation
Indices: 42377655--42377724 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
42377645 CCATAGTGTC
42377655 TTTCAACTATGGTCTTATTCA
1 TTTCAACTATGGTCTTATTCA
*** * *
42377676 TTTCCGGTATAGTGCCATAGTGTC-
1 TTTCAACTAT-G-GTCTTA-T-TCA
42377700 TTTCAACTATGGTCTTATTCA
1 TTTCAACTATGGTCTTATTCA
42377721 TTTC
1 TTTC
42377725 TGGTATAATG
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
20 2 0.06
21 12 0.35
22 5 0.15
23 5 0.15
24 8 0.24
25 2 0.06
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (21 bp):
TTTCAACTATGGTCTTATTCA
Found at i:42377781 original size:45 final size:44
Alignment explanation
Indices: 42377595--42377811 Score: 188
Period size: 45 Copynumber: 4.8 Consensus size: 44
42377585 TTTTCCGACA
* * * * **
42377595 TGATGCTATAGTATATTTCAACTATGGTCTTATTCGATTCCAGTAT
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTACTC-ATTTGA-TAT
* * *
42377641 AG-TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGGTAT
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTT--GATAT
* * *
42377686 AG-TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGGTA-
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTACTCA-TT-TGATAT
* * *
42377730 TAATGCCATAGTGTCTTTCAACTATGGTCTTACTCGTTTGATTT
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTGATAT
***
42377774 GTGATGCCATAACATCTTTCAACTATGGTCTTACTCAT
1 -TGATGCCATAGTGTCTTTCAACTATGGTCTTACTCAT
42377812 ATTTTAACCA
Statistics
Matches: 146, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
43 3 0.02
44 5 0.03
45 134 0.92
46 3 0.02
47 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (44 bp):
TGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTGATAT
Found at i:42377782 original size:90 final size:90
Alignment explanation
Indices: 42377595--42377811 Score: 260
Period size: 90 Copynumber: 2.4 Consensus size: 90
42377585 TTTTCCGACA
* * *
42377595 TGATGCTATAGTATATTTCAACTATGGTCTTATTCGA-TTCCAGTATAGTGCCATAGTGTCTTTC
1 TGATGCCATAGTATCTTTCAACTATGGTCTTATTC-ATTTCCAGTATAATGCCATAGTGTCTTTC
* *
42377659 AACTATGGTCTTATTCATTTCCGGTAT
65 AACTATGGTCTTACTCATTT-CGATAT
* * **
42377686 AG-TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGGTATAATGCCATAGTGTCTTTCA
1 TGATGCCATAGTATCTTTCAACTATGGTCTTATTCATTTCCAGTATAATGCCATAGTGTCTTTCA
* *
42377750 ACTATGGTCTTACTCGTTT-GATTT
66 ACTATGGTCTTACTCATTTCGATAT
** *
42377774 GTGATGCCATAACATCTTTCAACTATGGTCTTACTCAT
1 -TGATGCCATAGTATCTTTCAACTATGGTCTTATTCAT
42377812 ATTTTAACCA
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
88 3 0.03
89 2 0.02
90 101 0.94
91 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (90 bp):
TGATGCCATAGTATCTTTCAACTATGGTCTTATTCATTTCCAGTATAATGCCATAGTGTCTTTCA
ACTATGGTCTTACTCATTTCGATAT
Found at i:42390153 original size:11 final size:11
Alignment explanation
Indices: 42390137--42390163 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
42390127 AACAAAATGC
42390137 AATAAATTATT
1 AATAAATTATT
42390148 AATAAATTATT
1 AATAAATTATT
42390159 AATAA
1 AATAA
42390164 GTTTGAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AATAAATTATT
Found at i:42397011 original size:40 final size:40
Alignment explanation
Indices: 42396941--42397068 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 40
42396931 CAATTGAATG
* * *
42396941 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGT-GACTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTCG--TT
* *
42396982 -TATGCGGGCTAATACCCGAAGGCATTTGTGCGAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTCGTT
* * *
42397021 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTCGTT
42397061 ATATCCGG
1 ATATCCGG
42397069 TTGTATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
39 2 0.03
40 72 0.96
41 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTCGTT
Found at i:42406432 original size:40 final size:40
Alignment explanation
Indices: 42406374--42406541 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
42406364 CAATTGAATG
* *
42406374 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
*
42406415 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
42406454 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
42406494 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
42406534 ATATCCGG
1 ATATCCGG
42406542 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:42406512 original size:80 final size:79
Alignment explanation
Indices: 42406374--42406541 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
42406364 CAATTGAATG
* * *
42406374 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
42406439 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
42406454 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
42406518 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
42406534 ATATCCGG
1 ATATCCGG
42406542 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:42412088 original size:42 final size:42
Alignment explanation
Indices: 42412027--42412189 Score: 179
Period size: 42 Copynumber: 3.9 Consensus size: 42
42412017 TTAGGGTTAC
* *
42412027 GAGACTAT-GTGTAAAACCATTTCTGGGATATGGCATC-ATCAT
1 GAGACT-TCGTGTAAGACCATATCTGGGATATGGCATCGAT-AT
42412069 GAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATAT
1 GAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATAT
* * * * * *
42412111 GAGATTTCGTGTAAGACCATAGCTAGGCTATTGACATCGATAC
1 GAGACTTCGTGTAAGACCATATCTGGGATA-TGGCATCGATAT
* *
42412154 GAGA-TCCTATGTAAGACCATATCTGGGATATGGCAT
1 GAGACTTC-GTGTAAGACCATATCTGGGATATGGCAT
42412190 TGGTATATTA
Statistics
Matches: 103, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
41 1 0.01
42 68 0.66
43 34 0.33
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (42 bp):
GAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATAT
Found at i:42413004 original size:12 final size:12
Alignment explanation
Indices: 42412989--42413013 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42412979 CCACATGGGT
42412989 AGACACACGGGC
1 AGACACACGGGC
42413001 AGACACACGGGC
1 AGACACACGGGC
42413013 A
1 A
42413014 TGTGTCTATG
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:0.36, C:0.32, G:0.32, T:0.00
Consensus pattern (12 bp):
AGACACACGGGC
Found at i:42423903 original size:27 final size:28
Alignment explanation
Indices: 42423846--42423915 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
42423836 AAATTTGTAC
**
42423846 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
42423874 AGCACTAAGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
42423901 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
42423916 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 25 0.62
28 15 0.38
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:42433215 original size:42 final size:42
Alignment explanation
Indices: 42433163--42433249 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
42433153 AGGGTTACCA
*
42433163 AGACTATGTGTAGGACCATATCTGGGATATGACATC-ATTATG
1 AGACTATGTGTAAGACCATATCTGGGATATGACATCGA-TATG
* * * *
42433205 AGACTTTGTGTAAGACCATATTTGGTATATGGCATCGATATG
1 AGACTATGTGTAAGACCATATCTGGGATATGACATCGATATG
42433247 AGA
1 AGA
42433250 TTTCGTTGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 38 0.97
43 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (42 bp):
AGACTATGTGTAAGACCATATCTGGGATATGACATCGATATG
Found at i:42434437 original size:50 final size:50
Alignment explanation
Indices: 42434370--42434470 Score: 157
Period size: 50 Copynumber: 2.0 Consensus size: 50
42434360 ACATGGCCTT
* * *
42434370 AGCACATGGGCGTGTGCCTTGGCCGTGTGACTTCAATTTGTTCATGGATG
1 AGCACACGGGCATGTGCCTTGGCCGTGTGACTTCAATTTCTTCATGGATG
**
42434420 AGCACACGGGCATGTGCCTTTTCCGTGTGACTTCAATTTCTTCATGGATG
1 AGCACACGGGCATGTGCCTTGGCCGTGTGACTTCAATTTCTTCATGGATG
42434470 A
1 A
42434471 CAAACAGAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.18, C:0.22, G:0.28, T:0.33
Consensus pattern (50 bp):
AGCACACGGGCATGTGCCTTGGCCGTGTGACTTCAATTTCTTCATGGATG
Found at i:42450864 original size:25 final size:24
Alignment explanation
Indices: 42450836--42450897 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
42450826 CACTACTGAT
*
42450836 CAAGATGCTCGTAGGAA-CTATGTAA
1 CAAGATGCTCGTA-GAAGCT-TATAA
42450861 CAAGAATGCTCG-AGAAGGCTTATAA
1 CAAG-ATGCTCGTAGAA-GCTTATAA
42450886 CAAGATGCTCGT
1 CAAGATGCTCGT
42450898 CCTAACTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
24 10 0.31
25 13 0.41
26 9 0.28
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (24 bp):
CAAGATGCTCGTAGAAGCTTATAA
Found at i:42464436 original size:20 final size:19
Alignment explanation
Indices: 42464391--42464438 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
42464381 AATTTATCTG
*
42464391 TATTAACAGTTTTATACAT
1 TATTAACAGTTTGATACAT
**
42464410 TAGTTAACAGTTCTGATATTT
1 TA-TTAACAGTT-TGATACAT
42464431 TATTAACA
1 TATTAACA
42464439 AATATTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 15 0.62
21 7 0.29
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.46
Consensus pattern (19 bp):
TATTAACAGTTTGATACAT
Found at i:42467965 original size:46 final size:46
Alignment explanation
Indices: 42467912--42468087 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
42467902 TATTTGGGCA
42467912 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
42467958 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
42468005 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
42468051 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42468088 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:42468067 original size:93 final size:93
Alignment explanation
Indices: 42467908--42468079 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
42467898 GGGATATTTG
* *
42467908 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
42467973 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
42468001 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
42468066 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
42468080 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:42471061 original size:15 final size:15
Alignment explanation
Indices: 42471041--42471109 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
42471031 GTATCTTGGG
42471041 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
42471056 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
42471071 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
42471086 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
42471101 TTTCTTTAT
1 TTTCTTTAT
42471110 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:42471110 original size:30 final size:30
Alignment explanation
Indices: 42471032--42471119 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
42471022 CATAGTATCG
* * * *
42471032 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
42471062 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
42471092 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
42471120 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:42473553 original size:46 final size:46
Alignment explanation
Indices: 42473503--42473678 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
42473493 TATTTGGGCA
42473503 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
42473549 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
42473596 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
42473642 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42473679 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:42473658 original size:93 final size:93
Alignment explanation
Indices: 42473499--42473670 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
42473489 TGGATATTTG
* *
42473499 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
42473564 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
42473592 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
42473657 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
42473671 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:42478237 original size:40 final size:40
Alignment explanation
Indices: 42478192--42478358 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
42478182 CGGAATATAA
42478192 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
42478232 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
42478272 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
42478312 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
42478351 CCGGATAT
1 CCGGATAT
42478359 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:42486489 original size:40 final size:40
Alignment explanation
Indices: 42486404--42486554 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
42486394 AATTGAATGA
* * * **
42486404 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
42486444 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
42486485 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
42486524 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
42486555 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:42486568 original size:40 final size:40
Alignment explanation
Indices: 42486441--42486570 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
42486431 ATGCTGGAAA
* * *
42486441 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
42486481 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
42486521 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
42486561 TTATATCCGG
1 TTATATCCGG
42486571 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:42494468 original size:40 final size:40
Alignment explanation
Indices: 42494402--42494552 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
42494392 AAATTGAATG
* * *
42494402 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
42494441 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
42494481 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
42494521 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
42494553 ACTGGTTATA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:42496146 original size:15 final size:15
Alignment explanation
Indices: 42496126--42496176 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
42496116 AAATCAAATT
42496126 AAAAAGAACAAGAAA
1 AAAAAGAACAAGAAA
*
42496141 AAAAAGAATGAA-AAA
1 AAAAAGAA-CAAGAAA
*
42496156 GAAAATGAACAAGAAA
1 -AAAAAGAACAAGAAA
42496172 AAAAA
1 AAAAA
42496177 AGAAAGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
15 17 0.59
16 12 0.41
ACGTcount: A:0.78, C:0.04, G:0.14, T:0.04
Consensus pattern (15 bp):
AAAAAGAACAAGAAA
Found at i:42496156 original size:10 final size:10
Alignment explanation
Indices: 42496128--42496219 Score: 73
Period size: 10 Copynumber: 9.0 Consensus size: 10
42496118 ATCAAATTAA
*
42496128 AAAGAACAAG
1 AAAGAAAAAG
42496138 AAA-AAAAAG
1 AAAGAAAAAG
*
42496147 AATGAAAAAG
1 AAAGAAAAAG
*
42496157 AAAATGAACAAG
1 -AAA-GAAAAAG
*
42496169 AAAAAAAAAG
1 AAAGAAAAAG
42496179 AAAGAAAAAG
1 AAAGAAAAAG
*
42496189 AAAAGAAAGTAG
1 -AAAGAAA-AAG
42496201 AAA-AAAAA-
1 AAAGAAAAAG
42496209 AAAGGAAAAAG
1 AAA-GAAAAAG
42496220 TGAGAAAAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
8 3 0.05
9 8 0.12
10 31 0.48
11 15 0.23
12 8 0.12
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.03
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:42496166 original size:31 final size:30
Alignment explanation
Indices: 42496127--42496219 Score: 118
Period size: 31 Copynumber: 3.0 Consensus size: 30
42496117 AATCAAATTA
*
42496127 AAAAGAACAAGAAAAAAAAGAATGAAAAAG
1 AAAAGAACAAGAAAAAAAAGAAAGAAAAAG
42496157 AAAATGAACAAGAAAAAAAAAGAAAGAAAAAG
1 AAAA-GAACAAG-AAAAAAAAGAAAGAAAAAG
42496189 AAAAGAA-AGTAGAAAAAAAA-AAAGGAAAAAG
1 AAAAGAACA--AGAAAAAAAAGAAA-GAAAAAG
42496220 TGAGAAAAAT
Statistics
Matches: 57, Mismatches: 1, Indels: 9
0.85 0.01 0.13
Matches are distributed among these distances:
30 8 0.14
31 25 0.44
32 24 0.42
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.03
Consensus pattern (30 bp):
AAAAGAACAAGAAAAAAAAGAAAGAAAAAG
Found at i:42496179 original size:32 final size:31
Alignment explanation
Indices: 42496127--42496219 Score: 120
Period size: 32 Copynumber: 3.0 Consensus size: 31
42496117 AATCAAATTA
*
42496127 AAAAGAACAAG-AAAAAAAAGAATGAAAAAG
1 AAAAGAACAAGAAAAAAAAAGAAAGAAAAAG
42496157 AAAATGAACAAGAAAAAAAAAGAAAGAAAAAG
1 AAAA-GAACAAGAAAAAAAAAGAAAGAAAAAG
*
42496189 AAAAGAA-AGTAGAAAAAAAAA-AAGGAAAAAG
1 AAAAGAACA--AGAAAAAAAAAGAAAGAAAAAG
42496220 TGAGAAAAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
30 5 0.09
31 19 0.33
32 33 0.58
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.03
Consensus pattern (31 bp):
AAAAGAACAAGAAAAAAAAAGAAAGAAAAAG
Found at i:42499917 original size:18 final size:18
Alignment explanation
Indices: 42499889--42499923 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
42499879 AGCCCATGCT
42499889 TGAATTTTTGA-TTTTGA
1 TGAATTTTTGAGTTTTGA
42499906 TGAATCTTTTGAGTTTTG
1 TGAAT-TTTTGAGTTTTG
42499924 CCATTGATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 6 0.38
19 5 0.31
ACGTcount: A:0.20, C:0.03, G:0.20, T:0.57
Consensus pattern (18 bp):
TGAATTTTTGAGTTTTGA
Found at i:42500621 original size:45 final size:45
Alignment explanation
Indices: 42500558--42500735 Score: 170
Period size: 45 Copynumber: 4.0 Consensus size: 45
42500548 TAAGATTTCG
* * *
42500558 ATATGTATTTTCGAGTAAGACCACGTCTGGGACATTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACATCTGGGACATTGGCATCGAT
* * *
42500603 ATATGTGTTTTCGTGTAAGACAACATTTGGTACATTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACATCTGGGACATTGGCATCGAT
* ** *
42500648 ATATGTGGTTAT-GTGTAAGACCATGTCTGGGACATCGGCATCG-T
1 ATATGT-GTTTTCGTGTAAGACCACATCTGGGACATTGGCATCGAT
* * * *
42500692 AT-T-TG-ATTCGTGTAAAACC-CTATCTGGGACAGTGGCGTCGAT
1 ATATGTGTTTTCGTGTAAGACCAC-ATCTGGGACATTGGCATCGAT
42500734 AT
1 AT
42500736 GAGATAGCAT
Statistics
Matches: 108, Mismatches: 21, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
40 1 0.01
41 25 0.23
42 4 0.04
43 1 0.01
44 3 0.03
45 70 0.65
46 4 0.04
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCACATCTGGGACATTGGCATCGAT
Found at i:42510728 original size:45 final size:45
Alignment explanation
Indices: 42510665--42510800 Score: 157
Period size: 45 Copynumber: 3.0 Consensus size: 45
42510655 TAGGATTTCG
* * * *
42510665 ATATGTATTTTCGAGTAAGACCACGTCTGGGATGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTCGGCATCGAT
* *
42510710 ATATGTGTTTTTGTGTAAGACCATGTCTGGGACGTCGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTCGGCATCGAT
* * ** * *
42510755 ATATGTGGTTACGTGTAAGACCTTGTCTGAGACATCGGCATC-AT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTCGGCATCGAT
42510799 AT
1 AT
42510801 TCGGTTCGTA
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 4 0.05
45 75 0.95
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTCGGCATCGAT
Found at i:42512626 original size:46 final size:47
Alignment explanation
Indices: 42512573--42512667 Score: 122
Period size: 46 Copynumber: 2.0 Consensus size: 47
42512563 GTGTTACACT
42512573 TAATTAGTTTCAG-CAATTAATATGTCATAAGTTAA-TTAATATGTTC
1 TAATTAGTTT-AGCCAATTAATATGTCATAAGTTAATTTAATATGTTC
* * * * *
42512619 TAATTAGTTTAGCCATTTATTATGTCTTGAGTTAATTTAATTTGTTC
1 TAATTAGTTTAGCCAATTAATATGTCATAAGTTAATTTAATATGTTC
42512666 TA
1 TA
42512668 GTTAATACAG
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
45 2 0.05
46 28 0.67
47 12 0.29
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (47 bp):
TAATTAGTTTAGCCAATTAATATGTCATAAGTTAATTTAATATGTTC
Found at i:42512776 original size:14 final size:14
Alignment explanation
Indices: 42512757--42512793 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 14
42512747 TGTTTATAGG
42512757 TGATTCATAGCAAC
1 TGATTCATAGCAAC
42512771 TGATTCAGATAGCAAC
1 TGATTC--ATAGCAAC
42512787 TGATTCA
1 TGATTCA
42512794 GCTAGCTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.33
16 14 0.67
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (14 bp):
TGATTCATAGCAAC
Found at i:42512784 original size:16 final size:16
Alignment explanation
Indices: 42512763--42512799 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
42512753 TAGGTGATTC
42512763 ATAGCAACTGATTCAG
1 ATAGCAACTGATTCAG
42512779 ATAGCAACTGATTCAG
1 ATAGCAACTGATTCAG
*
42512795 CTAGC
1 ATAGC
42512800 TTAAGTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (16 bp):
ATAGCAACTGATTCAG
Found at i:42521910 original size:13 final size:13
Alignment explanation
Indices: 42521867--42521911 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
42521857 GCCAAACAAC
*
42521867 AAAATGAAGAGAG
1 AAAAAGAAGAGAG
*
42521880 AAAAAGAATTGGGAG
1 AAAAAGAA--GAGAG
42521895 AAAAAGAAGAGAG
1 AAAAAGAAGAGAG
42521908 AAAA
1 AAAA
42521912 TGGAGTATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 15 0.56
15 12 0.44
ACGTcount: A:0.64, C:0.00, G:0.29, T:0.07
Consensus pattern (13 bp):
AAAAAGAAGAGAG
Found at i:42522550 original size:5 final size:6
Alignment explanation
Indices: 42522525--42522549 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
42522515 CATAATATAA
42522525 TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
42522550 AAAAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:42523246 original size:21 final size:21
Alignment explanation
Indices: 42523222--42523286 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
42523212 AAGTCTAGCT
*
42523222 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACA
** *
42523243 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACA
42523261 GAAGCACATAAGTGCTAAACA
1 GAAGCACATAAGTGCTAAACA
42523282 GAAGC
1 GAAGC
42523287 CCGAAGGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 7 0.20
21 13 0.37
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.12
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACA
Found at i:42523263 original size:39 final size:39
Alignment explanation
Indices: 42523204--42523304 Score: 175
Period size: 39 Copynumber: 2.6 Consensus size: 39
42523194 ATCGTGATTT
* * *
42523204 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACA
42523243 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACA
42523282 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
42523305 TCATCAGAGC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.38, C:0.24, G:0.26, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACA
Found at i:42529598 original size:17 final size:18
Alignment explanation
Indices: 42529573--42529610 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
42529563 GAAATTAATA
42529573 AAAACATAAAATAAAAGT
1 AAAACATAAAATAAAAGT
*
42529591 AAAA-ATAAAATAAAATT
1 AAAACATAAAATAAAAGT
42529608 AAA
1 AAA
42529611 CATCATCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (18 bp):
AAAACATAAAATAAAAGT
Found at i:42541230 original size:2 final size:2
Alignment explanation
Indices: 42541223--42541276 Score: 92
Period size: 2 Copynumber: 27.0 Consensus size: 2
42541213 GCCAAATCTT
42541223 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
42541265 GA -A GA GTA GA GA
1 GA GA GA G-A GA GA
42541277 ATCAGCCAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.02
2 47 0.94
3 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.48, T:0.02
Consensus pattern (2 bp):
GA
Found at i:42542435 original size:18 final size:18
Alignment explanation
Indices: 42542412--42542454 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
42542402 TTGCTGATGC
42542412 TGGATATGGCATCCAAAA
1 TGGATATGGCATCCAAAA
*
42542430 TGGATATTGCATCCAAAA
1 TGGATATGGCATCCAAAA
42542448 TGGATAT
1 TGGATAT
42542455 ATTACCCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (18 bp):
TGGATATGGCATCCAAAA
Found at i:42543001 original size:32 final size:32
Alignment explanation
Indices: 42542961--42543041 Score: 128
Period size: 32 Copynumber: 2.5 Consensus size: 32
42542951 TGAAATTTGT
*
42542961 TTGTTGGATTTTGAAATTATTATGTTTTAAAG-
1 TTGTTGGATATTGAAATTATTATGTTTT-AAGC
*
42542993 TTGTTGGATATTGAATTTATTATGTTTTAAGC
1 TTGTTGGATATTGAAATTATTATGTTTTAAGC
42543025 TTGTTGGATATTGAAAT
1 TTGTTGGATATTGAAAT
42543042 GATTGACAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 3 0.07
32 42 0.93
ACGTcount: A:0.27, C:0.01, G:0.20, T:0.52
Consensus pattern (32 bp):
TTGTTGGATATTGAAATTATTATGTTTTAAGC
Found at i:42544007 original size:19 final size:19
Alignment explanation
Indices: 42543983--42544019 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
42543973 TGCTTTAATG
*
42543983 TGGTGTAGTACTAATTATA
1 TGGTGTAATACTAATTATA
*
42544002 TGGTGTAATACTAGTTAT
1 TGGTGTAATACTAATTAT
42544020 GCACTTGGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.05, G:0.22, T:0.43
Consensus pattern (19 bp):
TGGTGTAATACTAATTATA
Found at i:42544042 original size:43 final size:45
Alignment explanation
Indices: 42543994--42544081 Score: 108
Period size: 46 Copynumber: 2.0 Consensus size: 45
42543984 GGTGTAGTAC
*
42543994 TAATTAT-A-TGGTGTAATACTAGTTATGCACTTGGACAATATTG
1 TAATTATCAGTGGTGTAATACTAATTATGCACTTGGACAATATTG
* * * *
42544037 TAATTATCATGTGGTGTACTACTAATTATGTATTTGGATAATATT
1 TAATTATCA-GTGGTGTAATACTAATTATGCACTTGGACAATATT
42544082 CTTAATTTGT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
43 7 0.19
44 1 0.03
46 29 0.78
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (45 bp):
TAATTATCAGTGGTGTAATACTAATTATGCACTTGGACAATATTG
Found at i:42544551 original size:14 final size:14
Alignment explanation
Indices: 42544532--42544567 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
42544522 GAAAAATAAT
*
42544532 TCATTTTCTAGAAA
1 TCATTTTCCAGAAA
42544546 TCATTTTCCAGAAA
1 TCATTTTCCAGAAA
*
42544560 CCATTTTC
1 TCATTTTC
42544568 AGTCAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.42
Consensus pattern (14 bp):
TCATTTTCCAGAAA
Found at i:42546378 original size:31 final size:31
Alignment explanation
Indices: 42546340--42546401 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
42546330 AGGGGCACTA
42546340 TCCTTACATACTTTCATCATTTTAGTTACTT
1 TCCTTACATACTTTCATCATTTTAGTTACTT
* *
42546371 TCCTTACATGCTTTTATCATTTTAGTTACTT
1 TCCTTACATACTTTCATCATTTTAGTTACTT
42546402 GACGTTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.53
Consensus pattern (31 bp):
TCCTTACATACTTTCATCATTTTAGTTACTT
Found at i:42547908 original size:37 final size:35
Alignment explanation
Indices: 42547867--42547944 Score: 86
Period size: 37 Copynumber: 2.2 Consensus size: 35
42547857 TATTCTTTAA
* *
42547867 AATATTGTATTCTTAATTATAGAAATTAATGTAAAAT
1 AATATTGTATT-TGAATTATAGAAAATAAT-TAAAAT
* *
42547904 AATATTTTTATTTGAATTATTGAAAATAATTAAAAT
1 AATA-TTGTATTTGAATTATAGAAAATAATTAAAAT
42547940 -ATATT
1 AATATT
42547945 AACTTATCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
34 2 0.06
35 3 0.08
36 6 0.17
37 19 0.53
38 6 0.17
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.46
Consensus pattern (35 bp):
AATATTGTATTTGAATTATAGAAAATAATTAAAAT
Found at i:42549019 original size:2 final size:2
Alignment explanation
Indices: 42549012--42549048 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
42549002 CAAGATATGC
42549012 TA TA TA 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 TA TA TA T
42549049 GTGATTCTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:42549136 original size:17 final size:17
Alignment explanation
Indices: 42549094--42549139 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
42549084 AATAATAAAT
42549094 AATA-ATAAAGAAATAA
1 AATATATAAAGAAATAA
42549110 AAT-TACTAAA-AAATAA
1 AATATA-TAAAGAAATAA
42549126 GAATATATAAAGAA
1 -AATATATAAAGAA
42549140 CTAGTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 10 0.40
17 11 0.44
18 4 0.16
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (17 bp):
AATATATAAAGAAATAA
Found at i:42551218 original size:20 final size:20
Alignment explanation
Indices: 42551193--42551233 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
42551183 AGAAGCACCT
42551193 AATGATATCCCTATGATCAA
1 AATGATATCCCTATGATCAA
42551213 AATGATATCCCTATGATCAA
1 AATGATATCCCTATGATCAA
42551233 A
1 A
42551234 GAGTTTACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (20 bp):
AATGATATCCCTATGATCAA
Found at i:42551394 original size:23 final size:24
Alignment explanation
Indices: 42551368--42551413 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
42551358 CCAAAATTGC
* *
42551368 AATATATAT-TTTCATAAAACAAT
1 AATATATATGATTCACAAAACAAT
42551391 AATATATATGATTCACAAAACAA
1 AATATATATGATTCACAAAACAA
42551414 AATTGGTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (24 bp):
AATATATATGATTCACAAAACAAT
Found at i:42551809 original size:3 final size:3
Alignment explanation
Indices: 42551801--42551853 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
42551791 TGGGAAGGGA
42551801 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
42551849 AAT AA
1 AAT AA
42551854 AATGAAGAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:42559018 original size:69 final size:69
Alignment explanation
Indices: 42558891--42559493 Score: 444
Period size: 69 Copynumber: 8.8 Consensus size: 69
42558881 GAGTTTTTAA
* * * * * * **
42558891 CTCTCG-TAAACTGTGTTGGAGGCTGCAATCTTTATCCTGCAAGCCTTAGTATGGCAGTTGGGAG
1 CTCTCGCT-AACTGTGTTGGAGGCTACAGTTTTTATCCTACGAGCCTTAATATAACAGTTGGGAG
42558955 CTTTG
65 CTTTG
* *
42558960 CTCTTGCTAACTGTGTTGGAGGCTACAGTTTTTATCCTACGAGCCTTAATATATCAGTTGGGAGC
1 CTCTCGCTAACTGTGTTGGAGGCTACAGTTTTTATCCTACGAGCCTTAATATAACAGTTGGGAGC
*
42559025 TTTA
66 TTTG
** * ** * * ** *
42559029 CTCTTACTAACTGTATTGGAGGCTATGGTTTTTATCCTACGAGCCTTAGTATGATTGCTGGGAGC
1 CTCTCGCTAACTGTGTTGGAGGCTACAGTTTTTATCCTACGAGCCTTAATATAACAGTTGGGAGC
42559094 TTTG
66 TTTG
* * * * * * *** * * **
42559098 CTTTCGCTAACTGTGTTGGAGGTTGCAGTTTTTATTCTGCAAATTTTAACATGACAACTGGGAGC
1 CTCTCGCTAACTGTGTTGGAGGCTACAGTTTTTATCCTACGAGCCTTAATATAACAGTTGGGAGC
42559163 TTTG
66 TTTG
* * * * * ** * * ** *
42559167 CTCTCACTAGCTATATTGGA-GCTGCAGTTTTTATCCTGTGAACTTTAATAGGACAGTTGGGAAC
1 CTCTCGCTAACTGTGTTGGAGGCTACAGTTTTTATCCTACGAGCCTTAATATAACAGTTGGGAGC
42559231 TTTG
66 TTTG
* * * * * **
42559235 CTCTCGCTAACTATATTAGAGGCTA-TGATTTTTATCCTACGAGCCTTAATATAACAGCTAAGAG
1 CTCTCGCTAACTGTGTTGGAGGCTACAG-TTTTTATCCTACGAGCCTTAATATAACAGTTGGGAG
*
42559299 CTTTT
65 CTTTG
* * * * * * * *
42559304 CTCTCTCTAACTATGTTGAAGGCTATGACTCTTCA-CTTACGAGCCTTAATATAACAGTTGGGAG
1 CTCTCGCTAACTGTGTTGGAGGCTA-CAGTTTTTATCCTACGAGCCTTAATATAACAGTTGGGAG
42559368 CTTTG
65 CTTTG
* ** * * * * * *
42559373 CTCTCGCTAACTGTGTTGGAGGTTGTGACTCTTCA-CCTGCAAGCCTTAATA-AGACAGTTGGAA
1 CTCTCGCTAACTGTGTTGGAGGCT-ACAGTTTTTATCCTACGAGCCTTAATATA-ACAGTTGGGA
42559436 GCTTTG
64 GCTTTG
* * * *
42559442 CTCTCGCTAATTATGTTGGAGGCTACGGTTTTTATCCTAGGAGCCTTAATAT
1 CTCTCGCTAACTGTGTTGGAGGCTACAGTTTTTATCCTACGAGCCTTAATAT
42559494 GGCATAAATG
Statistics
Matches: 420, Mismatches: 105, Indels: 17
0.77 0.19 0.03
Matches are distributed among these distances:
68 61 0.15
69 354 0.84
70 5 0.01
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (69 bp):
CTCTCGCTAACTGTGTTGGAGGCTACAGTTTTTATCCTACGAGCCTTAATATAACAGTTGGGAGC
TTTG
Found at i:42559302 original size:206 final size:207
Alignment explanation
Indices: 42558949--42559321 Score: 471
Period size: 206 Copynumber: 1.8 Consensus size: 207
42558939 GTATGGCAGT
** * * * *
42558949 TGGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTACAGTTTTTATCCTACGAGCCTTAATATAT
1 TGGGAGCTTTGCTCTCACTAACTATATTGGAGGCTACAGTTTTTATCCTACGAACCTTAATAGAT
* * * * * *
42559014 CAGTTGGGAGCTTTACTCTTACTAACTGTATTGGAGGCTATGGTTTTTATCCTACGAGCCTTAGT
66 CAGTTGGGAACTTTACTCTCACTAACTATATTAGAGGCTATGATTTTTATCCTACGAGCCTTAAT
* ** ** * *
42559079 ATGATTGCTGGGAGCTTTGCTTTCGCTAACTGTGTTGGAGGTTGCAGTTTTTATTCTGCAAATTT
131 ATAACAGCTAAGAGCTTTGCTCTCGCTAACTATGTTGGAGGTTGCAGTTTTTATTCTGCAAATTT
42559144 TAACATGACAAC
196 TAACATGACAAC
* * ** *
42559156 TGGGAGCTTTGCTCTCACTAGCTATATTGGA-GCTGCAGTTTTTATCCTGTGAACTTTAATAGGA
1 TGGGAGCTTTGCTCTCACTAACTATATTGGAGGCTACAGTTTTTATCCTACGAACCTTAATA-GA
* *
42559220 -CAGTTGGGAACTTTGCTCTCGCTAACTATATTAGAGGCTATGATTTTTATCCTACGAGCCTTAA
65 TCAGTTGGGAACTTTACTCTCACTAACTATATTAGAGGCTATGATTTTTATCCTACGAGCCTTAA
* *
42559284 TATAACAGCTAAGAGCTTTTCTCTCTCTAACTATGTTG
130 TATAACAGCTAAGAGCTTTGCTCTCGCTAACTATGTTG
42559322 AAGGCTATGA
Statistics
Matches: 137, Mismatches: 28, Indels: 3
0.82 0.17 0.02
Matches are distributed among these distances:
206 110 0.80
207 27 0.20
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.38
Consensus pattern (207 bp):
TGGGAGCTTTGCTCTCACTAACTATATTGGAGGCTACAGTTTTTATCCTACGAACCTTAATAGAT
CAGTTGGGAACTTTACTCTCACTAACTATATTAGAGGCTATGATTTTTATCCTACGAGCCTTAAT
ATAACAGCTAAGAGCTTTGCTCTCGCTAACTATGTTGGAGGTTGCAGTTTTTATTCTGCAAATTT
TAACATGACAAC
Found at i:42559441 original size:275 final size:276
Alignment explanation
Indices: 42558945--42559479 Score: 612
Period size: 275 Copynumber: 1.9 Consensus size: 276
42558935 CTTAGTATGG
* * * * *
42558945 CAGTTGGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTACAGTTTTTATCCTACGAGCCTTAAT
1 CAGTTGGGAACTTTGCTCTCGCTAACTATATTAGAGGCTACAGTTTTTATCCTACGAGCCTTAAT
* * ** * * * * *
42559010 ATATCAGTTGGGAGCTTTACTCTTACTAACTGTATTGGAGGCTATGGTTTTTATCCTACGAGCCT
66 ATAACAGCTAAGAGCTTTACTCTTACTAACTATATTGAAGGCTATGCTCTTCATCCTACGAGCCT
* * ** * * * * *
42559075 TAGTATGATTGCTGGGAGCTTTGCTTTCGCTAACTGTGTTGGAGGTTGCAGTTTTTATTCTGCAA
131 TAATATAACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTGCACTCTTCATCCTGCAA
** * * * *
42559140 ATTTTAACATGACAACTGGGAGCTTTGCTCTCACTAGCTATATTGGA-GCTGCAGTTTTTATCCT
196 ACCTTAACAAGACAACTGGAAGCTTTGCTCTCACTAACTATATTGGAGGCTACAGTTTTTATCCT
42559204 GTGAACTTTAATAGGA
261 GTGAACTTTAATAGGA
*
42559220 CAGTTGGGAACTTTGCTCTCGCTAACTATATTAGAGGCTA-TGATTTTTATCCTACGAGCCTTAA
1 CAGTTGGGAACTTTGCTCTCGCTAACTATATTAGAGGCTACAG-TTTTTATCCTACGAGCCTTAA
* * *
42559284 TATAACAGCTAAGAGCTTTTCTCTCT-CTAACTATGTTGAAGGCTATGACTCTTCA-CTTACGAG
65 TATAACAGCTAAGAGCTTTACTCT-TACTAACTATATTGAAGGCTATG-CTCTTCATCCTACGAG
* *
42559347 CCTTAATATAACAGTTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTGTGACTCTTCA-CCT
128 CCTTAATATAACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTG-CACTCTTCATCCT
* * ** * * * *
42559411 GCAAGCCTTAATAAGACAGTTGGAAGCTTTGCTCTCGCTAATTATGTTGGAGGCTACGGTTTTTA
192 GCAAACCTTAACAAGACAACTGGAAGCTTTGCTCTCACTAACTATATTGGAGGCTACAGTTTTTA
42559476 TCCT
257 TCCT
42559480 AGGAGCCTTA
Statistics
Matches: 212, Mismatches: 43, Indels: 9
0.80 0.16 0.03
Matches are distributed among these distances:
274 1 0.00
275 186 0.88
276 25 0.12
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (276 bp):
CAGTTGGGAACTTTGCTCTCGCTAACTATATTAGAGGCTACAGTTTTTATCCTACGAGCCTTAAT
ATAACAGCTAAGAGCTTTACTCTTACTAACTATATTGAAGGCTATGCTCTTCATCCTACGAGCCT
TAATATAACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTGCACTCTTCATCCTGCAA
ACCTTAACAAGACAACTGGAAGCTTTGCTCTCACTAACTATATTGGAGGCTACAGTTTTTATCCT
GTGAACTTTAATAGGA
Found at i:42571833 original size:93 final size:93
Alignment explanation
Indices: 42571674--42571886 Score: 327
Period size: 93 Copynumber: 2.3 Consensus size: 93
42571664 AAGAGAAAAC
* ** ** * *
42571674 CAAGAAGAAGATCAGCAAAGCTAAAGAATCTGTTGAACCTCCAAGGGGTTCATTAATTTCGGAAG
1 CAAGAAGAAGATCAGTAAAGCTAAAGAATCTGTTGAACCTCCAAGGAATTCACAAATTCCAGAAG
42571739 TTGTCCAAGAGAAAACAGAGAAGAAGAA
66 TTGTCCAAGAGAAAACAGAGAAGAAGAA
* *
42571767 CAAGAAAAAGATCAGTAAAGCTGAAGAATCTGTTGAACCTCCAAGGAATTCACAAATTCCAGAAG
1 CAAGAAGAAGATCAGTAAAGCTAAAGAATCTGTTGAACCTCCAAGGAATTCACAAATTCCAGAAG
* *
42571832 TTGTCGAAGAGAAAACCGAGAAGAAGAA
66 TTGTCCAAGAGAAAACAGAGAAGAAGAA
42571860 CAAGAAGAAGATCAGTAAAGCTAAAGA
1 CAAGAAGAAGATCAGTAAAGCTAAAGA
42571887 TAACAAGGCT
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 107 1.00
ACGTcount: A:0.46, C:0.15, G:0.23, T:0.16
Consensus pattern (93 bp):
CAAGAAGAAGATCAGTAAAGCTAAAGAATCTGTTGAACCTCCAAGGAATTCACAAATTCCAGAAG
TTGTCCAAGAGAAAACAGAGAAGAAGAA
Found at i:42575842 original size:32 final size:32
Alignment explanation
Indices: 42575806--42575869 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
42575796 TTTCTCAAGT
42575806 ATGTCAAATTTTTATATCCAATCTGCAAGAGG
1 ATGTCAAATTTTTATATCCAATCTGCAAGAGG
42575838 ATGTCAAATTTTTATATCCAATCTGCAAGAGG
1 ATGTCAAATTTTTATATCCAATCTGCAAGAGG
42575870 CCATGAGAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (32 bp):
ATGTCAAATTTTTATATCCAATCTGCAAGAGG
Found at i:42584005 original size:17 final size:18
Alignment explanation
Indices: 42583983--42584018 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
42583973 ATCCTAGATG
*
42583983 TATTTTTT-TAAAATATT
1 TATTTTTTAAAAAATATT
42584000 TATTTTTTAAAAAATATT
1 TATTTTTTAAAAAATATT
42584018 T
1 T
42584019 GTTGATATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTTTTAAAAAATATT
Found at i:42586090 original size:32 final size:32
Alignment explanation
Indices: 42586054--42586121 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
42586044 CACAAAACCA
42586054 GAAAATATTTTCTTTACTTTCAGTGGGAAAGT
1 GAAAATATTTTCTTTACTTTCAGTGGGAAAGT
42586086 GAAAATATTTTCTTTACTTTCAGTGGGAAAGT
1 GAAAATATTTTCTTTACTTTCAGTGGGAAAGT
42586118 -AAAA
1 GAAAA
42586122 CTTTCTCTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 4 0.11
32 32 0.89
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (32 bp):
GAAAATATTTTCTTTACTTTCAGTGGGAAAGT
Found at i:42586565 original size:15 final size:15
Alignment explanation
Indices: 42586541--42586570 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
42586531 TATTTATTAA
*
42586541 ATTAATTAATTTTCT
1 ATTAAATAATTTTCT
42586556 ATTAAATAATTTTCT
1 ATTAAATAATTTTCT
42586571 TAATCCAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTAAATAATTTTCT
Found at i:42587695 original size:72 final size:72
Alignment explanation
Indices: 42587578--42587717 Score: 271
Period size: 72 Copynumber: 1.9 Consensus size: 72
42587568 GTAACACCTG
42587578 TAACACCCCGTACCCGAGACCGTTACCGGAGTCGAACACGAGGTGCAAACAGACTTAATTCATTT
1 TAACACCCCGTACCCGAGACCGTTACCGGAGTCGAACACGAGGTGCAAACAGACTTAATTCATTT
42587643 ATTTTTA
66 ATTTTTA
*
42587650 TAACACCCCGTACCCGAGACCGTTGCCGGAGTCGAACACGAGGTGCAAACAGACTTAATTCATTT
1 TAACACCCCGTACCCGAGACCGTTACCGGAGTCGAACACGAGGTGCAAACAGACTTAATTCATTT
42587715 ATT
66 ATT
42587718 CGCACAGTCC
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (72 bp):
TAACACCCCGTACCCGAGACCGTTACCGGAGTCGAACACGAGGTGCAAACAGACTTAATTCATTT
ATTTTTA
Found at i:42589070 original size:40 final size:40
Alignment explanation
Indices: 42589000--42589176 Score: 288
Period size: 40 Copynumber: 4.5 Consensus size: 40
42588990 AAACCAAGTA
* * *
42589000 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
42589039 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42589079 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
42589119 -CTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42589158 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
42589177 TTATCATCCG
Statistics
Matches: 130, Mismatches: 5, Indels: 5
0.93 0.04 0.04
Matches are distributed among these distances:
39 52 0.40
40 78 0.60
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:42589131 original size:79 final size:80
Alignment explanation
Indices: 42589000--42589176 Score: 288
Period size: 79 Copynumber: 2.2 Consensus size: 80
42588990 AAACCAAGTA
* * * *
42589000 CCTTCGGGATTTAG-CCGGATATAGCTACTCGCTCAACTGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCAGATATAG
42589064 TAACTCGCACAAATG
66 TAACTCGCACAAATG
42589079 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG-CTTCGGGACTTAGCCCAGATATA
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCAGATATA
42589142 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
42589158 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
42589177 TTATCATCCG
Statistics
Matches: 92, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
79 71 0.77
80 21 0.23
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCAGATATAG
TAACTCGCACAAATG
Found at i:42597037 original size:40 final size:40
Alignment explanation
Indices: 42596967--42597104 Score: 235
Period size: 40 Copynumber: 3.5 Consensus size: 40
42596957 AAACCAAGTA
* *
42596967 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
42597006 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42597046 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42597086 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
42597105 TTATCATCCG
Statistics
Matches: 95, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
39 14 0.15
40 81 0.85
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:42603386 original size:40 final size:40
Alignment explanation
Indices: 42603331--42603540 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
42603321 AACATTGAAA
42603331 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
42603371 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
42603411 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
42603451 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
42603490 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
42603531 CTATATCCGG
1 ATATATCCGG
42603541 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:42607309 original size:51 final size:50
Alignment explanation
Indices: 42607180--42607314 Score: 155
Period size: 50 Copynumber: 2.7 Consensus size: 50
42607170 AGACAAGGCT
* *
42607180 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACATGACCTAACC
1 ATCTGGTACGCATAGTAGCCTGTACTTAGTACTACACACATGACCGAACC
* * * * * **
42607230 ATCTGATACACGTAGTAGCCTGTACTTAGTACTACACACGTGATCGAAGTT
1 ATCTGGTACGCATAGTAGCCTGTACTTAGTACTACACACATGACCGAA-CC
*
42607281 AT-TGGGTACGCATAGTAGCCTATACTTAGTACTA
1 ATCT-GGTACGCATAGTAGCCTGTACTTAGTACTA
42607315 TACATGCGAC
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
50 42 0.60
51 28 0.40
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (50 bp):
ATCTGGTACGCATAGTAGCCTGTACTTAGTACTACACACATGACCGAACC
Found at i:42607363 original size:100 final size:101
Alignment explanation
Indices: 42607184--42607372 Score: 272
Period size: 100 Copynumber: 1.9 Consensus size: 101
42607174 AAGGCTATCT
* * *
42607184 GGTACGCATAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAGTAGC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACACACGACCTAACCATCCGATACACGTAGTAGC
*
42607249 CTGTACTTAGTACTACACACGTGATCGAAGTTATTG
66 CTGCACTTAGTACTACACACGTGATCGAAGTTATTG
* * ** **
42607285 GGTACGCATAGTAGCCTATACTTAGTACTATACATGCGACC-AATTATCCGATACACGTAGTAGC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACACACGACCTAACCATCCGATACACGTAGTAGC
*
42607349 CTGCACTTATTACTACACACGTGA
66 CTGCACTTAGTACTACACACGTGA
42607373 CCTCACAATA
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
100 42 0.55
101 35 0.45
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (101 bp):
GGTACGCATAGTAGCCTACACTTAGTACTACACACACGACCTAACCATCCGATACACGTAGTAGC
CTGCACTTAGTACTACACACGTGATCGAAGTTATTG
Found at i:42607651 original size:27 final size:27
Alignment explanation
Indices: 42607621--42607674 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
42607611 TCATACAACC
* *
42607621 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
42607648 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
42607675 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:42610835 original size:93 final size:93
Alignment explanation
Indices: 42610676--42610846 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
42610666 GCCCATAAGT
* * *
42610676 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
42610741 CGAGCTCGGATGCTTAGTTACATCTCTC
66 CGAGCTCGGATGCTTAGTTACATCTCTC
*
42610769 GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
42610834 CGAGTTCGGATGC
66 CGAGCTCGGATGC
42610847 CCAAATATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCTTAGTTACATCTCTC
Found at i:42610843 original size:46 final size:45
Alignment explanation
Indices: 42610668--42610843 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 45
42610658 TGTAACCCGC
*
42610668 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAC-TTCGCAT
* *
42610714 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA--CTTCGCAT
* *** * *
42610760 ACATCTCTCGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGAC-TTCGCAT
*
42610807 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
42610844 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 72 0.66
47 35 0.32
48 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACTTCGCAT
Found at i:42623053 original size:43 final size:43
Alignment explanation
Indices: 42622992--42623076 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
42622982 GAGTTAGTAC
*
42622992 CGGGAACATCACCGATATCAATAGCTCCGTACAAAATGGCTCT
1 CGGGAACATCACCGATATCAATAGCTCCATACAAAATGGCTCT
42623035 CGGGAACATCACCGATATCAATAGCTCCATACAAAATGGCTC
1 CGGGAACATCACCGATATCAATAGCTCCATACAAAATGGCTC
42623077 CGACAGAGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (43 bp):
CGGGAACATCACCGATATCAATAGCTCCATACAAAATGGCTCT
Done.