Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 294 of 313
Found at i:90291237 original size:29 final size:29
Alignment explanation
Indices: 90291204--90291260 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
90291194 AGAACAAAAA
90291204 GTAAAATAAGTTAATCAAAACAATGATTG
1 GTAAAATAAGTTAATCAAAACAATGATTG
90291233 GTAAAATAAGTTAATCAAAACAATGATT
1 GTAAAATAAGTTAATCAAAACAATGATT
90291261 ACGTATACTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.53, C:0.07, G:0.12, T:0.28
Consensus pattern (29 bp):
GTAAAATAAGTTAATCAAAACAATGATTG
Found at i:90291609 original size:3 final size:3
Alignment explanation
Indices: 90291601--90291625 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
90291591 AACTATTAGA
90291601 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
90291626 TTATTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:90295375 original size:12 final size:13
Alignment explanation
Indices: 90295351--90295379 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
90295341 GGGCTATAAC
90295351 TATTGCATTTATT
1 TATTGCATTTATT
90295364 TATTGC-TTTATT
1 TATTGCATTTATT
90295376 TATT
1 TATT
90295380 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:90302535 original size:43 final size:43
Alignment explanation
Indices: 90302474--90302563 Score: 162
Period size: 43 Copynumber: 2.1 Consensus size: 43
90302464 NNNNNNNNNN
**
90302474 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
1 AGGCTTCGTGCCGGTGATGTGTATGAGGGCCTTCGTGCCTAGC
90302517 AGGCTTCGTGCCGGTGATGTGTATGAGGGCCTTCGTGCCTAGC
1 AGGCTTCGTGCCGGTGATGTGTATGAGGGCCTTCGTGCCTAGC
90302560 AGGC
1 AGGC
90302564 GTAACGCCGG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.11, C:0.24, G:0.37, T:0.28
Consensus pattern (43 bp):
AGGCTTCGTGCCGGTGATGTGTATGAGGGCCTTCGTGCCTAGC
Found at i:90302573 original size:43 final size:43
Alignment explanation
Indices: 90302483--90302576 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 43
90302473 NAGGCTTCGT
** * ***
90302483 GCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGT
1 GCCGGTGATGTGTATGAGGGCCTTCGTGCCTAGCAGGCGTAAC
90302526 GCCGGTGATGTGTATGAGGGCCTTCGTGCCTAGCAGGCGTAAC
1 GCCGGTGATGTGTATGAGGGCCTTCGTGCCTAGCAGGCGTAAC
90302569 GCCGGTGA
1 GCCGGTGA
90302577 AATGATATGT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.13, C:0.24, G:0.37, T:0.26
Consensus pattern (43 bp):
GCCGGTGATGTGTATGAGGGCCTTCGTGCCTAGCAGGCGTAAC
Found at i:90305504 original size:43 final size:43
Alignment explanation
Indices: 90305273--90305491 Score: 334
Period size: 43 Copynumber: 5.1 Consensus size: 43
90305263 GATAAATCCC
* * * *
90305273 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCATCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
90305314 GCAAGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
90305357 GCAAGCTTAGTGCCGGTGATGTGTATTCAGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
90305400 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
90305443 GCAGGCTTCGGGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
90305486 GCAGGC
1 GCAGGC
90305492 GTAATGTCGG
Statistics
Matches: 166, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
41 14 0.08
42 2 0.01
43 150 0.90
ACGTcount: A:0.13, C:0.25, G:0.33, T:0.29
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:90318119 original size:20 final size:20
Alignment explanation
Indices: 90318086--90318125 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
90318076 TCTCTCCCAA
*
90318086 AGTAATTATGAAAGTAAAAT
1 AGTAATTATAAAAGTAAAAT
* *
90318106 AGTAATTTTAAAAGTCAAAT
1 AGTAATTATAAAAGTAAAAT
90318126 TCAACAAAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.33
Consensus pattern (20 bp):
AGTAATTATAAAAGTAAAAT
Found at i:90320476 original size:4 final size:4
Alignment explanation
Indices: 90320467--90320513 Score: 76
Period size: 4 Copynumber: 11.8 Consensus size: 4
90320457 TTCTCGCAGA
* *
90320467 ATAC ATAC ATTC ATTC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
90320514 GAGGTCATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (4 bp):
ATAC
Found at i:90321209 original size:12 final size:12
Alignment explanation
Indices: 90321180--90321216 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
90321170 GTTGAGTTTG
90321180 GATATATTCTT-
1 GATATATTCTTA
*
90321191 CATATATTCTTA
1 GATATATTCTTA
90321203 GATATATTCTTA
1 GATATATTCTTA
90321215 GA
1 GA
90321217 CATGCAAGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (12 bp):
GATATATTCTTA
Found at i:90322686 original size:31 final size:31
Alignment explanation
Indices: 90322648--90322713 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
90322638 GTCTGGGTAT
**
90322648 CAAATTGAACATTGAAGGCAAACTCAAGTAC
1 CAAATTGAACATTGAAACCAAACTCAAGTAC
*
90322679 CAAATTGAATATTGAAACCAAACTCAAGTAC
1 CAAATTGAACATTGAAACCAAACTCAAGTAC
90322710 CAAA
1 CAAA
90322714 ATAGTTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.48, C:0.20, G:0.12, T:0.20
Consensus pattern (31 bp):
CAAATTGAACATTGAAACCAAACTCAAGTAC
Found at i:90324198 original size:38 final size:38
Alignment explanation
Indices: 90324150--90324225 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
90324140 CGTTTGAATG
* *
90324150 AAAAACGCCGCTAAAGAACGAGCATTAGCGGCGCTTTT
1 AAAAACGCCGCTAAAGAACAAGCATTAGCGACGCTTTT
* * *
90324188 AAAAATGCCGCTAAAGATCAAGTATTAGCGACGCTTTT
1 AAAAACGCCGCTAAAGAACAAGCATTAGCGACGCTTTT
90324226 TTTTAAAACG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (38 bp):
AAAAACGCCGCTAAAGAACAAGCATTAGCGACGCTTTT
Found at i:90324598 original size:22 final size:21
Alignment explanation
Indices: 90324573--90324622 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
90324563 GAGTTACTAT
*
90324573 TTTAAGGTTTATGGATTATGAG
1 TTTAAGGATTATGGATTATG-G
* *
90324595 TTTAGGGATTATGGTTTATGG
1 TTTAAGGATTATGGATTATGG
90324616 TTTAAGG
1 TTTAAGG
90324623 GTTGGGGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (21 bp):
TTTAAGGATTATGGATTATGG
Found at i:90324603 original size:15 final size:14
Alignment explanation
Indices: 90324578--90324612 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
90324568 ACTATTTTAA
*
90324578 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
90324592 GAGTTTAGGGATTAT
1 G-GTTTAGGGATTAT
90324607 GGTTTA
1 GGTTTA
90324613 TGGTTTAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:90324904 original size:22 final size:22
Alignment explanation
Indices: 90324879--90324921 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
90324869 ATTTATGATA
* *
90324879 TAGGGTTTTGGGTTTAAGGGTT
1 TAGGGGTTGGGGTTTAAGGGTT
*
90324901 TAGGGGTTGGGGTTTAGGGGT
1 TAGGGGTTGGGGTTTAAGGGT
90324922 AAATATAGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.49, T:0.40
Consensus pattern (22 bp):
TAGGGGTTGGGGTTTAAGGGTT
Found at i:90329170 original size:19 final size:19
Alignment explanation
Indices: 90329120--90329187 Score: 113
Period size: 19 Copynumber: 3.7 Consensus size: 19
90329110 TTAAATCTCC
*
90329120 AAGAGTGCATATCATATCT
1 AAGATTGCATATCATATCT
90329139 AAGATTG--TATCATATCT
1 AAGATTGCATATCATATCT
90329156 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
90329175 AAGATTGCATATC
1 AAGATTGCATATC
90329188 CTTAAAGACT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
17 17 0.37
19 29 0.63
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (19 bp):
AAGATTGCATATCATATCT
Found at i:90329611 original size:45 final size:45
Alignment explanation
Indices: 90329544--90329645 Score: 132
Period size: 45 Copynumber: 2.3 Consensus size: 45
90329534 CGATATCTGC
* *
90329544 TATCTTTGATCTACTCCTCGTCTAATACAGAGACGCCAAATCTAT
1 TATCTTTGATCTACTCCCCGTCTAATACAAAGACGCCAAATCTAT
* * * *
90329589 TATCTTTGATTTGCTCCCCGTCTAATACAAAGATGCCAAATCTGT
1 TATCTTTGATCTACTCCCCGTCTAATACAAAGACGCCAAATCTAT
* *
90329634 CATCTTGGATCT
1 TATCTTTGATCT
90329646 GCTTCGATGT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.35
Consensus pattern (45 bp):
TATCTTTGATCTACTCCCCGTCTAATACAAAGACGCCAAATCTAT
Found at i:90329889 original size:44 final size:45
Alignment explanation
Indices: 90329728--90330030 Score: 131
Period size: 44 Copynumber: 6.8 Consensus size: 45
90329718 TAATCTACTA
* ** *
90329728 TCTTCAGCTTGTTCCCTATAAACACAGGGATGCC--ATGCT-AAAA
1 TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAAT-CTGTTAG
** * * * *
90329771 TCTTCAA-TCTGCTTCGTTGTAAACACAGGAATGTCAGATCTGTTATG
1 TCTTCAACT-TG-TTCCCTATAAACACAGGGATGCCAAATCTGTTA-G
* * *
90329818 TCTTCGATTTGTTCCCTGTAAACACAGGGATGCCAAATCTGTTA-
1 TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAATCTGTTAG
* * * ** ***
90329862 TCTTTAACTTGTTCTCTATAAACACAGGGATGTCATGT-TAAAAG
1 TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAATCTGTTAG
** ** ** * * * * * *
90329906 -CTTTGA-TCTGCTTCGTTGCAAGCATAGGAATGTCAGATCTGCTATG
1 TCTTCAACT-TG-TTCCCTATAAACACAGGGATGCCAAATCTGTTA-G
* * *
90329952 TCTTCGA-TCTGTTCCCTGTAAACACAGGGATGCCAAATCTGCTA-
1 TCTTCAACT-TGTTCCCTATAAACACAGGGATGCCAAATCTGTTAG
*
90329996 TCTTCAACTTGTTCCCTATAAACACAGAGATGCCA
1 TCTTCAACTTGTTCCCTATAAACACAGGGATGCCA
90330031 TGTTAAAATC
Statistics
Matches: 195, Mismatches: 51, Indels: 27
0.71 0.19 0.10
Matches are distributed among these distances:
42 2 0.01
43 17 0.09
44 96 0.49
45 5 0.03
46 57 0.29
47 17 0.09
48 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (45 bp):
TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAATCTGTTAG
Found at i:90329904 original size:134 final size:134
Alignment explanation
Indices: 90329635--90330124 Score: 640
Period size: 134 Copynumber: 3.6 Consensus size: 134
90329625 CAAATCTGTC
* * * * * * ** * *
90329635 ATCTTGGATCTGCTTCGATGTAAACACATGAAGGTCAGATCTACTATGTCTTTAATCTGCTCCCC
1 ATCTTTGATCTGCTTCGTTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTTCCCT
* * * * * * *
90329700 GTCGAATA-TGAAGATGCCTAATCTACTATCTTCAGCTTGTTCCCTATAAACACAGGGATGCCAT
66 GT-AAACACAG-GGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCAT
*
90329764 GCTAAA
129 GTTAAA
** * * *
90329770 ATCTTCAATCTGCTTCGTTGTAAACACAGGAATGTCAGATCTGTTATGTCTTCGATTTGTTCCCT
1 ATCTTTGATCTGCTTCGTTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTTCCCT
* * * *
90329835 GTAAACACAGGGATGCCAAATCTGTTATCTTTAACTTGTTCTCTATAAACACAGGGATGTCATGT
66 GTAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGT
90329900 TAAA
131 TAAA
* * *
90329904 AGCTTTGATCTGCTTCGTTGCAAGCATAGGAATGTCAGATCTGCTATGTCTTCGATCTGTTCCCT
1 ATCTTTGATCTGCTTCGTTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTTCCCT
*
90329969 GTAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGAGATGCCATGT
66 GTAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGT
90330034 TAAA
131 TAAA
* *
90330038 ATCTTTGATCTGCTTCGTTGTAAGCACAGGAATGTCAGCTCTACTATGTCTTCGATCTGTTCCCT
1 ATCTTTGATCTGCTTCGTTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTTCCCT
* *
90330103 GTAAACATAGGAATGCCAAATC
66 GTAAACACAGGGATGCCAAATC
90330125 ATCTTGGATC
Statistics
Matches: 310, Mismatches: 44, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
134 254 0.82
135 56 0.18
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (134 bp):
ATCTTTGATCTGCTTCGTTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTTCCCT
GTAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGT
TAAA
Found at i:90330237 original size:44 final size:44
Alignment explanation
Indices: 90330177--90331008 Score: 384
Period size: 44 Copynumber: 18.9 Consensus size: 44
90330167 GTTGTTCTTC
* * * *
90330177 TCTTCGATATGTTCTCTGACAATACAGAGACGCCAAATCTTCTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTTCTA
* **
90330221 TCTTCGATCTGCTCTCTGCCAATACAGAGACGTTAAATCTAT-TA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCT-TCTA
* * *
90330265 TTTTCGATCTGCTCTCTGGCAATACAGAGATGTCAAATCTGT-TA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCT-TCTA
90330309 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAA---TC-A
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTTCTA
* ** * * * * * **
90330349 TCTTAGAAT-TGCT-TCAACGTAA-ACACGTGGAAGTCAAACCAGCTA
1 TCTTCG-ATCTGCTCTCTGC-CAATACA-G-AGATGCCAAATCTTCTA
*
90330394 TGTCTTCGATCTGCTCTCTGCCGAATACAGAGATCCCAAATCTGTC-A
1 --TCTTCGATCTGCTCTCTGCC-AATACAGAGATGCCAAATCT-TCTA
* * * *
90330441 TCTTTGATTTACTCTCTGCCAATACAGAGATGCCAAATCTGCTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTTCTA
* *
90330485 TCTTTGATTTGCTCTCTGCCAATACAGAGATGCCAAA---TC-A
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTTCTA
* ** * * * **
90330525 TCTTAGA-CTTGCT-TCAACGTAA-ACACGTGGAAGCCAAATCAGCTA
1 TCTTCGATC-TGCTCTCTGC-CAATACA-G-AGATGCCAAATCTTCTA
* * * * *
90330570 TGTTTTCAATTTGCTCTCCGCCGAATATAGAGATGCCAAATCTGTC-A
1 --TCTTCGATCTGCTCTCTGCC-AATACAGAGATGCCAAATCT-TCTA
* * * *
90330617 TTTTTGATCTGCTCTCTACCGGATACAGAGATGCCAAATCTGT-TA
1 TCTTCGATCTGCTCTCTGCC-AATACAGAGATGCCAAATCT-TCTA
*
90330662 TCTTTGATCTGCTCTCTGCCAATACAGAGATGCCAAA---TC-A
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTTCTA
** * * ** * * * * * *
90330702 TCTTAAATTTG-TTTCAACGTAA-ACACATGAAAGCCAAATCAGCTGTG
1 TCTTCGATCTGCTCTCTGC-CAATACAGA-G-ATGCCAAATC--TTCTA
* * *
90330749 TCTTCGATCTGCTCTCCGCCGGATACAGAGATGCCGAATCTGTC-A
1 TCTTCGATCTGCTCTCTGCC-AATACAGAGATGCCAAATCT-TCTA
* *
90330794 TCTTTGATCTACTCTCTGCCAATACAGAGATGCCAAATCTGT-TA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCT-TCTA
* * *
90330838 TTTTCGATATGCTCTCTGCCAATACAGAGATGTCAAA---TC-A
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTTCTA
* * ** * * * * *
90330878 TCTTAGATTTGCT-TCAACGTAA-ACACATGAAAGCTAAAT-TAGCTA
1 TCTTCGATCTGCTCTCTGC-CAATACAGA-G-ATGCCAAATCT-TCTA
* *
90330923 TGTCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCAGTC-A
1 --TCTTCGATCTGCTCTCTGCC-AATACAGAGATGCCAAATC-TTCTA
* * *
90330970 TCTTCGATCTGTTCTCTGCCAATACAGAGACGCTAAATC
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATC
90331009 ATCTTAGATT
Statistics
Matches: 595, Mismatches: 129, Indels: 128
0.70 0.15 0.15
Matches are distributed among these distances:
39 27 0.05
40 56 0.09
41 30 0.05
43 1 0.00
44 255 0.43
45 111 0.19
46 4 0.01
47 71 0.12
48 27 0.05
49 13 0.02
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (44 bp):
TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTTCTA
Found at i:90330466 original size:176 final size:176
Alignment explanation
Indices: 90330221--90331008 Score: 1114
Period size: 176 Copynumber: 4.5 Consensus size: 176
90330211 AAATCTTCTA
* * ** * * *
90330221 TCTTCGATCTGCTCTCTGCC-AATACAGAGACGTTAAATCTATTAT-TTTCGATCTGCTCTCTGG
1 TCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTGTCATCTTT-GATCTGCTCTCTGC
*
90330284 CAATACAGAGATGTCAAATCTGTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCA
65 CAATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCA
* * * *
90330349 TCTTAGAATTGCTTCAACGTAAACACGTGGAAGTCAAACCAGCTATG
130 TCTTAGAATTGCTTCAACGTAAACACATGAAAGCCAAATCAGCTATG
* * * *
90330396 TCTTCGATCTGCTCTCTGCCGAATACAGAGATCCCAAATCTGTCATCTTTGATTTACTCTCTGCC
1 TCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTGTCATCTTTGATCTGCTCTCTGCC
* * *
90330461 AATACAGAGATGCCAAATCTGCTATCTTTGATTTGCTCTCTGCCAATACAGAGATGCCAAATCAT
66 AATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCAT
* * *
90330526 CTTAGACTTGCTTCAACGTAAACACGTGGAAGCCAAATCAGCTATG
131 CTTAGAATTGCTTCAACGTAAACACATGAAAGCCAAATCAGCTATG
* * * * * *
90330572 TTTTCAATTTGCTCTCCGCCGAATATAGAGATGCCAAATCTGTCATTTTTGATCTGCTCTCTACC
1 TCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTGTCATCTTTGATCTGCTCTCTGCC
* *
90330637 GGATACAGAGATGCCAAATCTGTTATCTTTGATCTGCTCTCTGCCAATACAGAGATGCCAAATCA
66 -AATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCA
* *
90330702 TCTTA-AATTTGTTTCAACGTAAACACATGAAAGCCAAATCAGCTGTG
130 TCTTAGAA-TTGCTTCAACGTAAACACATGAAAGCCAAATCAGCTATG
* * *
90330749 TCTTCGATCTGCTCTCCGCCGGATACAGAGATGCCGAATCTGTCATCTTTGATCTACTCTCTGCC
1 TCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTGTCATCTTTGATCTGCTCTCTGCC
* * *
90330814 AATACAGAGATGCCAAATCTGTTATTTTCGATATGCTCTCTGCCAATACAGAGATGTCAAATCAT
66 AATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCAT
* * *
90330879 CTTAGATTTGCTTCAACGTAAACACATGAAAGCTAAATTAGCTATG
131 CTTAGAATTGCTTCAACGTAAACACATGAAAGCCAAATCAGCTATG
* * *
90330925 TCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCAGTCATCTTCGATCTGTTCTCTGCC
1 TCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTGTCATCTTTGATCTGCTCTCTGCC
* *
90330990 AATACAGAGACGCTAAATC
66 AATACAGAGATGCCAAATC
90331009 ATCTTAGATT
Statistics
Matches: 547, Mismatches: 61, Indels: 9
0.89 0.10 0.01
Matches are distributed among these distances:
175 20 0.04
176 366 0.67
177 161 0.29
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (176 bp):
TCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTGTCATCTTTGATCTGCTCTCTGCC
AATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCAT
CTTAGAATTGCTTCAACGTAAACACATGAAAGCCAAATCAGCTATG
Found at i:90330673 original size:353 final size:352
Alignment explanation
Indices: 90330221--90331008 Score: 1159
Period size: 353 Copynumber: 2.2 Consensus size: 352
90330211 AAATCTTCTA
* * * ** * * *
90330221 TCTTCGATCTGCTCTCTGCC-AATACAGAGACGTTAAATCTATTATTTTCGATCTGCTCTCTGGC
1 TCTTCAATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTGTCATTTTCGATCTGCTCTCTGCC
*
90330285 AATACAGAGATGTCAAATCTGTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCAT
66 AATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCAT
* * * *
90330350 CTTAGAA-TTGCTTCAACGTAAACACGTGGAAGTCAAACCAGCTATGTCTTCGATCTGCTCTCTG
131 CTTA-AATTTGCTTCAACGTAAACACATGAAAGCCAAACCAGCTATGTCTTCGATCTGCTCTCCG
*
90330414 CCGAATACAGAGATCCCAAATCTGTCATCTTTGATTTACTCTCTGCCAATACAGAGATGCCAAAT
195 CCGAATACAGAGATCCCAAATCTGTCATCTTTGATCTACTCTCTGCCAATACAGAGATGCCAAAT
*
90330479 CTGCTATCTTT-GATTTGCTCTCTGCCAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAAC
260 CTGCTAT-TTTCGATATGCTCTCTGCCAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAAC
* *
90330543 GTAAACACGTGGAAGCCAAATCAGCTATG
324 GTAAACACATGAAAGCCAAATCAGCTATG
* * * * *
90330572 TTTTCAATTTGCTCTCCGCCGAATATAGAGATGCCAAATCTGTCATTTTTGATCTGCTCTCTACC
1 TCTTCAATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTGTCATTTTCGATCTGCTCTCTGCC
* *
90330637 GGATACAGAGATGCCAAATCTGTTATCTTTGATCTGCTCTCTGCCAATACAGAGATGCCAAATCA
66 -AATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCA
* * *
90330702 TCTTAAATTTGTTTCAACGTAAACACATGAAAGCCAAATCAGCTGTGTCTTCGATCTGCTCTCCG
130 TCTTAAATTTGCTTCAACGTAAACACATGAAAGCCAAACCAGCTATGTCTTCGATCTGCTCTCCG
* * *
90330767 CCGGATACAGAGATGCCGAATCTGTCATCTTTGATCTACTCTCTGCCAATACAGAGATGCCAAAT
195 CCGAATACAGAGATCCCAAATCTGTCATCTTTGATCTACTCTCTGCCAATACAGAGATGCCAAAT
* * *
90330832 CTGTTATTTTCGATATGCTCTCTGCCAATACAGAGATGTCAAATCATCTTAGATTTGCTTCAACG
260 CTGCTATTTTCGATATGCTCTCTGCCAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACG
* *
90330897 TAAACACATGAAAGCTAAATTAGCTATG
325 TAAACACATGAAAGCCAAATCAGCTATG
* * * *
90330925 TCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCAGTCATCTTCGATCTGTTCTCTGCC
1 TCTTCAATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTGTCATTTTCGATCTGCTCTCTGCC
* *
90330990 AATACAGAGACGCTAAATC
66 AATACAGAGATGCCAAATC
90331009 ATCTTAGATT
Statistics
Matches: 386, Mismatches: 47, Indels: 7
0.88 0.11 0.02
Matches are distributed among these distances:
351 16 0.04
352 56 0.15
353 314 0.81
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (352 bp):
TCTTCAATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTGTCATTTTCGATCTGCTCTCTGCC
AATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCAT
CTTAAATTTGCTTCAACGTAAACACATGAAAGCCAAACCAGCTATGTCTTCGATCTGCTCTCCGC
CGAATACAGAGATCCCAAATCTGTCATCTTTGATCTACTCTCTGCCAATACAGAGATGCCAAATC
TGCTATTTTCGATATGCTCTCTGCCAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGT
AAACACATGAAAGCCAAATCAGCTATG
Found at i:90331163 original size:131 final size:131
Alignment explanation
Indices: 90330794--90331156 Score: 462
Period size: 132 Copynumber: 2.8 Consensus size: 131
90330784 GAATCTGTCA
* * * * *
90330794 TCTTTGATCTACTCTCTGCCAATACAGAGATGCCAAATCT-GTTATTTTCGATATGCTCTCTGCC
1 TCTTCGATCTGCTCCCTGCCAATACAGAGATGCCAAATTTAG-TATTTTCGATCTGCTCTCTGCC
* * * * *
90330858 AATACAGAGATGTCAAATCATCTTAGATTTGCTTCAACGTAAACACATGAAAGCTAAATTAGCTA
65 AATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACATGAAAGCCAAATCAGATA
90330923 TG
130 TG
* * *
90330925 TCTTCGATCTGCTCTCC-GCCGAATACAGAGATGCCAAA-TCAGTCATCTTCGATCTGTTCTCTG
1 TCTTCGATCTGCTC-CCTGCC-AATACAGAGATGCCAAATTTAGT-ATTTTCGATCTGCTCTCTG
* * *
90330988 CCAATACAGAGACGCTAAATCATCTTAGATTTGTTTCAACGTAAACACGTGAAAGCCAAATCAGA
63 CCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACATGAAAGCCAAATCAGA
90331053 TATG
128 TATG
* * * *
90331057 TCTTCGATCTGCTCCCTGCCAATATAGAGACGCCAAATTTAGTATTTTCGATCTGCTCCCTGACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGATGCCAAATTTAGTATTTTCGATCTGCTCTCTGCCA
* * *
90331122 ATACAGAGACACCAAATCATCTTGGATCTGCTTCA
66 ATACAGAGACGCCAAATCATCTTAGATTTGCTTCA
90331157 GTGTAAATAC
Statistics
Matches: 198, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
131 81 0.41
132 117 0.59
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (131 bp):
TCTTCGATCTGCTCCCTGCCAATACAGAGATGCCAAATTTAGTATTTTCGATCTGCTCTCTGCCA
ATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACATGAAAGCCAAATCAGATAT
G
Found at i:90336783 original size:22 final size:21
Alignment explanation
Indices: 90336753--90336818 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
90336743 TACAAATTAA
90336753 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
90336775 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
90336796 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
90336815 ATCT
1 ATCT
90336819 AAGATTGCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:90336805 original size:19 final size:19
Alignment explanation
Indices: 90336770--90336831 Score: 106
Period size: 19 Copynumber: 3.2 Consensus size: 19
90336760 AGATTACAAG
90336770 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
90336791 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
90336810 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
90336829 ATC
1 ATC
90336832 TTTAAAGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 32 0.78
20 1 0.02
21 8 0.20
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:90339083 original size:183 final size:183
Alignment explanation
Indices: 90338871--90339361 Score: 768
Period size: 183 Copynumber: 2.7 Consensus size: 183
90338861 AACTGCTGCA
* ** * *
90338871 AATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTGAATGTTGTAAATTGAAGTGTTTAAATGC
1 AATTGAGGTGTTAAAATGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAATGC
*
90338936 TGTAAATTGAAGTGCTTAAATGTTGCAAATTAAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAG
66 TGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAG
*
90339001 TTGTTGGACATTGAGATGTTTTATCGCTGTAATTGAGCTGTATAAATGTTGTT
131 TTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGCTGTATAAATGTTGTT
90339054 AATTGAGGTGTTAAAATGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAATGC
1 AATTGAGGTGTTAAAATGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAATGC
* * *
90339119 TGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTTCTAATTGAAGTGTTTCG
66 TGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAG
*
90339184 TTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTT
131 TTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGCTGTATAAATGTTGTT
* * * *
90339237 AATTGAGATGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTG-TTAAAGTG
1 AATTGAGGTGTTAAAATGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAA-TG
* * * * * * *
90339301 CTGCAAATTGAAGTGTTTGAATGTTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTG
65 CTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTG
90339362 CTTAAATGTT
Statistics
Matches: 283, Mismatches: 24, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
182 5 0.02
183 278 0.98
ACGTcount: A:0.31, C:0.06, G:0.24, T:0.39
Consensus pattern (183 bp):
AATTGAGGTGTTAAAATGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAATGC
TGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAG
TTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGCTGTATAAATGTTGTT
Found at i:90339103 original size:160 final size:160
Alignment explanation
Indices: 90338791--90339318 Score: 468
Period size: 160 Copynumber: 3.3 Consensus size: 160
90338781 TTGAGGTGTA
* * * * * * *
90338791 TAAATGTTGTTAATTCAAATGTTAAAGTGCTGCAAATTGAAGTGTTTTAA-TGCTAT-AAATTGA
1 TAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTG-TTTAAGTACT-TCGAATTGA
* * * * * * * * * *
90338854 AGTG-TTAAACTGCTGCAAATTGA-AGTGTTTGAAT-GCTGTAAATTGAAGTGTTTGAATGTTGT
64 AGTGTTTCATC-GCTGGACATTGAGA-TG-TTAAATCGCTGT-AATTGAGGTGTATAAATGCTGC
90338916 AAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCT
125 AAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCT
* * * * ** *
90338952 TAAATGTTGCAAATTAAAGTGTTTAAGTACTGCAAATTGAAGTGTTT-AGTTGTTGGACATTG-A
1 TAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTACTTCGA-ATTGAA
* * * *
90339015 GATGTTTTATCGCTGTA-ATTGAGCTGTATAAAT-GTTGTTAATTGAGGTGT-TAAAATGCTGCA
65 G-TGTTTCATCGCTGGACATTGAGATGT-TAAATCGCTG-TAATTGAGGTGTAT-AAATGCTGCA
* *
90339077 AATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTT
126 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCT
* * * *
90339112 TAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTTCTAATTGAAG
1 TAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTACTTCGAATTGAAG
* * ** * **
90339177 TGTTTCGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTG
66 TGTTTCATCGCTGGACATTGAGATGTTAAATCGCTGTAATTGAGGTGTATAAATGCTGCAAATTG
*
90339242 -AGATG-TTAAAGTGCTGCAAATTGAAGTGCT
131 AAG-TGTTTAAA-TGCTGTAAATTGAAGTGCT
*
90339272 TAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTT
1 TAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTT
90339319 GAATGTTGTA
Statistics
Matches: 301, Mismatches: 50, Indels: 33
0.78 0.13 0.09
Matches are distributed among these distances:
159 10 0.03
160 216 0.72
161 71 0.24
162 4 0.01
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.39
Consensus pattern (160 bp):
TAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTACTTCGAATTGAAG
TGTTTCATCGCTGGACATTGAGATGTTAAATCGCTGTAATTGAGGTGTATAAATGCTGCAAATTG
AAGTGTTTAAATGCTGTAAATTGAAGTGCT
Found at i:90339153 original size:252 final size:252
Alignment explanation
Indices: 90338701--90339158 Score: 729
Period size: 252 Copynumber: 1.8 Consensus size: 252
90338691 TATTAGTAGG
**
90338701 AAATGTGGCAAATTGGAGTGTTTAAATACTGCAAATTGAAGTGTTTAGTTGCTGGAAATTGAGAT
1 AAATGTGGCAAATTAAAGTGTTTAAATACTGCAAATTGAAGTGTTTAGTTGCTGGAAATTGAGAT
* * *
90338766 GTTTTATCGTTGTAATTGAGGTGTATAAATGTTGTTAATTCAAATGTTAAAGTGCTGCAAATTGA
66 GTTTTATCGCTGTAATTGAGCTGTATAAATGTTGTTAATTCAAATGTTAAAATGCTGCAAATTGA
* * * *
90338831 AGTGTTTTAATGCTATAAATTGAAGTGTTAAACTGCTGCAAATTGAAGTGTTTGAATGCTGTAAA
131 AGTGTTTGAATGCTATAAATTGAAGTGTTAAACTGCTGCAAATTGAAGTGCTTAAATGCTGCAAA
90338896 TTGAAGTGTTTGAATGTTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTT
196 TTGAAGTGTTTGAATGTTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTT
* * * *
90338953 AAATGTTGCAAATTAAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGTTGGACATTGAGAT
1 AAATGTGGCAAATTAAAGTGTTTAAATACTGCAAATTGAAGTGTTTAGTTGCTGGAAATTGAGAT
* **
90339018 GTTTTATCGCTGTAATTGAGCTGTATAAATGTTGTTAATTGAGGTGTTAAAATGCTGCAAATTGA
66 GTTTTATCGCTGTAATTGAGCTGTATAAATGTTGTTAATTCAAATGTTAAAATGCTGCAAATTGA
* * *
90339083 AGTGTTTGAATGCTGTAAATTGAAGTGTTTAAA-TGCTGTAAATTGAAGTGCTTAAATGTTGCAA
131 AGTGTTTGAATGCTATAAATTGAAGTG-TTAAACTGCTGCAAATTGAAGTGCTTAAATGCTGCAA
90339147 ATTGAAGTGTTT
195 ATTGAAGTGTTT
90339159 AAGTACTTCT
Statistics
Matches: 186, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
252 181 0.97
253 5 0.03
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (252 bp):
AAATGTGGCAAATTAAAGTGTTTAAATACTGCAAATTGAAGTGTTTAGTTGCTGGAAATTGAGAT
GTTTTATCGCTGTAATTGAGCTGTATAAATGTTGTTAATTCAAATGTTAAAATGCTGCAAATTGA
AGTGTTTGAATGCTATAAATTGAAGTGTTAAACTGCTGCAAATTGAAGTGCTTAAATGCTGCAAA
TTGAAGTGTTTGAATGTTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTT
Found at i:90339505 original size:23 final size:23
Alignment explanation
Indices: 90338708--90339503 Score: 534
Period size: 23 Copynumber: 34.8 Consensus size: 23
90338698 AGGAAATGTG
* *
90338708 GCAAATTGGAGTGTTTAAATACT
1 GCAAATTGAAGTGTTTAAATGCT
**
90338731 GCAAATTGAAGTGTTTAGTTGCT
1 GCAAATTGAAGTGTTTAAATGCT
* * *
90338754 GGAAATTG-AGATGTTT-TATCGTT
1 GCAAATTGAAG-TGTTTAAAT-GCT
* * * *
90338777 G-TAATTGAGGTGTATAAATGTT
1 GCAAATTGAAGTGTTTAAATGCT
** * *
90338799 GTTAATTCAAATG-TTAAAGTGCT
1 GCAAATTGAAGTGTTTAAA-TGCT
*
90338822 GCAAATTGAAGTGTTTTAATGCT
1 GCAAATTGAAGTGTTTAAATGCT
**
90338845 ATAAATTGAAGTG-TTAAACTGCT
1 GCAAATTGAAGTGTTTAAA-TGCT
*
90338868 GCAAATTGAAGTGTTTGAATGCT
1 GCAAATTGAAGTGTTTAAATGCT
* * *
90338891 GTAAATTGAAGTGTTTGAATGTT
1 GCAAATTGAAGTGTTTAAATGCT
*
90338914 GTAAATTGAAGTGTTTAAATGCT
1 GCAAATTGAAGTGTTTAAATGCT
* * *
90338937 GTAAATTGAAGTGCTTAAATGTT
1 GCAAATTGAAGTGTTTAAATGCT
* * *
90338960 GCAAATTAAAGTGTTTAAGTACT
1 GCAAATTGAAGTGTTTAAATGCT
** *
90338983 GCAAATTGAAGTGTTTAGTTGTT
1 GCAAATTGAAGTGTTTAAATGCT
* * *
90339006 GGACATTG-AGATGTTT-TATCGCT
1 GCAAATTGAAG-TGTTTAAAT-GCT
* * *
90339029 G-TAATTG-AGCTGTATAAATGTT
1 GCAAATTGAAG-TGTTTAAATGCT
** * *
90339051 GTTAATTGAGGTGTTAAAATGCT
1 GCAAATTGAAGTGTTTAAATGCT
*
90339074 GCAAATTGAAGTGTTTGAATGCT
1 GCAAATTGAAGTGTTTAAATGCT
*
90339097 GTAAATTGAAGTGTTTAAATGCT
1 GCAAATTGAAGTGTTTAAATGCT
* * *
90339120 GTAAATTGAAGTGCTTAAATGTT
1 GCAAATTGAAGTGTTTAAATGCT
* *
90339143 GCAAATTGAAGTGTTTAAGTACT
1 GCAAATTGAAGTGTTTAAATGCT
* * ***
90339166 TCTAATTGAAGTGTTTCGTTGCT
1 GCAAATTGAAGTGTTTAAATGCT
* * *
90339189 GGACATTG-AGATGTTT-TATCGCT
1 GCAAATTGAAG-TGTTTAAAT-GCT
* * * *
90339212 G-TAATTGAGGTGTATAAATGTT
1 GCAAATTGAAGTGTTTAAATGCT
**
90339234 GTTAATTG-AGATG-TTAAAGTGCT
1 GCAAATTGAAG-TGTTTAAA-TGCT
*
90339257 GCAAATTGAAGTGCTTAAATGCT
1 GCAAATTGAAGTGTTTAAATGCT
*
90339280 GTAAATTGAAGTG-TTAAAGTGCT
1 GCAAATTGAAGTGTTTAAA-TGCT
* *
90339303 GCAAATTGAAGTGTTTGAATGTT
1 GCAAATTGAAGTGTTTAAATGCT
*
90339326 GTAAATTGAAGTGTTTAAATGCT
1 GCAAATTGAAGTGTTTAAATGCT
* * *
90339349 GTAAATTGAAGTGCTTAAATGTT
1 GCAAATTGAAGTGTTTAAATGCT
* *
90339372 GCAAATTGAAGTGTTTAAGTACT
1 GCAAATTGAAGTGTTTAAATGCT
* ** *
90339395 GCAAATTGAAGTATTTAGTTACT
1 GCAAATTGAAGTGTTTAAATGCT
* * *
90339418 GGACATTG-AGATGTTT-TATCGCT
1 GCAAATTGAAG-TGTTTAAAT-GCT
* * * *
90339441 G-TAATTGAGGTGTATAAATGTT
1 GCAAATTGAAGTGTTTAAATGCT
**
90339463 GTTAATTG-AGATG-TTAAAGTGCT
1 GCAAATTGAAG-TGTTTAAA-TGCT
90339486 GCAAATTGAAGTGTTTAA
1 GCAAATTGAAGTGTTTAA
90339504 GTACTTATTT
Statistics
Matches: 608, Mismatches: 131, Indels: 67
0.75 0.16 0.08
Matches are distributed among these distances:
22 83 0.14
23 499 0.82
24 26 0.04
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.39
Consensus pattern (23 bp):
GCAAATTGAAGTGTTTAAATGCT
Found at i:90340233 original size:61 final size:61
Alignment explanation
Indices: 90340158--90340284 Score: 236
Period size: 61 Copynumber: 2.1 Consensus size: 61
90340148 AAGTGTATAG
* *
90340158 TTTAAAGTTTAAATTTTAAAATTTAAACATAATATAATATTTACCATAGAAATAAGTATTA
1 TTTAAAGTTCAAATTTTAAAATTTAAACATAATATAATATTTACCATAGAAATAAATATTA
90340219 TTTAAAGTTCAAATTTTAAAATTTAAACATAATATAATATTTACCATAGAAATAAATATTA
1 TTTAAAGTTCAAATTTTAAAATTTAAACATAATATAATATTTACCATAGAAATAAATATTA
90340280 TTTAA
1 TTTAA
90340285 TTAAAATAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (61 bp):
TTTAAAGTTCAAATTTTAAAATTTAAACATAATATAATATTTACCATAGAAATAAATATTA
Found at i:90340440 original size:43 final size:43
Alignment explanation
Indices: 90340393--90340487 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 43
90340383 GCTAAAGGTT
** * *
90340393 ATGACTTTTAGTGGCGCTTTTCCCACAAACGCCGCTAAAAGCC
1 ATGACTTTTAGCAGCGCTTTTCCCACAAACACCACTAAAAGCC
90340436 ATGACTTTTAGCAGCGCTTTTCCCACAAACACCACTAAAAGCC
1 ATGACTTTTAGCAGCGCTTTTCCCACAAACACCACTAAAAGCC
90340479 ATGACTTTT
1 ATGACTTTT
90340488 GCGGTGTTTC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGACTTTTAGCAGCGCTTTTCCCACAAACACCACTAAAAGCC
Found at i:90340884 original size:7 final size:7
Alignment explanation
Indices: 90340872--90340896 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
90340862 ATCTATATGA
90340872 ATGAAAT
1 ATGAAAT
90340879 ATGAAAT
1 ATGAAAT
90340886 ATGAAAT
1 ATGAAAT
90340893 ATGA
1 ATGA
90340897 TTATTAGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (7 bp):
ATGAAAT
Found at i:90342648 original size:16 final size:17
Alignment explanation
Indices: 90342627--90342660 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
90342617 GTAAAAATTG
90342627 TTTTACTTTT-CTATAT
1 TTTTACTTTTCCTATAT
90342643 TTTTACTTTTCCTATAT
1 TTTTACTTTTCCTATAT
90342660 T
1 T
90342661 ACTTCATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.18, C:0.15, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTACTTTTCCTATAT
Found at i:90342899 original size:12 final size:13
Alignment explanation
Indices: 90342882--90342912 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
90342872 TATTAACCCC
90342882 TTTTTATTC-CCT
1 TTTTTATTCTCCT
90342894 TTTTTATTCTCCT
1 TTTTTATTCTCCT
90342907 TTTTTA
1 TTTTTA
90342913 AAAAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTTATTCTCCT
Found at i:90355255 original size:206 final size:206
Alignment explanation
Indices: 90354876--90355425 Score: 836
Period size: 206 Copynumber: 2.7 Consensus size: 206
90354866 GCAGATCTGG
*
90354876 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
* * *
90354941 AATTTGGC-TTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGTATCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * *
90355005 AGAGCAGATCGAAGTTTGGCATCTCTATATTCGACGGAGGGTAGACACATAGCAGATCTAACCTT
130 AGAACAAATCAAAGTTTGGCATCTCCATATTCGACGGAGGGTAGACACATAGCAGATCTAACCTT
*
90355070 CAGATGATTAGA
195 CAGATGACTAGA
*
90355082 CTGAAGTAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAA-ATCATAGCT
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGA-CATAGCT
* * * *
90355146 GATTTAGCTTTCACGTGCTTATGCTGAAG-AAAGTCTAAGATGATTTGGCATCTCTATATTGTTA
65 GATTTGGCTTTCACGTGCTTACGCTGAAGCAAA-TCTAAGATGATTTGGCATCTCTGTATTGTCA
* *
90355210 GAGAACAAATCAAAGTTTGGCGTCTCCATATTCGATGGAGGGTAGACACATAGCAGATCTAACCT
129 GAGAACAAATCAAAGTTTGGCATCTCCATATTCGACGGAGGGTAGACACATAGCAGATCTAACCT
90355275 TCAGATGACTAGA
194 TCAGATGACTAGA
* * *
90355288 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGTTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTG
* ** * *
90355353 ATTTGGTTTTTGCTTGCTTACGCTGAAGCAAATTTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
90355418 GAACAAAT
131 GAACAAAT
90355426 TGAAGAAGCA
Statistics
Matches: 310, Mismatches: 29, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
204 1 0.00
205 63 0.20
206 242 0.78
207 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (206 bp):
CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCAAAGTTTGGCATCTCCATATTCGACGGAGGGTAGACACATAGCAGATCTAACCTTC
AGATGACTAGA
Found at i:90357255 original size:17 final size:16
Alignment explanation
Indices: 90357226--90357260 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
90357216 AAAAATTGTT
*
90357226 TTACTTTTCTATATTA
1 TTACTTTTATATATTA
90357242 TTACTTTTTATATATTA
1 TTAC-TTTTATATATTA
90357259 TT
1 TT
90357261 TCATGTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (16 bp):
TTACTTTTATATATTA
Found at i:90358589 original size:22 final size:22
Alignment explanation
Indices: 90358561--90358604 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
90358551 ATCACACCTA
90358561 AAAAGATTGGTGGCGACTCCCG
1 AAAAGATTGGTGGCGACTCCCG
90358583 AAAAGATTGGTGGCGACTCCCG
1 AAAAGATTGGTGGCGACTCCCG
90358605 TTTTCATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.32, T:0.18
Consensus pattern (22 bp):
AAAAGATTGGTGGCGACTCCCG
Found at i:90359262 original size:139 final size:139
Alignment explanation
Indices: 90359011--90359288 Score: 457
Period size: 139 Copynumber: 2.0 Consensus size: 139
90359001 GAAGATTTTG
* *
90359011 CTTGAGTAAATCGAAATGGATTCTAAAGACCTTCTTGCCCCGAAGTAATAAAATGTCACATCCAA
1 CTTGAGTAAATCGAAATGGATTCTAAAGACCTTCTTGCCACGAAGTAATAAAATGCCACATCCAA
* * *
90359076 TATGTTAGGACACAACATTTCAGACCCTCGAGAATAAGTTGGCCTTTCGATTTTCAAAACTCACG
66 TACGTTAGGACACAACATTTCAGACCCACGAGAATAAGTTGGCCTTTCGATTTTCAAAACTCACA
90359141 TGTTTTAAT
131 TGTTTTAAT
* * * *
90359150 CTTGAGTAAATCGAAATGGATTTTAAAGACCTTCTTGTCACGAAGTAATAAAATGCCACGTCCAG
1 CTTGAGTAAATCGAAATGGATTCTAAAGACCTTCTTGCCACGAAGTAATAAAATGCCACATCCAA
* *
90359215 TACGTTAGGACACAACATTTCAGACCCACGAGAATAAGTTGGTCTTTCGATTTTCAAAATTCACA
66 TACGTTAGGACACAACATTTCAGACCCACGAGAATAAGTTGGCCTTTCGATTTTCAAAACTCACA
90359280 TGTTTTAAT
131 TGTTTTAAT
90359289 TTTAGAAGGT
Statistics
Matches: 128, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
139 128 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (139 bp):
CTTGAGTAAATCGAAATGGATTCTAAAGACCTTCTTGCCACGAAGTAATAAAATGCCACATCCAA
TACGTTAGGACACAACATTTCAGACCCACGAGAATAAGTTGGCCTTTCGATTTTCAAAACTCACA
TGTTTTAAT
Found at i:90359809 original size:3 final size:3
Alignment explanation
Indices: 90359801--90359920 Score: 73
Period size: 3 Copynumber: 38.7 Consensus size: 3
90359791 AAAAACATAT
* * * *
90359801 ATA ATA AT- ATG ACA ATA ATA ATA ACA ATA ATAA ATAA ATAA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A AT-A AT-A ATA ATA
* * * * * *
90359848 ATA ATA AAA ATA ATA GTA ATG ATA ATG GTA ATA ATAA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
*
90359894 ATA ACA ATA ATA CA-A ATA ATAA ATA AT
1 ATA ATA ATA ATA -ATA ATA AT-A ATA AT
90359921 CTAAAGTTTG
Statistics
Matches: 90, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
2 3 0.03
3 69 0.77
4 18 0.20
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:90360091 original size:3 final size:3
Alignment explanation
Indices: 90360085--90360239 Score: 70
Period size: 3 Copynumber: 52.3 Consensus size: 3
90360075 AGAAGAAAAT
* * * *
90360085 ATA ATA ATA ATA GTA ATA AT- ACA ATA GTA ATA ATA ATA AAA AGGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA
* * * * * *
90360131 ATA ATA AT- ATA TTA GATA GTA AAA AAA ATA ACA GTA ATA A-A A-A
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
90360174 ATG ATA ATA GTG ATA TTA GTA ATA ATA ATA ACA AT- ATA TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
90360221 ATA AT- ATA TATA TTA ATA A
1 ATA ATA ATA -ATA ATA ATA A
90360240 CGACAATAAT
Statistics
Matches: 110, Mismatches: 33, Indels: 18
0.68 0.20 0.11
Matches are distributed among these distances:
2 11 0.10
3 92 0.84
4 5 0.05
5 2 0.02
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:90360110 original size:17 final size:17
Alignment explanation
Indices: 90360090--90360139 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
90360080 AAAATATAAT
*
90360090 AATAATAGTAATAATAC
1 AATAATAATAATAATAC
*
90360107 AATAGTAATAATAATA-
1 AATAATAATAATAATAC
90360123 AA-AAGGTAATAATAATA
1 AATAA--TAATAATAATA
90360140 TATTAGATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 1 0.04
16 2 0.07
17 25 0.89
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (17 bp):
AATAATAATAATAATAC
Found at i:90360110 original size:20 final size:20
Alignment explanation
Indices: 90360082--90360123 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
90360072 AAAAGAAGAA
* *
90360082 AATATAATAATAATAGTAAT
1 AATACAATAATAATAATAAT
*
90360102 AATACAATAGTAATAATAAT
1 AATACAATAATAATAATAAT
90360122 AA
1 AA
90360124 AAAGGTAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (20 bp):
AATACAATAATAATAATAAT
Found at i:90360112 original size:14 final size:13
Alignment explanation
Indices: 90360081--90360120 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 13
90360071 AAAAAGAAGA
90360081 AAATA-TAATAAT
1 AAATAGTAATAAT
90360093 -AATAGTAATAAT
1 AAATAGTAATAAT
90360105 ACAATAGTAATAAT
1 A-AATAGTAATAAT
90360119 AA
1 AA
90360121 TAAAAAGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 4 0.16
12 7 0.28
13 1 0.04
14 13 0.52
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (13 bp):
AAATAGTAATAAT
Found at i:90360218 original size:17 final size:18
Alignment explanation
Indices: 90360195--90360240 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
90360185 GATATTAGTA
90360195 ATAATAATAACAATATAT
1 ATAATAATAACAATATAT
*
90360213 -TAATAATAATAATATAT
1 ATAATAATAACAATATAT
*
90360230 ATATTAATAAC
1 ATAATAATAAC
90360241 GACAATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAATAATAACAATATAT
Found at i:90360219 original size:23 final size:21
Alignment explanation
Indices: 90360186--90360239 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 21
90360176 GATAATAGTG
*
90360186 ATATTAGTAATAATAATAACAAT
1 ATATTAATAATAATAAT-A-AAT
*
90360209 ATATTAATAATAATAATATAT
1 ATATTAATAATAATAATAAAT
90360230 ATATTAATAA
1 ATATTAATAA
90360240 CGACAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 12 0.41
22 1 0.03
23 16 0.55
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
ATATTAATAATAATAATAAAT
Found at i:90360247 original size:21 final size:21
Alignment explanation
Indices: 90360207--90360247 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
90360197 AATAATAACA
* *
90360207 ATATATTAATAATAATAATAT
1 ATATATTAATAACAACAATAT
*
90360228 ATATATTAATAACGACAATA
1 ATATATTAATAACAACAATA
90360248 ATAGAAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (21 bp):
ATATATTAATAACAACAATAT
Found at i:90360346 original size:13 final size:13
Alignment explanation
Indices: 90360315--90360370 Score: 53
Period size: 13 Copynumber: 4.2 Consensus size: 13
90360305 GGATAAATAG
*
90360315 AATAATAGAAAGT
1 AATAATAGAAAAT
90360328 AATAATA-AAAAT
1 AATAATAGAAAAT
*
90360340 AATTAATTTGAAAAT
1 AA-TAA-TAGAAAAT
90360355 AA-AATAGCAAAAT
1 AATAATAG-AAAAT
90360368 AAT
1 AAT
90360371 GAAAAGGGAC
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
12 8 0.23
13 19 0.54
14 1 0.03
15 7 0.20
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (13 bp):
AATAATAGAAAAT
Found at i:90364323 original size:121 final size:119
Alignment explanation
Indices: 90364099--90364323 Score: 253
Period size: 121 Copynumber: 1.9 Consensus size: 119
90364089 ATATACACAT
* * * *
90364099 AAATAGATTTAGAAGCAATTATTTGTAAAAATAACATGGAATTAATAATGCGTATAAGATTAAAT
1 AAATAGATTTAAAAGAAATTATATGTAAAAATAACATGGAATT-ATAATGCGTATAAGATAAAAT
* * * *
90364164 TAATTTAATCATAAATTGTATATGTAATAGATTTTATAAACATAATTATGTATAC
65 CAATTTAATCATAAATTATATATATAATAGATTGTATAAACATAATTATGTATAC
*
90364219 AAATAGATTTAAAAGAAATTATATGTATAAAATAACAT-GAATT-TAATGATGTATATAGAATAA
1 AAATAGATTTAAAAGAAATTATATGTA-AAAATAACATGGAATTATAATG-CGTATA-AG-ATAA
*
90364282 AATCAACTTT-ATCATGAATTATATACATATAATA-A-TGTATAA
62 AATCAA-TTTAATCATAAATTATAT--ATATAATAGATTGTATAA
90364324 GAACATTTAT
Statistics
Matches: 88, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
118 5 0.06
119 5 0.06
120 31 0.35
121 36 0.41
122 4 0.05
123 7 0.08
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (119 bp):
AAATAGATTTAAAAGAAATTATATGTAAAAATAACATGGAATTATAATGCGTATAAGATAAAATC
AATTTAATCATAAATTATATATATAATAGATTGTATAAACATAATTATGTATAC
Found at i:90365374 original size:26 final size:26
Alignment explanation
Indices: 90365345--90365452 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
90365335 TGGTACAAAT
90365345 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
90365371 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90365397 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
90365423 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90365449 TGAT
1 TGAT
90365453 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:90369273 original size:24 final size:24
Alignment explanation
Indices: 90369239--90369314 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
90369229 AAGATGATAA
90369239 TAATAAAAGTAAAAAATAA-AATAG
1 TAATAAAAGT-AAAAATAATAATAG
*
90369263 TAATAACAGTAAAAATAATAATAG
1 TAATAAAAGTAAAAATAATAATAG
* * * *
90369287 CAACAATAAG-AAAAGTAATAACAG
1 TAATAA-AAGTAAAAATAATAATAG
90369311 TAAT
1 TAAT
90369315 GATAACAATA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
23 8 0.19
24 32 0.76
25 2 0.05
ACGTcount: A:0.64, C:0.05, G:0.09, T:0.21
Consensus pattern (24 bp):
TAATAAAAGTAAAAATAATAATAG
Found at i:90369277 original size:18 final size:18
Alignment explanation
Indices: 90369256--90369313 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
90369246 AGTAAAAAAT
90369256 AAAATAGTAATAACAGTA
1 AAAATAGTAATAACAGTA
* *
90369274 AAAATAATAATAGCAACAATA
1 AAAATAGTAAT---AACAGTA
90369295 AGAAA-AGTAATAACAGTA
1 A-AAATAGTAATAACAGTA
90369313 A
1 A
90369314 TGATAACAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
18 17 0.53
21 12 0.38
22 3 0.09
ACGTcount: A:0.64, C:0.07, G:0.10, T:0.19
Consensus pattern (18 bp):
AAAATAGTAATAACAGTA
Found at i:90369334 original size:39 final size:37
Alignment explanation
Indices: 90369251--90369334 Score: 87
Period size: 39 Copynumber: 2.2 Consensus size: 37
90369241 ATAAAAGTAA
* * *
90369251 AAAATAAAATAGTAATAACAGTAAAAATAATAATAGC
1 AAAATAAAAAAGTAATAACAGTAAAAATAACAATAAC
** *
90369288 AACAATAAGAAAAGTAATAACAGTAATGATAACAATAAT
1 AA-AATAA-AAAAGTAATAACAGTAAAAATAACAATAAC
90369327 ATAAATAA
1 A-AAATAA
90369335 TAATATATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
37 2 0.05
38 5 0.13
39 30 0.79
40 1 0.03
ACGTcount: A:0.64, C:0.06, G:0.08, T:0.21
Consensus pattern (37 bp):
AAAATAAAAAAGTAATAACAGTAAAAATAACAATAAC
Found at i:90370865 original size:44 final size:44
Alignment explanation
Indices: 90370815--90370967 Score: 157
Period size: 44 Copynumber: 3.5 Consensus size: 44
90370805 AATCCGACCT
* *
90370815 ACTGCAACTTCAGAGG-TATAGGACTTGTCACTTTAATCTGCTCC
1 ACTGCAACTTCAG-GGAGATAGGACTTGTGACTTTAATCTGCTCC
* *
90370859 ACTGCAACTTCAGGGAGATAGGA-TTAGTTGTCTTTAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAGGACTT-G-TGACTTTAATCTGCTCC
* * * * **
90370904 GCTGCAACTTCAGGGAGATAAGACTTGTGGCTTTAATTTGCTTT
1 ACTGCAACTTCAGGGAGATAGGACTTGTGACTTTAATCTGCTCC
* *
90370948 ACTGCAACTTTAGGGGGATA
1 ACTGCAACTTCAGGGAGATA
90370968 AGATTTGCCA
Statistics
Matches: 91, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
43 4 0.04
44 49 0.54
45 36 0.40
46 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAGGACTTGTGACTTTAATCTGCTCC
Found at i:90371255 original size:45 final size:44
Alignment explanation
Indices: 90371187--90371311 Score: 137
Period size: 45 Copynumber: 2.8 Consensus size: 44
90371177 AGGACTCACC
* *
90371187 ATTTTAATCCGCTCCACTGCAACTTCAAGGAGATAAGA-TTAGCT-
1 ATTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTT-G-TA
* * *
90371231 CTCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTA
1 AT-TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTA
* * *
90371276 ATTTCAACCTGTTCCACTGCAACTTTAAGGAGATAA
1 ATTTCAATCTGCTCCACTGCAACTTCAAGGAGATAA
90371312 AGTTTGCTAT
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
44 31 0.46
45 34 0.51
46 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (44 bp):
ATTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTA
Found at i:90371298 original size:44 final size:45
Alignment explanation
Indices: 90371197--90371311 Score: 137
Period size: 44 Copynumber: 2.6 Consensus size: 45
90371187 ATTTTAATCC
* *
90371197 GCTCCACTGCAACTTCAAGGAGATAAGATTAGCTCTCTTCAATCT
1 GCTCCACTGCAACTTCAAGGAGATAAGATTAGCTATCTTCAACCT
* *
90371242 GCTCCGCTGCAACTTCAGGGAGATAAGACTT-G-TAAT-TTCAACCT
1 GCTCCACTGCAACTTCAAGGAGATAAGA-TTAGCT-ATCTTCAACCT
* *
90371286 GTTCCACTGCAACTTTAAGGAGATAA
1 GCTCCACTGCAACTTCAAGGAGATAA
90371312 AGTTTGCTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
44 30 0.50
45 28 0.47
46 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (45 bp):
GCTCCACTGCAACTTCAAGGAGATAAGATTAGCTATCTTCAACCT
Found at i:90371408 original size:52 final size:52
Alignment explanation
Indices: 90371330--90371456 Score: 209
Period size: 52 Copynumber: 2.4 Consensus size: 52
90371320 ATGATCTGCT
*
90371330 CACTGCAACTTTAGAGAGATAAGATCTGTTTATTTATAGCTTCAATATATTC
1 CACTGCAACTTCAGAGAGATAAGATCTGTTTATTTATAGCTTCAATATATTC
* *
90371382 CACTGCAAGTTCAGAGAGATAAGATCTGTTTATTTATAGCTTCAATCTATTC
1 CACTGCAACTTCAGAGAGATAAGATCTGTTTATTTATAGCTTCAATATATTC
* *
90371434 CACTGCAACTTCAGGGAAATAAG
1 CACTGCAACTTCAGAGAGATAAG
90371457 GTTCGCTATC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (52 bp):
CACTGCAACTTCAGAGAGATAAGATCTGTTTATTTATAGCTTCAATATATTC
Found at i:90371619 original size:44 final size:44
Alignment explanation
Indices: 90371571--90371674 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 44
90371561 TCTGCCCCAC
*
90371571 TGCTATCTCGAGG-AGACAAAATCTG-AATCATCAGTCTGCTCCCT
1 TGCTACCTC-AGGAAGACAAAA-CTGTAATCATCAGTCTGCTCCCT
* * *
90371615 TGCTACCTCAGGAAGATAAGACTGTAATCTTCAGTCTGCTCCCT
1 TGCTACCTCAGGAAGACAAAACTGTAATCATCAGTCTGCTCCCT
* *
90371659 TGCTTCCTTAGGAAGA
1 TGCTACCTCAGGAAGA
90371675 TAAGGCTAGT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
43 6 0.12
44 46 0.88
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (44 bp):
TGCTACCTCAGGAAGACAAAACTGTAATCATCAGTCTGCTCCCT
Found at i:90371697 original size:44 final size:44
Alignment explanation
Indices: 90371605--90371701 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 44
90371595 GAATCATCAG
* ** *
90371605 TCTGCTCCCTTGCTACCTCAGGAAGATAAGACTGTAATCTTCAG
1 TCTGCTCCCTTGCTACCTCAGGAAGATAAGACTGTAAGCTAAAA
* * * *
90371649 TCTGCTCCCTTGCTTCCTTAGGAAGATAAGGCTAGT-GGCTAAAA
1 TCTGCTCCCTTGCTACCTCAGGAAGATAAGACT-GTAAGCTAAAA
90371693 TCTGCTCCC
1 TCTGCTCCC
90371702 CTGCCACTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
44 42 0.95
45 2 0.05
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (44 bp):
TCTGCTCCCTTGCTACCTCAGGAAGATAAGACTGTAAGCTAAAA
Found at i:90371742 original size:133 final size:132
Alignment explanation
Indices: 90371605--90372389 Score: 618
Period size: 133 Copynumber: 5.9 Consensus size: 132
90371595 GAATCATCAG
* * *
90371605 TCTGCTCCCTTGCTACCTCAGGAAGATAAGA-CTGTAATCTTCAGTCTGCTCC-CTTGCTTCCTT
1 TCTGCTCCCTTGCTA-CTCAGGAAGATAAGATCTGCAATCTTCAG-CTGCTCCAC-TGCTTGCTC
* * * *
90371668 AGGAAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCCA-CTTTGGGAAGATAAGATTCGTCG-
63 AGGAAGACAAGGCTAGTGGCTTAAATCTGCTCCCCTGCCACCTTAGGG-AGATAAGATTCGCCGT
90371731 CTTTCGA
127 C-TTCGA
* * * * *
90371738 TCTGC-CGGC--ACTACTGCTTGGGAGATAAGATCTACAATCTTCAGCTTGCTCCACTGC-TGCT
1 TCTGCTC-CCTTGCTACT-C-AGGAAGATAAGATCTGCAATCTTCAGC-TGCTCCACTGCTTGCT
* * * *
90371799 CAGGGAGACAAGGATAGTGGCTTAAATCTGCTCCCTTGCTACCTTAGGGAGATAAGATTCGCCGT
62 CAGGAAGACAAGGCTAGTGGCTTAAATCTGCTCCCCTGCCACCTTAGGGAGATAAGATTCGCCGT
90371864 CTTCGA
127 CTTCGA
* *
90371870 TCTGCTCCATTGCTATCTCA-TAGAGATAAGATCTGCAATCTTCAGCCTGCTCCACTG-TTGCTC
1 TCTGCTCCCTTGCTA-CTCAGGA-AGATAAGATCTGCAATCTTCAG-CTGCTCCACTGCTTGCTC
* * * * ** *
90371933 A-GAGAGACAAGGCTAATGGCTTAAATCTGCTCCCTTGCTACCTCAAAGAGATAAGATTCACCGT
63 AGGA-AGACAAGGCTAGTGGCTTAAATCTGCTCCCCTGCCACCTTAGGGAGATAAGATTCGCCGT
*
90371997 TTTCGA
127 CTTCGA
* ** * * * * *
90372003 TCTACTCTATGGCTACCTTATGG-AGACAAGATCTACAATCTTCAATCTGCTCCACTGC-TGCTC
1 TCTGCTCCCTTGCTA-CTCA-GGAAGATAAGATCTGCAATCTTC-AGCTGCTCCACTGCTTGCTC
* * * *** * * * *
90372066 AGGGAGACAAGGCTATTGGCTTAAATCTGCTCCCTTATTACCTCAAGGAGGTAAGATTCACCGTC
63 AGGAAGACAAGGCTAGTGGCTTAAATCTGCTCCCCTGCCACCTTAGGGAGATAAGATTCGCCGTC
90372131 TTCGA
128 TTCGA
** * * * *
90372136 TCTGCTCTATTGCTACCTCATGG-AGATAAGATCTACAATCTTCATCCTGCTACACTGCTT-CTT
1 TCTGCTCCCTTGCTA-CTCA-GGAAGATAAGATCTGCAATCTTCA-GCTGCTCCACTGCTTGCTC
* * * * *
90372199 A-AAGAGACAAGGCTAGTGGCTTAAATCT-CTTCCCTTGCTACCTTAGGGAGATAAGATCCACCG
63 AGGA-AGACAAGGCTAGTGGCTTAAATCTGC-TCCCCTGCCACCTTAGGGAGATAAGATTCGCCG
90372262 TCTTCGA
126 TCTTCGA
* * * * *
90372269 TCTGCTTCATTGCTACCTCA-TAGAGATAAGATCTACAATTTTCAGCCTGCTCCACTGC-TGCTC
1 TCTGCTCCCTTGCTA-CTCAGGA-AGATAAGATCTGCAATCTTCAG-CTGCTCCACTGCTTGCTC
* * ** * * *
90372332 AGGGAGACAAGGCTAGTGGCTTAGATCTGCTCCATTGCTACCTCATGGAGATAAGATT
63 AGGAAGACAAGGCTAGTGGCTTAAATCTGCTCCCCTGCCACCTTAGGGAGATAAGATT
90372390 TACAATCTTC
Statistics
Matches: 544, Mismatches: 77, Indels: 62
0.80 0.11 0.09
Matches are distributed among these distances:
130 2 0.00
131 4 0.01
132 77 0.14
133 449 0.83
134 10 0.02
135 2 0.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (132 bp):
TCTGCTCCCTTGCTACTCAGGAAGATAAGATCTGCAATCTTCAGCTGCTCCACTGCTTGCTCAGG
AAGACAAGGCTAGTGGCTTAAATCTGCTCCCCTGCCACCTTAGGGAGATAAGATTCGCCGTCTTC
GA
Found at i:90372376 original size:88 final size:88
Alignment explanation
Indices: 90372267--90372477 Score: 323
Period size: 88 Copynumber: 2.4 Consensus size: 88
90372257 CACCGTCTTC
* * * *
90372267 GATCTGCTTCATTGCTACCTCATAGAGATAAGATCTACAATTTTCAGCCTGCTCCACTGCTGCTC
1 GATCTGCTCCATTGCTACCTCATGGAGATAAGATCTACAATCTTCAACCTGCTCCACTGCTGCTC
*
90372332 AGGGAGACAAGGCTAGTGGCTTA
66 AAGGAGACAAGGCTAGTGGCTTA
*
90372355 GATCTGCTCCATTGCTACCTCATGGAGATAAGATTTACAATCTTCAACCTGCTCCACTGCTGCTC
1 GATCTGCTCCATTGCTACCTCATGGAGATAAGATCTACAATCTTCAACCTGCTCCACTGCTGCTC
90372420 AAGGAGACAAGGCTAGTGGCTTA
66 AAGGAGACAAGGCTAGTGGCTTA
* * * * *
90372443 AATATACTCCCTTGCTACCTCAGGGAGATAAGATC
1 GATCTGCTCCATTGCTACCTCATGGAGATAAGATC
90372478 CGCTGTCTTC
Statistics
Matches: 111, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 111 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (88 bp):
GATCTGCTCCATTGCTACCTCATGGAGATAAGATCTACAATCTTCAACCTGCTCCACTGCTGCTC
AAGGAGACAAGGCTAGTGGCTTA
Found at i:90372397 original size:221 final size:221
Alignment explanation
Indices: 90372134--90372545 Score: 641
Period size: 221 Copynumber: 1.9 Consensus size: 221
90372124 CACCGTCTTC
* * * *
90372134 GATCTGCTCTATTGCTACCTCATGGAGATAAGATCTACAATCTTCATCCTGCTACACTGCTTCTT
1 GATCTGCTCCATTGCTACCTCATGGAGATAAGATCTACAATCTTCAACCTGCTACACTGCTGCTC
* *
90372199 AAAGAGACAAGGCTAGTGGCTTAAATCT-CTTCCCTTGCTACCTTAGGGAGATAAGATCCACCGT
66 AAAGAGACAAGGCTAGTGGCTTAAATATAC-TCCCTTGCTACCTCAGGGAGATAAGATCCACCGT
* *
90372263 CTTCGATCTGCT-TCATTGCTACCTCAT-AGAGATAAGATCTACAATTTTCAGCCTGCTCCACTG
130 CTTCGATCTGCTCT-ATTGCTACCTCATGA-AAATAAGATCTACAATTTTCAGCCTACTCCACTG
90372326 CTGCTCAGGGAGACAAGGCTAGTGGCTTA
193 CTGCTCAGGGAGACAAGGCTAGTGGCTTA
* *
90372355 GATCTGCTCCATTGCTACCTCATGGAGATAAGATTTACAATCTTCAACCTGCTCCACTGCTGCTC
1 GATCTGCTCCATTGCTACCTCATGGAGATAAGATCTACAATCTTCAACCTGCTACACTGCTGCTC
* * *
90372420 AAGGAGACAAGGCTAGTGGCTTAAATATACTCCCTTGCTACCTCAGGGAGATAAGATCCGCTGTC
66 AAAGAGACAAGGCTAGTGGCTTAAATATACTCCCTTGCTACCTCAGGGAGATAAGATCCACCGTC
* *
90372485 TTCGATCTGCTCTATTGCTACCTCATGAAAATAAGATCTACAATTTTTAGTCTACTCCACT
131 TTCGATCTGCTCTATTGCTACCTCATGAAAATAAGATCTACAATTTTCAGCCTACTCCACT
90372546 ACTATTTAAG
Statistics
Matches: 173, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
221 170 0.98
222 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (221 bp):
GATCTGCTCCATTGCTACCTCATGGAGATAAGATCTACAATCTTCAACCTGCTACACTGCTGCTC
AAAGAGACAAGGCTAGTGGCTTAAATATACTCCCTTGCTACCTCAGGGAGATAAGATCCACCGTC
TTCGATCTGCTCTATTGCTACCTCATGAAAATAAGATCTACAATTTTCAGCCTACTCCACTGCTG
CTCAGGGAGACAAGGCTAGTGGCTTA
Found at i:90372399 original size:133 final size:133
Alignment explanation
Indices: 90371759--90372389 Score: 888
Period size: 133 Copynumber: 4.7 Consensus size: 133
90371749 TACTGCTTGG
* *
90371759 GAGATAAGATCTACAATCTTCAGCTTGCTCCACTGCTGCTCAGGGAGACAAGGATAGTGGCTTAA
1 GAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGCTCAGGGAGACAAGGCTAGTGGCTTAA
* * * * *
90371824 ATCTGCTCCCTTGCTACCTTAGGGAGATAAGATTCGCCGTCTTCGATCTGCTCCATTGCTATCTC
66 ATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTCACCGTCTTCGATCTGCTCTATTGCTACCTC
90371889 ATA
131 ATA
* * * *
90371892 GAGATAAGATCTGCAATCTTCAGCCTGCTCCACTGTTGCTCAGAGAGACAAGGCTAATGGCTTAA
1 GAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGCTCAGGGAGACAAGGCTAGTGGCTTAA
* * * * *
90371957 ATCTGCTCCCTTGCTACCTCAAAGAGATAAGATTCACCGTTTTCGATCTACTCTATGGCTACCTT
66 ATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTCACCGTCTTCGATCTGCTCTATTGCTACCTC
*
90372022 ATG
131 ATA
* ** *
90372025 GAGACAAGATCTACAATCTTCAATCTGCTCCACTGCTGCTCAGGGAGACAAGGCTATTGGCTTAA
1 GAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGCTCAGGGAGACAAGGCTAGTGGCTTAA
** *
90372090 ATCTGCTCCCTTATTACCTCAAGGAGGTAAGATTCACCGTCTTCGATCTGCTCTATTGCTACCTC
66 ATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTCACCGTCTTCGATCTGCTCTATTGCTACCTC
*
90372155 ATG
131 ATA
* * * * **
90372158 GAGATAAGATCTACAATCTTCATCCTGCTACACTGCTTCTTAAAGAGACAAGGCTAGTGGCTTAA
1 GAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGCTCAGGGAGACAAGGCTAGTGGCTTAA
* * *
90372223 ATCT-CTTCCCTTGCTACCTTAGGGAGATAAGATCCACCGTCTTCGATCTGCT-TCATTGCTACC
66 ATCTGC-TCCCTTGCTACCTCAAGGAGATAAGATTCACCGTCTTCGATCTGCTCT-ATTGCTACC
90372286 TCATA
129 TCATA
* *
90372291 GAGATAAGATCTACAATTTTCAGCCTGCTCCACTGCTGCTCAGGGAGACAAGGCTAGTGGCTTAG
1 GAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGCTCAGGGAGACAAGGCTAGTGGCTTAA
* *
90372356 ATCTGCTCCATTGCTACCTCATGGAGATAAGATT
66 ATCTGCTCCCTTGCTACCTCAAGGAGATAAGATT
90372390 TACAATCTTC
Statistics
Matches: 435, Mismatches: 60, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
132 2 0.00
133 432 0.99
134 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (133 bp):
GAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGCTCAGGGAGACAAGGCTAGTGGCTTAA
ATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTCACCGTCTTCGATCTGCTCTATTGCTACCTC
ATA
Found at i:90378764 original size:79 final size:82
Alignment explanation
Indices: 90378653--90378837 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
90378643 GCTACTCGTT
* *
90378653 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
90378716 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
90378733 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
90378796 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
90378813 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
90378838 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:90378837 original size:40 final size:40
Alignment explanation
Indices: 90378634--90378837 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
90378624 CGGAATTTAA
** *
90378634 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
90378674 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
90378714 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
90378753 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
90378793 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
90378833 CCGGA
1 CCGGA
90378838 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:90381607 original size:50 final size:49
Alignment explanation
Indices: 90381551--90381669 Score: 120
Period size: 50 Copynumber: 2.4 Consensus size: 49
90381541 TTAATTAATT
90381551 TAATAATGATAATAACATATAAGTAAAAACACAAAA-A-AATAGTTAA-AAAA
1 TAATAATGATAATAACA-AT-AGTAAAAACA-AAAAGATAATAG-TAATAAAA
* * **
90381601 TAATAATAATAATAGCAATAGTAATTACAAAAATGATAATAGTAATAAAA
1 TAATAATGATAATAACAATAGTAAAAACAAAAA-GATAATAGTAATAAAA
*
90381651 TAA-AATGATAATAATAATA
1 TAATAATGATAATAACAATA
90381670 TTAATAATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
47 4 0.07
48 8 0.14
49 19 0.33
50 27 0.47
ACGTcount: A:0.63, C:0.04, G:0.07, T:0.26
Consensus pattern (49 bp):
TAATAATGATAATAACAATAGTAAAAACAAAAAGATAATAGTAATAAAA
Found at i:90381658 original size:22 final size:21
Alignment explanation
Indices: 90381617--90381669 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 21
90381607 TAATAATAGC
* *
90381617 AATAGTAATTACAAAAATGAT
1 AATAGTAATAAAAAAAATGAT
90381638 AATAGTAATAAAATAAAATGAT
1 AATAGTAATAAAA-AAAATGAT
*
90381660 AATAATAATA
1 AATAGTAATA
90381670 TTAATAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (21 bp):
AATAGTAATAAAAAAAATGAT
Found at i:90381823 original size:3 final size:3
Alignment explanation
Indices: 90381599--90381806 Score: 76
Period size: 3 Copynumber: 71.3 Consensus size: 3
90381589 ATAGTTAAAA
** * * * * * *
90381599 AAT AAT AAT AAT AAT AGC AAT AGT AAT TAC AAA AAT GAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
90381647 AA- AAT AA- AAT GAT AAT AAT AAT ATT AAT AAT AAT AGA- AGT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * * * ** *
90381689 AAA AAT AA- AAT AGT AAT AAC AGT AA- AA- AAT AGC AAT AAT AAG AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
90381734 AGT AAT AAC AGT AAT GAT AAC AAT AAT -AT AAAT AAT AAT -AT ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT A-AT
* * *
90381779 GAAA AAT AAT AAT AGT AA- AAA AAT AAT A
1 -AAT AAT AAT AAT AAT AAT AAT AAT AAT A
90381807 GAAGTAGTAA
Statistics
Matches: 143, Mismatches: 49, Indels: 26
0.66 0.22 0.12
Matches are distributed among these distances:
2 18 0.13
3 118 0.83
4 6 0.04
5 1 0.01
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:90394077 original size:12 final size:12
Alignment explanation
Indices: 90394060--90394125 Score: 53
Period size: 12 Copynumber: 5.4 Consensus size: 12
90394050 TTTTTATTTA
*
90394060 TATATTATTCAT
1 TATATTATACAT
**
90394072 TATATTAT-TTT
1 TATATTATACAT
90394083 TATTATTATACAT
1 TA-TATTATACAT
* *
90394096 TTTATTTATAAAT
1 TATA-TTATACAT
*
90394109 TTTATTATACAT
1 TATATTATACAT
90394121 TATAT
1 TATAT
90394126 GTTTTACTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
11 3 0.07
12 27 0.63
13 13 0.30
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.61
Consensus pattern (12 bp):
TATATTATACAT
Found at i:90394104 original size:25 final size:25
Alignment explanation
Indices: 90394046--90394121 Score: 66
Period size: 25 Copynumber: 3.0 Consensus size: 25
90394036 ATAGTGTGAA
* *
90394046 TTATTTTTTATTTATATATTATTCATT
1 TTATTTATT-TTTAT-TATTATACATT
*
90394073 ATA-TTATTTTTATTATTATACATT
1 TTATTTATTTTTATTATTATACATT
**
90394097 TTATTTATAAATT-TTATTATACATT
1 TTATTTAT-TTTTATTATTATACATT
90394122 ATATGTTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
24 12 0.29
25 21 0.51
26 6 0.15
27 2 0.05
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (25 bp):
TTATTTATTTTTATTATTATACATT
Found at i:90394211 original size:35 final size:35
Alignment explanation
Indices: 90394172--90394238 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
90394162 TTTATTTTAT
*
90394172 TATAAAT-TATGTATTATTTT-ATTATTCATTAACTG
1 TATAAATAT-TGTAATATTTTAATTATT-ATTAACTG
*
90394207 TATAAATATTTTAATATTTTAATTATTATTAA
1 TATAAATATTGTAATATTTTAATTATTATTAA
90394239 ATAATAGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
35 21 0.75
36 7 0.25
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (35 bp):
TATAAATATTGTAATATTTTAATTATTATTAACTG
Found at i:90394301 original size:21 final size:21
Alignment explanation
Indices: 90394277--90394316 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
90394267 TATATGATAG
90394277 TTATCATATTA-TTATATTTCA
1 TTAT-ATATTATTTATATTTCA
*
90394298 TTATATTTTATTTATATTT
1 TTATATATTATTTATATTT
90394317 TTTACTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (21 bp):
TTATATATTATTTATATTTCA
Found at i:90394345 original size:10 final size:10
Alignment explanation
Indices: 90394277--90394349 Score: 53
Period size: 10 Copynumber: 7.2 Consensus size: 10
90394267 TATATGATAG
90394277 TTATCATATTA
1 TTAT-ATATTA
90394288 TTATAT-TTCA
1 TTATATATT-A
*
90394298 TTATATTTTA
1 TTATATATTA
90394308 TT-TATATT-
1 TTATATATTA
* *
90394316 TTTTACTACATA
1 TTATA-TA-TTA
*
90394328 TCATATATTA
1 TTATATATTA
90394338 TTATATATTA
1 TTATATATTA
90394348 TT
1 TT
90394350 CCCTATATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
8 2 0.04
9 9 0.18
10 27 0.54
11 9 0.18
12 3 0.06
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (10 bp):
TTATATATTA
Found at i:90394381 original size:7 final size:7
Alignment explanation
Indices: 90394367--90394402 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
90394357 TTATCTTCCT
90394367 TTTATTA
1 TTTATTA
*
90394374 TATATTA
1 TTTATTA
90394381 TTTCATTA
1 TTT-ATTA
90394389 TTTATTA
1 TTTATTA
90394396 TTTATTA
1 TTTATTA
90394403 GTATAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:90394394 original size:15 final size:14
Alignment explanation
Indices: 90394367--90394407 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
90394357 TTATCTTCCT
90394367 TTTATTATATATTA
1 TTTATTATATATTA
*
90394381 TTTCATTATTTATTA
1 TTT-ATTATATATTA
90394396 TTTATTAGTATA
1 TTTATTA-TATA
90394408 AAAAAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (14 bp):
TTTATTATATATTA
Found at i:90396989 original size:12 final size:12
Alignment explanation
Indices: 90396972--90397001 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
90396962 CCTGTAAAAT
90396972 AGTAAAAATAAC
1 AGTAAAAATAAC
90396984 AGTAAAAATAAC
1 AGTAAAAATAAC
90396996 AGTAAA
1 AGTAAA
90397002 GGGGAAGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.17
Consensus pattern (12 bp):
AGTAAAAATAAC
Found at i:90399557 original size:15 final size:15
Alignment explanation
Indices: 90399537--90399584 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
90399527 TTAATATTTG
*
90399537 AAAATAATAAATAAT
1 AAAATAATAAATAAA
90399552 AAAATAATAAGATAAA
1 AAAATAATAA-ATAAA
90399568 ATAAATAA-AAATAAA
1 A-AAATAATAAATAAA
90399583 AA
1 AA
90399585 TTGGGTTGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 1 0.03
15 16 0.53
16 7 0.23
17 6 0.20
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAATAATAAATAAA
Found at i:90402357 original size:12 final size:12
Alignment explanation
Indices: 90402340--90402372 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
90402330 TTCCTTATAA
90402340 AATAGTAAAAAT
1 AATAGTAAAAAT
90402352 AATAGTAAAAAT
1 AATAGTAAAAAT
*
90402364 AACAGTAAA
1 AATAGTAAA
90402373 GGGAAAGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.67, C:0.03, G:0.09, T:0.21
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:90403318 original size:27 final size:26
Alignment explanation
Indices: 90403288--90403349 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
90403278 AGATAATTAA
90403288 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
90403315 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
90403342 AATAAAAT
1 AATAAAAT
90403350 GGAGTCTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 9 0.31
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:90405635 original size:26 final size:26
Alignment explanation
Indices: 90405598--90405703 Score: 185
Period size: 26 Copynumber: 4.1 Consensus size: 26
90405588 GTACAAATTA
90405598 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
* *
90405624 ATAATGGATTAGGTAAATATTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
90405650 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
*
90405676 ATAATGGTTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
90405702 AT
1 AT
90405704 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:90412635 original size:14 final size:14
Alignment explanation
Indices: 90412616--90412645 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
90412606 TTACACAAGG
90412616 AAATAAATAAATAA
1 AAATAAATAAATAA
90412630 AAATAAATAAATAA
1 AAATAAATAAATAA
90412644 AA
1 AA
90412646 CATGGCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATAAATAAATAA
Found at i:90412705 original size:15 final size:15
Alignment explanation
Indices: 90412687--90412718 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
90412677 GAACGATAAT
90412687 AATAATAATAATATA
1 AATAATAATAATATA
*
90412702 AATAATAATAGTATA
1 AATAATAATAATATA
90412717 AA
1 AA
90412719 ACGATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
AATAATAATAATATA
Found at i:90413772 original size:8 final size:8
Alignment explanation
Indices: 90413756--90413787 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
90413746 CTCAAAATAC
90413756 CGGCTTTT
1 CGGCTTTT
*
90413764 CGGCATTT
1 CGGCTTTT
90413772 CGGCTTTT
1 CGGCTTTT
90413780 CGGCTTTT
1 CGGCTTTT
90413788 GCCAATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:90414549 original size:26 final size:26
Alignment explanation
Indices: 90414518--90414677 Score: 302
Period size: 26 Copynumber: 6.2 Consensus size: 26
90414508 TGAAATGCCC
* *
90414518 ATCATGGAACATTTATCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
90414544 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90414570 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90414596 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90414622 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90414648 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90414674 ATCA
1 ATCA
90414678 ATTTGTACCA
Statistics
Matches: 132, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 132 1.00
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:90415168 original size:27 final size:27
Alignment explanation
Indices: 90415117--90415169 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
90415107 AATATGTATT
* *
90415117 AAAATATATACGTAATAATAGAAATAA
1 AAAATATATACGTAACAATAAAAATAA
* *
90415144 AAAATATATACGTAGCATTAAAAATA
1 AAAATATATACGTAACAATAAAAATA
90415170 TATACATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.60, C:0.06, G:0.08, T:0.26
Consensus pattern (27 bp):
AAAATATATACGTAACAATAAAAATAA
Found at i:90415506 original size:13 final size:13
Alignment explanation
Indices: 90415490--90415514 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90415480 ATATATACGT
90415490 AAAAATATAATAA
1 AAAAATATAATAA
90415503 AAAAATATAATA
1 AAAAATATAATA
90415515 TATATAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAATATAATAA
Found at i:90415874 original size:19 final size:19
Alignment explanation
Indices: 90415846--90415907 Score: 97
Period size: 19 Copynumber: 3.2 Consensus size: 19
90415836 AATCTTTAAG
90415846 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
90415865 GATATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
90415884 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
90415905 GAT
1 GAT
90415908 CTTGTAATCT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 30 0.77
21 9 0.23
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:90417418 original size:23 final size:22
Alignment explanation
Indices: 90417373--90417429 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 22
90417363 TAAATAGAGG
* *
90417373 TATAATACCTAAAATATAAATA
1 TATAATACATAAAAAATAAATA
*
90417395 TATAATTACATAAAAAATATATA
1 TATAA-TACATAAAAAATAAATA
*
90417418 TA-AATAGATAAA
1 TATAATACATAAA
90417430 TAAAAAACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 7 0.23
22 7 0.23
23 16 0.53
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (22 bp):
TATAATACATAAAAAATAAATA
Found at i:90419082 original size:4 final size:4
Alignment explanation
Indices: 90419068--90419128 Score: 77
Period size: 4 Copynumber: 15.2 Consensus size: 4
90419058 CTCGCAGAAA
* * * * *
90419068 ACAT GCAT ACAT ACAT ACAT ACCT ACCT ACCT ACCT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
90419116 ACAT ACAT ACAT A
1 ACAT ACAT ACAT A
90419129 TACATAAAGG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 53 1.00
ACGTcount: A:0.43, C:0.31, G:0.02, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:90421975 original size:27 final size:27
Alignment explanation
Indices: 90421945--90422013 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
90421935 CCTTAATCGA
*
90421945 TAAAATGACTATTTTGCCCTTATGA-GG
1 TAAAATGACTGTTTTGCCCTT-TGATGG
* *
90421972 TAAAATGATTGTTTTGCCCTTTTATGG
1 TAAAATGACTGTTTTGCCCTTTGATGG
90421999 TAAAATGACTGTTTT
1 TAAAATGACTGTTTT
90422014 ACCCCTGTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 2 0.05
27 35 0.95
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTTGATGG
Found at i:90425494 original size:27 final size:27
Alignment explanation
Indices: 90425464--90425559 Score: 93
Period size: 27 Copynumber: 3.6 Consensus size: 27
90425454 CCTTAATCGA
* ** * *
90425464 TAAAATGATTATTTTTTCCTTTTGAGG
1 TAAAATGATTGTTTTGCCCTTATAAGG
* *
90425491 TAAAATAACTGTTTTGCCCTTATAAGG
1 TAAAATGATTGTTTTGCCCTTATAAGG
* *
90425518 TAAAATGATTGTTTTGCCCTTTTATGG
1 TAAAATGATTGTTTTGCCCTTATAAGG
* *
90425545 TAAGATGACTGTTTT
1 TAAAATGATTGTTTT
90425560 ACTCCTATGT
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (27 bp):
TAAAATGATTGTTTTGCCCTTATAAGG
Found at i:90427452 original size:11 final size:11
Alignment explanation
Indices: 90427438--90427463 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
90427428 TTAGCTCATC
90427438 ATTAATTAGAA
1 ATTAATTAGAA
90427449 ATTAATTAGAA
1 ATTAATTAGAA
90427460 ATTA
1 ATTA
90427464 TTTATGTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
ATTAATTAGAA
Found at i:90431896 original size:4 final size:4
Alignment explanation
Indices: 90431887--90431925 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
90431877 TTCTCGCAGA
90431887 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
90431926 GAGGTCATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:90449743 original size:17 final size:17
Alignment explanation
Indices: 90449721--90449755 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
90449711 GGATGGATGG
90449721 AAGAAACCACAAATTTT
1 AAGAAACCACAAATTTT
90449738 AAGAAACCACAAATTTT
1 AAGAAACCACAAATTTT
90449755 A
1 A
90449756 TCTTCTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.17, G:0.06, T:0.23
Consensus pattern (17 bp):
AAGAAACCACAAATTTT
Found at i:90451539 original size:13 final size:13
Alignment explanation
Indices: 90451513--90451556 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
90451503 TTACTGTAAA
* *
90451513 CATTTCACACAAC
1 CATTTCATATAAC
*
90451526 CATTTTATATAAC
1 CATTTCATATAAC
*
90451539 CAATTCATATAAC
1 CATTTCATATAAC
90451552 CATTT
1 CATTT
90451557 GCCATCTGGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.39, C:0.25, G:0.00, T:0.36
Consensus pattern (13 bp):
CATTTCATATAAC
Found at i:90451714 original size:46 final size:46
Alignment explanation
Indices: 90451639--90451959 Score: 401
Period size: 46 Copynumber: 7.0 Consensus size: 46
90451629 TTATCTTCGA
* * * * * * *
90451639 CATGATGCCATAGTATCTTTCAACTATGGTTTTACTCGTTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACAC-ATTTCATAT
* * ** ***
90451685 CATGTTGCCATGGTATCTTTTAACCATGGTTTTATTCATTTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
** *
90451732 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAGTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
90451778 CAAGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
90451824 TATGTTGCCATGGTATCTTTTAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
90451870 CAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
90451916 CAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
90451960 TTTAGAGAGC
Statistics
Matches: 250, Mismatches: 23, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
46 213 0.85
47 37 0.15
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:90454373 original size:18 final size:19
Alignment explanation
Indices: 90454338--90454373 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
90454328 ACACCTTCAA
90454338 TTTTCCCTTTTCTTCTTTG
1 TTTTCCCTTTTCTTCTTTG
*
90454357 TTTTCTCTTTT-TTCTTT
1 TTTTCCCTTTTCTTCTTT
90454374 CTTTCCTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTTCCCTTTTCTTCTTTG
Found at i:90454637 original size:25 final size:21
Alignment explanation
Indices: 90454581--90454627 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
90454571 TATAATATAA
*
90454581 TTATTTAATGAATAAATATCTT
1 TTATATAAT-AATAAATATCTT
*
90454603 TTATAAAATAATAAATATCTAT
1 TTATATAATAATAAATATCT-T
90454625 TTA
1 TTA
90454628 ATATCTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (21 bp):
TTATATAATAATAAATATCTT
Found at i:90454802 original size:19 final size:21
Alignment explanation
Indices: 90454756--90454802 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
90454746 TATAATAAAT
* *
90454756 TAATTTAATATCATTTATTAC
1 TAATTAAATATCATATATTAC
90454777 TAA-TAAATAT-ATATATTA-
1 TAATTAAATATCATATATTAC
90454795 TAATTAAA
1 TAATTAAA
90454803 ATCTAAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 3 0.13
19 11 0.48
20 6 0.26
21 3 0.13
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATTAAATATCATATATTAC
Found at i:90458111 original size:30 final size:30
Alignment explanation
Indices: 90458072--90458157 Score: 145
Period size: 30 Copynumber: 2.9 Consensus size: 30
90458062 AAAACCCTAG
90458072 CCACCTTGCCTCCCACTTGCACCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
* *
90458102 CCACTTTGCCTCCCACTTGCCCCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
*
90458132 CCACCTTGTCTCCCACTTGCACCTAC
1 CCACCTTGCCTCCCACTTGCACCTAC
90458158 ACCATCAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.15, C:0.52, G:0.07, T:0.26
Consensus pattern (30 bp):
CCACCTTGCCTCCCACTTGCACCTACTCCA
Found at i:90458702 original size:24 final size:24
Alignment explanation
Indices: 90458675--90458748 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 24
90458665 TTTAGCCATT
90458675 TTATTATTTTTACTATTATTTATA
1 TTATTATTTTTACTATTATTTATA
90458699 TTATTATTATTT-CTCATGTA--TATA
1 TTATTATT-TTTACT-AT-TATTTATA
* *
90458723 TTATTATTTATATTATTATATTATA
1 TTATTATTTTTACTATTAT-TTATA
90458748 T
1 T
90458749 ATACCCTCTC
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
22 2 0.05
23 4 0.10
24 23 0.56
25 10 0.24
26 2 0.05
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (24 bp):
TTATTATTTTTACTATTATTTATA
Found at i:90458990 original size:18 final size:19
Alignment explanation
Indices: 90458954--90459010 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 19
90458944 ACTATTACTA
*
90458954 TTATATATTAGTGTATATTT
1 TTATATA-TAGTATATATTT
*
90458974 TTATGTATA-TATATA-TT
1 TTATATATAGTATATATTT
90458991 TTATATATAGTAT-TATTT
1 TTATATATAGTATATATTT
90459009 TT
1 TT
90459011 TATTACTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 12 0.38
18 12 0.38
19 2 0.06
20 6 0.19
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (19 bp):
TTATATATAGTATATATTT
Found at i:90459112 original size:12 final size:12
Alignment explanation
Indices: 90459095--90459124 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
90459085 GTATTTCTAT
90459095 TATATACATATA
1 TATATACATATA
*
90459107 TATATACATTTA
1 TATATACATATA
90459119 TATATA
1 TATATA
90459125 GTATTATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
TATATACATATA
Found at i:90475700 original size:87 final size:87
Alignment explanation
Indices: 90475301--90476686 Score: 1451
Period size: 87 Copynumber: 16.0 Consensus size: 87
90475291 CTAGAATCAG
* * * ** *
90475301 TGAATTTACAGATCTTATA-TCCCTAAGCAGTAGGGAAACAAATCGAGGTTGATGGGCCTTAAAC
1 TGAATTTACAGATCTTA-ACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAAC
*
90475365 CCCTAAGCAGTAGGGTAACAGAC
65 CCCTAAGCAGTAGGGTAACAGGC
* * *** * *
90475388 CGAA-TTGCAGATCTTATTTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGGGTCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAAC
*
90475451 CCCTAAGCAGTAGGGTAACAGAC
65 CCCTAAGCAGTAGGGTAACAGGC
** * * * *
90475474 CAAATTGT--AGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGGGTCTTAAA
1 TGAATT-TACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAA
* *
90475536 CCCCTAAGTAGTAGGGTAACAGAC
64 CCCCTAAGCAGTAGGGTAACAGGC
* * * * * * * *
90475560 -CAAATTGCAGATCTTATCTCCCTACGCAGTAGTGG-AGCAGATCAAAGACGAAGGGCCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAAC
*
90475623 CCCGAAGCAGTAGGGTAACAGGC
65 CCCTAAGCAGTAGGGTAACAGGC
* * *
90475646 TGAATTTCCAGATCTTAACCCCCTATA-CAATAGGGAAACAGATCGAAGACGAAGGGTCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTA-AGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAAC
* *
90475710 CCCTAAGTAGTAGGGTAACAGAC
65 CCCTAAGCAGTAGGGTAACAGGC
* * * * * * * * *
90475733 -CAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAAATCGAAGACGAAGAGTCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAAC
90475796 CCCTAAGCAGTAGGGTAACAGGC
65 CCCTAAGCAGTAGGGTAACAGGC
* * *
90475819 TGAATTTCCAGATCTTAACCCCCTATA-CAATAGGGAAACAGATCGAAGACGAAGGGTCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTA-AGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAAC
* *
90475883 CCCTAAGTAGTAGGGTAACAGAC
65 CCCTAAGCAGTAGGGTAACAGGC
* * * * * * * * *
90475906 -CAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAAATCGAAGACGAAGAGTCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAAC
90475969 CCCTAAGCAGTAGGGTAACAGGC
65 CCCTAAGCAGTAGGGTAACAGGC
* * * * *
90475992 TGAATTTACAGATCTTATCCCCCTAAGCAGTAGTGG-AGCAAATCGAAGACGAAGAGTCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAAC
90476056 CCCTAAGCAGTAGGGTAACAGGC
65 CCCTAAGCAGTAGGGTAACAGGC
* *
90476079 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACC
* *
90476144 CCTAAGTAGTAGGGTAACAGGT
66 CCTAAGCAGTAGGGTAACAGGC
* * * * *
90476166 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAAATCGAAGGCGATGGACCTTAACCC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACC
* *
90476231 CCTAAGCAGTAAGATAACAGGC
66 CCTAAGCAGTAGGGTAACAGGC
* * *
90476253 TGAATTTACAGATCTTAACCCCCTAAGTAGTAGGAAAACAGATCGAAGGC-AATGGGCCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAA-GGGCCTTAAAC
* *
90476317 CTCTAAGCAATAGGGTAACAGGC
65 CCCTAAGCAGTAGGGTAACAGGC
* * *
90476340 TGAATTTACAAATCTTAACCCCCTAAGCAGTAGAGAAACAGATCGAAGACGATA-AGCCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGCCTTAAAC
*
90476404 CCCTAAGCAGTAGGGTAACAGGT
65 CCCTAAGCAGTAGGGTAACAGGC
* * * ** *
90476427 TAAATTTACAGA---T-----CCTAAACAGTAGAGAAACAGATCGAAGGTGACA-AGCCTTAAAA
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGCCTT-AAA
**
90476483 CCTTTAAGCAGTAGGGTAACAGGC
64 CCCCTAAGCAGTAGGGTAACAGGC
** *
90476507 TGAAGATTTACAGATCTTAAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGACA-AGCCTT-
1 TG-A-ATTTACAGATCTT-AACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGCCTTA
** * *
90476570 AACCCCTAAATAGTAGGATAATAGGC
62 AACCCCTAAGCAGTAGGGTAACAGGC
* * * *
90476596 TAAATTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGCCGATGGGCCTTAAACC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACC
* * *
90476661 CCTAAGCAGTAAGGTACCAAGC
66 CCTAAGCAGTAGGGTAACAGGC
90476683 TGAA
1 TGAA
90476687 AATTAAAACT
Statistics
Matches: 1124, Mismatches: 140, Indels: 70
0.84 0.10 0.05
Matches are distributed among these distances:
79 35 0.03
80 25 0.02
81 1 0.00
82 9 0.01
84 2 0.00
85 6 0.01
86 405 0.36
87 578 0.51
88 4 0.00
89 22 0.02
91 37 0.03
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (87 bp):
TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACC
CCTAAGCAGTAGGGTAACAGGC
Found at i:90475746 original size:173 final size:173
Alignment explanation
Indices: 90475301--90476686 Score: 1495
Period size: 173 Copynumber: 8.0 Consensus size: 173
90475291 CTAGAATCAG
* * * ** * *
90475301 TGAATTTACAGATCTTATA-TCCCTAAGCAGTAGGGAAACAAATCGAGGTTGATGGGCCTTAAAC
1 TGAATTTACAGATCTTA-ACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAAC
* *
90475365 CCCTAAGCAGTAGGGTAACAGACCGAATTGCAGATCTTATTTCCCTAAGCAGTAGTGGAGCAGAT
65 CCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* *
90475430 CGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGAC
130 CGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
** * * *
90475474 CAAATTGT--AGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGGGTCTTAAA
1 TGAATT-TACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGTCTTAAA
* *
90475536 CCCCTAAGTAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTACGCAGTAGTGGAGCAGA
64 CCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* *
90475601 TCAAAGACGAAGGGCCTTAAACCCCGAAGCAGTAGGGTAACAGGC
129 TCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* *
90475646 TGAATTTCCAGATCTTAACCCCCTATA-CAATAGGGAAACAGATCGAAGACGAAGGGTCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTA-AGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAAC
* *
90475710 CCCTAAGTAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAAT
65 CCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* *
90475775 CGAAGACGAAGAGTCTTAAACCCCTAAGCAGTAGGGTAACAGGC
130 CGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* *
90475819 TGAATTTCCAGATCTTAACCCCCTATA-CAATAGGGAAACAGATCGAAGACGAAGGGTCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTA-AGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAAC
* *
90475883 CCCTAAGTAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAAT
65 CCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* *
90475948 CGAAGACGAAGAGTCTTAAACCCCTAAGCAGTAGGGTAACAGGC
130 CGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * *
90475992 TGAATTTACAGATCTTATCCCCCTAAGCAGTAGTGG-AGCAAATCGAAGACGAAGAGTCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGTCTTAAAC
* * * * * * *
90476056 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAG
65 CCCTAAGCAGTAGGGTAACAGAC-CAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAG
* * * *
90476120 ATCGAAGATGATGGGCCTTAAACCCCTAAGTAGTAGGGTAACAGGT
128 ATCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * ** *
90476166 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAAATCGAAGGCGATGGACCTTAACCC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACC
* * * * * * * * * * *
90476231 CCTAAGCAGTAAGATAACAGGCTGAATTTACAGATCTTAACCCCCTAAGTAGTAG-GAAAACAGA
66 CCTAAGCAGTAGGGTAACAGAC-CAAATTGCAGATCTTATCTCCCTAAGCAGTAGTG-GAGCAGA
* * *
90476295 TCGAAGGC-AATGGGCCTTAAACCTCTAAGCAATAGGGTAACAGGC
129 TCGAAGACGAA-GGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * *
90476340 TGAATTTACAAATCTTAACCCCCTAAGCAGTAGAGAAACAGATCGAAGACGATA-AGCCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGTCTTAAAC
*** * * * * *
90476404 CCCTAAGCAGTAGGGTAACAGGTTAAATTTACAG-----A--T-CCTAAACAGTAGAGAAACAGA
65 CCCTAAGCAGTAGGGTAACAGACCAAA-TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
** * **
90476461 TCGAAGGTGACA-AGCCTTAAAACCTTTAAGCAGTAGGGTAACAGGC
129 TCGAAGACGA-AGGGCCTT-AAACCCCTAAGCAGTAGGGTAACAGGC
** * *
90476507 TGAAGATTTACAGATCTTAAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGACA-AGCCTT-
1 TG-A-ATTTACAGATCTT-AACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGTCTTA
** * * * * * * * *
90476570 AACCCCTAAATAGTAGGATAATAGGCTAAATTTACAGATCTTAACACCCTAAGCAGTAG-GGAAA
62 AACCCCTAAGCAGTAGGGTAACAGACCAAA-TTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AG
* * * * *
90476634 CAGATCGAAGCCGATGGGCCTTAAACCCCTAAGCAGTAAGGTACCAAGC
125 CAGATCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
90476683 TGAA
1 TGAA
90476687 AATTAAAACT
Statistics
Matches: 1068, Mismatches: 112, Indels: 65
0.86 0.09 0.05
Matches are distributed among these distances:
166 29 0.03
167 29 0.03
168 2 0.00
169 45 0.04
170 40 0.04
171 1 0.00
172 151 0.14
173 409 0.38
174 306 0.29
175 1 0.00
176 25 0.02
177 30 0.03
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (173 bp):
TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACC
CCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
GAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
Found at i:90476155 original size:44 final size:44
Alignment explanation
Indices: 90475321--90476671 Score: 321
Period size: 44 Copynumber: 31.3 Consensus size: 44
90475311 GATCTTATAT
* * * * *
90475321 CCCTAAGCAGTAGGGAAACAAATCGAGGTTGATGGGCCTTAAAC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGTTGATAGACCTTAACC
* * * * ***
90475365 CCCTAAGCAGTAGGGTAACAGACCGAA-TTG-CAGATCTTATTT
1 CCCTAAGCAGTAGGGAAACAGATCGAAGTTGATAGACCTTAACC
* ** ** *
90475407 CCCTAAGCAGTAGTGG-AGCAGATCGAAGACGA-AGGGTCTTAAAC
1 CCCTAAGCAGTAG-GGAAACAGATCGAAGTTGATA-GACCTTAACC
* * * * * *
90475451 CCCTAAGCAGTAGGGTAACAGA-CCAAATTG-TAGATCTTATCT
1 CCCTAAGCAGTAGGGAAACAGATCGAAGTTGATAGACCTTAACC
* ** ** *
90475493 CCCTAAGCAGTAGTGG-AGCAGATCGAAGACGA-AGGGTCTTAAAC
1 CCCTAAGCAGTAG-GGAAACAGATCGAAGTTGATA-GACCTTAACC
* * * * * * * *
90475537 CCCTAAGTAGTAGGGTAACAGA-CCAAATTG-CAGATCTTATCT
1 CCCTAAGCAGTAGGGAAACAGATCGAAGTTGATAGACCTTAACC
* * * ** * *
90475579 CCCTACGCAGTAGTGG-AGCAGATCAAAGACGA-AGGGCCTTAAAC
1 CCCTAAGCAGTAG-GGAAACAGATCGAAGTTGATA-GACCTTAACC
* * * *** *
90475623 CCCGAAGCAGTAGGGTAACAG-GCTGAA-TTTCCAGATCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATC-GAAGTTGATAGACCTTAACC
* ** ** *
90475666 CCCTATA-CAATAGGGAAACAGATCGAAGACGA-AGGGTCTTAAAC
1 CCCTA-AGCAGTAGGGAAACAGATCGAAGTTGATA-GACCTTAACC
* * * * * * * *
90475710 CCCTAAGTAGTAGGGTAACAGA-CCAAATTG-CAGATCTTATCT
1 CCCTAAGCAGTAGGGAAACAGATCGAAGTTGATAGACCTTAACC
* * ** * *
90475752 CCCTAAGCAGTAGTGG-AGCAAATCGAAGACGA-AGAGTCTTAAAC
1 CCCTAAGCAGTAG-GGAAACAGATCGAAGTTGATAGA-CCTTAACC
* * *** *
90475796 CCCTAAGCAGTAGGGTAACAG-GCTGAA-TTTCCAGATCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATC-GAAGTTGATAGACCTTAACC
* ** ** *
90475839 CCCTATA-CAATAGGGAAACAGATCGAAGACGA-AGGGTCTTAAAC
1 CCCTA-AGCAGTAGGGAAACAGATCGAAGTTGATA-GACCTTAACC
* * * * * * * *
90475883 CCCTAAGTAGTAGGGTAACAGA-CCAAATTG-CAGATCTTATCT
1 CCCTAAGCAGTAGGGAAACAGATCGAAGTTGATAGACCTTAACC
* * ** * *
90475925 CCCTAAGCAGTAGTGG-AGCAAATCGAAGACGA-AGAGTCTTAAAC
1 CCCTAAGCAGTAG-GGAAACAGATCGAAGTTGATAGA-CCTTAACC
* * * * * *
90475969 CCCTAAGCAGTAGGGTAACAG-GCTGAA-TTTACAGATCTTATCC
1 CCCTAAGCAGTAGGGAAACAGATC-GAAGTTGATAGACCTTAACC
* * ** * *
90476012 CCCTAAGCAGTAGTGG-AGCAAATCGAAGACGA-AGAGTCTTAAAC
1 CCCTAAGCAGTAG-GGAAACAGATCGAAGTTGATAGA-CCTTAACC
* * * * *
90476056 CCCTAAGCAGTAGGGTAACAG-GCTGAA-TTTACAGATCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATC-GAAGTTGATAGACCTTAACC
* * * *
90476099 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAAC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGTTGATAGACCTTAACC
* * * * * * *
90476143 CCCTAAGTAGTAGGGTAACAGGTTGAA-TTTACAGATCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGTTGATAGACCTTAACC
* ** *
90476186 CCCTAAGCAGTAGGGAAACAAATCGAAGGCGATGGACCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGTTGATAGACCTTAACC
* * * * *
90476230 CCCTAAGCAGTA-AGATAACAG-GCTGAA-TTTACAGATCTTAACC
1 CCCTAAGCAGTAGGGA-AACAGATC-GAAGTTGATAGACCTTAACC
* * *** * * *
90476273 CCCTAAGTAGTAGGAAAACAGATCGAAGGCAATGGGCCTTAAAC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGTTGATAGACCTTAACC
* * * * * * * *
90476317 CTCTAAGCAATAGGGTAACAG-GCTGAA-TTTACAAATCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATC-GAAGTTGATAGACCTTAACC
* ** *
90476360 CCCTAAGCAGTAGAGAAACAGATCGAAGACGATA-AGCCTTAAAC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGTTGATAGA-CCTTAACC
* * * * * *
90476404 CCCTAAGCAGTAGGGTAACAGGT-TAAATTTACAGA---T----
1 CCCTAAGCAGTAGGGAAACAGATCGAAGTTGATAGACCTTAACC
* * * * *
90476440 -CCTAAACAGTAGAGAAACAGATCGAAGGTGACA-AGCCTTAAAAC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGTTGATAGA-CCTT-AACC
** * * * * *
90476484 CTTTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGATCTTAAACC
1 CCCTAAGCAGTAGGGAAACAGATC-GAAG-TTGATAGACCTT-AACC
* *
90476530 CCCTAAGCAGTAGGGAAACAGATCGAAGGTGACA-AGCCTTAA-C
1 CCCTAAGCAGTAGGGAAACAGATCGAAGTTGATAGA-CCTTAACC
** * * * * * * * *
90476573 CCCTAAATAGTA-GGATAATAG-GCTAAATTTACAGATCTTAACA
1 CCCTAAGCAGTAGGGA-AACAGATCGAAGTTGATAGACCTTAACC
** * * *
90476616 CCCTAAGCAGTAGGGAAACAGATCGAAGCCGATGGGCCTTAAAC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGTTGATAGACCTTAACC
90476660 CCCTAAGCAGTA
1 CCCTAAGCAGTA
90476672 AGGTACCAAG
Statistics
Matches: 921, Mismatches: 300, Indels: 172
0.66 0.22 0.12
Matches are distributed among these distances:
35 19 0.02
36 6 0.01
39 1 0.00
40 1 0.00
42 132 0.14
43 318 0.35
44 383 0.42
45 26 0.03
46 33 0.04
47 2 0.00
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGAAACAGATCGAAGTTGATAGACCTTAACC
Found at i:90476541 original size:46 final size:45
Alignment explanation
Indices: 90476487--90476636 Score: 134
Period size: 43 Copynumber: 3.4 Consensus size: 45
90476477 TTAAAACCTT
*
90476487 TAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAAACCCCC
1 TAAGCAGTAGGGAAACAGGCTGAAGATTTACAGATCTT-AACCCCC
* * * *
90476533 TAAGCAGTAGGGAAACA-GATCGAAG-GTGACA-AGCCTTAA-CCCC
1 TAAGCAGTAGGGAAACAGGCT-GAAGATTTACAGA-TCTTAACCCCC
** * *
90476576 TAAATAGTA-GGATAATAGGCT-AA-ATTTACAGATCTTAACACCC
1 TAAGCAGTAGGGA-AACAGGCTGAAGATTTACAGATCTTAACCCCC
90476619 TAAGCAGTAGGGAAACAG
1 TAAGCAGTAGGGAAACAG
90476637 ATCGAAGCCG
Statistics
Matches: 80, Mismatches: 16, Indels: 19
0.70 0.14 0.17
Matches are distributed among these distances:
42 14 0.17
43 29 0.36
44 8 0.10
45 9 0.11
46 20 0.25
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (45 bp):
TAAGCAGTAGGGAAACAGGCTGAAGATTTACAGATCTTAACCCCC
Found at i:90477239 original size:30 final size:30
Alignment explanation
Indices: 90477205--90477289 Score: 161
Period size: 30 Copynumber: 2.8 Consensus size: 30
90477195 AAACCCTAGA
90477205 CACCTTGCCTCCCACTTGCACCTACTCCAC
1 CACCTTGCCTCCCACTTGCACCTACTCCAC
90477235 CACCTTGCCTCCCACTTGCACCTACTCCAC
1 CACCTTGCCTCCCACTTGCACCTACTCCAC
*
90477265 CACCTTGTCTCCCACTTGCACCTAC
1 CACCTTGCCTCCCACTTGCACCTAC
90477290 ACCATCAAAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.16, C:0.52, G:0.07, T:0.25
Consensus pattern (30 bp):
CACCTTGCCTCCCACTTGCACCTACTCCAC
Found at i:90481932 original size:30 final size:30
Alignment explanation
Indices: 90481898--90481982 Score: 161
Period size: 30 Copynumber: 2.8 Consensus size: 30
90481888 AAACCCTAGA
90481898 CACCTTGCCTCCCACTTGCACCTACTCCAC
1 CACCTTGCCTCCCACTTGCACCTACTCCAC
90481928 CACCTTGCCTCCCACTTGCACCTACTCCAC
1 CACCTTGCCTCCCACTTGCACCTACTCCAC
*
90481958 CACCTTGTCTCCCACTTGCACCTAC
1 CACCTTGCCTCCCACTTGCACCTAC
90481983 ACCATCAAAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.16, C:0.52, G:0.07, T:0.25
Consensus pattern (30 bp):
CACCTTGCCTCCCACTTGCACCTACTCCAC
Found at i:90482517 original size:15 final size:15
Alignment explanation
Indices: 90482486--90482557 Score: 60
Period size: 15 Copynumber: 4.7 Consensus size: 15
90482476 GAGCTTTGTT
*
90482486 TTATT-TTTTTA-TT
1 TTATTATTTTTACTA
90482499 TTATTATTTTTACTA
1 TTATTATTTTTACTA
90482514 TTATTTATATTATTACTA
1 TTA-TTAT-TT-TTACTA
* *
90482532 TCATTATTGTTACT-
1 TTATTATTTTTACTA
90482546 TCTATTATTTTT
1 T-TATTATTTTT
90482558 TATTTCTGAC
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
13 5 0.10
14 7 0.15
15 17 0.35
16 5 0.10
17 6 0.12
18 8 0.17
ACGTcount: A:0.24, C:0.07, G:0.01, T:0.68
Consensus pattern (15 bp):
TTATTATTTTTACTA
Found at i:90498209 original size:112 final size:112
Alignment explanation
Indices: 90498012--90498461 Score: 900
Period size: 112 Copynumber: 4.0 Consensus size: 112
90498002 GAGTTGGTGT
90498012 GTAGCGGATGGGGTAAGATCTGTAACTGCATTTGTATCTGAATTTGTGTCTACATCTGTATCTAA
1 GTAGCGGATGGGGTAAGATCTGTAACTGCATTTGTATCTGAATTTGTGTCTACATCTGTATCTAA
90498077 ACCTGTGTTTGCATTTATATCTGAACATGTATATGTATCCATATTTG
66 ACCTGTGTTTGCATTTATATCTGAACATGTATATGTATCCATATTTG
90498124 GTAGCGGATGGGGTAAGATCTGTAACTGCATTTGTATCTGAATTTGTGTCTACATCTGTATCTAA
1 GTAGCGGATGGGGTAAGATCTGTAACTGCATTTGTATCTGAATTTGTGTCTACATCTGTATCTAA
90498189 ACCTGTGTTTGCATTTATATCTGAACATGTATATGTATCCATATTTG
66 ACCTGTGTTTGCATTTATATCTGAACATGTATATGTATCCATATTTG
90498236 GTAGCGGATGGGGTAAGATCTGTAACTGCATTTGTATCTGAATTTGTGTCTACATCTGTATCTAA
1 GTAGCGGATGGGGTAAGATCTGTAACTGCATTTGTATCTGAATTTGTGTCTACATCTGTATCTAA
90498301 ACCTGTGTTTGCATTTATATCTGAACATGTATATGTATCCATATTTG
66 ACCTGTGTTTGCATTTATATCTGAACATGTATATGTATCCATATTTG
90498348 GTAGCGGATGGGGTAAGATCTGTAACTGCATTTGTATCTGAATTTGTGTCTACATCTGTATCTAA
1 GTAGCGGATGGGGTAAGATCTGTAACTGCATTTGTATCTGAATTTGTGTCTACATCTGTATCTAA
90498413 ACCTGTGTTTGCATTTATATCTGAACATGTATATGTATCCATATTTG
66 ACCTGTGTTTGCATTTATATCTGAACATGTATATGTATCCATATTTG
90498460 GT
1 GT
90498462 TATGATAAAA
Statistics
Matches: 338, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 338 1.00
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (112 bp):
GTAGCGGATGGGGTAAGATCTGTAACTGCATTTGTATCTGAATTTGTGTCTACATCTGTATCTAA
ACCTGTGTTTGCATTTATATCTGAACATGTATATGTATCCATATTTG
Found at i:90498639 original size:59 final size:59
Alignment explanation
Indices: 90498547--90498663 Score: 234
Period size: 59 Copynumber: 2.0 Consensus size: 59
90498537 TGTTTCCAAT
90498547 TTGTTGCTTGGGATGTGTTATACATTGGGCTTTTAGCTCACTCATTTATTTAATTCGTA
1 TTGTTGCTTGGGATGTGTTATACATTGGGCTTTTAGCTCACTCATTTATTTAATTCGTA
90498606 TTGTTGCTTGGGATGTGTTATACATTGGGCTTTTAGCTCACTCATTTATTTAATTCGT
1 TTGTTGCTTGGGATGTGTTATACATTGGGCTTTTAGCTCACTCATTTATTTAATTCGT
90498664 TTTAGGTGAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.18, C:0.14, G:0.21, T:0.48
Consensus pattern (59 bp):
TTGTTGCTTGGGATGTGTTATACATTGGGCTTTTAGCTCACTCATTTATTTAATTCGTA
Found at i:90509298 original size:336 final size:337
Alignment explanation
Indices: 90508678--90509354 Score: 1239
Period size: 336 Copynumber: 2.0 Consensus size: 337
90508668 CCGGAAAAAA
* *
90508678 AACTAGTCAGTTAATAATAAATCAAGACCAGCGATAGGAGTTAATGAGGCCCATCGAAACATGAA
1 AACTAGTCAGTTAATAATAAACCAAGACCAGCGATAGGAGTTAATGAGGCCCATCAAAACATGAA
90508743 AGCAGGAAAAAGTAAGAAACATCCCTAAAGAATTACCATAGTTTGCTCATTATGAGTTCAACAGA
66 AGCAGGAAAAAGTAAGAAACATCCCTAAAGAATTACCATAGTTTGCTCATTATGAGTTCAACAGA
90508808 CCAGTTAAGAGTTGAGATCATTTCATTTACATAGTAAAAGAGAAGGTCCACTAATAAACCGAAAG
131 CCAGTTAAGAGTTGAGATCATTTCATTTACATAGTAAAAGAGAAGGTCCACTAATAAACCGAAAG
*
90508873 TAGTTTTCCTGTTGATTGTGGATTTACTTTACTTTTTTGCTAATATGACTTAGACATAAATATGA
196 TAGTTTTCCTGTTGATTGTGGATATACTTTACTTTTTTGCTAATATGACTTAGACATAAATATGA
*
90508938 TCTATACATACACACACATAAGCACCAAAGAATGACTGAATTCACCTTATCATGCAACTGTGTAC
261 TCTATACATACACACACATAAGCACCAAAGAATGACTGAATTCACCTTATCATGCAACTGTATAC
* *
90509003 CAAGGTATAAAT
326 CAAGATACAAAT
* **
90509015 AACTAG-CAGTTAATAATAAACCAAGACCAGCGATATGAGTTAATGAGGCCCATCAAAATGTGAA
1 AACTAGTCAGTTAATAATAAACCAAGACCAGCGATAGGAGTTAATGAGGCCCATCAAAACATGAA
*
90509079 AGCAGGAAAAAGTAAGAAACATCCCTAAAGTATTACCATAGTTTGCTCATTATGAGTTCAACAGA
66 AGCAGGAAAAAGTAAGAAACATCCCTAAAGAATTACCATAGTTTGCTCATTATGAGTTCAACAGA
* *
90509144 CCAGTTAAGAGTTGAGATCATTTCATTTACATGGTAAAAGAGAAGGTCCACTAATAAACCGAACG
131 CCAGTTAAGAGTTGAGATCATTTCATTTACATAGTAAAAGAGAAGGTCCACTAATAAACCGAAAG
90509209 TAGTTTTCCTGTTGATTGTGGATATACTTTACTTTTTTGCTAATATGACTTAGACATAAATATGA
196 TAGTTTTCCTGTTGATTGTGGATATACTTTACTTTTTTGCTAATATGACTTAGACATAAATATGA
90509274 TCTATACATACACACACATAAGCACCAAAGAATGACTGAATTCACCTTATCATGCAACTGTATAC
261 TCTATACATACACACACATAAGCACCAAAGAATGACTGAATTCACCTTATCATGCAACTGTATAC
90509339 CAAGATACAAAT
326 CAAGATACAAAT
90509351 AACT
1 AACT
90509355 GATAGAAAAA
Statistics
Matches: 328, Mismatches: 12, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
336 322 0.98
337 6 0.02
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (337 bp):
AACTAGTCAGTTAATAATAAACCAAGACCAGCGATAGGAGTTAATGAGGCCCATCAAAACATGAA
AGCAGGAAAAAGTAAGAAACATCCCTAAAGAATTACCATAGTTTGCTCATTATGAGTTCAACAGA
CCAGTTAAGAGTTGAGATCATTTCATTTACATAGTAAAAGAGAAGGTCCACTAATAAACCGAAAG
TAGTTTTCCTGTTGATTGTGGATATACTTTACTTTTTTGCTAATATGACTTAGACATAAATATGA
TCTATACATACACACACATAAGCACCAAAGAATGACTGAATTCACCTTATCATGCAACTGTATAC
CAAGATACAAAT
Found at i:90512352 original size:15 final size:15
Alignment explanation
Indices: 90512317--90512357 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
90512307 TGATTATTTG
90512317 AGTTTATTAA-AAAT
1 AGTTTATTAATAAAT
* *
90512331 AGATTATTAATCAAT
1 AGTTTATTAATAAAT
90512346 AGTTTATTAATA
1 AGTTTATTAATA
90512358 TTAGAATAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (15 bp):
AGTTTATTAATAAAT
Found at i:90522386 original size:21 final size:22
Alignment explanation
Indices: 90522336--90522387 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
90522326 GAGAAAATGA
* *
90522336 AATGAATAAGTGATATGTTATGG
1 AATG-ATAAATGATATGTGATGG
*
90522359 AAT-ATAAATGA-ATGTGATGT
1 AATGATAAATGATATGTGATGG
90522379 AATGATAAA
1 AATGATAAA
90522388 AAACATAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 10 0.40
21 12 0.48
23 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.21, T:0.33
Consensus pattern (22 bp):
AATGATAAATGATATGTGATGG
Found at i:90524738 original size:37 final size:37
Alignment explanation
Indices: 90524697--90524845 Score: 158
Period size: 37 Copynumber: 4.1 Consensus size: 37
90524687 GGAGGATGTA
* ** *
90524697 TAGCTCGTATGAGCATTTGATGTGTTTTCGGTTGCAT
1 TAGCTCTTATGAGCATTTGGCGTGTTTTCGGTTGGAT
**
90524734 TAGCTCTTATGAGCATTTGGCGTGTTACCGGTTGGAT
1 TAGCTCTTATGAGCATTTGGCGTGTTTTCGGTTGGAT
* * *
90524771 TAGCTCTT-TAGACCACTTGGCATGTTTTCGGTTGGAT
1 TAGCTCTTAT-GAGCATTTGGCGTGTTTTCGGTTGGAT
** * *
90524808 TAGCTCTTATGAGTGTTTGGCATG-TTTCGGGTGGAT
1 TAGCTCTTATGAGCATTTGGCGTGTTTTCGGTTGGAT
90524844 TA
1 TA
90524846 CTTTTGTACC
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
36 14 0.15
37 79 0.84
38 1 0.01
ACGTcount: A:0.16, C:0.15, G:0.28, T:0.41
Consensus pattern (37 bp):
TAGCTCTTATGAGCATTTGGCGTGTTTTCGGTTGGAT
Found at i:90529091 original size:16 final size:18
Alignment explanation
Indices: 90529064--90529097 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
90529054 TAGAATTGGG
90529064 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
90529081 TTGAG-AAATTAATTTAA
1 TTGAGAAAATTAATTTAA
90529098 GATATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:90530746 original size:17 final size:19
Alignment explanation
Indices: 90530726--90530763 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
90530716 CAGGGGAAGG
90530726 AAGAAAG-A-AAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
90530743 AAGAAAGAAGAAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
90530762 AA
1 AA
90530764 TTGAAGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAAAAGAGAA
Found at i:90531731 original size:201 final size:201
Alignment explanation
Indices: 90531386--90531788 Score: 806
Period size: 201 Copynumber: 2.0 Consensus size: 201
90531376 TCGGGTTCCC
90531386 ATGTTATGACTTTGGTAAATCACCAAAAATTGGATAAAAATAATTAGAGACTTAAAGTTATATGT
1 ATGTTATGACTTTGGTAAATCACCAAAAATTGGATAAAAATAATTAGAGACTTAAAGTTATATGT
90531451 TTAGAATCCATAATGAGTCTATTTTCAGGATAAATTAATAGGAATATTATCCGAGTTTTGTACTG
66 TTAGAATCCATAATGAGTCTATTTTCAGGATAAATTAATAGGAATATTATCCGAGTTTTGTACTG
90531516 TGAGATAATTAATTTTTAGTGAAGAAGGGTCGACACTATCAGACAGCAGAACAGGGATAACTTTA
131 TGAGATAATTAATTTTTAGTGAAGAAGGGTCGACACTATCAGACAGCAGAACAGGGATAACTTTA
90531581 AAGAAT
196 AAGAAT
90531587 ATGTTATGACTTTGGTAAATCACCAAAAATTGGATAAAAATAATTAGAGACTTAAAGTTATATGT
1 ATGTTATGACTTTGGTAAATCACCAAAAATTGGATAAAAATAATTAGAGACTTAAAGTTATATGT
90531652 TTAGAATCCATAATGAGTCTATTTTCAGGATAAATTAATAGGAATATTATCCGAGTTTTGTACTG
66 TTAGAATCCATAATGAGTCTATTTTCAGGATAAATTAATAGGAATATTATCCGAGTTTTGTACTG
90531717 TGAGATAATTAATTTTTAGTGAAGAAGGGTCGACACTATCAGACAGCAGAACAGGGATAACTTTA
131 TGAGATAATTAATTTTTAGTGAAGAAGGGTCGACACTATCAGACAGCAGAACAGGGATAACTTTA
90531782 AAGAAT
196 AAGAAT
90531788 A
1 A
90531789 AACTGTATTT
Statistics
Matches: 202, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
201 202 1.00
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.32
Consensus pattern (201 bp):
ATGTTATGACTTTGGTAAATCACCAAAAATTGGATAAAAATAATTAGAGACTTAAAGTTATATGT
TTAGAATCCATAATGAGTCTATTTTCAGGATAAATTAATAGGAATATTATCCGAGTTTTGTACTG
TGAGATAATTAATTTTTAGTGAAGAAGGGTCGACACTATCAGACAGCAGAACAGGGATAACTTTA
AAGAAT
Found at i:90532695 original size:23 final size:24
Alignment explanation
Indices: 90532657--90532704 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
90532647 TTATAAAAAT
90532657 ATAAAAATATTAATTT-AAATTAA
1 ATAAAAATATTAATTTAAAATTAA
90532680 ATAAAAA-ATTACATTTCAAAATTAA
1 ATAAAAATATTA-ATTT-AAAATTAA
90532705 TGTTTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 4 0.18
23 11 0.50
25 7 0.32
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (24 bp):
ATAAAAATATTAATTTAAAATTAA
Found at i:90534583 original size:71 final size:71
Alignment explanation
Indices: 90534508--90534645 Score: 267
Period size: 71 Copynumber: 1.9 Consensus size: 71
90534498 TTGTATGTTC
90534508 AATGTTTAAATATTTAATTACAATATTAACTTTGAGATAAATTTTTATGATTATATTTTAATAAA
1 AATGTTTAAATATTTAATTACAATATTAACTTTGAGATAAATTTTTATGATTATATTTTAATAAA
90534573 TTGATA
66 TTGATA
*
90534579 AATGTTTAAATATTTAATTACAATATTAACTTTGAGATAATTTTTTATGATTATATTTTAATAAA
1 AATGTTTAAATATTTAATTACAATATTAACTTTGAGATAAATTTTTATGATTATATTTTAATAAA
90534644 TT
66 TT
90534646 TCTTTCTCAT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (71 bp):
AATGTTTAAATATTTAATTACAATATTAACTTTGAGATAAATTTTTATGATTATATTTTAATAAA
TTGATA
Found at i:90542760 original size:25 final size:25
Alignment explanation
Indices: 90542721--90542768 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
90542711 CCTCCCCGGG
90542721 TTTTCTTTTTCTTCTTTTTCAAAGT
1 TTTTCTTTTTCTTCTTTTTCAAAGT
90542746 TTTTCTTTATT-TTCTTTTTCAAA
1 TTTTCTTT-TTCTTCTTTTTCAAA
90542769 ACGGGTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.15, C:0.15, G:0.02, T:0.69
Consensus pattern (25 bp):
TTTTCTTTTTCTTCTTTTTCAAAGT
Done.