Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 36 of 343
Found at i:11966783 original size:24 final size:24
Alignment explanation
Indices: 11966753--11966841 Score: 126
Period size: 24 Copynumber: 3.7 Consensus size: 24
11966743 TCGACGATTC
*
11966753 AAATCCGCACACATAGTGCTGTAT
1 AAATCCGCACACATAGTGCTATAT
*
11966777 AAATCCGCACACATAGTGCTATAC
1 AAATCCGCACACATAGTGCTATAT
* *
11966801 AAATCTGCACACATAGTGCCAT-T
1 AAATCCGCACACATAGTGCTATAT
11966824 CAAATCCGCACACATAGT
1 -AAATCCGCACACATAGT
11966842 TCCAAGGTCA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.22
Consensus pattern (24 bp):
AAATCCGCACACATAGTGCTATAT
Found at i:11970485 original size:19 final size:19
Alignment explanation
Indices: 11970463--11970501 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
11970453 AGAATAATTA
*
11970463 AAAGCATCTTTCGATAGGC
1 AAAGCATCGTTCGATAGGC
11970482 AAAGCATCGTTCGATAGGC
1 AAAGCATCGTTCGATAGGC
11970501 A
1 A
11970502 GAAATTGTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (19 bp):
AAAGCATCGTTCGATAGGC
Found at i:11971397 original size:21 final size:21
Alignment explanation
Indices: 11971373--11971416 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
11971363 ATAATAATAT
* * *
11971373 AATATAATAGAAGAATAAAGA
1 AATAAAATAGAAAAAGAAAGA
11971394 AATAAAATAGAAAAAGAAAGA
1 AATAAAATAGAAAAAGAAAGA
11971415 AA
1 AA
11971417 GAACAGACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (21 bp):
AATAAAATAGAAAAAGAAAGA
Found at i:11998187 original size:14 final size:14
Alignment explanation
Indices: 11998168--11998206 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
11998158 AGATTCATTT
11998168 TCATTTATATTGTA
1 TCATTTATATTGTA
11998182 TCATTTATATTGTA
1 TCATTTATATTGTA
11998196 TCATTTATATT
1 TCATTTATATT
11998207 CATGCTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (14 bp):
TCATTTATATTGTA
Found at i:11998392 original size:14 final size:12
Alignment explanation
Indices: 11998359--11998385 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11998349 TTATTATTCA
11998359 TTTATTTATATT
1 TTTATTTATATT
11998371 TTTATTTATATT
1 TTTATTTATATT
11998383 TTT
1 TTT
11998386 TAATTTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTATTTATATT
Found at i:12002263 original size:35 final size:35
Alignment explanation
Indices: 12002224--12002293 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
12002214 AGGTATGAGA
* *
12002224 TAGTTCGAAAATATTCTTGATTTCATATAGATAAC
1 TAGTTCGAAAATATTCCTGATTTCATATAAATAAC
12002259 TAGTTCGAAAATATTCCTGATTTCATATAAATAAC
1 TAGTTCGAAAATATTCCTGATTTCATATAAATAAC
12002294 GGTATCAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (35 bp):
TAGTTCGAAAATATTCCTGATTTCATATAAATAAC
Found at i:12010642 original size:56 final size:56
Alignment explanation
Indices: 12010556--12010668 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
12010546 AATTATTGCG
12010556 AAAGTCTTGGTGAAGCGTATGAGTGCAATGTTGGGATATTGTATTAATAAAGCCCA
1 AAAGTCTTGGTGAAGCGTATGAGTGCAATGTTGGGATATTGTATTAATAAAGCCCA
12010612 AAAGTCTTGGTGAAGCGTATGAGTGCAATGTTGGGATATTGTATTAATAAAGCCCA
1 AAAGTCTTGGTGAAGCGTATGAGTGCAATGTTGGGATATTGTATTAATAAAGCCCA
12010668 A
1 A
12010669 TAGGCTTTTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.30
Consensus pattern (56 bp):
AAAGTCTTGGTGAAGCGTATGAGTGCAATGTTGGGATATTGTATTAATAAAGCCCA
Found at i:12011871 original size:30 final size:30
Alignment explanation
Indices: 12011827--12011885 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
12011817 AACTTTTTAT
12011827 TTTCCCCCAAAATTTTTA-TTCCCTCCCAC
1 TTTCCCCCAAAATTTTTACTTCCCTCCCAC
*
12011856 TTTCCCCCTAAAATTTTTACTTCCTTCCCA
1 TTTCCCCC-AAAATTTTTACTTCCCTCCCA
12011886 TCCCACCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 8 0.30
30 10 0.37
31 9 0.33
ACGTcount: A:0.20, C:0.39, G:0.00, T:0.41
Consensus pattern (30 bp):
TTTCCCCCAAAATTTTTACTTCCCTCCCAC
Found at i:12011990 original size:15 final size:17
Alignment explanation
Indices: 12011970--12012003 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
12011960 CTTTTTACTT
12011970 TTCCTC-AAA-TTTTTA
1 TTCCTCAAAACTTTTTA
12011985 TTCCTCAAAACTTTTTA
1 TTCCTCAAAACTTTTTA
12012002 TT
1 TT
12012004 TTCCCCATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 3 0.18
17 8 0.47
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (17 bp):
TTCCTCAAAACTTTTTA
Found at i:12012176 original size:18 final size:18
Alignment explanation
Indices: 12012153--12012198 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
12012143 TTATTTATAT
12012153 TATTGAATTTT-TTTGTCA
1 TATTGAATTTTATTT-TCA
12012171 TATTGAATATTTATTTTCA
1 TATTGAAT-TTTATTTTCA
*
12012190 AATTGAATT
1 TATTGAATT
12012199 ATTAATTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 9 0.36
19 13 0.52
20 3 0.12
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (18 bp):
TATTGAATTTTATTTTCA
Found at i:12034259 original size:12 final size:12
Alignment explanation
Indices: 12034242--12034271 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
12034232 TCAAAACGTT
12034242 ATATTTTTATAA
1 ATATTTTTATAA
12034254 ATA-TTTTATAA
1 ATATTTTTATAA
12034265 ATATTTT
1 ATATTTT
12034272 AATACTAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
ATATTTTTATAA
Found at i:12034262 original size:11 final size:11
Alignment explanation
Indices: 12034246--12034272 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
12034236 AACGTTATAT
12034246 TTTTATAAATA
1 TTTTATAAATA
12034257 TTTTATAAATA
1 TTTTATAAATA
12034268 TTTTA
1 TTTTA
12034273 ATACTAACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTATAAATA
Found at i:12036948 original size:171 final size:171
Alignment explanation
Indices: 12036663--12037008 Score: 595
Period size: 171 Copynumber: 2.0 Consensus size: 171
12036653 GTTTGAAGTA
* * *
12036663 ATATGCGCTCTGTGCCTTATCGATATAAATCGACGTAAACCCCATACATTAATCTTATGACATGC
1 ATATGCGCTCTGTGCCTCATCGATATAAATCGAAGTAAACCCCATACATTAATCCTATGACATGC
* ** *
12036728 CAATTATACGCGACTCTGTTTGAGACTGTTTAATAAAGTATTCAATGATTCTATTCATACATGTC
66 CAATTATACGCAACTCTGTTCAAGACTGTTTAATAAAGAATTCAATGATTCTATTCATACATGTC
12036793 CACATATCATTCATATCACTTTTAATCACATTAACATTAGC
131 CACATATCATTCATATCACTTTTAATCACATTAACATTAGC
*
12036834 ATATGCGCTCTGTGCCTCATCGATATAAATCGAAGTAAACCCCATACATTAATCCTATGGCATGC
1 ATATGCGCTCTGTGCCTCATCGATATAAATCGAAGTAAACCCCATACATTAATCCTATGACATGC
12036899 CAATTATAC-CTAACTCTGTTCAAGACTGTTTAATAAAGAATTCAATGATTCTATTCATACATGT
66 CAATTATACGC-AACTCTGTTCAAGACTGTTTAATAAAGAATTCAATGATTCTATTCATACATGT
*
12036963 CCACATATCATTCATATCACTTTTAATTACATTAACATTAGC
130 CCACATATCATTCATATCACTTTTAATCACATTAACATTAGC
12037005 ATAT
1 ATAT
12037009 CAATATCTTA
Statistics
Matches: 165, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
170 1 0.01
171 164 0.99
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (171 bp):
ATATGCGCTCTGTGCCTCATCGATATAAATCGAAGTAAACCCCATACATTAATCCTATGACATGC
CAATTATACGCAACTCTGTTCAAGACTGTTTAATAAAGAATTCAATGATTCTATTCATACATGTC
CACATATCATTCATATCACTTTTAATCACATTAACATTAGC
Found at i:12039621 original size:24 final size:25
Alignment explanation
Indices: 12039593--12039653 Score: 76
Period size: 23 Copynumber: 2.6 Consensus size: 25
12039583 AGTAAATTAG
*
12039593 TTATTTTATTACAAGTGTA-C-ATA
1 TTATTTTATTACAAATGTACCAATA
12039616 TCTA-TTTATTACAAATGTACCAATA
1 T-TATTTTATTACAAATGTACCAATA
12039641 TT-TTTTATTACAA
1 TTATTTTATTACAA
12039654 TTGTCATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 15 0.45
24 14 0.42
25 4 0.12
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.48
Consensus pattern (25 bp):
TTATTTTATTACAAATGTACCAATA
Found at i:12039906 original size:27 final size:28
Alignment explanation
Indices: 12039850--12039940 Score: 74
Period size: 30 Copynumber: 3.0 Consensus size: 28
12039840 TTTAATTTAT
* *
12039850 TTAATAATAATACCAATTAAATAATTATAAC
1 TTAAT-ATAAAACCAA-T-AATAATAATAAC
* *
12039881 TTAATATGAAACCATAATAATAATAATAAT
1 TTAATATAAAACC--AATAATAATAATAAC
12039911 TTAATATAAAACCATACTAATAATTAATAA
1 TTAATATAAAACCA-A-TAATAA-TAATAA
12039941 TAATAAAATC
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
28 1 0.02
29 1 0.02
30 34 0.68
31 12 0.24
32 2 0.04
ACGTcount: A:0.56, C:0.09, G:0.01, T:0.34
Consensus pattern (28 bp):
TTAATATAAAACCAATAATAATAATAAC
Found at i:12039915 original size:30 final size:30
Alignment explanation
Indices: 12039869--12039941 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
12039859 ATACCAATTA
* * *
12039869 AATAATTATAACTTAATATGAAACCATAAT
1 AATAATAATAATTTAATATAAAACCATAAT
*
12039899 AATAATAATAATTTAATATAAAACCATACT
1 AATAATAATAATTTAATATAAAACCATAAT
12039929 AATAATTAATAAT
1 AATAA-TAATAAT
12039942 AATAAAATCT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
30 31 0.82
31 7 0.18
ACGTcount: A:0.56, C:0.08, G:0.01, T:0.34
Consensus pattern (30 bp):
AATAATAATAATTTAATATAAAACCATAAT
Found at i:12045505 original size:53 final size:53
Alignment explanation
Indices: 12045441--12045552 Score: 197
Period size: 53 Copynumber: 2.1 Consensus size: 53
12045431 TCGGGAAAGT
* * *
12045441 TCACACGAAGTGTGCCTTTACATATAATCGTAACCTTTCTTTTACATCAATGC
1 TCACACAAAGTGTGCCTTTACATATAACCGTAACCTTTCCTTTACATCAATGC
12045494 TCACACAAAGTGTGCCTTTACATATAACCGTAACCTTTCCTTTACATCAATGC
1 TCACACAAAGTGTGCCTTTACATATAACCGTAACCTTTCCTTTACATCAATGC
12045547 TCACAC
1 TCACAC
12045553 GAGCTGTAGG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.33
Consensus pattern (53 bp):
TCACACAAAGTGTGCCTTTACATATAACCGTAACCTTTCCTTTACATCAATGC
Found at i:12062090 original size:31 final size:30
Alignment explanation
Indices: 12062055--12062117 Score: 99
Period size: 31 Copynumber: 2.1 Consensus size: 30
12062045 CAATTTAACA
12062055 AATAAATGCCTCTAAAATAATAATAAAAATT
1 AATAAATGCCTCTAAAATAATAA-AAAAATT
* *
12062086 AATAAATGCCTTTAAAATAATAACAAAATT
1 AATAAATGCCTCTAAAATAATAAAAAAATT
12062116 AA
1 AA
12062118 CAAGAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 8 0.27
31 22 0.73
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.29
Consensus pattern (30 bp):
AATAAATGCCTCTAAAATAATAAAAAAATT
Found at i:12062175 original size:22 final size:22
Alignment explanation
Indices: 12062150--12062192 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
12062140 TATCCAAACA
12062150 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
12062172 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
12062193 AATAGATAGA
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:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:12062205 original size:22 final size:22
Alignment explanation
Indices: 12062157--12062205 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
12062147 ACAATAACAA
*
12062157 TAAAATAGTAGCAACATAATAG
1 TAAAATAGTAGCAAAATAATAG
*
12062179 TAAAATGGTAGCAAAATAGATAG
1 TAAAATAGTAGCAAAATA-ATAG
12062202 -AAAA
1 TAAAA
12062206 CAACAAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.57, C:0.06, G:0.16, T:0.20
Consensus pattern (22 bp):
TAAAATAGTAGCAAAATAATAG
Found at i:12064515 original size:19 final size:19
Alignment explanation
Indices: 12064493--12064530 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
12064483 TATTTATATA
*
12064493 TTTTAATAATTTTTGTGAT
1 TTTTAATAATTTTTATGAT
12064512 TTTTAATAATTTTTATGAT
1 TTTTAATAATTTTTATGAT
12064531 AAAAATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (19 bp):
TTTTAATAATTTTTATGAT
Found at i:12064909 original size:21 final size:20
Alignment explanation
Indices: 12064858--12064909 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
12064848 AAATCAAAAT
*
12064858 TAAAATACTAAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
*
12064878 TAAAATCCTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
12064898 TAAAAATACTGA
1 T-AAAATACTGA
12064910 TGTGGCATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.25
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGA
Found at i:12066929 original size:32 final size:32
Alignment explanation
Indices: 12066837--12066933 Score: 124
Period size: 32 Copynumber: 3.0 Consensus size: 32
12066827 TATCCAAATG
* *
12066837 GTACAATTTGAAAATGTTATGTACACTTTGTAT
1 GTACAA-TTGAAAAGGTTATGTACACTTTGTGT
*
12066870 GTACACTTGAAAAGGTTATGTACACTTTGTGT
1 GTACAATTGAAAAGGTTATGTACACTTTGTGT
* *
12066902 GTACAATTGGAAAGGTTA-GATATACTTTGTGT
1 GTACAATTGAAAAGGTTATG-TACACTTTGTGT
12066934 ATATCATATG
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
31 1 0.02
32 51 0.89
33 5 0.09
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (32 bp):
GTACAATTGAAAAGGTTATGTACACTTTGTGT
Found at i:12067617 original size:12 final size:11
Alignment explanation
Indices: 12067598--12067628 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
12067588 TGTATAAAAC
12067598 TTATTTTATTA
1 TTATTTTATTA
12067609 TTAATTTTATTA
1 TT-ATTTTATTA
12067621 TTATTTTA
1 TTATTTTA
12067629 AAGGCATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:12067643 original size:30 final size:30
Alignment explanation
Indices: 12067609--12067668 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
12067599 TATTTTATTA
12067609 TTAATTTTATTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
12067639 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
12067669 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:12070851 original size:28 final size:28
Alignment explanation
Indices: 12070816--12070915 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
12070806 ACAAAGTGAA
*
12070816 AATAACGATAAGCACCAAAGTGCAAAAT
1 AATAACGATAAGCACTAAAGTGCAAAAT
*
12070844 AATAACGATAAGCACTAAAGTGCAAATTTT
1 AATAACGATAAGCACTAAAGTGCAAA--AT
* * * * *
12070874 TACAATGATAAGCACTGAAGTGCGAAAT
1 AATAACGATAAGCACTAAAGTGCAAAAT
12070902 AAT-ACGATAAGCAC
1 AATAACGATAAGCAC
12070916 GCTAATTTTT
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
27 10 0.17
28 27 0.46
30 22 0.37
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (28 bp):
AATAACGATAAGCACTAAAGTGCAAAAT
Found at i:12074987 original size:16 final size:16
Alignment explanation
Indices: 12074949--12074987 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
12074939 AAAAAAATAT
*
12074949 AAATAAAATATTCAAA
1 AAATAAAACATTCAAA
12074965 AACATAAAACATTCAAA
1 AA-ATAAAACATTCAAA
12074982 AAATAA
1 AAATAA
12074988 TCAATCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (16 bp):
AAATAAAACATTCAAA
Found at i:12081970 original size:23 final size:22
Alignment explanation
Indices: 12081923--12081972 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
12081913 TTATCCATTC
*
12081923 ATAAATCTATACACTATATGCT
1 ATAAATCTATACACTATATACT
* *
12081945 ATAATATCTATACTCTATATATT
1 ATAA-ATCTATACACTATATACT
12081968 ATAAA
1 ATAAA
12081973 CAAATTACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.40
Consensus pattern (22 bp):
ATAAATCTATACACTATATACT
Found at i:12085597 original size:9 final size:9
Alignment explanation
Indices: 12085583--12085801 Score: 89
Period size: 9 Copynumber: 23.8 Consensus size: 9
12085573 TATTTTTCTC
12085583 ATAAAAATT
1 ATAAAAATT
12085592 ATAAAAA--
1 ATAAAAATT
*
12085599 A-AAAAA-A
1 ATAAAAATT
*
12085606 ACAAAAAGTT
1 ATAAAAA-TT
12085616 ATAAAAATT
1 ATAAAAATT
* *
12085625 CAGGAAACATT
1 -A-TAAAAATT
12085636 ATTAAAAA-T
1 A-TAAAAATT
*
12085645 ATTAAAATT
1 ATAAAAATT
*
12085654 GATATAAACTT
1 -ATA-AAAATT
*
12085665 ATTAAAATT
1 ATAAAAATT
*
12085674 ATAAACA-T
1 ATAAAAATT
12085682 ATAAAAACTT
1 ATAAAAA-TT
*
12085692 ATAAATATT
1 ATAAAAATT
12085701 ATAAAAA-T
1 ATAAAAATT
12085709 AT-AAAATT
1 ATAAAAATT
*
12085717 AATAAAATTT
1 -ATAAAAATT
*
12085727 ATTTAAAA-T
1 A-TAAAAATT
12085736 A-AAAAATTT
1 ATAAAAA-TT
* *
12085745 ATTAGAATTCT
1 A-TAAAAAT-T
* *
12085756 TTAAAAATA
1 ATAAAAATT
12085765 ATAAAAATT
1 ATAAAAATT
*
12085774 GTAAAAAATT
1 AT-AAAAATT
12085784 ATAAAAATAT
1 ATAAAAAT-T
12085794 ATTAAAAA
1 A-TAAAAA
12085802 CTTGAACTAG
Statistics
Matches: 156, Mismatches: 31, Indels: 44
0.68 0.13 0.19
Matches are distributed among these distances:
6 5 0.03
7 10 0.06
8 21 0.13
9 51 0.33
10 48 0.31
11 21 0.13
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:12085678 original size:17 final size:17
Alignment explanation
Indices: 12085633--12085725 Score: 73
Period size: 17 Copynumber: 5.2 Consensus size: 17
12085623 TTCAGGAAAC
*
12085633 ATTATTAAAAATATTAAA
1 ATTA-TAAAATTATTAAA
12085651 ATTGATATAAACTTATTAAA
1 ATT-ATA-AAA-TTATTAAA
*
12085671 ATTATAAACA-TATAAAA
1 ATTATAAA-ATTATTAAA
12085688 ACTTATAAATATTA-TAAA
1 A-TTATAAA-ATTATTAAA
* *
12085706 AATATAAAATTAATAAA
1 ATTATAAAATTATTAAA
12085723 ATT
1 ATT
12085726 TATTTAAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
16 4 0.06
17 19 0.31
18 19 0.31
19 10 0.16
20 10 0.16
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (17 bp):
ATTATAAAATTATTAAA
Found at i:12085701 original size:27 final size:27
Alignment explanation
Indices: 12085629--12085794 Score: 108
Period size: 27 Copynumber: 6.0 Consensus size: 27
12085619 AAAATTCAGG
* * *
12085629 AAACATTATTAAAAATATTAAAATTGATAT
1 AAAC-TTATTAAAATTA-TAAAAAT-ATAA
*
12085659 AAACTTATTAAAATTATAAACATATAA
1 AAACTTATTAAAATTATAAAAATATAA
12085686 AAACTTA-TAAATATTATAAAAATAT-A
1 AAACTTATTAAA-ATTATAAAAATATAA
* *
12085712 AAA-TTAATAAAATTTATTTAAAATA-AA
1 AAACTTATTAAAA-TTA-TAAAAATATAA
* * *
12085739 AAATTTATTAGAATTCTTTAAAAATAATAA
1 AAACTTATTA-AAAT-TATAAAAAT-ATAA
* *
12085769 AAA-TTGTAAAAAATTATAAAAATATA
1 AAACTTAT-TAAAATTATAAAAATATA
12085795 TTAAAAACTT
Statistics
Matches: 111, Mismatches: 14, Indels: 25
0.74 0.09 0.17
Matches are distributed among these distances:
25 4 0.04
26 15 0.14
27 36 0.32
28 25 0.23
29 21 0.19
30 10 0.09
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.36
Consensus pattern (27 bp):
AAACTTATTAAAATTATAAAAATATAA
Found at i:12086186 original size:19 final size:19
Alignment explanation
Indices: 12086154--12086201 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
12086144 TTTTGATTAC
12086154 TTTTTAT-ATATTTTAATAA
1 TTTTTATGAT-TTTTAATAA
*
12086173 TTTTTGTGATTTTTAATAA
1 TTTTTATGATTTTTAATAA
12086192 TTTTTATGAT
1 TTTTTATGAT
12086202 AAAAATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 24 0.92
20 2 0.08
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (19 bp):
TTTTTATGATTTTTAATAA
Found at i:12086762 original size:26 final size:26
Alignment explanation
Indices: 12086733--12086785 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
12086723 TGCGGACGTA
12086733 GCAAAACTGCTGTATTTGTAAACTTC
1 GCAAAACTGCTGTATTTGTAAACTTC
12086759 GCAAAACTGCTGTATTTGTAAACTTC
1 GCAAAACTGCTGTATTTGTAAACTTC
12086785 G
1 G
12086786 TTTTGTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (26 bp):
GCAAAACTGCTGTATTTGTAAACTTC
Found at i:12091078 original size:10 final size:10
Alignment explanation
Indices: 12091063--12091101 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
12091053 AAAAAAATAT
12091063 TATTTTTATA
1 TATTTTTATA
12091073 TATTTTTA-A
1 TATTTTTATA
12091082 TA-TTTTATTA
1 TATTTTTA-TA
12091092 TATTTTTATA
1 TATTTTTATA
12091102 AAACACTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
8 5 0.19
9 3 0.12
10 13 0.50
11 5 0.19
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TATTTTTATA
Found at i:12093846 original size:21 final size:19
Alignment explanation
Indices: 12093812--12093873 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 19
12093802 TAAGCTATAT
12093812 ATAATAATATAATATGAATAAA
1 ATAATAA-A-AATAT-AATAAA
12093834 AT-ATAAGGAAATATAATATAAA
1 ATAATAA--AAATAT-A-ATAAA
12093856 ATAATAAAAATATAATAA
1 ATAATAAAAATATAATAA
12093874 GTATTTTGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 4 0.11
20 1 0.03
21 16 0.46
22 10 0.29
23 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
ATAATAAAAATATAATAAA
Found at i:12093912 original size:25 final size:22
Alignment explanation
Indices: 12093883--12093940 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 22
12093873 AGTATTTTGC
12093883 ATATAAAAATACAGTAAAATAAATA
1 ATATAAAAATAC---AAAATAAATA
*
12093908 GTATAAAAA-ACAAAATAAATA
1 ATATAAAAATACAAAATAAATA
12093929 ATATATAAAATA
1 ATATA-AAAATA
12093941 TAAGAAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 14 0.48
22 4 0.14
23 1 0.03
24 2 0.07
25 8 0.28
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.24
Consensus pattern (22 bp):
ATATAAAAATACAAAATAAATA
Found at i:12094214 original size:16 final size:17
Alignment explanation
Indices: 12094190--12094224 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
12094180 TTTTCATAAG
12094190 AATATTATAAAATAAAT
1 AATATTATAAAATAAAT
*
12094207 AATA-TATAAAATATAT
1 AATATTATAAAATAAAT
12094223 AA
1 AA
12094225 AGAAAAGGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AATATTATAAAATAAAT
Found at i:12094436 original size:15 final size:14
Alignment explanation
Indices: 12094416--12094456 Score: 59
Period size: 12 Copynumber: 3.0 Consensus size: 14
12094406 TAATTTATGG
12094416 ATAAAATATATGATA
1 ATAAAATATAT-ATA
12094431 ATAAAA-ATA-ATA
1 ATAAAATATATATA
12094443 ATAAAATATATATA
1 ATAAAATATATATA
12094457 TAATATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 9 0.38
13 3 0.12
14 6 0.25
15 6 0.25
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (14 bp):
ATAAAATATATATA
Found at i:12094468 original size:25 final size:25
Alignment explanation
Indices: 12094416--12094477 Score: 65
Period size: 27 Copynumber: 2.5 Consensus size: 25
12094406 TAATTTATGG
12094416 ATAAAATATATGATAATAAAAATAAT
1 ATAAAATATAT-ATAATAAAAATAAT
* * *
12094442 AATAAAATATATAT-ATAATATTTAT
1 -ATAAAATATATATAATAAAAATAAT
12094467 A-AAAATATATA
1 ATAAAATATATA
12094478 AAGTATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 10 0.31
24 1 0.03
25 8 0.25
26 2 0.06
27 11 0.34
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (25 bp):
ATAAAATATATATAATAAAAATAAT
Found at i:12094476 original size:21 final size:22
Alignment explanation
Indices: 12094443--12094486 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
12094433 AAAAATAATA
12094443 ATAAAATATATATATAA-TATTT
1 ATAAAATATATATA-AAGTATTT
12094465 ATAAAA-ATATATAAAGTATTT
1 ATAAAATATATATAAAGTATTT
12094486 A
1 A
12094487 AAGTAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 2 0.10
21 13 0.62
22 6 0.29
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
ATAAAATATATATAAAGTATTT
Found at i:12098222 original size:11 final size:11
Alignment explanation
Indices: 12098206--12098242 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
12098196 AATTATTATG
12098206 ATTTTTTAATA
1 ATTTTTTAATA
12098217 ATTTTTTAATA
1 ATTTTTTAATA
*
12098228 A-TTTTTGATA
1 ATTTTTTAATA
12098238 ATTTT
1 ATTTT
12098243 ATATTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (11 bp):
ATTTTTTAATA
Found at i:12098232 original size:10 final size:10
Alignment explanation
Indices: 12098208--12098259 Score: 56
Period size: 11 Copynumber: 5.3 Consensus size: 10
12098198 TTATTATGAT
12098208 TTTTTAATAA
1 TTTTTAATAA
12098218 TTTTTTAATAA
1 -TTTTTAATAA
*
12098229 TTTTTGATAA
1 TTTTTAATAA
12098239 -TTTT-AT-A
1 TTTTTAATAA
12098246 TTTTTAAATAA
1 TTTTT-AATAA
12098257 TTT
1 TTT
12098260 GTTGCAACTT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
7 1 0.03
8 6 0.17
9 4 0.11
10 11 0.31
11 14 0.39
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:12098388 original size:22 final size:22
Alignment explanation
Indices: 12098323--12098388 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 22
12098313 CTTCAATGAA
12098323 CTAACAAATAGATGTCTATATT
1 CTAACAAATAGATGTCTATATT
* * **
12098345 CT----AATATAT-TCAAATAAA
1 CTAACAAATAGATGTC-TATATT
12098363 CTAACAAATAGATGTCTATATT
1 CTAACAAATAGATGTCTATATT
12098385 CTAA
1 CTAA
12098389 TTTATTTTGC
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 2 0.07
18 11 0.37
22 15 0.50
23 2 0.07
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35
Consensus pattern (22 bp):
CTAACAAATAGATGTCTATATT
Found at i:12099929 original size:14 final size:14
Alignment explanation
Indices: 12099904--12099939 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
12099894 TCTTTTTATG
*
12099904 TTTTAAATTTTTTA
1 TTTTAAATATTTTA
12099918 -TTTAAATATTTTA
1 TTTTAAATATTTTA
12099931 TTTTAAATA
1 TTTTAAATA
12099940 AAATATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTAAATATTTTA
Found at i:12110542 original size:20 final size:20
Alignment explanation
Indices: 12110517--12110558 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
12110507 ATTTGTAGAG
*
12110517 TATTGATGAATATTTTATAT
1 TATTGATGAATATTTCATAT
*
12110537 TATTGATGGATATTTCATAT
1 TATTGATGAATATTTCATAT
12110557 TA
1 TA
12110559 AAAATTTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.52
Consensus pattern (20 bp):
TATTGATGAATATTTCATAT
Found at i:12111309 original size:22 final size:22
Alignment explanation
Indices: 12111284--12111327 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
12111274 TAGTCATATA
12111284 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
12111306 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
12111328 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:12111363 original size:13 final size:14
Alignment explanation
Indices: 12111347--12111388 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
12111337 TTTAAATTTT
12111347 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
12111360 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
12111375 ATTTTAAATAATAT
1 ATTTT-AATAATAT
12111389 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:12111373 original size:16 final size:16
Alignment explanation
Indices: 12111351--12111387 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
12111341 AATTTTATTT
12111351 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
12111368 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
12111383 TAATA
1 TAATA
12111388 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:12111440 original size:15 final size:15
Alignment explanation
Indices: 12111420--12111476 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
12111410 ATTCAATATT
12111420 AATATTTTAATAATA
1 AATATTTTAATAATA
*
12111435 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
12111454 AATATATTAATAATA
1 AATATTTTAATAATA
*
12111469 AATGTTTT
1 AATATTTT
12111477 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:12116474 original size:37 final size:37
Alignment explanation
Indices: 12116420--12116497 Score: 147
Period size: 37 Copynumber: 2.1 Consensus size: 37
12116410 TATTTCAAGA
12116420 CAAGATTAATTACTAAAATAGTTATTTTTGTTTGTCT
1 CAAGATTAATTACTAAAATAGTTATTTTTGTTTGTCT
*
12116457 CAAGATTAATTATTAAAATAGTTATTTTTGTTTGTCT
1 CAAGATTAATTACTAAAATAGTTATTTTTGTTTGTCT
12116494 CAAG
1 CAAG
12116498 TTATATTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (37 bp):
CAAGATTAATTACTAAAATAGTTATTTTTGTTTGTCT
Found at i:12119532 original size:25 final size:23
Alignment explanation
Indices: 12119476--12119540 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
12119466 TCTTATTTTT
*
12119476 TATTTGTTTTT-TGTTTT-AA--
1 TATTTGTTTTTATATTTTAAATG
12119495 TATTTGTTTTTATATTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
12119518 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
12119541 GTTTTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 11 0.28
20 5 0.13
21 2 0.05
23 6 0.15
24 3 0.08
25 12 0.31
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:12123216 original size:40 final size:39
Alignment explanation
Indices: 12123095--12123228 Score: 103
Period size: 40 Copynumber: 3.4 Consensus size: 39
12123085 GACTTCAAGT
* * *
12123095 CGATGAGACATTGGATGTCAAATTATTACTTC-AGATTAATT
1 CGATGAGACACTGGGTGTC-AATTATTACTTCGA-ATT-ATC
* * * ** *
12123136 TGATGAGGCACTGGGTGCCAA-T-TTACTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAATTATTACTTCGAATTATC
*
12123173 CGATGAGACACTGGGTGTCAACTTATTGCTTCGAATTATC
1 CGATGAGACACTGGGTGTCAA-TTATTACTTCGAATTATC
**
12123213 CGATGAGGTACTGGGT
1 CGATGAGACACTGGGT
12123229 ACCAAGCTGG
Statistics
Matches: 71, Mismatches: 18, Indels: 9
0.72 0.18 0.09
Matches are distributed among these distances:
37 19 0.27
38 9 0.13
39 2 0.03
40 27 0.38
41 14 0.20
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTATTACTTCGAATTATC
Found at i:12125299 original size:22 final size:21
Alignment explanation
Indices: 12125260--12125304 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
12125250 ATTAGAAAAA
12125260 TATTTAAAAATTAATATTTAAG
1 TATTTAAAAATTAATA-TTAAG
*
12125282 TATTTAATAAA-TATTATTAAG
1 TATTTAA-AAATTAATATTAAG
12125303 TA
1 TA
12125305 AAAGTAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 11 0.52
23 3 0.14
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (21 bp):
TATTTAAAAATTAATATTAAG
Found at i:12128378 original size:131 final size:132
Alignment explanation
Indices: 12128129--12128383 Score: 413
Period size: 131 Copynumber: 1.9 Consensus size: 132
12128119 CATTCATTCA
* * *
12128129 AAAATTCTTCAAAAACGAAGACGAGATTCGTTGTTTGGCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAATTCTTCAAAAACGAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTG
*
12128194 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAACCGAATATCACTTCAAAATTTCATTCATGTCTT
66 TTGGGTTACAATTTCGCGTTTGCTCAAAATAACCGAATATCACTTCAAAATTTCATTCATGTCTT
12128259 TT
131 TT
*
12128261 AAAATTCTTC-AAAACGAAGACGAGATTCGATATTTAGTAATTCGCGGAATCGTGCCCTAACGTG
1 AAAATTCTTCAAAAACGAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTG
* * * * *
12128325 TTGGGTTACAATTTTGCGTTTGCTCAAAATAATCGAGTATCCCTTCAAGATTTCATTCA
66 TTGGGTTACAATTTCGCGTTTGCTCAAAATAACCGAATATCACTTCAAAATTTCATTCA
12128384 CATCTTCCAA
Statistics
Matches: 113, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
131 103 0.91
132 10 0.09
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (132 bp):
AAAATTCTTCAAAAACGAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTG
TTGGGTTACAATTTCGCGTTTGCTCAAAATAACCGAATATCACTTCAAAATTTCATTCATGTCTT
TT
Found at i:12128477 original size:131 final size:131
Alignment explanation
Indices: 12128125--12128484 Score: 386
Period size: 131 Copynumber: 2.7 Consensus size: 131
12128115 TAAGCATTCA
* * *** *
12128125 TTCAAAAATTCTTCAAAAACGAAGACGAGATTCGTTGTTTGGCAATTCGCGGAATCGTGCCCTAA
1 TTCAAAAATTATTC-AAAACGAAGACAAGATTCGACATTTGACAATTCGCGGAATCGTGCCCTAA
* **
12128190 CGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAACCGAATATCACTTCAAAATTTCATTCATG
65 CGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAACCGAATATCACTTCAAAATTTCATTCACA
12128255 TC
130 TC
** * * * *
12128257 TTTTAAAATTCTTCAAAACGAAGACGAGATTCGATATTT-AGTAATTCGCGGAATCGTGCCCTAA
1 TTCAAAAATTATTCAAAACGAAGACAAGATTCGACATTTGA-CAATTCGCGGAATCGTGCCCTAA
* * * * *
12128321 CGTGTTGGGTTACAATTT-TGCGTTTGCTCAAAATAATCGAGTATCCCTTCAAGATTTCATTCAC
65 CGTGTTGGGTTGCAATTTCT-CGTTTGCTCAAAATAACCGAATATCACTTCAAAATTTCATTCAC
12128385 ATC
129 ATC
* * * *
12128388 TTCCAAAAATTATTTAAAACGAAGGA-AATATTCGACATTTGACAATTCG-AGAATCATGCCCTA
1 TT-CAAAAATTATTCAAAACGAA-GACAAGATTCGACATTTGACAATTCGCGGAATCGTGCCCTA
* * ** *
12128451 TCGTGCTGGGTTGTGATTTCTTGTTTGCTCAAAA
64 ACGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAA
12128485 CGATCGAACA
Statistics
Matches: 192, Mismatches: 30, Indels: 13
0.82 0.13 0.06
Matches are distributed among these distances:
131 143 0.74
132 46 0.24
133 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.33
Consensus pattern (131 bp):
TTCAAAAATTATTCAAAACGAAGACAAGATTCGACATTTGACAATTCGCGGAATCGTGCCCTAAC
GTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAACCGAATATCACTTCAAAATTTCATTCACAT
C
Found at i:12129379 original size:20 final size:20
Alignment explanation
Indices: 12129356--12129397 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
12129346 TTCTTTCTTG
*
12129356 TTTT-GTATTTTTATCATTTA
1 TTTTAGTATATTTAT-ATTTA
*
12129376 TTTTATTATATTTATATTTA
1 TTTTAGTATATTTATATTTA
12129396 TT
1 TT
12129398 CTTTAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTTAGTATATTTATATTTA
Found at i:12129395 original size:15 final size:16
Alignment explanation
Indices: 12129361--12129397 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
12129351 TCTTGTTTTG
12129361 TATTT-TTATCATTTA
1 TATTTATTATCATTTA
12129376 T-TTTATTAT-ATTTA
1 TATTTATTATCATTTA
12129390 TATTTATT
1 TATTTATT
12129398 CTTTAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTTATTATCATTTA
Found at i:12129842 original size:3 final size:3
Alignment explanation
Indices: 12129834--12129861 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
12129824 GCATATGTGA
12129834 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
12129862 TTGATAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:12132745 original size:19 final size:19
Alignment explanation
Indices: 12132723--12132759 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12132713 TATACTAGCA
*
12132723 CACGAAGTGCATACTGGAG
1 CACGAAGCGCATACTGGAG
*
12132742 CACGAAGCGCATCCTGGA
1 CACGAAGCGCATACTGGA
12132760 ACCTGAGGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.27, G:0.30, T:0.14
Consensus pattern (19 bp):
CACGAAGCGCATACTGGAG
Found at i:12135520 original size:9 final size:9
Alignment explanation
Indices: 12135506--12135594 Score: 54
Period size: 10 Copynumber: 9.2 Consensus size: 9
12135496 CGTTTGTATA
12135506 TATAATTTT
1 TATAATTTT
12135515 TATAATTTT
1 TATAATTTT
* *
12135524 TAAAAATTT
1 TATAATTTT
*
12135533 TAAAAGTTATT
1 TATAA-TT-TT
12135544 TA-AATTTTCT
1 TATAA-TTT-T
*
12135554 TATAATTCAT
1 TATAATT-TT
*
12135564 AATAATTTT
1 TATAATTTT
*
12135573 TAAATATTTT
1 TATA-ATTTT
12135583 TATAATTATT
1 TATAATT-TT
12135593 TA
1 TA
12135595 AGAATCCACT
Statistics
Matches: 63, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
9 28 0.44
10 29 0.46
11 6 0.10
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.56
Consensus pattern (9 bp):
TATAATTTT
Found at i:12136559 original size:31 final size:30
Alignment explanation
Indices: 12136501--12136575 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 30
12136491 AAGTATAAAC
12136501 TCATAATATAAA-ATAAATCATCACCAAAAG
1 TCATAATATAAATATAAA-CATCACCAAAAG
12136531 TCATAATATAAATATTAAA-AGTCACCAAAAG
1 TCATAATATAAATA-TAAACA-TCACCAAAAG
*
12136562 TCATAATGTAAATA
1 TCATAATATAAATA
12136576 AAGTAACAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
30 13 0.32
31 24 0.59
32 4 0.10
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.27
Consensus pattern (30 bp):
TCATAATATAAATATAAACATCACCAAAAG
Found at i:12156206 original size:12 final size:12
Alignment explanation
Indices: 12156189--12156218 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
12156179 TTTGATTAGA
12156189 TTATTTCATGAG
1 TTATTTCATGAG
12156201 TTATTTCATGAG
1 TTATTTCATGAG
12156213 TTATTT
1 TTATTT
12156219 TTTTGATATC
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:0.23, C:0.07, G:0.13, T:0.57
Consensus pattern (12 bp):
TTATTTCATGAG
Found at i:12156335 original size:45 final size:46
Alignment explanation
Indices: 12156283--12156375 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 46
12156273 TAACTTATAT
12156283 ATCAAAATTGTTAAGTGA-TTTTTTTTGTGCTCTATTAATGAATAA
1 ATCAAAATTGTTAAGTGATTTTTTTTTGTGCTCTATTAATGAATAA
12156328 ATCAAAATTGTTAAGTGATTTTTTTTTTGTGCTCTATTAATGAATAA
1 ATCAAAATTGTTAAGTGA-TTTTTTTTTGTGCTCTATTAATGAATAA
12156375 A
1 A
12156376 ACAATTATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
45 18 0.39
47 28 0.61
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.47
Consensus pattern (46 bp):
ATCAAAATTGTTAAGTGATTTTTTTTTGTGCTCTATTAATGAATAA
Found at i:12157454 original size:30 final size:30
Alignment explanation
Indices: 12157420--12157480 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
12157410 TATTAGTATG
*
12157420 TCAATTTTAGGATTTTTTTATAATCCATAT
1 TCAATTTTAGGATTTTTATATAATCCATAT
12157450 TCAATTTTAGGATTTTTATATAATCCATAT
1 TCAATTTTAGGATTTTTATATAATCCATAT
12157480 T
1 T
12157481 AAGGAATTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (30 bp):
TCAATTTTAGGATTTTTATATAATCCATAT
Found at i:12160715 original size:161 final size:161
Alignment explanation
Indices: 12160443--12160755 Score: 509
Period size: 161 Copynumber: 1.9 Consensus size: 161
12160433 CCCAAGACGG
* *
12160443 ATTGAAAAAAATTGCCACTTACAAAGCTGTTGAGTTCGTTGAGATGAGTTCGGGCACAGGTCCAA
1 ATTGAAAAAAATTGCCACTTACAAAGCTATTGAGTTCGTTGAGATGAGTCCGGGCACAGGTCCAA
*
12160508 TAGCCAAACATGTCATGGATCGAATCGGGGAGTTGCTCCAACAAGGCATTGTTCATCTACCACAC
66 TAGCCAAACATATCATGGATCGAATCGGGGAGTTGCTCCAACAAGGCATTGTTCATCTACCACAC
12160573 CAAAACCCTTTTGATAATACTCCGACAAGGA
131 CAAAACCCTTTTGATAATACTCCGACAAGGA
* * * ** **
12160604 ATTGAAAAAAATTTCCACTTACAAAGCTATTGAGTTGGTTGAGTTGAGTCCGGGCAGGGGTTTAA
1 ATTGAAAAAAATTGCCACTTACAAAGCTATTGAGTTCGTTGAGATGAGTCCGGGCACAGGTCCAA
* * *
12160669 TCGCCAAACATATCGTGGATCGAATCGGGGAGTTGCTCCGACAAGGCATTGTTCATCTACCACAC
66 TAGCCAAACATATCATGGATCGAATCGGGGAGTTGCTCCAACAAGGCATTGTTCATCTACCACAC
12160734 CAAAACCCTTTTGATAATACTC
131 CAAAACCCTTTTGATAATACTC
12160756 TAAAATGGCA
Statistics
Matches: 139, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
161 139 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (161 bp):
ATTGAAAAAAATTGCCACTTACAAAGCTATTGAGTTCGTTGAGATGAGTCCGGGCACAGGTCCAA
TAGCCAAACATATCATGGATCGAATCGGGGAGTTGCTCCAACAAGGCATTGTTCATCTACCACAC
CAAAACCCTTTTGATAATACTCCGACAAGGA
Found at i:12163907 original size:14 final size:14
Alignment explanation
Indices: 12163874--12163906 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
12163864 CATAAATGTA
12163874 TTTTTTCACTTATT
1 TTTTTTCACTTATT
12163888 TTTTTTCACTT-TT
1 TTTTTTCACTTATT
12163901 TTTTTT
1 TTTTTT
12163907 TGAGAACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTTCACTTATT
Found at i:12165060 original size:28 final size:29
Alignment explanation
Indices: 12165023--12165080 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
12165013 TAGAAATAGC
**
12165023 AAAATAATAA-TAATAATTATAATAAATTA
1 AAAATAATAAGT-ATAAGAATAATAAATTA
12165052 AAAAT-ATAAGTATAAGAATAATAAATTA
1 AAAATAATAAGTATAAGAATAATAAATTA
12165080 A
1 A
12165081 TTAATTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (29 bp):
AAAATAATAAGTATAAGAATAATAAATTA
Found at i:12168399 original size:109 final size:113
Alignment explanation
Indices: 12168237--12168460 Score: 359
Period size: 109 Copynumber: 2.0 Consensus size: 113
12168227 GGGTTTCTTC
* *
12168237 TAGTCATAAACTAAAGACACCTGTCAGAAGCAAATAAAAGAAACGTTAGTAAATTAAAAGT-AAA
1 TAGTCATAAACTAAAGACACCTGCCAGAAGCAAATAAAAGAAACGTAAGTAAATTAAAAGTAAAA
* *
12168301 A-CAA-AAAAT-AAAATAAAAATAGCTAAAGTAATAAAAATCTAGTGT
66 AGAAATAAAATAAAAATAAAAATAGATAAAGTAATAAAAATCTAGTGT
12168346 TAGTCATAAACTAAAGGA-ACCTGCCAGAAGCAAATAAAAGAAACGTAAGTAAATTAAAAGTAAA
1 TAGTCATAAACTAAA-GACACCTGCCAGAAGCAAATAAAAGAAACGTAAGTAAATTAAAAGTAAA
12168410 AATGAAATAAAATAAAAATAAAAATAGATAAAGTAATAAAAATCTAGTGT
65 AA-GAAATAAAATAAAAATAAAAATAGATAAAGTAATAAAAATCTAGTGT
12168460 T
1 T
12168461 CCTAATATTT
Statistics
Matches: 105, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
109 56 0.53
110 6 0.06
112 2 0.02
113 5 0.05
114 36 0.34
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (113 bp):
TAGTCATAAACTAAAGACACCTGCCAGAAGCAAATAAAAGAAACGTAAGTAAATTAAAAGTAAAA
AGAAATAAAATAAAAATAAAAATAGATAAAGTAATAAAAATCTAGTGT
Found at i:12168435 original size:17 final size:17
Alignment explanation
Indices: 12168395--12168432 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
12168385 GAAACGTAAG
*
12168395 TAAATTAAAAGTAAAAA
1 TAAAATAAAAGTAAAAA
*
12168412 TGAAATAAAA-TAAAAA
1 TAAAATAAAAGTAAAAA
12168428 TAAAA
1 TAAAA
12168433 ATAGATAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (17 bp):
TAAAATAAAAGTAAAAA
Found at i:12169547 original size:30 final size:30
Alignment explanation
Indices: 12169513--12169570 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
12169503 CACAGACTGG
*
12169513 CACATGGGCGTGTGGCCAGCCAGTGTGGCT
1 CACATGGGCGTATGGCCAGCCAGTGTGGCT
*
12169543 CACATGGGCGTATGGCCAGCCCGTGTGG
1 CACATGGGCGTATGGCCAGCCAGTGTGG
12169571 AAATGTCCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.14, C:0.28, G:0.40, T:0.19
Consensus pattern (30 bp):
CACATGGGCGTATGGCCAGCCAGTGTGGCT
Found at i:12182862 original size:27 final size:28
Alignment explanation
Indices: 12182836--12182899 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
12182826 TTTCAAAAAA
12182836 TTATAAAAATTATTTTAAAAAT-TAAAAA
1 TTATAAAAATTA-TTTAAAAATATAAAAA
* * *
12182864 TCAT-TAAATTATTTAAAAATATGAAAA
1 TTATAAAAATTATTTAAAAATATAAAAA
12182891 TTATAAAAA
1 TTATAAAAA
12182900 AATATTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
26 9 0.31
27 14 0.48
28 6 0.21
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (28 bp):
TTATAAAAATTATTTAAAAATATAAAAA
Found at i:12183304 original size:5 final size:5
Alignment explanation
Indices: 12183291--12183322 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
12183281 GGTAATTATA
*
12183291 TTCTC TTCTT TTCTT TTCTT TTCTT TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TT
12183323 TTTATTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTCTT
Found at i:12185792 original size:17 final size:17
Alignment explanation
Indices: 12185770--12185804 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
12185760 AAATTATTTG
12185770 TTTTGTTTACTATTCAC
1 TTTTGTTTACTATTCAC
12185787 TTTTGTTTACTATTCAC
1 TTTTGTTTACTATTCAC
12185804 T
1 T
12185805 CCCTTGTTCA
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:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (17 bp):
TTTTGTTTACTATTCAC
Found at i:12186396 original size:16 final size:17
Alignment explanation
Indices: 12186370--12186402 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
12186360 TATACAATAT
*
12186370 AAAATTATAAATTTATG
1 AAAATTATAAAATTATG
12186387 AAAA-TATAAAATTATG
1 AAAATTATAAAATTATG
12186403 TCCCATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
AAAATTATAAAATTATG
Found at i:12186473 original size:22 final size:21
Alignment explanation
Indices: 12186441--12186482 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
12186431 ATATTTTGAA
*
12186441 ATATATATAAAAATTTATAAT
1 ATATATATAAAAATTAATAAT
12186462 ATATAATATAAAAATTAATAA
1 ATAT-ATATAAAAATTAATAA
12186483 AAAATTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATATATAAAAATTAATAAT
Found at i:12186491 original size:32 final size:33
Alignment explanation
Indices: 12186447--12186508 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
12186437 TGAAATATAT
*
12186447 ATAAAAATTTAT-AATATATAATA-TAAAAATTA
1 ATAAAAAATTATAAATATAT-ATACTAAAAATTA
12186479 ATAAAAAATTATAAATATATATACTAAAAA
1 ATAAAAAATTATAAATATATATACTAAAAA
12186509 GCATGTCTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (33 bp):
ATAAAAAATTATAAATATATATACTAAAAATTA
Found at i:12186648 original size:16 final size:16
Alignment explanation
Indices: 12186597--12186650 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
12186587 TAATGTAAAT
12186597 TTTTTATAT-TTTTAA
1 TTTTTATATATTTTAA
* *
12186612 TAATTTATATAATTTAAAA
1 T-TTTTATAT-ATTT-TAA
12186631 TTTTTATATATTTTAA
1 TTTTTATATATTTTAA
12186647 TTTT
1 TTTT
12186651 CAATTGATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
15 1 0.03
16 13 0.42
17 4 0.13
18 10 0.32
19 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTTATATATTTTAA
Found at i:12194199 original size:26 final size:26
Alignment explanation
Indices: 12194163--12194214 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
12194153 GGGGTTATTT
12194163 TAAATTGCCTGTAAAATTGTATCAGA
1 TAAATTGCCTGTAAAATTGTATCAGA
12194189 TAAATTGCCTGTAAAATTGTATCAGA
1 TAAATTGCCTGTAAAATTGTATCAGA
12194215 ATAAGCCTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (26 bp):
TAAATTGCCTGTAAAATTGTATCAGA
Found at i:12198390 original size:30 final size:30
Alignment explanation
Indices: 12198328--12198390 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
12198318 AATTTATTTA
*
12198328 TTGTTAATTTTGTTATTATTTTAAAAGTAT
1 TTGTTAATTTTGTTATTATTTTAAAAGCAT
12198358 TTGTTAATTTTGTTATTATTTTAGAAA-CAT
1 TTGTTAATTTTGTTATTATTTTA-AAAGCAT
12198388 TTG
1 TTG
12198391 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.29, C:0.02, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAAGCAT
Found at i:12201186 original size:17 final size:18
Alignment explanation
Indices: 12201164--12201213 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
12201154 TAGTTAAAAT
12201164 ATTAAAATTATATTTA-C
1 ATTAAAATTATATTTATC
* *
12201181 ATTAAAA-TA-ATTAATT
1 ATTAAAATTATATTTATC
12201197 ATTAAAATTATATTTAT
1 ATTAAAATTATATTTAT
12201214 ATTTATATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 4 0.15
16 9 0.33
17 9 0.33
18 5 0.19
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
ATTAAAATTATATTTATC
Found at i:12201546 original size:14 final size:14
Alignment explanation
Indices: 12201527--12201553 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12201517 TCTCTTAATT
12201527 TTTAAAATAATTAA
1 TTTAAAATAATTAA
12201541 TTTAAAATAATTA
1 TTTAAAATAATTA
12201554 GTATTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTAAAATAATTAA
Found at i:12204418 original size:21 final size:20
Alignment explanation
Indices: 12204392--12204436 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
12204382 TTACGTGGCA
12204392 AGTTAACTGGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
*
12204412 TAGTTAACTTGCCACATCAGC
1 -AGTTAACTGGCCACATCAGC
12204433 AGTT
1 AGTT
12204437 CTGTTAAAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (20 bp):
AGTTAACTGGCCACATCAGC
Found at i:12205001 original size:21 final size:21
Alignment explanation
Indices: 12204952--12205006 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 21
12204942 ATTGTAAATG
12204952 TAATATTAA-TTATGATTTTT
1 TAATATTAATTTATGATTTTT
*
12204972 TAA-ATTTAATTTAT-TTTTATT
1 TAATA-TTAATTTATGATTT-TT
12204993 TAATATTAAGTTTA
1 TAATATTAA-TTTA
12205007 AAATAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
19 1 0.03
20 10 0.34
21 13 0.45
22 5 0.17
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (21 bp):
TAATATTAATTTATGATTTTT
Found at i:12206545 original size:21 final size:21
Alignment explanation
Indices: 12206519--12206558 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12206509 CGCACAGTAG
**
12206519 CCTGTGTTGTGACATAGGGGC
1 CCTGTGTTGCAACATAGGGGC
12206540 CCTGTGTTGCAACATAGGG
1 CCTGTGTTGCAACATAGGG
12206559 TCTGTTTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.20, G:0.35, T:0.28
Consensus pattern (21 bp):
CCTGTGTTGCAACATAGGGGC
Found at i:12210375 original size:28 final size:29
Alignment explanation
Indices: 12210321--12210384 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
12210311 ATTAAACCAA
* * *
12210321 AATTTTATTATTTTTAGGGGGCAAAATGT
1 AATTTTATTATTTTTAGGAGGAAAAATAT
*
12210350 AATTTTATTATTTTTA-GATGAAAAATAT
1 AATTTTATTATTTTTAGGAGGAAAAATAT
12210378 AATTTTA
1 AATTTTA
12210385 CCATTACTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (29 bp):
AATTTTATTATTTTTAGGAGGAAAAATAT
Found at i:12218709 original size:23 final size:23
Alignment explanation
Indices: 12218683--12218730 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
12218673 ATTGACTTTA
*
12218683 TCATTATGTAATGTTGTTCATTC
1 TCATTATATAATGTTGTTCATTC
12218706 TCATTATATAATGTTGTTCATTC
1 TCATTATATAATGTTGTTCATTC
12218729 TC
1 TC
12218731 TTTTTAGGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.10, T:0.52
Consensus pattern (23 bp):
TCATTATATAATGTTGTTCATTC
Found at i:12223527 original size:31 final size:31
Alignment explanation
Indices: 12223492--12223554 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
12223482 AGAGAAAGTC
12223492 TGAAAATTTTCAAAATCAGGTTGATTTGTGA
1 TGAAAATTTTCAAAATCAGGTTGATTTGTGA
*
12223523 TGAAAATTTTCAAAATCAGGTTGATTTTTGA
1 TGAAAATTTTCAAAATCAGGTTGATTTGTGA
12223554 T
1 T
12223555 ATTTATAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.41
Consensus pattern (31 bp):
TGAAAATTTTCAAAATCAGGTTGATTTGTGA
Found at i:12223587 original size:15 final size:16
Alignment explanation
Indices: 12223567--12223597 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12223557 TTATAGTTGT
12223567 TAAAAT-AAATAAAAA
1 TAAAATAAAATAAAAA
12223582 TAAAATAAAATAAAAA
1 TAAAATAAAATAAAAA
12223598 AACACACAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAAATAAAATAAAAA
Found at i:12232914 original size:51 final size:51
Alignment explanation
Indices: 12232838--12232954 Score: 189
Period size: 51 Copynumber: 2.3 Consensus size: 51
12232828 CGGATCACAT
* *
12232838 TTATCACTTGTCACTTGTCAGTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
12232889 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAGGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
12232940 TTATCCCTTGTCACT
1 TTATCACTTGTCACT
12232955 GATCAAAAGT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:12239168 original size:12 final size:12
Alignment explanation
Indices: 12239151--12239184 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
12239141 CCGTCCGGCC
12239151 TATATTAATTTT
1 TATATTAATTTT
12239163 TATATT-ATTTT
1 TATATTAATTTT
12239174 TATA-TAATTTT
1 TATATTAATTTT
12239185 AAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 14 0.67
12 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATATTAATTTT
Found at i:12241890 original size:26 final size:26
Alignment explanation
Indices: 12241861--12241913 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
12241851 AGATCGTAAT
12241861 TCCCAGAAAATAGAATTTATTCTAAG
1 TCCCAGAAAATAGAATTTATTCTAAG
12241887 TCCCAGAAAATAGAATTTATTCTAAG
1 TCCCAGAAAATAGAATTTATTCTAAG
12241913 T
1 T
12241914 AAATAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (26 bp):
TCCCAGAAAATAGAATTTATTCTAAG
Found at i:12242482 original size:15 final size:14
Alignment explanation
Indices: 12242449--12242482 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
12242439 TTTAGAACTT
*
12242449 TAATTATTTAATTA
1 TAATTATTTAATAA
12242463 TAATTATTTAAATAA
1 TAATTATTT-AATAA
12242478 TAATT
1 TAATT
12242483 TGAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TAATTATTTAATAA
Found at i:12266252 original size:310 final size:310
Alignment explanation
Indices: 12265690--12266308 Score: 1159
Period size: 310 Copynumber: 2.0 Consensus size: 310
12265680 ACACGCCCCT
*
12265690 CATATGTACATCATTCAGTTTCATTCATTTATGAATGGAAACTTGTTTTCTCTCTTTTCAATATT
1 CATATGTACATCATTCAGTTTCATTCATTTATGAATGAAAACTTGTTTTCTCTCTTTTCAATATT
*
12265755 ATTTTCTTGTAATTTCTTACAAGTGCTTTTAACTTGATTTCTTTTCAAGAATCGTGGTAGTTGTT
66 ATTTTATTGTAATTTCTTACAAGTGCTTTTAACTTGATTTCTTTTCAAGAATCGTGGTAGTTGTT
* *
12265820 CTTCACACTCCGATTTGCCAATAAACCTTTTCTGGAGGGTCGGTTAAAGCCTTTGGTGGAGTTTG
131 ATTCACACTCCGATTTGCCAAGAAACCTTTTCTGGAGGGTCGGTTAAAGCCTTTGGTGGAGTTTG
12265885 TTGAAGTCTTTCTTCAAAGGGTTCCATCGAACATCGCCTTTCATTCATCTTTATGCCTATCTTTT
196 TTGAAGTCTTTCTTCAAAGGGTTCCATCGAACATCGCCTTTCATTCATCTTTATGCCTATCTTTT
*
12265950 TTCCATCACTCCCTAATCTTTTTCAATCTTGATTTCTCTTTTATGAACCC
261 TTCCATCACTCCCTAATCTTTTTCAATCTTGATTTATCTTTTATGAACCC
12266000 CATATGTACATCATTCAGTTTCATTCATTTATGAATGAAAACTTGTTTTCTCTCTTTTCAATATT
1 CATATGTACATCATTCAGTTTCATTCATTTATGAATGAAAACTTGTTTTCTCTCTTTTCAATATT
*
12266065 ATTTTATTGTAATTTCTTACAAGTGCTTTTAACTTGATTTCTTTTCAAGAATCGTGGTGGTTGTT
66 ATTTTATTGTAATTTCTTACAAGTGCTTTTAACTTGATTTCTTTTCAAGAATCGTGGTAGTTGTT
*
12266130 ATTCACACTCCGATTTGCCAAGAAACCTTTAT-TGGAGGGTCGGTTAGAGCCTTTGGTGGAGTTT
131 ATTCACACTCCGATTTGCCAAGAAACCTTT-TCTGGAGGGTCGGTTAAAGCCTTTGGTGGAGTTT
12266194 GTTGAAGTCTTTCTTCAAAGGGTTCCATCGAACATCGCCTTTCATTCATCTTTATGCCTATCTTT
195 GTTGAAGTCTTTCTTCAAAGGGTTCCATCGAACATCGCCTTTCATTCATCTTTATGCCTATCTTT
12266259 TTTCCATCACTCCCTAATCTTTTTCAATCTTGATTTATCTTTTATGAACC
260 TTTCCATCACTCCCTAATCTTTTTCAATCTTGATTTATCTTTTATGAACC
12266309 TTCTTCTAAC
Statistics
Matches: 301, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
310 300 1.00
311 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (310 bp):
CATATGTACATCATTCAGTTTCATTCATTTATGAATGAAAACTTGTTTTCTCTCTTTTCAATATT
ATTTTATTGTAATTTCTTACAAGTGCTTTTAACTTGATTTCTTTTCAAGAATCGTGGTAGTTGTT
ATTCACACTCCGATTTGCCAAGAAACCTTTTCTGGAGGGTCGGTTAAAGCCTTTGGTGGAGTTTG
TTGAAGTCTTTCTTCAAAGGGTTCCATCGAACATCGCCTTTCATTCATCTTTATGCCTATCTTTT
TTCCATCACTCCCTAATCTTTTTCAATCTTGATTTATCTTTTATGAACCC
Found at i:12271385 original size:11 final size:11
Alignment explanation
Indices: 12271355--12271388 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
12271345 TTGCACCATA
*
12271355 GTATCGTGACT
1 GTATCGTGGCT
12271366 GTATCGTGGCT
1 GTATCGTGGCT
12271377 GTATCGTGGCT
1 GTATCGTGGCT
12271388 G
1 G
12271389 AGCTCTCCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.12, C:0.18, G:0.35, T:0.35
Consensus pattern (11 bp):
GTATCGTGGCT
Found at i:12272671 original size:6 final size:6
Alignment explanation
Indices: 12272660--12272812 Score: 306
Period size: 6 Copynumber: 25.5 Consensus size: 6
12272650 ACAACATAAT
12272660 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
12272708 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
12272756 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
12272804 TATACA TAT
1 TATACA TAT
12272813 TAATTCAATG
Statistics
Matches: 147, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 147 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
TATACA
Found at i:12279060 original size:15 final size:15
Alignment explanation
Indices: 12279040--12279071 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
12279030 ATGCATGCAA
*
12279040 AAATATGAAAGACAT
1 AAATATAAAAGACAT
12279055 AAATATAAAAGACAT
1 AAATATAAAAGACAT
12279070 AA
1 AA
12279072 CAGTGGAATG
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:0.06, G:0.09, T:0.19
Consensus pattern (15 bp):
AAATATAAAAGACAT
Found at i:12279184 original size:26 final size:26
Alignment explanation
Indices: 12279138--12279194 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
12279128 GTTGACTACA
* *
12279138 ATAGTGACTATTCCGAAATGTC-TTCT
1 ATAGTGACTACTACGAAATGTCATT-T
*
12279164 ATAGTGACTACTACGAGATGTCATTT
1 ATAGTGACTACTACGAAATGTCATTT
12279190 ATAGT
1 ATAGT
12279195 TCCAACTAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 25 0.93
27 2 0.07
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.37
Consensus pattern (26 bp):
ATAGTGACTACTACGAAATGTCATTT
Found at i:12280025 original size:155 final size:155
Alignment explanation
Indices: 12279743--12280060 Score: 546
Period size: 155 Copynumber: 2.1 Consensus size: 155
12279733 TATAAGGGTC
* *
12279743 ATACACATGACAAGGTCAATGGATAAAGTAGTTGGATGAATTACTTACATAAAGAGTATATAATA
1 ATACACATGACAAGGTCAATGGATAAAGCAGTTGGATGAATTACTTACATAAAGAGTAAATAATA
*
12279808 AGGAGTTTTCAATCATGATACTTATTGTAGACTGTAACACCCCTAACCCGTATTCGTTGCCAGAA
66 AGGAGTTTTCAATCATGATACTTATTGTAGACTGTAACACCCCTAACCCGTATTCGTCGCCAGAA
*
12279873 TAGGGTTACGAGGTATTACCGGATA
131 TAGGGTTACGAGGTATTACCAGATA
*
12279898 ATACACATGACAAGGTCAATTGATAAAGCAGTTGGATGAATTACTTACATAAAGAGTAAATAATA
1 ATACACATGACAAGGTCAATGGATAAAGCAGTTGGATGAATTACTTACATAAAGAGTAAATAATA
* *
12279963 AGGAGTTTTCAATCATGGTACTTATTGTAGACTGTAACACCCCTAACTCGTATTCGTCGCCAGAA
66 AGGAGTTTTCAATCATGATACTTATTGTAGACTGTAACACCCCTAACCCGTATTCGTCGCCAGAA
* * *
12280028 TAGGGTTATGATGTATTATCAGATA
131 TAGGGTTACGAGGTATTACCAGATA
12280053 ATACACAT
1 ATACACAT
12280061 CATTCACATA
Statistics
Matches: 153, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
155 153 1.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (155 bp):
ATACACATGACAAGGTCAATGGATAAAGCAGTTGGATGAATTACTTACATAAAGAGTAAATAATA
AGGAGTTTTCAATCATGATACTTATTGTAGACTGTAACACCCCTAACCCGTATTCGTCGCCAGAA
TAGGGTTACGAGGTATTACCAGATA
Found at i:12281128 original size:21 final size:21
Alignment explanation
Indices: 12281104--12281159 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
12281094 TACCAAAATG
12281104 ACACTAGTCTATACATGCCAT
1 ACACTAGTCTATACATGCCAT
12281125 ACACTAGTCTATACATGCCAT
1 ACACTAGTCTATACATGCCAT
*
12281146 ACACTA-TATATACA
1 ACACTAGTCTATACA
12281160 AAGCTTCAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 7 0.21
21 27 0.79
ACGTcount: A:0.38, C:0.27, G:0.07, T:0.29
Consensus pattern (21 bp):
ACACTAGTCTATACATGCCAT
Found at i:12283738 original size:48 final size:52
Alignment explanation
Indices: 12283679--12283848 Score: 161
Period size: 48 Copynumber: 3.2 Consensus size: 52
12283669 ATTTAATAGT
* *
12283679 TTTAATATTAAATTAAATTTAATAGTTATC-T-TA-AT-AGTATTTTATTAA
1 TTTAATATTAAATTAAATTTAATACTTATCATGTAGATAAATATTTTATTAA
* *
12283727 TTTAATGTTAAATTAAATTTAATACTTATCATGTAGATAAATGTTTTATTAA
1 TTTAATATTAAATTAAATTTAATACTTATCATGTAGATAAATATTTTATTAA
* * * * *
12283779 TTTAATAAATTTAATATTAAATTTAAT-CTAATATTTATCTTGATAATTATTATATTAA
1 TTTAAT--A-TTAA-ATTAAATTTAATACT--TA-TCATGTAGATAAATATTTTATTAA
12283837 TTTAATATTAAA
1 TTTAATATTAAA
12283849 GTGATTAAGT
Statistics
Matches: 100, Mismatches: 11, Indels: 16
0.79 0.09 0.13
Matches are distributed among these distances:
48 28 0.28
49 1 0.01
50 2 0.02
51 2 0.02
52 17 0.17
54 1 0.01
55 10 0.10
56 13 0.13
57 2 0.02
58 24 0.24
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (52 bp):
TTTAATATTAAATTAAATTTAATACTTATCATGTAGATAAATATTTTATTAA
Found at i:12283793 original size:61 final size:58
Alignment explanation
Indices: 12283725--12283843 Score: 148
Period size: 61 Copynumber: 2.0 Consensus size: 58
12283715 GTATTTTATT
* * * *
12283725 AATTTAATGTTAAATTAAATTTAATACTTATCATGTAGATAAATGTTTTATTAATTTAATA
1 AATTTAATATTAAATTAAATCTAATACTTATC-T-T-GATAAATATTATATTAATTTAATA
* * *
12283786 AATTTAATATTAAATTTAATCTAATATTTATCTTGATAATTATTATATTAATTTAATA
1 AATTTAATATTAAATTAAATCTAATACTTATCTTGATAAATATTATATTAATTTAATA
12283844 TTAAAGTGAT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
58 21 0.41
59 1 0.02
60 1 0.02
61 28 0.55
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (58 bp):
AATTTAATATTAAATTAAATCTAATACTTATCTTGATAAATATTATATTAATTTAATA
Found at i:12287282 original size:24 final size:24
Alignment explanation
Indices: 12287255--12287305 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
12287245 TAAAAATAAT
*
12287255 TATATTAAAAATATTATTAAATTA
1 TATATTAAAAATATTACTAAATTA
* * *
12287279 TATATTAATATTTTTACTAAATTA
1 TATATTAAAAATATTACTAAATTA
12287303 TAT
1 TAT
12287306 TCAATAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
TATATTAAAAATATTACTAAATTA
Found at i:12300602 original size:32 final size:32
Alignment explanation
Indices: 12300556--12300635 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
12300546 TGTCAATCAT
* *
12300556 TTCAATAACCAACAAGCTT-AAAACATAATAAA
1 TTCAATATCCAACAA-ATTCAAAACATAATAAA
* * *
12300588 TTCAATATCTAACAAATTCAAGACATAATAAT
1 TTCAATATCCAACAAATTCAAAACATAATAAA
*
12300620 TTCAAAATCCAACAAA
1 TTCAATATCCAACAAA
12300636 CTAAAATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 2 0.05
32 38 0.95
ACGTcount: A:0.54, C:0.19, G:0.03, T:0.25
Consensus pattern (32 bp):
TTCAATATCCAACAAATTCAAAACATAATAAA
Found at i:12304501 original size:50 final size:50
Alignment explanation
Indices: 12304426--12304565 Score: 190
Period size: 50 Copynumber: 2.8 Consensus size: 50
12304416 ACCATGGCAA
** *
12304426 CAAGGATAAGCGAAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGAT
1 CAAGGATAAGTAAAAGTGATAAGTAATAGCTTCGGCTACAATTATCTGAT
12304476 CAAGGATAAGTAAAAGTGATAAGTAATAGCTTCGGCTACAATTATCTGAT
1 CAAGGATAAGTAAAAGTGATAAGTAATAGCTTCGGCTACAATTATCTGAT
* * * * **
12304526 CAAGGACAAATGACAAGTGAAAAGTGGTAGCTTCGGCTAC
1 CAAGGATAAGT-AAAAGTGATAAGTAATAGCTTCGGCTAC
12304566 CTGATCAGTG
Statistics
Matches: 80, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 56 0.70
51 24 0.30
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (50 bp):
CAAGGATAAGTAAAAGTGATAAGTAATAGCTTCGGCTACAATTATCTGAT
Found at i:12304579 original size:31 final size:31
Alignment explanation
Indices: 12304541--12304720 Score: 288
Period size: 31 Copynumber: 5.8 Consensus size: 31
12304531 ACAAATGACA
12304541 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
12304572 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
12304603 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
12304634 AGTGAAAAATGGTAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
12304665 AATGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
12304696 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
12304721 AAGTGACAAG
Statistics
Matches: 138, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 138 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:12304777 original size:43 final size:46
Alignment explanation
Indices: 12304738--12304860 Score: 137
Period size: 49 Copynumber: 2.7 Consensus size: 46
12304728 AAGTGATTTC
*
12304738 CGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTA
1 CGTGTAAGACCATAGCTGGGCTATGACATCGATATGTGA-A-GT-ATTA
* *
12304787 CGTGTAAGACCATAGCTGGGCTATGACATCGATATATAAAG-A-T-
1 CGTGTAAGACCATAGCTGGGCTATGACATCGATATGTGAAGTATTA
* **
12304830 -GTGTAAGACCATAGTTGAACTATGACATCGA
1 CGTGTAAGACCATAGCTGGGCTATGACATCGA
12304861 GTAAACGAAG
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
42 28 0.41
44 1 0.01
45 1 0.01
47 1 0.01
48 1 0.01
49 36 0.53
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (46 bp):
CGTGTAAGACCATAGCTGGGCTATGACATCGATATGTGAAGTATTA
Found at i:12306139 original size:16 final size:18
Alignment explanation
Indices: 12306118--12306154 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
12306108 AATCATAAAG
12306118 AAATAA-AAATAAAA-AT
1 AAATAATAAATAAAATAT
*
12306134 AAATAATACATAAAATAT
1 AAATAATAAATAAAATAT
12306152 AAA
1 AAA
12306155 GTTTAACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 7 0.39
18 5 0.28
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (18 bp):
AAATAATAAATAAAATAT
Found at i:12308767 original size:17 final size:18
Alignment explanation
Indices: 12308740--12308773 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12308730 ATTAACTCAC
12308740 AAAGTAAAAAAAAAAATG
1 AAAGTAAAAAAAAAAATG
*
12308758 AAAG-AAAAAAAGAAAT
1 AAAGTAAAAAAAAAAAT
12308774 TGATGTAGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (18 bp):
AAAGTAAAAAAAAAAATG
Found at i:12322536 original size:44 final size:44
Alignment explanation
Indices: 12322481--12322567 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
12322471 TTTCTAGAAA
* *
12322481 ATGTTTTATTTTAACTCTTTATAACAACTTTTCACTTATAATAG
1 ATGTTTGATTTTAACCCTTTATAACAACTTTTCACTTATAATAG
12322525 ATGTTTGATTTTAACCCTTTATAACAACTTTTCACTTATAATA
1 ATGTTTGATTTTAACCCTTTATAACAACTTTTCACTTATAATA
12322568 ATATCCATAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.32, C:0.15, G:0.05, T:0.48
Consensus pattern (44 bp):
ATGTTTGATTTTAACCCTTTATAACAACTTTTCACTTATAATAG
Found at i:12322689 original size:24 final size:20
Alignment explanation
Indices: 12322647--12322687 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
12322637 ACGTAAAATT
12322647 ATAGTTATTTCATATAAGCA
1 ATAGTTATTTCATATAAGCA
12322667 ATAGTTATTTCATATAAGCA
1 ATAGTTATTTCATATAAGCA
12322687 A
1 A
12322688 GCCTATCAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (20 bp):
ATAGTTATTTCATATAAGCA
Found at i:12325725 original size:18 final size:18
Alignment explanation
Indices: 12325704--12325956 Score: 134
Period size: 18 Copynumber: 13.6 Consensus size: 18
12325694 GAACAATTAT
12325704 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * * *
12325722 TTATTCGGCAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
12325740 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
12325758 TTATTCAGTATCGATCAATTGATCAG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
12325784 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
12325802 TTATTTAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * *
12325819 GTATTCAGTAACAATTAAG
1 TTATTCAGTAAC-AGTCAG
*
12325838 TTATTCAGTAGCAGTCA-
1 TTATTCAGTAACAGTCAG
* * *
12325855 TTCATTCAGTGACAATCAA
1 TT-ATTCAGTAACAGTCAG
* *
12325874 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
12325892 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * *
12325910 ATATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* * * *
12325928 TTATCCGGTAACAGTTAA
1 TTATTCAGTAACAGTCAG
12325946 TTATTCAGTAA
1 TTATTCAGTAA
12325957 TAATTAGTTA
Statistics
Matches: 177, Mismatches: 44, Indels: 28
0.71 0.18 0.11
Matches are distributed among these distances:
17 16 0.09
18 126 0.71
19 18 0.10
21 2 0.01
22 1 0.01
23 2 0.01
26 12 0.07
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:12325919 original size:72 final size:72
Alignment explanation
Indices: 12325784--12325968 Score: 207
Period size: 72 Copynumber: 2.6 Consensus size: 72
12325774 AATTGATCAG
* * * *
12325784 TTATCCAGTAACAGTCAATTATTTAGTAA-AATCAGGTATTCAGTAACAATTAAGTTATTCAGTA
1 TTATCCAGTAACAGTCAATTATTCAGTAATATTCAGTTATTCAGTAACAATTAAG-TATCCAGTA
*
12325848 GCAGTC-A
65 ACAGTCAA
* * * *
12325855 TTCATTCAGTGACAATCAATTATTCAGTAATATTCAGTTATTCAGTAACAGTCTAA-TATCCAGT
1 TT-ATCCAGTAACAGTCAATTATTCAGTAATATTCAGTTATTCAGTAACAAT-TAAGTATCCAGT
12325919 AACAGTCAA
64 AACAGTCAA
* *
12325928 TTATCCGGTAACAGTTAATTATTCAGTAATAATT-AGTTATT
1 TTATCCAGTAACAGTCAATTATTCAGTAAT-ATTCAGTTATT
12325969 TTATACCTTT
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
71 2 0.02
72 66 0.69
73 24 0.25
74 3 0.03
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (72 bp):
TTATCCAGTAACAGTCAATTATTCAGTAATATTCAGTTATTCAGTAACAATTAAGTATCCAGTAA
CAGTCAA
Found at i:12325928 original size:54 final size:54
Alignment explanation
Indices: 12325691--12325956 Score: 173
Period size: 54 Copynumber: 4.8 Consensus size: 54
12325681 TCATTAACAA
* * * * * *
12325691 TCAG-AACAATTATTTATTCAGTAAC-AGTCAGTTATTCGGCAACAATCAATTAT
1 TCAGTAACAATCAATTATTCAGTAACAATTCAGTTATTCAGTAACAGTCAA-TAT
* * * * *
12325744 TCAATAATAACCAGTTATTCAGTATCGATCAATTGATCAGTTATCCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATTATTCAGTA---A-CAA-T--TCAGTTATTCAGTAACAGTCAA-TAT
* ** * * *
12325806 TTAGTAA-AATCAGGTATTCAGTAACAATTAAGTTATTCAGTAGCAGTCATTCAT
1 TCAGTAACAATCAATTATTCAGTAACAATTCAGTTATTCAGTAACAGTCAAT-AT
* *
12325860 TCAGTGACAATCAATTATTCAGTAA-TATTCAGTTATTCAGTAACAGTCTAATAT
1 TCAGTAACAATCAATTATTCAGTAACAATTCAGTTATTCAGTAACAGTC-AATAT
* * * * * *
12325914 CCAGTAACAGTCAATTATCCGGTAACAGTT-AATTATTCAGTAA
1 TCAGTAACAATCAATTATTCAGTAACAATTCAGTTATTCAGTAA
12325957 TAATTAGTTA
Statistics
Matches: 166, Mismatches: 34, Indels: 25
0.74 0.15 0.11
Matches are distributed among these distances:
53 4 0.02
54 94 0.57
55 19 0.11
56 1 0.01
57 4 0.02
58 2 0.01
59 1 0.01
61 14 0.08
62 27 0.16
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.34
Consensus pattern (54 bp):
TCAGTAACAATCAATTATTCAGTAACAATTCAGTTATTCAGTAACAGTCAATAT
Found at i:12326201 original size:45 final size:45
Alignment explanation
Indices: 12326150--12326253 Score: 154
Period size: 45 Copynumber: 2.3 Consensus size: 45
12326140 ACAGTAACAG
* * *
12326150 TAACAGTAATAGTATTCAACACACAAAGTGCTGAATTGATAACGA
1 TAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGATAACGA
* * *
12326195 TAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAACGG
1 TAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGATAACGA
12326240 TAACAGTAACAGTA
1 TAACAGTAACAGTA
12326254 ACAGTAATAG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.21
Consensus pattern (45 bp):
TAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGATAACGA
Found at i:12326204 original size:51 final size:50
Alignment explanation
Indices: 12326144--12326259 Score: 134
Period size: 45 Copynumber: 2.4 Consensus size: 50
12326134 ACAGAAACAG
* *
12326144 TAACAGTAACAGTAATAGTATTCAACACACAAAGTGCTGAATTGATAACGA
1 TAACAGTAACAGTAA-AGTATTCAACACACAAAGTGCCGAATCGATAACGA
* * *
12326195 TAACAGTAAC-----AGTATTCGACACACAAAGTGCCGAATCGGTAACGG
1 TAACAGTAACAGTAAAGTATTCAACACACAAAGTGCCGAATCGATAACGA
12326240 TAACAGTAACAGTAACAGTA
1 TAACAGTAACAGTAA-AGTA
12326260 ATAGTAGTCG
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
45 40 0.74
51 14 0.26
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.21
Consensus pattern (50 bp):
TAACAGTAACAGTAAAGTATTCAACACACAAAGTGCCGAATCGATAACGA
Found at i:12327933 original size:137 final size:137
Alignment explanation
Indices: 12327698--12327971 Score: 494
Period size: 137 Copynumber: 2.0 Consensus size: 137
12327688 CCCATTCAGT
* *
12327698 TAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCA
1 TAACAATGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGACCTTAGCCCCTTATTCA
*
12327763 GATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATTAATAAACATATGCAAGCCC
66 GATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCC
12327828 ATTTGGG
131 ATTTGGG
* *
12327835 TAACAATGGTACTGGGCCAGAGCCCTTTTCATATTACAATAAACTGGACCTTAGCCCCTTATTTA
1 TAACAATGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGACCTTAGCCCCTTATTCA
*
12327900 GATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCCC
66 GATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCC
12327965 ATTTGGG
131 ATTTGGG
12327972 GAGACTACTC
Statistics
Matches: 131, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 131 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (137 bp):
TAACAATGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGACCTTAGCCCCTTATTCA
GATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCC
ATTTGGG
Found at i:12329793 original size:26 final size:26
Alignment explanation
Indices: 12329757--12329840 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
12329747 CATGAAATTC
12329757 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
12329783 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
12329809 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
12329835 TTATCA
1 TTATCA
12329841 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:12331106 original size:16 final size:16
Alignment explanation
Indices: 12331075--12331113 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
12331065 AAATTTTCCC
**
12331075 TTTTTCCTTCTTTCTT
1 TTTTTCCTTCCCTCTT
12331091 TTTTTCCTTCCCTCTT
1 TTTTTCCTTCCCTCTT
*
12331107 TCTTTCC
1 TTTTTCC
12331114 CCTGCTCTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTCCTTCCCTCTT
Found at i:12341842 original size:20 final size:20
Alignment explanation
Indices: 12341803--12341840 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
12341793 TTATTTTGTT
12341803 TTATTTAGTTTTATTATTTA
1 TTATTTAGTTTTATTATTTA
12341823 TTATTTA-TTTTATTATTT
1 TTATTTAGTTTTATTATTT
12341841 TAGAATAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (20 bp):
TTATTTAGTTTTATTATTTA
Found at i:12345620 original size:25 final size:23
Alignment explanation
Indices: 12345563--12345620 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 23
12345553 AGAACAATAG
12345563 TAAA-ATAAT-GATATTAATACC
1 TAAATATAATAGATATTAATACC
*
12345584 TAAATACAAATAGATATATAATACC
1 TAAATA-TAATAGATAT-TAATACC
12345609 TAAAATATAATA
1 T-AAATATAATA
12345621 ATAACAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 4 0.13
22 1 0.03
23 3 0.10
24 5 0.17
25 12 0.40
26 5 0.17
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (23 bp):
TAAATATAATAGATATTAATACC
Done.