Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 79 of 290
Found at i:23963694 original size:37 final size:37
Alignment explanation
Indices: 23963636--23963743 Score: 189
Period size: 37 Copynumber: 2.9 Consensus size: 37
23963626 CAGCTCGAAT
* *
23963636 AATCCCCACACGTAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
23963673 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
23963710 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
23963744 ATATATTTCC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:23963927 original size:34 final size:34
Alignment explanation
Indices: 23963884--23963948 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
23963874 ATATATACAC
23963884 ATCTCATACATATTTCACATTAGCCATTCGGCAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCAT
23963918 ATCTCATACATATTTCACATTAGCCATTCGG
1 ATCTCATACATATTTCACATTAGCCATTCGG
23963949 ATTTACCACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.35
Consensus pattern (34 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCAT
Found at i:23963972 original size:48 final size:48
Alignment explanation
Indices: 23963915--23964111 Score: 313
Period size: 48 Copynumber: 4.1 Consensus size: 48
23963905 AGCCATTCGG
*
23963915 CATATCTCATACATATTTCACATTAGCCATTCGGATTTACCACATATA
1 CATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATA
* ** *
23963963 TATATCTCATACATATTTCATGTTAGCCATTTGGCTTTACCACATATA
1 CATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATA
*
23964011 CATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATA
1 CATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATA
* *
23964059 CATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATA
1 CATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATA
*
23964107 TATAT
1 CATAT
23964112 ATTTATCTTG
Statistics
Matches: 137, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 137 1.00
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (48 bp):
CATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATA
Found at i:23973652 original size:28 final size:28
Alignment explanation
Indices: 23973612--23973671 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
23973602 CAACGAGCTA
23973612 TTGGTGTGTTGGTTGGTTACATGATGTG
1 TTGGTGTGTTGGTTGGTTACATGATGTG
23973640 TTGGTGTGTTGGTTGGTTACATGATGTG
1 TTGGTGTGTTGGTTGGTTACATGATGTG
23973668 TTGG
1 TTGG
23973672 ATGGGTCTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.10, C:0.03, G:0.40, T:0.47
Consensus pattern (28 bp):
TTGGTGTGTTGGTTGGTTACATGATGTG
Found at i:23980518 original size:17 final size:17
Alignment explanation
Indices: 23980476--23980522 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
23980466 AATTCAATTT
23980476 TAATATAAAT-ATTCAA
1 TAATATAAATAATTCAA
23980492 T-ATGACTAAATAATTCAA
1 TAAT-A-TAAATAATTCAA
23980510 TAATATAAATAAT
1 TAATATAAATAAT
23980523 ATAAAATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.07
16 2 0.07
17 13 0.48
18 8 0.30
19 2 0.07
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.36
Consensus pattern (17 bp):
TAATATAAATAATTCAA
Found at i:23981142 original size:18 final size:18
Alignment explanation
Indices: 23981119--23981156 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
23981109 AAAATTTGAG
*
23981119 TTAACTCGAATAACTCGA
1 TTAACTCAAATAACTCGA
*
23981137 TTAACTCAAATAACTTGA
1 TTAACTCAAATAACTCGA
23981155 TT
1 TT
23981157 CATTTAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.34
Consensus pattern (18 bp):
TTAACTCAAATAACTCGA
Found at i:23981847 original size:6 final size:6
Alignment explanation
Indices: 23981836--23981863 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
23981826 AACACACATG
23981836 TATAGA TATAGA TATAGA TATAGA TATA
1 TATAGA TATAGA TATAGA TATAGA TATA
23981864 TCATATAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (6 bp):
TATAGA
Found at i:23991408 original size:41 final size:40
Alignment explanation
Indices: 23991309--23991455 Score: 116
Period size: 40 Copynumber: 3.6 Consensus size: 40
23991299 CTTTTATCAA
** *
23991309 ATCACCGGCATTTAGCCTGCTAGGTTTTAAACCCGAATTC
1 ATCACCGGCATTTAGCCTGCTAGACTTTAAACCCGAACTC
*** ** *
23991349 ATCACCGGCACGAAGCCTGCTAGACTTTAAGTCTGAACTC
1 ATCACCGGCATTTAGCCTGCTAGACTTTAAACCCGAACTC
* * * *
23991389 ATTCACCGGCATTTCGCCTGCTAGGCTTGAAGCCCGATA-TC
1 A-TCACCGGCATTTAGCCTGCTAGACTTTAAACCCGA-ACTC
*
23991430 ATTTCACTGGCATTATAGCCTGCTAG
1 A--TCACCGGCATT-TAGCCTGCTAG
23991456 GCCCGAAGCC
Statistics
Matches: 84, Mismatches: 19, Indels: 5
0.78 0.18 0.05
Matches are distributed among these distances:
40 32 0.38
41 30 0.36
42 12 0.14
43 10 0.12
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (40 bp):
ATCACCGGCATTTAGCCTGCTAGACTTTAAACCCGAACTC
Found at i:23993418 original size:14 final size:15
Alignment explanation
Indices: 23993389--23993418 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23993379 CAAAATTTAG
23993389 ACATGATACTTTCAC
1 ACATGATACTTTCAC
23993404 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
23993418 A
1 A
23993419 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:23995133 original size:49 final size:48
Alignment explanation
Indices: 23995079--23995171 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
23995069 GTTAGTTTAT
* *
23995079 TACTTTTCATAAGCCTCCCCCCATATGTCTAAGAGCAGGGCCACTCTAC
1 TACTTTGCATAAGCCT-CCCCCATACGTCTAAGAGCAGGGCCACTCTAC
** *
23995128 TACTTTGCATAAGCCTCCCCCATACGTCTGGGAGCAGGGTCACT
1 TACTTTGCATAAGCCTCCCCCATACGTCTAAGAGCAGGGCCACT
23995172 TTCTTAGGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 24 0.62
49 15 0.38
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (48 bp):
TACTTTGCATAAGCCTCCCCCATACGTCTAAGAGCAGGGCCACTCTAC
Found at i:23995189 original size:48 final size:48
Alignment explanation
Indices: 23995074--23995341 Score: 180
Period size: 49 Copynumber: 5.5 Consensus size: 48
23995064 GTAGGGTTAG
* * * **
23995074 TTTATTACTTTTCATAAGCCTCCCCCCATATGTCTAAGAGCAGGGCCAC
1 TTTATTACTTTCCGTAAGCCT-CCCCCATACGTCTGGGAGCAGGGCCAC
* * * * *
23995123 TCTACTACTTTGCATAAGCCTCCCCCATACGTCTGGGAGCAGGGTCAC
1 TTTATTACTTTCCGTAAGCCTCCCCCATACGTCTGGGAGCAGGGCCAC
* * * * * * *
23995171 TTTCTTAGGTTT-CGTAAGCTTTCCCCTTACATTTGGGAGCAGGGCCAC
1 TTTATTA-CTTTCCGTAAGCCTCCCCCATACGTCTGGGAGCAGGGCCAC
* * * * ** *
23995219 TTTATTACTTTCCGTAAGCCTCCTCCCATGCGTCTAGGAACAAGTTCAT
1 TTTATTACTTTCCGTAAGCCTCC-CCCATACGTCTGGGAGCAGGGCCAC
* * * * * * * *
23995268 TTTATTACTTTTCATAAGTCTCCCCCCATGCGTCTAGGAGCATGACCAT
1 TTTATTACTTTCCGTAAGCCT-CCCCCATACGTCTGGGAGCAGGGCCAC
*
23995317 TTTATTACTTAT-CATAAGCCTCCCC
1 TTTATTACTT-TCCGTAAGCCTCCCC
23995342 ATGTGTTTGG
Statistics
Matches: 174, Mismatches: 40, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
47 3 0.02
48 75 0.43
49 93 0.53
50 3 0.02
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (48 bp):
TTTATTACTTTCCGTAAGCCTCCCCCATACGTCTGGGAGCAGGGCCAC
Found at i:23997089 original size:24 final size:24
Alignment explanation
Indices: 23997056--23997109 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
23997046 ATATAAACAT
23997056 CAAGA-ATACATGTACTTTGTGAC
1 CAAGATATACATGTACTTTGTGAC
23997079 CAAGATATACATGTACTTTGTGAC
1 CAAGATATACATGTACTTTGTGAC
23997103 CAAGATA
1 CAAGATA
23997110 CTAACATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 5 0.17
24 25 0.83
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (24 bp):
CAAGATATACATGTACTTTGTGAC
Found at i:24003284 original size:14 final size:15
Alignment explanation
Indices: 24003265--24003294 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
24003255 GGCAACCTAT
24003265 ATTTATTT-ATTTTA
1 ATTTATTTGATTTTA
24003279 ATTTATTTGATTTTA
1 ATTTATTTGATTTTA
24003294 A
1 A
24003295 ACTTAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
ATTTATTTGATTTTA
Found at i:24007270 original size:19 final size:19
Alignment explanation
Indices: 24007230--24007272 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
24007220 TTTCGATCTT
*
24007230 TTTTTTATTTCATTCAAAAA
1 TTTTTTATTT-ATTAAAAAA
24007250 TTTTTTATTT-TTAAAACAA
1 TTTTTTATTTATTAAAA-AA
24007269 TTTT
1 TTTT
24007273 AAATTACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 6 0.29
20 10 0.48
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTTATTTATTAAAAAA
Found at i:24007513 original size:6 final size:6
Alignment explanation
Indices: 24007502--24007528 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
24007492 ATATATTTGA
24007502 TTTCTC TTTCTC TTTCTC TTTCTC TTT
1 TTTCTC TTTCTC TTTCTC TTTCTC TTT
24007529 TGTTCGTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTCTC
Found at i:24014974 original size:17 final size:17
Alignment explanation
Indices: 24014952--24014994 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
24014942 TGTTAAAAAA
*
24014952 TATAAATTTTGGATTTT
1 TATAAATTTTGGAATTT
*
24014969 TATAAATATTTTGAATTT
1 TATAAAT-TTTGGAATTT
*
24014987 TAAAAATT
1 TATAAATT
24014995 ATTTTGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (17 bp):
TATAAATTTTGGAATTT
Found at i:24014979 original size:19 final size:20
Alignment explanation
Indices: 24014957--24015012 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
24014947 AAAAATATAA
* *
24014957 ATTTTGGATTTTTATAAA-T
1 ATTTTGGAATTTTAAAAATT
24014976 ATTTT-GAATTTTAAAAATT
1 ATTTTGGAATTTTAAAAATT
*
24014995 ATTTTGAAAATTTTAAAA
1 ATTTTG-GAATTTTAAAA
24015013 TTACTTGTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 10 0.32
19 11 0.35
21 10 0.32
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (20 bp):
ATTTTGGAATTTTAAAAATT
Found at i:24015008 original size:21 final size:18
Alignment explanation
Indices: 24014966--24015012 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 18
24014956 AATTTTGGAT
*
24014966 TTTTATAAATATTTTGAA
1 TTTTAAAAATATTTTGAA
24014984 TTTTAAAAATTATTTTGAAAA
1 TTTTAAAAA-TATTTTG--AA
24015005 TTTTAAAA
1 TTTTAAAA
24015013 TTACTTGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 8 0.32
19 7 0.28
21 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (18 bp):
TTTTAAAAATATTTTGAA
Found at i:24032865 original size:24 final size:24
Alignment explanation
Indices: 24032845--24032923 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
24032835 AATTTCACTT
24032845 TCCAAATACAACCAATATTCAATA
1 TCCAAATACAACCAATATTCAATA
* * * * * *
24032869 TCCAAATTTC-A-TATTAACTCACTT
1 TCCAAA-TACAACCAAT-ATTCAATA
24032893 TCCAAATACAACCAATATTCAATA
1 TCCAAATACAACCAATATTCAATA
24032917 TCCAAAT
1 TCCAAAT
24032924 TTCATATTAA
Statistics
Matches: 39, Mismatches: 12, Indels: 8
0.66 0.20 0.14
Matches are distributed among these distances:
23 4 0.10
24 31 0.79
25 4 0.10
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.30
Consensus pattern (24 bp):
TCCAAATACAACCAATATTCAATA
Found at i:24032910 original size:48 final size:48
Alignment explanation
Indices: 24032839--24032934 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
24032829 GAGTTTAATT
24032839 TCACTTTCCAAATACAACCAATATTCAATATCCAAATTTCATATTAAC
1 TCACTTTCCAAATACAACCAATATTCAATATCCAAATTTCATATTAAC
24032887 TCACTTTCCAAATACAACCAATATTCAATATCCAAATTTCATATTAAC
1 TCACTTTCCAAATACAACCAATATTCAATATCCAAATTTCATATTAAC
24032935 ACATATATTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (48 bp):
TCACTTTCCAAATACAACCAATATTCAATATCCAAATTTCATATTAAC
Found at i:24032955 original size:5 final size:5
Alignment explanation
Indices: 24032941--24032987 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
24032931 TAACACATAT
* * *
24032941 ATTCA TTTCA ATTCA ATTCA ATTCA A-TCA ACTTTA AATCA ATTCA AT
1 ATTCA ATTCA ATTCA ATTCA ATTCA ATTCA A-TTCA ATTCA ATTCA AT
24032988 AATCAAAGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
4 4 0.12
5 27 0.79
6 3 0.09
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.40
Consensus pattern (5 bp):
ATTCA
Found at i:24033661 original size:16 final size:15
Alignment explanation
Indices: 24033640--24033669 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
24033630 AAGTCTTGCG
24033640 TCTTTCTTTCTCTTTT
1 TCTTTCTTTC-CTTTT
24033656 TCTTTCTTTCCTTT
1 TCTTTCTTTCCTTT
24033670 CTATTTTCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (15 bp):
TCTTTCTTTCCTTTT
Found at i:24033677 original size:20 final size:20
Alignment explanation
Indices: 24033640--24033677 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24033630 AAGTCTTGCG
*
24033640 TCTTTCTTTCTCTTTTTCTT
1 TCTTTCTTTCTCATTTTCTT
24033660 TCTTTCCTTTCT-ATTTTC
1 TCTTT-CTTTCTCATTTTC
24033678 GTTTGGCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (20 bp):
TCTTTCTTTCTCATTTTCTT
Found at i:24038412 original size:29 final size:27
Alignment explanation
Indices: 24038375--24038431 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 27
24038365 TTTTCTTTTC
* * *
24038375 TTTTATTTTATAATCTCCTTTTACTTTA
1 TTTTATTTTAAAACCACCTTTTA-TTTA
24038403 TTTTAATTTTAAAACCACCTTTTATTTA
1 TTTT-ATTTTAAAACCACCTTTTATTTA
24038431 T
1 T
24038432 ATAAAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.26, C:0.14, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTTATTTTAAAACCACCTTTTATTTA
Found at i:24041833 original size:31 final size:31
Alignment explanation
Indices: 24041793--24041865 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
24041783 GTTTTTGACT
24041793 TTTTGGACAGTTTTCCACTTAGATCAGTGATA
1 TTTT-GACAGTTTTCCACTTAGATCAGTGATA
24041825 TTTTGACAGTTTTCCACTTAGATCAGTGATA
1 TTTTGACAGTTTTCCACTTAGATCAGTGATA
24041856 TTTTGA-AGTT
1 TTTTGACAGTT
24041866 AAATTAGGTG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 4 0.10
31 33 0.80
32 4 0.10
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.44
Consensus pattern (31 bp):
TTTTGACAGTTTTCCACTTAGATCAGTGATA
Found at i:24043302 original size:86 final size:86
Alignment explanation
Indices: 24043200--24043377 Score: 356
Period size: 86 Copynumber: 2.1 Consensus size: 86
24043190 CCAATCTTGT
24043200 TTCAGCACTAGTAAGAGAAATGATAGAGAACTTCTAAAGTTCGTTTTTTATCTGAACTAGAGATA
1 TTCAGCACTAGTAAGAGAAATGATAGAGAACTTCTAAAGTTCGTTTTTTATCTGAACTAGAGATA
24043265 GTTTTTTGGTTTGAATAGATG
66 GTTTTTTGGTTTGAATAGATG
24043286 TTCAGCACTAGTAAGAGAAATGATAGAGAACTTCTAAAGTTCGTTTTTTATCTGAACTAGAGATA
1 TTCAGCACTAGTAAGAGAAATGATAGAGAACTTCTAAAGTTCGTTTTTTATCTGAACTAGAGATA
24043351 GTTTTTTGGTTTGAATAGATG
66 GTTTTTTGGTTTGAATAGATG
24043372 TTCAGC
1 TTCAGC
24043378 TTACTTATTT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 92 1.00
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (86 bp):
TTCAGCACTAGTAAGAGAAATGATAGAGAACTTCTAAAGTTCGTTTTTTATCTGAACTAGAGATA
GTTTTTTGGTTTGAATAGATG
Found at i:24052961 original size:5 final size:5
Alignment explanation
Indices: 24052951--24052982 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
24052941 TTATGTTTTA
24052951 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
24052983 AAACTAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:24054274 original size:15 final size:15
Alignment explanation
Indices: 24054254--24054310 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
24054244 CGATGAATTT
24054254 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* * *
24054269 ATTGAAATTGTTTTG
1 ATTGAATTTATATTG
24054284 ATTGAATTTATATTG
1 ATTGAATTTATATTG
24054299 ATTGAA-TTATAT
1 ATTGAATTTATAT
24054311 AATATATATG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
14 6 0.17
15 30 0.83
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:24054729 original size:21 final size:22
Alignment explanation
Indices: 24054694--24054740 Score: 78
Period size: 21 Copynumber: 2.1 Consensus size: 22
24054684 AGGCACTTTA
24054694 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA-TTCAGGCACCTCG
24054717 TGTGTCGTA-TCAGGCACCTCG
1 TGTGTCGTATTCAGGCACCTCG
24054738 TGT
1 TGT
24054741 ACCGTTTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 15 0.62
23 9 0.38
ACGTcount: A:0.13, C:0.26, G:0.28, T:0.34
Consensus pattern (22 bp):
TGTGTCGTATTCAGGCACCTCG
Found at i:24054752 original size:21 final size:21
Alignment explanation
Indices: 24054705--24054754 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
24054695 GTGTCGTATT
**
24054705 TCAGGCACCTCGTGTGTCGTA
1 TCAGGCACCTCGTGTACCGTA
*
24054726 TCAGGCACCTCGTGTACCGTT
1 TCAGGCACCTCGTGTACCGTA
*
24054747 TTAGGCAC
1 TCAGGCAC
24054755 TTTATGTGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.16, C:0.30, G:0.26, T:0.28
Consensus pattern (21 bp):
TCAGGCACCTCGTGTACCGTA
Found at i:24059474 original size:17 final size:18
Alignment explanation
Indices: 24059452--24059485 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
24059442 TTGTTTATAA
24059452 TTTAAAAAA-TTAATTAT
1 TTTAAAAAATTTAATTAT
24059469 TTTAAAAAATTTAATTA
1 TTTAAAAAATTTAATTA
24059486 AAGTTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTAAAAAATTTAATTAT
Found at i:24062225 original size:16 final size:16
Alignment explanation
Indices: 24062204--24062236 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
24062194 TATTCTCAAA
*
24062204 TATTAATTAATTAATT
1 TATTAATTAACTAATT
24062220 TATTAATTAACTAATT
1 TATTAATTAACTAATT
24062236 T
1 T
24062237 TTTCAACACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTAATTAACTAATT
Found at i:24063930 original size:17 final size:17
Alignment explanation
Indices: 24063908--24063941 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
24063898 TAGATCCTAG
24063908 ATTCGTTTATGGATTTA
1 ATTCGTTTATGGATTTA
24063925 ATTCGTTTATGGATTTA
1 ATTCGTTTATGGATTTA
24063942 TTCACTTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.18, T:0.53
Consensus pattern (17 bp):
ATTCGTTTATGGATTTA
Found at i:24069750 original size:14 final size:14
Alignment explanation
Indices: 24069719--24069749 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
24069709 TCTTAAAAGG
24069719 TTTTGTTTCTTCTT
1 TTTTGTTTCTTCTT
24069733 TTTTGTTTC-TCTT
1 TTTTGTTTCTTCTT
24069746 TTTT
1 TTTT
24069750 TTAGTTCTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (14 bp):
TTTTGTTTCTTCTT
Found at i:24071596 original size:18 final size:19
Alignment explanation
Indices: 24071547--24071598 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
24071537 TTCACTCGAA
*
24071547 TCTAACTCTCTCTATTCTC
1 TCTAACTCTCTCAATTCTC
24071566 TCTAAGCT-T-TCAATTCTC
1 TCTAA-CTCTCTCAATTCTC
24071584 TC-AACTCTCTCAATT
1 TCTAACTCTCTCAATT
24071599 TTTGTTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 2 0.07
17 3 0.10
18 16 0.55
19 6 0.21
20 2 0.07
ACGTcount: A:0.21, C:0.33, G:0.02, T:0.44
Consensus pattern (19 bp):
TCTAACTCTCTCAATTCTC
Found at i:24073627 original size:35 final size:36
Alignment explanation
Indices: 24073581--24073648 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 36
24073571 CCGTCCTGCC
* *
24073581 TTCTTTTTCTTCCATTCTTCAAAT-TTTTCCATATA
1 TTCTTCTTCTTCCATTCTTCAAATCTCTTCCATATA
*
24073616 TTCTTCTTCTTCTATTCTTCAAATCTCTTCCAT
1 TTCTTCTTCTTCCATTCTTCAAATCTCTTCCAT
24073649 TTTTCCTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 22 0.76
36 7 0.24
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (36 bp):
TTCTTCTTCTTCCATTCTTCAAATCTCTTCCATATA
Found at i:24074662 original size:22 final size:24
Alignment explanation
Indices: 24074621--24074665 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
24074611 CATGAAAATT
24074621 ACCAAAAAACAAAGAGAATAAAAA
1 ACCAAAAAACAAAGAGAATAAAAA
*
24074645 ACCAAAAGA-AAAGA-AATAAAA
1 ACCAAAAAACAAAGAGAATAAAA
24074666 CTCTTTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 5 0.25
24 8 0.40
ACGTcount: A:0.76, C:0.11, G:0.09, T:0.04
Consensus pattern (24 bp):
ACCAAAAAACAAAGAGAATAAAAA
Found at i:24075353 original size:5 final size:5
Alignment explanation
Indices: 24075343--24075406 Score: 101
Period size: 5 Copynumber: 12.8 Consensus size: 5
24075333 TTCATATTCA
*
24075343 AACAC AACAC AACAC AACAC AACAC AACAC AACAC AACAC AATAC AACAC
1 AACAC AACAC AACAC AACAC AACAC AACAC AACAC AACAC AACAC AACAC
* *
24075393 AACAT AACAT AACA
1 AACAC AACAC AACA
24075407 TAACCATAGA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 56 1.00
ACGTcount: A:0.61, C:0.34, G:0.00, T:0.05
Consensus pattern (5 bp):
AACAC
Found at i:24075470 original size:13 final size:13
Alignment explanation
Indices: 24075452--24075479 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
24075442 GATAGGAAAG
24075452 CATAAGTCGTAAA
1 CATAAGTCGTAAA
24075465 CATAAGTCGTAAA
1 CATAAGTCGTAAA
24075478 CA
1 CA
24075480 ATAATATGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.18, G:0.14, T:0.21
Consensus pattern (13 bp):
CATAAGTCGTAAA
Found at i:24075841 original size:32 final size:32
Alignment explanation
Indices: 24075800--24075864 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
24075790 TAATCTAGTT
24075800 TAGTTAGGTTTATGTTTGATTCTGAGTAGCTA
1 TAGTTAGGTTTATGTTTGATTCTGAGTAGCTA
24075832 TAGTTAGGTTTATGTTTGATTCTGAGTAGCTA
1 TAGTTAGGTTTATGTTTGATTCTGAGTAGCTA
24075864 T
1 T
24075865 CATCTTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.22, C:0.06, G:0.25, T:0.48
Consensus pattern (32 bp):
TAGTTAGGTTTATGTTTGATTCTGAGTAGCTA
Found at i:24077348 original size:15 final size:15
Alignment explanation
Indices: 24077330--24077369 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
24077320 ACTCTATTCC
* *
24077330 CTTTAATCATGGTAA
1 CTTTAGTCATAGTAA
24077345 CTTTAGTCATAGTAA
1 CTTTAGTCATAGTAA
24077360 CTTTAGTCAT
1 CTTTAGTCAT
24077370 TGCTTGAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (15 bp):
CTTTAGTCATAGTAA
Found at i:24078396 original size:39 final size:40
Alignment explanation
Indices: 24078343--24078434 Score: 141
Period size: 39 Copynumber: 2.3 Consensus size: 40
24078333 CGTTTGTATG
* * *
24078343 AAAAACGCCGCTAAAGAATGAGCATTAGCGGTG-TTTTTA
1 AAAAATGCCGCTAAAGAACGAGCATTAGCGGCGCTTTTTA
*
24078382 AAAAATGTCGCTAAAGAACGAGCATTAGCGGCGCTTTTTA
1 AAAAATGCCGCTAAAGAACGAGCATTAGCGGCGCTTTTTA
24078422 AAAAATGCCGCTA
1 AAAAATGCCGCTA
24078435 TAAGTTCACC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 29 0.62
40 18 0.38
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (40 bp):
AAAAATGCCGCTAAAGAACGAGCATTAGCGGCGCTTTTTA
Found at i:24078854 original size:14 final size:14
Alignment explanation
Indices: 24078803--24078847 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
24078793 TTAATTATCA
*
24078803 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
*
24078817 TTATGGTATAGGGT
1 TTATGGTTTAGGGT
*
24078831 GTATGGTTTAGGGT
1 TTATGGTTTAGGGT
24078845 TTA
1 TTA
24078848 AGCTTTAAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:24078961 original size:7 final size:7
Alignment explanation
Indices: 24078951--24078982 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
24078941 GGTTTATGGT
24078951 TTTATGA
1 TTTATGA
24078958 TTTATGA
1 TTTATGA
*
24078965 TTTATGT
1 TTTATGA
24078972 TTTATGA
1 TTTATGA
24078979 TTTA
1 TTTA
24078983 GGGTTTATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (7 bp):
TTTATGA
Found at i:24078989 original size:21 final size:22
Alignment explanation
Indices: 24078936--24078990 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
24078926 AGGGTAAGGG
24078936 TTTAAGGTTTATGGTTTTATGA
1 TTTAAGGTTTATGGTTTTATGA
* *
24078958 TTTATGATTTAT-GTTTTATGA
1 TTTAAGGTTTATGGTTTTATGA
*
24078979 TTTAGGGTTTAT
1 TTTAAGGTTTAT
24078991 AGGGATACGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.58
Consensus pattern (22 bp):
TTTAAGGTTTATGGTTTTATGA
Found at i:24085765 original size:42 final size:42
Alignment explanation
Indices: 24085687--24085808 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 42
24085677 TAAAAGGTTA
* * *
24085687 TGATTTTTAGTGGCGTTTGTAGGAAAAGCGTCGCTAAAGGTCG
1 TGATTTTTAGTGGCGTTTGTAGG-GAAGTGCCGCTAAAGGTCG
* *
24085730 TGTTTTTTAGTGGCGTTTTTAGGGAAGTGCCGCTAAAGGTCG
1 TGATTTTTAGTGGCGTTTGTAGGGAAGTGCCGCTAAAGGTCG
* * *
24085772 TGATCTTTAGCGGCGTTTGT-GGGAAAGTGCTGCTAAA
1 TGATTTTTAGTGGCGTTTGTAGGG-AAGTGCCGCTAAA
24085809 AACCATGACT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 3 0.04
42 44 0.65
43 21 0.31
ACGTcount: A:0.20, C:0.12, G:0.33, T:0.34
Consensus pattern (42 bp):
TGATTTTTAGTGGCGTTTGTAGGGAAGTGCCGCTAAAGGTCG
Found at i:24087606 original size:22 final size:22
Alignment explanation
Indices: 24087580--24087628 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
24087570 CAATGTTGTT
24087580 GTTATCATGTGGTGTAATATTA
1 GTTATCATGTGGTGTAATATTA
24087602 GTTATCATGTGGTGTAATATTA
1 GTTATCATGTGGTGTAATATTA
24087624 GTTAT
1 GTTAT
24087629 GCACTTGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.04, G:0.22, T:0.47
Consensus pattern (22 bp):
GTTATCATGTGGTGTAATATTA
Found at i:24087641 original size:22 final size:22
Alignment explanation
Indices: 24087580--24087691 Score: 86
Period size: 22 Copynumber: 5.0 Consensus size: 22
24087570 CAATGTTGTT
*
24087580 GTTATCATGTGGTGTAATATTA
1 GTTATCATGTGGTATAATATTA
*
24087602 GTTATCATGTGGTGTAATATTA
1 GTTATCATGTGGTATAATATTA
* *
24087624 GTTATGCACT-TGG-ATAATGTTGTT
1 GTTAT-CA-TGTGGTATAAT-AT-TA
* *
24087648 GTTATCATGTGGTGTAATACTA
1 GTTATCATGTGGTATAATATTA
* *
24087670 ATTATGCATTTGG-ATAATATTA
1 GTTAT-CATGTGGTATAATATTA
24087692 TTAATTTTTA
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
22 44 0.61
23 17 0.24
24 11 0.15
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (22 bp):
GTTATCATGTGGTATAATATTA
Found at i:24087649 original size:68 final size:68
Alignment explanation
Indices: 24087540--24087666 Score: 218
Period size: 68 Copynumber: 1.9 Consensus size: 68
24087530 GATACTTTTA
*
24087540 ATGTGATGTAATATTAGTTATACACTTGGGCAATGTTGTTGTTATCATGTGGTGTAATATTAGTT
1 ATGTGATGTAATATTAGTTATACACTTGGACAATGTTGTTGTTATCATGTGGTGTAATATTAGTT
24087605 ATC
66 ATC
* * *
24087608 ATGTGGTGTAATATTAGTTATGCACTTGGATAATGTTGTTGTTATCATGTGGTGTAATA
1 ATGTGATGTAATATTAGTTATACACTTGGACAATGTTGTTGTTATCATGTGGTGTAATA
24087667 CTAATTATGC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 55 1.00
ACGTcount: A:0.26, C:0.06, G:0.24, T:0.44
Consensus pattern (68 bp):
ATGTGATGTAATATTAGTTATACACTTGGACAATGTTGTTGTTATCATGTGGTGTAATATTAGTT
ATC
Found at i:24087688 original size:68 final size:68
Alignment explanation
Indices: 24087548--24087691 Score: 209
Period size: 68 Copynumber: 2.1 Consensus size: 68
24087538 TAATGTGATG
* * *
24087548 TAATATTAGTTATACACTTGGGCAATGTTGTTGTTATCATGTGGTGTAATATTAGTTATCATGTG
1 TAATATTAGTTATACACTTGGACAATGTTGTTGTTATCATGTGGTGTAATACTAATTATCATGTG
*
24087613 GTG
66 GTA
* * *
24087616 TAATATTAGTTATGCACTTGGATAATGTTGTTGTTATCATGTGGTGTAATACTAATTATGCATTT
1 TAATATTAGTTATACACTTGGACAATGTTGTTGTTATCATGTGGTGTAATACTAATTAT-CATGT
24087681 GG-A
65 GGTA
24087684 TAATATTA
1 TAATATTA
24087692 TTAATTTTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
68 62 0.91
69 6 0.09
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (68 bp):
TAATATTAGTTATACACTTGGACAATGTTGTTGTTATCATGTGGTGTAATACTAATTATCATGTG
GTA
Found at i:24088106 original size:20 final size:19
Alignment explanation
Indices: 24088062--24088107 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
24088052 CATCCAAACA
24088062 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
*
24088081 CTAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCA-TTT
24088101 CCAGAAA
1 CCAGAAA
24088108 TCATTTTCCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:24088127 original size:14 final size:14
Alignment explanation
Indices: 24088091--24088128 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
24088081 CTAGAAAAGT
*
24088091 AAATCATTTTCCAG
1 AAATCATTTTCCAA
24088105 AAATCATTTTCCGAA
1 AAATCATTTTCC-AA
24088120 AAAT-ATTTT
1 AAATCATTTT
24088129 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAA
Found at i:24088369 original size:29 final size:28
Alignment explanation
Indices: 24088267--24088392 Score: 94
Period size: 28 Copynumber: 4.4 Consensus size: 28
24088257 TCAAAGTCTC
* * *
24088267 GCCACGAAGGCATCCTTTTAACAAAGTTT
1 GCCACAAAGGCTTCC-TTTAACAAAGATT
* * * *
24088296 GCCA-TAAGGCATTCATTTAACTGAA-ATA
1 GCCACAAAGGC-TTCCTTTAAC-AAAGATT
* ** *
24088324 GCCACAAAGACACCCTTTTAACAGAGATT
1 GCCACAAAGGCTTCC-TTTAACAAAGATT
*
24088353 GCCACAAGGGCTTCCTTTAACAAAGATT
1 GCCACAAAGGCTTCCTTTAACAAAGATT
24088381 GCCACAAAGGCT
1 GCCACAAAGGCT
24088393 CATTTTTACG
Statistics
Matches: 72, Mismatches: 20, Indels: 11
0.70 0.19 0.11
Matches are distributed among these distances:
28 41 0.57
29 31 0.43
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.24
Consensus pattern (28 bp):
GCCACAAAGGCTTCCTTTAACAAAGATT
Found at i:24088385 original size:57 final size:57
Alignment explanation
Indices: 24088280--24088389 Score: 134
Period size: 57 Copynumber: 1.9 Consensus size: 57
24088270 ACGAAGGCAT
* * *
24088280 CCTTTTAACAAAGTTTGCCATAAGGCATTCATTTAACTGAAATAGCCACAAAGACAC
1 CCTTTTAACAAAGATTGCCACAAGGCATTCATTTAACTAAAATAGCCACAAAGACAC
* * *
24088337 CCTTTTAACAGAGATTGCCACAAGGGC-TTCCTTTAAC-AAAGATTGCCACAAAG
1 CCTTTTAACAAAGATTGCCACAA-GGCATTCATTTAACTAAA-ATAGCCACAAAG
24088390 GCTCATTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
56 2 0.04
57 40 0.89
58 3 0.07
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (57 bp):
CCTTTTAACAAAGATTGCCACAAGGCATTCATTTAACTAAAATAGCCACAAAGACAC
Found at i:24089984 original size:23 final size:25
Alignment explanation
Indices: 24089940--24089985 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
24089930 TATTTTGACT
*
24089940 ATATATTTTAAAATTTTATAAAAAA
1 ATATATTTTAAAACTTTATAAAAAA
24089965 ATAT-TTTTAAAACTTT-TAAAA
1 ATATATTTTAAAACTTTATAAAA
24089986 GTATTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
ATATATTTTAAAACTTTATAAAAAA
Found at i:24092271 original size:50 final size:50
Alignment explanation
Indices: 24092196--24092295 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
24092186 TTGTTGTAAG
*
24092196 TTCTTTTAAGAAAGTCTTCTTCTCTTCTTACTTGGGTAAAACTTTCTTGC
1 TTCTTTCAAGAAAGTCTTCTTCTCTTCTTACTTGGGTAAAACTTTCTTGC
24092246 TTCTTTCAAGAAAGTCTTCTTCTCTTCTTACTTGGGTAAAACTTTCTTGC
1 TTCTTTCAAGAAAGTCTTCTTCTCTTCTTACTTGGGTAAAACTTTCTTGC
24092296 ATAAATCTGA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.20, C:0.21, G:0.12, T:0.47
Consensus pattern (50 bp):
TTCTTTCAAGAAAGTCTTCTTCTCTTCTTACTTGGGTAAAACTTTCTTGC
Found at i:24092620 original size:25 final size:25
Alignment explanation
Indices: 24092591--24092641 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
24092581 CAAAGGAAAA
**
24092591 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
24092616 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
24092641 T
1 T
24092642 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:24097289 original size:25 final size:25
Alignment explanation
Indices: 24097261--24097311 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
24097251 AAAAGGAAAA
**
24097261 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
24097286 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
24097311 T
1 T
24097312 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:24098964 original size:12 final size:13
Alignment explanation
Indices: 24098949--24098981 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
24098939 GTTTATATTT
24098949 AAAATGTTAC-TA
1 AAAATGTTACTTA
*
24098961 AAAATGTTACTTC
1 AAAATGTTACTTA
24098974 AAAATGTT
1 AAAATGTT
24098982 TATATAGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (13 bp):
AAAATGTTACTTA
Found at i:24101980 original size:15 final size:15
Alignment explanation
Indices: 24101956--24101989 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
24101946 CTACATCAGT
24101956 GACCCGAAAACCATC
1 GACCCGAAAACCATC
*
24101971 GACCCTAAAACCATC
1 GACCCGAAAACCATC
24101986 GACC
1 GACC
24101990 TTAACTATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.38, C:0.41, G:0.12, T:0.09
Consensus pattern (15 bp):
GACCCGAAAACCATC
Found at i:24105012 original size:19 final size:19
Alignment explanation
Indices: 24104988--24105045 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
24104978 TTTGGAACAT
24104988 GAACAAATGCTTTACAACC
1 GAACAAATGCTTTACAACC
* ** *
24105007 GAACAAATCCTTTGGAACAT
1 GAACAAATGCTTTACAAC-C
24105027 GAACAAATGCTTTACAACC
1 GAACAAATGCTTTACAACC
24105046 ATCAGACTCA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.22
Consensus pattern (19 bp):
GAACAAATGCTTTACAACC
Found at i:24105032 original size:20 final size:20
Alignment explanation
Indices: 24104978--24105039 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
24104968 TTGAATTTGA
24104978 TTTGGAACATGAACAAATGC
1 TTTGGAACATGAACAAATGC
** * *
24104998 TTTACAAC-CGAACAAATCC
1 TTTGGAACATGAACAAATGC
24105017 TTTGGAACATGAACAAATGC
1 TTTGGAACATGAACAAATGC
24105037 TTT
1 TTT
24105040 ACAACCATCA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (20 bp):
TTTGGAACATGAACAAATGC
Found at i:24110201 original size:26 final size:25
Alignment explanation
Indices: 24110153--24110212 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
24110143 TTATTTCATT
* *
24110153 AAATAAAA-A-ATTTTAAAATATAA
1 AAATAAAATATATTTAAAAACATAA
*
24110176 TAAATTAAATATATTTAAAAACATAA
1 -AAATAAAATATATTTAAAAACATAA
24110202 AAATAAAATAT
1 AAATAAAATAT
24110213 TAAAACAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 7 0.23
25 11 0.37
26 12 0.40
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (25 bp):
AAATAAAATATATTTAAAAACATAA
Found at i:24110343 original size:23 final size:23
Alignment explanation
Indices: 24110299--24110343 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
24110289 TTATATCAAA
**
24110299 ATTAAAAATAAAATGTAAATATG
1 ATTAAAAATAAAAAATAAATATG
*
24110322 ATTAAAAATAAAAAATATATAT
1 ATTAAAAATAAAAAATAAATAT
24110344 ATTTAGTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (23 bp):
ATTAAAAATAAAAAATAAATATG
Found at i:24117127 original size:23 final size:21
Alignment explanation
Indices: 24117068--24117128 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 21
24117058 TTCAAATATT
*
24117068 TTTATATGTGAAATATTTTAA
1 TTTATATGTGAAATATATTAA
* * *
24117089 TTAATTATTTCAAATATCATTATA
1 TTTA-TATGTGAAATAT-ATTA-A
24117113 TTTATATGTGAAATAT
1 TTTATATGTGAAATAT
24117129 TTCAAATACA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
21 3 0.10
22 10 0.33
23 13 0.43
24 4 0.13
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (21 bp):
TTTATATGTGAAATATATTAA
Found at i:24127948 original size:38 final size:36
Alignment explanation
Indices: 24127896--24127968 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
24127886 ATTCCAAAAA
*
24127896 TAATATTATTTTAATTA-CTTTAATATTAAATTTAATT
1 TAATATTATCTTAA-TAGCTTTAATATT-AATTTAATT
*
24127933 TAATACTTATCTTAATAGTTTTAATATTAATTTAAT
1 TAATA-TTATCTTAATAGCTTTAATATTAATTTAAT
24127969 AGATTTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 15 0.47
38 17 0.53
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (36 bp):
TAATATTATCTTAATAGCTTTAATATTAATTTAATT
Found at i:24127958 original size:58 final size:59
Alignment explanation
Indices: 24127896--24128020 Score: 148
Period size: 58 Copynumber: 2.2 Consensus size: 59
24127886 ATTCCAAAAA
* * * * *
24127896 TAATATTATTTTAATTA-CTTTAATATTAAATTTAATTTAATACTTATCTTAAT-AGTTT
1 TAATATTATTTTAA-TAGATTTAATAGTAAAGTTAATCTAATACTTATCTTAATAAGTAT
* * *
24127954 TAATATTAATTTAATAGATTTAATAGTAAAGTTAATCTAATATTTATCTTGATAAGTAT
1 TAATATTATTTTAATAGATTTAATAGTAAAGTTAATCTAATACTTATCTTAATAAGTAT
24128013 T-ATATTAT
1 TAATATTAT
24128021 ATCAATATTA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
57 2 0.04
58 49 0.88
59 5 0.09
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (59 bp):
TAATATTATTTTAATAGATTTAATAGTAAAGTTAATCTAATACTTATCTTAATAAGTAT
Found at i:24127969 original size:20 final size:21
Alignment explanation
Indices: 24127930--24127978 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
24127920 ATTAAATTTA
24127930 ATTTAATACTTATCTTAATAG
1 ATTTAATACTTATCTTAATAG
*
24127951 TTTTAATA-TTAAT-TTAATAG
1 ATTTAATACTT-ATCTTAATAG
24127971 ATTTAATA
1 ATTTAATA
24127979 GTAAAGTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (21 bp):
ATTTAATACTTATCTTAATAG
Found at i:24128516 original size:21 final size:21
Alignment explanation
Indices: 24128492--24128538 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
24128482 CAACAATTGG
* *
24128492 TATCAGAGTCAAATTGCGTTC
1 TATCAGAGCCAAATTGCATTC
*
24128513 TATCAGAGCCAGATTGCATTC
1 TATCAGAGCCAAATTGCATTC
24128534 TATCA
1 TATCA
24128539 ATAAGTATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (21 bp):
TATCAGAGCCAAATTGCATTC
Found at i:24128676 original size:11 final size:11
Alignment explanation
Indices: 24128660--24128685 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
24128650 GGATGTGATA
24128660 TTATATATTTG
1 TTATATATTTG
24128671 TTATATATTTG
1 TTATATATTTG
24128682 TTAT
1 TTAT
24128686 TTTTTCCCAA
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:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (11 bp):
TTATATATTTG
Found at i:24129005 original size:21 final size:20
Alignment explanation
Indices: 24128975--24129017 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
24128965 CTCATCTCAT
*
24128975 TTTATATATGTTTTATAATA
1 TTTATATATGTTATATAATA
*
24128995 TTTATATTATGTTATATTATA
1 TTTATA-TATGTTATATAATA
24129016 TT
1 TT
24129018 ATAAGTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTATATATGTTATATAATA
Found at i:24133578 original size:61 final size:63
Alignment explanation
Indices: 24133505--24133645 Score: 169
Period size: 61 Copynumber: 2.2 Consensus size: 63
24133495 TCCAAAAATA
* * * *
24133505 ATATTATTTTAATAGTTTTAATATTTAATTTAATTTAATAATTATCT-TTTA-GATAAATATT
1 ATATTAATTTAATAGATTTAATATTAAATTTAATCTAATAATTATCTATTTACGATAAATATT
* * * *
24133566 CTATTAATTTAATGGATTTAATATTAAATTTAATCTAATATTTATCTATTTATCTCGATAAGTAT
1 ATATTAATTTAATAGATTTAATATTAAATTTAATCTAATAATTATCTATTTA---CGATAAATAT
24133631 T
63 T
24133632 ATATTAATTTAATA
1 ATATTAATTTAATA
24133646 TTAAAGTGAT
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
61 40 0.62
62 4 0.06
66 21 0.32
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (63 bp):
ATATTAATTTAATAGATTTAATATTAAATTTAATCTAATAATTATCTATTTACGATAAATATT
Found at i:24135616 original size:20 final size:20
Alignment explanation
Indices: 24135568--24135652 Score: 93
Period size: 19 Copynumber: 4.3 Consensus size: 20
24135558 CACTCTCAAT
* *
24135568 CATATAAACAGTAAATCATT
1 CATATAAACAGTAATTCATC
* *
24135588 C-GATAAACAGTAAGTCATC
1 CATATAAACAGTAATTCATC
* *
24135607 CATTTAAACAGTACTTCATC
1 CATATAAACAGTAATTCATC
*
24135627 CATAT-AATAGTAATTCATC
1 CATATAAACAGTAATTCATC
24135646 CATATAA
1 CATATAA
24135653 CACATAAATT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
19 33 0.62
20 20 0.38
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.31
Consensus pattern (20 bp):
CATATAAACAGTAATTCATC
Found at i:24138028 original size:17 final size:18
Alignment explanation
Indices: 24137997--24138030 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
24137987 ATGTGGCCTG
24137997 CCCGTGTGTGCCCACACA
1 CCCGTGTGTGCCCACACA
24138015 CCCGTGTG-GCCCACAC
1 CCCGTGTGTGCCCACAC
24138031 GGCCTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.15, C:0.47, G:0.24, T:0.15
Consensus pattern (18 bp):
CCCGTGTGTGCCCACACA
Found at i:24140423 original size:19 final size:18
Alignment explanation
Indices: 24140398--24140439 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
24140388 TAGTTTATTA
*
24140398 ATTAATTAATCCTAATTT
1 ATTAATTAATCATAATTT
24140416 ACTTAATTAATCATAATTT
1 A-TTAATTAATCATAATTT
24140435 ATTAA
1 ATTAA
24140440 CAATGGATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (18 bp):
ATTAATTAATCATAATTT
Found at i:24150065 original size:2 final size:2
Alignment explanation
Indices: 24150058--24150099 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
24150048 TAACTAGCTT
* * *
24150058 TA TA TA TA TA TA TA AA TA TA TA AA TA TA TA AA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24150100 ACACCTTCCT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:24150071 original size:8 final size:8
Alignment explanation
Indices: 24150058--24150095 Score: 67
Period size: 8 Copynumber: 4.8 Consensus size: 8
24150048 TAACTAGCTT
*
24150058 TATATATA
1 TATATAAA
24150066 TATATAAA
1 TATATAAA
24150074 TATATAAA
1 TATATAAA
24150082 TATATAAA
1 TATATAAA
24150090 TATATA
1 TATATA
24150096 TATAACACCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TATATAAA
Found at i:24157527 original size:17 final size:17
Alignment explanation
Indices: 24157505--24157546 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
24157495 TACTATAATG
*
24157505 GCAAAAGAATAAAGAGT
1 GCAAAAGAACAAAGAGT
*
24157522 GCAAAAGAACGAAGAGT
1 GCAAAAGAACAAAGAGT
*
24157539 ACAAAAGA
1 GCAAAAGA
24157547 TGGAGATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.60, C:0.10, G:0.24, T:0.07
Consensus pattern (17 bp):
GCAAAAGAACAAAGAGT
Found at i:24162342 original size:22 final size:22
Alignment explanation
Indices: 24162314--24162358 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
24162304 CCAATGATTG
24162314 ACATAATTTCACCGCTTAAAAA
1 ACATAATTTCACCGCTTAAAAA
*
24162336 ACATAATTTCACTGCTTAAAAA
1 ACATAATTTCACCGCTTAAAAA
24162358 A
1 A
24162359 ATCCTTTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.20, G:0.04, T:0.29
Consensus pattern (22 bp):
ACATAATTTCACCGCTTAAAAA
Found at i:24170839 original size:20 final size:19
Alignment explanation
Indices: 24170814--24170870 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
24170804 AATTAAATTA
24170814 AATTTAATATTAAGATAAT
1 AATTTAATATTAAGATAAT
24170833 CAATTTAATATTAA-ATTAAT
1 -AATTTAATATTAAGA-TAAT
* *
24170853 AAATTACTATTAAGATAA
1 AATTTAATATTAAGATAA
24170871 GTATTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (19 bp):
AATTTAATATTAAGATAAT
Found at i:24189139 original size:80 final size:80
Alignment explanation
Indices: 24188973--24189132 Score: 195
Period size: 79 Copynumber: 2.0 Consensus size: 80
24188963 AACCCCACAC
* * *
24188973 TTATTT-AAATCTAAGAAAAAATTAAAAAAAATTTACTATTGTATTCTAATGTATTTTTCATATT
1 TTATTTAAAATCTAAGAAAAAATTAAAAAAAATTTACGATTGTATTCTAATATATTTTACATA-T
**
24189037 AATAATATATCCTTAT
65 AATAATATATCAATAT
* * *
24189053 TTATTTAAAATCTACA-AAAAAA-TGAAAACAATTTA-GATTGTATTCTACTATATTTTACATA-
1 TTATTTAAAATCTA-AGAAAAAATTAAAAAAAATTTACGATTGTATTCTAATATATTTTACATAT
24189114 AATAATATATCAATAT
65 AATAATATATCAATAT
24189130 TTA
1 TTA
24189133 CAATTTACCA
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
77 17 0.24
79 22 0.31
80 17 0.24
81 13 0.19
82 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (80 bp):
TTATTTAAAATCTAAGAAAAAATTAAAAAAAATTTACGATTGTATTCTAATATATTTTACATATA
ATAATATATCAATAT
Found at i:24190585 original size:103 final size:104
Alignment explanation
Indices: 24190406--24190670 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
24190396 AACCGTTATT
* * * *
24190406 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
24190471 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
24190509 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
24190573 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
24190613 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
24190671 TTATGTACAA
Statistics
Matches: 149, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
102 1 0.01
103 82 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:24191032 original size:30 final size:29
Alignment explanation
Indices: 24190998--24191062 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
24190988 TAATCCACCA
24190998 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
24191028 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
24191058 CCCAA
1 CCCAA
24191063 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:24191036 original size:31 final size:30
Alignment explanation
Indices: 24191005--24191062 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
24190995 CCACCCAACT
24191005 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
24191035 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
24191063 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:24198042 original size:26 final size:26
Alignment explanation
Indices: 24198012--24198061 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
24198002 CCAATGAACT
*
24198012 GGGGAATCAGCACTTAGCAACCCCTC
1 GGGGAATCAGCACATAGCAACCCCTC
24198038 GGGGAATCAGCACATAGCAACCCC
1 GGGGAATCAGCACATAGCAACCCC
24198062 CTTTCACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.34, G:0.24, T:0.12
Consensus pattern (26 bp):
GGGGAATCAGCACATAGCAACCCCTC
Found at i:24198073 original size:103 final size:102
Alignment explanation
Indices: 24197876--24198139 Score: 404
Period size: 103 Copynumber: 2.6 Consensus size: 102
24197866 AACCGTTATT
* * * *
24197876 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCC-TCGGGGA
** *
24197941 ATCAGCACATAGCAACCCCCTTTTTATTTCAGAGATAC
65 ATCAGCACATAGCAACCCCCTTTACATTTCAAAGATAC
24197979 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGA
24198043 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 ATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATAC
* **
24198082 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
24198140 TTATGTACAA
Statistics
Matches: 148, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
102 30 0.20
103 117 0.79
104 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (102 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGAA
TCAGCACATAGCAACCCCCTTTACATTTCAAAGATAC
Found at i:24198500 original size:29 final size:29
Alignment explanation
Indices: 24198467--24198530 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
24198457 TAATCCACCA
24198467 CCCAACTTTTTGAAAAATTACAATTTTG-C
1 CCCAAC-TTTTGAAAAATTACAATTTTGTC
* * *
24198496 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGTC
24198526 CCCAA
1 CCCAA
24198531 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 23 0.77
30 7 0.23
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGTC
Found at i:24198504 original size:30 final size:30
Alignment explanation
Indices: 24198474--24198530 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
24198464 CCACCCAACT
24198474 TTTTGAAAAATTACAATTTTG-CCCCAAAC
1 TTTTGAAAAATTACAATTTTGTCCCCAAAC
* * *
24198503 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGTCCCCAA
24198531 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGTCCCCAAAC
Found at i:24201662 original size:28 final size:29
Alignment explanation
Indices: 24201630--24201728 Score: 107
Period size: 28 Copynumber: 3.5 Consensus size: 29
24201620 ATAATAAGCC
*
24201630 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
*
24201658 CGCACACTTAGTGC-TATATAATC-AACCT
1 CGCACACTTAGTGCTTACATAATCGAA-CT
* * *
24201686 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
24201715 CGCACACTTAGTGC
1 CGCACACTTAGTGC
24201729 CAATCTCATG
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
27 4 0.07
28 35 0.57
29 17 0.28
30 5 0.08
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:24204184 original size:43 final size:43
Alignment explanation
Indices: 24204137--24204276 Score: 174
Period size: 43 Copynumber: 3.3 Consensus size: 43
24204127 AATGTATTAG
*
24204137 CACTAAGTGTGCGATACAATTATAGTTTCGACTAATTAATTGA
1 CACTAAGTGTGCGATACAATTATAGCTTCGACTAATTAATTGA
* * * *
24204180 CACTAAGTGTGGGATACAATTATAGCCTCGGCTAATTAATTGG
1 CACTAAGTGTGCGATACAATTATAGCTTCGACTAATTAATTGA
* * **
24204223 CACTAAGTGCGCGAAACAATTATAGCTTC-AGCTAATTAATCAA
1 CACTAAGTGTGCGATACAATTATAGCTTCGA-CTAATTAATTGA
*
24204266 CACTAAATGTG
1 CACTAAGTGTG
24204277 TGAGTTTGTT
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
43 81 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (43 bp):
CACTAAGTGTGCGATACAATTATAGCTTCGACTAATTAATTGA
Found at i:24209700 original size:13 final size:13
Alignment explanation
Indices: 24209682--24209707 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24209672 GCTCGGTAGG
24209682 GACACGCTTGTGT
1 GACACGCTTGTGT
24209695 GACACGCTTGTGT
1 GACACGCTTGTGT
24209708 ACGATTGCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (13 bp):
GACACGCTTGTGT
Found at i:24224170 original size:43 final size:43
Alignment explanation
Indices: 24223996--24224168 Score: 138
Period size: 43 Copynumber: 4.0 Consensus size: 43
24223986 ACATAGGATT
* * *
24223996 TCGATATTTGATTTCGTGTACAACCACGTCTGGGACGTTGGCA
1 TCGATATTTGATTACATGTAAAACCACGTCTGGGACGTTGGCA
* * * * *
24224039 TCGAT-TTGAGATTTACATGTAAGACCATGTCTGGGACATCGGCA
1 TCGATATT-TGA-TTACATGTAAAACCACGTCTGGGACGTTGGCA
* *** * * *
24224083 TCG-TATGTGATTTTGTGTAAGACC-CTATCTTGGACAG-TGGCA
1 TCGATATTTGATTACATGTAAAACCAC-GTCTGGGAC-GTTGGCA
*
24224125 TTGATATTTGATTACATGTAAAACCACGTCTGGGACGTTGGCA
1 TCGATATTTGATTACATGTAAAACCACGTCTGGGACGTTGGCA
24224168 T
1 T
24224169 TGTACAAGCT
Statistics
Matches: 96, Mismatches: 26, Indels: 16
0.70 0.19 0.12
Matches are distributed among these distances:
42 27 0.28
43 39 0.41
44 30 0.31
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
TCGATATTTGATTACATGTAAAACCACGTCTGGGACGTTGGCA
Found at i:24227156 original size:18 final size:19
Alignment explanation
Indices: 24227122--24227160 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
24227112 GATAAACTCA
*
24227122 TTATTATGTATGTAAGACT
1 TTATTATCTATGTAAGACT
24227141 TTATTATCTA-GTAAGACT
1 TTATTATCTATGTAAGACT
24227159 TT
1 TT
24227161 TCCTGTAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.49
Consensus pattern (19 bp):
TTATTATCTATGTAAGACT
Found at i:24242856 original size:13 final size:12
Alignment explanation
Indices: 24242838--24242903 Score: 53
Period size: 13 Copynumber: 5.2 Consensus size: 12
24242828 ACCCTAATTT
24242838 TTTCTCCTTTTTC
1 TTTCT-CTTTTTC
*
24242851 TTTCTCTTTTCTT
1 TTTCTCTTTT-TC
*
24242864 TTTGTCTTTTTC
1 TTTCTCTTTTTC
*
24242876 -TTCTCTGTTTC
1 TTTCTCTTTTTC
*
24242887 GTTCTACTTTGTTC
1 TTTCT-CTTT-TTC
24242901 TTT
1 TTT
24242904 TTTTCTATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
11 9 0.21
12 10 0.24
13 18 0.43
14 5 0.12
ACGTcount: A:0.02, C:0.23, G:0.06, T:0.70
Consensus pattern (12 bp):
TTTCTCTTTTTC
Found at i:24242918 original size:4 final size:4
Alignment explanation
Indices: 24242909--24242936 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
24242899 TCTTTTTTTC
24242909 TATT TATT TATT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT
24242937 ATAATAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:24242953 original size:5 final size:5
Alignment explanation
Indices: 24242936--24242965 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
24242926 ATTTATTTAT
24242936 TATAA TAATAA TATAA TATAA TATAA TATA
1 TATAA T-ATAA TATAA TATAA TATAA TATA
24242966 TATTCTTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:24253729 original size:54 final size:54
Alignment explanation
Indices: 24253666--24253772 Score: 178
Period size: 54 Copynumber: 2.0 Consensus size: 54
24253656 AACTTGAACA
*
24253666 GCTCAAGTTATCGATTGTGCTAAATTCAAGTATCCTAATACTTACCTTTGAGCT
1 GCTCAAGTTATCAATTGTGCTAAATTCAAGTATCCTAATACTTACCTTTGAGCT
* **
24253720 GCTCAAGTTATCAATTTTGCTAAATTTGAGTATCCTAATACTTACCTTTGAGC
1 GCTCAAGTTATCAATTGTGCTAAATTCAAGTATCCTAATACTTACCTTTGAGC
24253773 AGTTCACGAG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (54 bp):
GCTCAAGTTATCAATTGTGCTAAATTCAAGTATCCTAATACTTACCTTTGAGCT
Found at i:24256335 original size:25 final size:25
Alignment explanation
Indices: 24256283--24256335 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
24256273 ATAAAATAAC
* * * *
24256283 TTAAATACTAAAATGGATAGAAAAA
1 TTAAATACCAAAATGAAAACAAAAA
*
24256308 TTAAATACCAAAATGAAAACAAATA
1 TTAAATACCAAAATGAAAACAAAAA
24256333 TTA
1 TTA
24256336 TTCAATGGCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.25
Consensus pattern (25 bp):
TTAAATACCAAAATGAAAACAAAAA
Found at i:24259243 original size:34 final size:34
Alignment explanation
Indices: 24259203--24259270 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
24259193 AGGAGGAAGT
24259203 TAGTTTCAAAGACTTTTTACATTCATAAAGGAGA
1 TAGTTTCAAAGACTTTTTACATTCATAAAGGAGA
24259237 TAGTTTCAAAGACTTTTTACATTCATAAAGGAGA
1 TAGTTTCAAAGACTTTTTACATTCATAAAGGAGA
24259271 AATCAACTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (34 bp):
TAGTTTCAAAGACTTTTTACATTCATAAAGGAGA
Found at i:24260018 original size:210 final size:210
Alignment explanation
Indices: 24259462--24260086 Score: 934
Period size: 212 Copynumber: 3.0 Consensus size: 210
24259452 ATGAAAAACT
*
24259462 TAGAAAGGTTTAGCATATCAGTGTTGGACAAATGTCAGCATCCAAGATTGACTTGAGCCTGGGTA
1 TAGAAAGGTTTAGCATATCAGTGTTGGACAAATGTCAGCATCCAAGA-TCACTTGAGCCTGGGTA
* * *
24259527 ACATACCTCATACTGAATGAAGTAAAGAAAA-AAATTTGAAAAAACCACATTCAATGGGAAATAA
65 ACATAGCTCATACCGAATGAAGTAATGAAAACAAA-TTGAAAAAACCACATTCAATGGGAAATAA
*
24259591 AGTACATGAAAGAATTGAAGATGATTCTTTTTGCAATC-TTGGATTCAACCCAAGCAGTGAAGCA
129 AGTACATGAAAGAATTGAAGATCATTCTTTTTGCAA-CATTGGATTCAACCCAAGCAGTGAAGCA
24259655 AACAAATAAAAGATTCACC
193 AACAAAT-AAAGATTCACC
* *
24259674 TAGAAAGGTTTAGCATACCAGTGTTGGACAAAAGTCAGCATCCAAGAGTCACTTGAGCCTGGGTA
1 TAGAAAGGTTTAGCATATCAGTGTTGGACAAATGTCAGCATCCAAGA-TCACTTGAGCCTGGGTA
* * * *
24259739 ACATAGCTCATATCAAATGAAGTAATGAAAACAAACTGAAAAAACCACATTCAATGGGAAATGAA
65 ACATAGCTCATACCGAATGAAGTAATGAAAACAAATTGAAAAAACCACATTCAATGGGAAATAAA
* * *
24259804 GTACATGAGAGAACTGAAGATCATTCTTTTTGCAACATTGGATTCAACCCAAGCAGTGACGCAAA
130 GTACATGAAAGAATTGAAGATCATTCTTTTTGCAACATTGGATTCAACCCAAGCAGTGAAGCAAA
*
24259869 CAAATAAAGATTCACTT
195 CAAATAAAGATTCAC-C
* * * *
24259886 TA-AAAGGTTTAGCATATCAATGTTAGACAAATGTCAGCAACCAAGATCCAC-CGAGCCTGGGTA
1 TAGAAAGGTTTAGCATATCAGTGTTGGACAAATGTCAGCATCCAAGAT-CACTTGAGCCTGGGTA
* * *
24259949 ACATAGCTCATACCGAATGATGCAATGAAAACAAATTGAAAAAGCCACATTCAATGGGAAATAAA
65 ACATAGCTCATACCGAATGAAGTAATGAAAACAAATTGAAAAAACCACATTCAATGGGAAATAAA
* * *
24260014 GTACATGAAAGGATTGAATATCATCCTTTTTGCAACATTGGATTCAACCCAAGCAGTGAAGCAAA
130 GTACATGAAAGAATTGAAGATCATTCTTTTTGCAACATTGGATTCAACCCAAGCAGTGAAGCAAA
24260079 CAAATAAA
195 CAAATAAA
24260087 AGCTTCTCAT
Statistics
Matches: 374, Mismatches: 35, Indels: 10
0.89 0.08 0.02
Matches are distributed among these distances:
210 137 0.37
211 53 0.14
212 181 0.48
213 3 0.01
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.23
Consensus pattern (210 bp):
TAGAAAGGTTTAGCATATCAGTGTTGGACAAATGTCAGCATCCAAGATCACTTGAGCCTGGGTAA
CATAGCTCATACCGAATGAAGTAATGAAAACAAATTGAAAAAACCACATTCAATGGGAAATAAAG
TACATGAAAGAATTGAAGATCATTCTTTTTGCAACATTGGATTCAACCCAAGCAGTGAAGCAAAC
AAATAAAGATTCACC
Found at i:24263433 original size:43 final size:43
Alignment explanation
Indices: 24263372--24263456 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
24263362 TTACTAAAAT
*
24263372 TAGGATTTAGTCCTAAAACTTTGCTTTAAATAATTAATTAAAC
1 TAGGATTTAGTCCTAAAACTTTGCTTTAAATAAATAATTAAAC
24263415 TAGGATTTAGTCCTAAAACTTTGCTTTAAATAAATAATTAAA
1 TAGGATTTAGTCCTAAAACTTTGCTTTAAATAAATAATTAAA
24263457 GTATTAAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (43 bp):
TAGGATTTAGTCCTAAAACTTTGCTTTAAATAAATAATTAAAC
Found at i:24271357 original size:18 final size:20
Alignment explanation
Indices: 24271336--24271375 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
24271326 ATTAATTACC
24271336 AAAAAT-AG-CTTAATGGAT
1 AAAAATAAGCCTTAATGGAT
*
24271354 AAAAATAAGCCTTATTGGAT
1 AAAAATAAGCCTTAATGGAT
24271374 AA
1 AA
24271376 GGCAATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 2 0.11
20 11 0.58
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.28
Consensus pattern (20 bp):
AAAAATAAGCCTTAATGGAT
Found at i:24275147 original size:27 final size:27
Alignment explanation
Indices: 24275117--24275170 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
24275107 ATACGGAAGT
*
24275117 GTTCGACGATGAAATCGACAAGCGAAA
1 GTTCGACGATGAAATCAACAAGCGAAA
24275144 GTTCGACGATGAAATCAACAAGCGAAA
1 GTTCGACGATGAAATCAACAAGCGAAA
24275171 CTTTCCGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.15
Consensus pattern (27 bp):
GTTCGACGATGAAATCAACAAGCGAAA
Found at i:24275333 original size:47 final size:47
Alignment explanation
Indices: 24275272--24275401 Score: 179
Period size: 47 Copynumber: 2.8 Consensus size: 47
24275262 ATGCGAATAA
* * * * *
24275272 TACCTTGATTTGGCTACGGCCCATGATATAGGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTCGAGAGAAGT
* * *
24275319 TACCTTGATTTGGCTACGGGCCATGGTATAGGTGCTTCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTCGAGAGAAGT
*
24275366 TACCTTGATTTGCCTACGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
24275402 ATCAATTGCG
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTCGAGAGAAGT
Found at i:24281988 original size:34 final size:33
Alignment explanation
Indices: 24281935--24281999 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
24281925 GTAGCAGTAA
*
24281935 CAGTCTGGGCCTGATCCCATTACAGTATCAGTGG
1 CAGTCTGGGCCTGAGCCCATTACAGTA-CAGTGG
* * *
24281969 CAGTCTGGGCTTTAGCCCATTTCAGTACAGT
1 CAGTCTGGGCCTGAGCCCATTACAGTACAGT
24282000 ATGCAAACAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 4 0.15
34 23 0.85
ACGTcount: A:0.20, C:0.26, G:0.25, T:0.29
Consensus pattern (33 bp):
CAGTCTGGGCCTGAGCCCATTACAGTACAGTGG
Found at i:24286649 original size:17 final size:17
Alignment explanation
Indices: 24286617--24286651 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
24286607 TAAAAAAAAA
24286617 TTTATCATATATTTTAT
1 TTTATCATATATTTTAT
24286634 TTTAT-ATATATATTTAT
1 TTTATCATATAT-TTTAT
24286651 T
1 T
24286652 CTTTTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTATCATATATTTTAT
Found at i:24286671 original size:7 final size:7
Alignment explanation
Indices: 24286659--24286878 Score: 74
Period size: 7 Copynumber: 31.3 Consensus size: 7
24286649 ATTCTTTTTT
*
24286659 TTATATG
1 TTATATA
24286666 TTATATA
1 TTATATA
24286673 TTATATA
1 TTATATA
* *
24286680 CTATTTA
1 TTATATA
*
24286687 -TGT-TA
1 TTATATA
24286692 TTATAT-
1 TTATATA
*
24286698 TTTTATA
1 TTATATA
*
24286705 TGTAGAATA
1 T-TA-TATA
24286714 CTTAT-TA
1 -TTATATA
24286721 TTAT-TA
1 TTATATA
24286727 TTAT-TA
1 TTATATA
24286733 TTAT-TA
1 TTATATA
24286739 TTAT-T-
1 TTATATA
24286744 TTATATA
1 TTATATA
24286751 TCCCTTATTATA
1 ----TTA-TATA
24286763 TTATAT-
1 TTATATA
24286769 TTCATTATA
1 TT-A-TATA
*
24286778 TTCTAT-
1 TTATATA
24286784 TTATATA
1 TTATATA
*
24286791 -TATTTA
1 TTATATA
*
24286797 TTACATA
1 TTATATA
*
24286804 TTATATT
1 TTATATA
24286811 TTACTATA
1 TTA-TATA
24286819 -TATCATA
1 TTAT-ATA
* *
24286826 ATAT-TT
1 TTATATA
*
24286832 TTTTATA
1 TTATATA
24286839 TTATTATA
1 TTA-TATA
24286847 TTATTATA
1 TTA-TATA
24286855 TTATATAA
1 TTATAT-A
24286863 TT-TATA
1 TTATATA
24286869 TTATTATA
1 TTA-TATA
24286877 TT
1 TT
24286879 TTTATTTGTA
Statistics
Matches: 165, Mismatches: 22, Indels: 51
0.69 0.09 0.21
Matches are distributed among these distances:
5 6 0.04
6 52 0.32
7 55 0.33
8 37 0.22
9 7 0.04
10 1 0.01
11 3 0.02
12 4 0.02
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.60
Consensus pattern (7 bp):
TTATATA
Found at i:24286761 original size:3 final size:3
Alignment explanation
Indices: 24286715--24286747 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
24286705 TGTAGAATAC
24286715 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
24286748 ATATCCCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:24286830 original size:51 final size:51
Alignment explanation
Indices: 24286764--24286860 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
24286754 CTTATTATAT
* *
24286764 TATATTTCATTATATTCTATTTATATATATT-TATTA-CATATTATATTTTAC
1 TATATATCATAATATT-TATTTATAT-TATTATATTATCATATTATATTTTAC
* *
24286815 TATATATCATAATATTTTTTTATATTATTATATTATTATATTATAT
1 TATATATCATAATATTTATTTATATTATTATATTATCATATTATAT
24286861 AATTTATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
49 4 0.10
50 13 0.32
51 23 0.57
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (51 bp):
TATATATCATAATATTTATTTATATTATTATATTATCATATTATATTTTAC
Found at i:24286878 original size:5 final size:5
Alignment explanation
Indices: 24286756--24286872 Score: 66
Period size: 5 Copynumber: 23.2 Consensus size: 5
24286746 ATATATCCCT
*
24286756 TATTA TATTA TATT- TCATTA TATTC TATT- TATATA TATT- TATTACA
1 TATTA TATTA TATTA T-ATTA TATTA TATTA TAT-TA TATTA TATT--A
* * * * *
24286802 TATTA TATTT TACTA TA-TA TCATAA TATTT TTTTA TATTA T-TATA TTATTA
1 TATTA TATTA TATTA TATTA T-ATTA TATTA TATTA TATTA TAT-TA -TATTA
*
24286853 TATTA TATAA T-TTA TATTA T
1 TATTA TATTA TATTA TATTA T
24286873 TATATTTTTA
Statistics
Matches: 87, Mismatches: 12, Indels: 26
0.70 0.10 0.21
Matches are distributed among these distances:
4 15 0.17
5 58 0.67
6 9 0.10
7 5 0.06
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:24289202 original size:47 final size:47
Alignment explanation
Indices: 24289124--24289674 Score: 832
Period size: 47 Copynumber: 11.6 Consensus size: 47
24289114 CCCTTCAGGA
* * * * *
24289124 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24289171 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24289218 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24289265 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24289312 CTTATCACATATATATACACTTTCCCATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
24289361 CTTATCACATATATATACACTTTCGCATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24289410 CTTATCACATATATACACTTTCGCATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24289457 CTTATCCCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24289504 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24289551 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24289600 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
24289649 TTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
24289675 CACAATTATC
Statistics
Matches: 471, Mismatches: 29, Indels: 8
0.93 0.06 0.02
Matches are distributed among these distances:
47 286 0.61
49 185 0.39
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24289441 original size:25 final size:25
Alignment explanation
Indices: 24289371--24289444 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 25
24289361 CTTATCACAT
24289371 ATATATACACTTTCGCATTCATCAC
1 ATATATACACTTTCGCATTCATCAC
** * *
24289396 AT-T-GGC-CATTCGGCCTT-ATCAC
1 ATATATACACTTTC-GCATTCATCAC
24289418 ATATATACACTTTCGCATTCATCAC
1 ATATATACACTTTCGCATTCATCAC
24289443 AT
1 AT
24289445 CGGCTATTAG
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
22 11 0.31
23 6 0.17
24 6 0.17
25 13 0.36
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.35
Consensus pattern (25 bp):
ATATATACACTTTCGCATTCATCAC
Found at i:24289554 original size:239 final size:239
Alignment explanation
Indices: 24289124--24289674 Score: 953
Period size: 239 Copynumber: 2.3 Consensus size: 239
24289114 CCCTTCAGGA
* * * *
24289124 CTTATCACAT-T-TATACACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
24289187 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
*
24289252 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
* *
24289317 CACATATATATACACTTTCCCATTCATCACATCGGCCATTCGGC
196 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24289361 CTTATCACATATATATACACTTTCGCATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* * * *
24289426 ACTTTCGCATTCATCACATCGGCTATTAGGCCTTATCCCATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
24289491 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
24289556 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24289600 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCTTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
24289665 ACATTCACAT
66 ACTTTCACAT
24289675 CACAATTATC
Statistics
Matches: 295, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
237 10 0.03
238 1 0.00
239 284 0.96
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (239 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24296078 original size:26 final size:26
Alignment explanation
Indices: 24296047--24296154 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
24296037 TGAAATGCCC
24296047 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
24296073 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
24296099 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
24296125 ATCATGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
24296151 ATCA
1 ATCA
24296155 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 2 0.03
26 74 0.97
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:24303135 original size:26 final size:26
Alignment explanation
Indices: 24303104--24303211 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
24303094 TGAAATGCCC
*
24303104 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
24303130 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
24303156 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
24303182 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
24303208 ATCA
1 ATCA
24303212 ATTTGTATCA
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:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:24329857 original size:20 final size:20
Alignment explanation
Indices: 24329832--24329878 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
24329822 TTTATAATAT
*
24329832 TTCATTGATTTTGCCAATTA
1 TTCATTGATTTGGCCAATTA
24329852 TTCATTGATTTGGCCAATTA
1 TTCATTGATTTGGCCAATTA
*
24329872 ATCATTG
1 TTCATTG
24329879 TATGAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.47
Consensus pattern (20 bp):
TTCATTGATTTGGCCAATTA
Found at i:24336730 original size:27 final size:27
Alignment explanation
Indices: 24336700--24336753 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
24336690 ATATATAATT
24336700 ATTA-TAAAATAGTTAAATTGTACTTAA
1 ATTATTAAAAT-GTTAAATTGTACTTAA
* * *
24336727 ATTATTAACATGTTTAATTTTACTTAA
1 ATTATTAAAATGTTAAATTGTACTTAA
24336754 TTTTATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (27 bp):
ATTATTAAAATGTTAAATTGTACTTAA
Found at i:24348004 original size:21 final size:20
Alignment explanation
Indices: 24347965--24348004 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
24347955 CTAGTATATA
*
24347965 TTTTTTATTTTAATAATAAT
1 TTTTTTATTTTAAGAATAAT
24347985 TTTTTTATTTTAAGATATAA
1 TTTTTTATTTTAAGA-ATAA
24348005 AAGTGAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTTTTATTTTAAGAATAAT
Found at i:24351789 original size:23 final size:24
Alignment explanation
Indices: 24351763--24351809 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
24351753 ATGATTTATA
*
24351763 CTATGA-TTAATTGTTTTAAAATG
1 CTATGAGTTAATGGTTTTAAAATG
24351786 CTATGATGTTAATGGTTTTAAAAT
1 CTATGA-GTTAATGGTTTTAAAAT
24351810 TGTACGGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
25 15 0.71
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
CTATGAGTTAATGGTTTTAAAATG
Found at i:24352755 original size:16 final size:16
Alignment explanation
Indices: 24352734--24352774 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
24352724 GACACAAATT
24352734 AGAAAGAAAGAAAAAG
1 AGAAAGAAAGAAAAAG
**
24352750 AGAAAGAAAGAAAGGG
1 AGAAAGAAAGAAAAAG
24352766 AGAAAGAAA
1 AGAAAGAAA
24352775 AAACCCACAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (16 bp):
AGAAAGAAAGAAAAAG
Done.