Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 147 of 222
Found at i:47459888 original size:25 final size:25
Alignment explanation
Indices: 47459853--47460019 Score: 147
Period size: 25 Copynumber: 6.7 Consensus size: 25
47459843 CACACCGTAA
*
47459853 CTCTCAGGAGCTTCCCGATATTTAG
1 CTCTCATGAGCTTCCCGATATTTAG
* * * *
47459878 CTCTTATGAGCATCCCGATATGTGG
1 CTCTCATGAGCTTCCCGATATTTAG
* * *
47459903 CTCTCACGAGCTTCCTGATATTTGG
1 CTCTCATGAGCTTCCCGATATTTAG
* *
47459928 CTCTCATGAGCTTCCCGAT-TAATGG
1 CTCTCATGAGCTTCCCGATAT-TTAG
** *
47459953 CTCTTTTGAGCTTCCCGATAATTAG
1 CTCTCATGAGCTTCCCGATATTTAG
* * * **
47459978 CTCACATGAGCTTTCCGTTATACAG
1 CTCTCATGAGCTTCCCGATATTTAG
*
47460003 CTCACATGAGCTTCCCG
1 CTCTCATGAGCTTCCCG
47460020 TTATATGGCT
Statistics
Matches: 113, Mismatches: 27, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
24 1 0.01
25 112 0.99
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (25 bp):
CTCTCATGAGCTTCCCGATATTTAG
Found at i:47459954 original size:50 final size:50
Alignment explanation
Indices: 47459853--47460019 Score: 165
Period size: 50 Copynumber: 3.3 Consensus size: 50
47459843 CACACCGTAA
* * * *
47459853 CTCTCAGGAGCTTCCCGATATTTAGCTCTTATGAGCATCCCGATATGTGG
1 CTCTCACGAGCTTCCCGATATTTAGCTCTCATGAGCTTCCCGATATATGG
* *
47459903 CTCTCACGAGCTTCCTGATATTTGGCTCTCATGAGCTTCCCGAT-TAATGG
1 CTCTCACGAGCTTCCCGATATTTAGCTCTCATGAGCTTCCCGATAT-ATGG
*** * * * * **
47459953 CTCTTTTGAGCTTCCCGATAATTAGCTCACATGAGCTTTCCGTTATACAG
1 CTCTCACGAGCTTCCCGATATTTAGCTCTCATGAGCTTCCCGATATATGG
* *
47460003 CTCACATGAGCTTCCCG
1 CTCTCACGAGCTTCCCG
47460020 TTATATGGCT
Statistics
Matches: 95, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
49 1 0.01
50 93 0.98
51 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (50 bp):
CTCTCACGAGCTTCCCGATATTTAGCTCTCATGAGCTTCCCGATATATGG
Found at i:47459989 original size:75 final size:76
Alignment explanation
Indices: 47459853--47460030 Score: 186
Period size: 75 Copynumber: 2.4 Consensus size: 76
47459843 CACACCGTAA
* * * * *
47459853 CTCTCAGGAGCTTCCCGA-TATTTAGCTCTTATGAGCATCCCGATATGTGGCTCTCACGAGC-TT
1 CTCTCATGAGCTTCCCGATTATATGGCTCTTATGAGCATCCCGATATGTAGCTCACACGAGCTTT
***
47459916 CCTGATATTTGG
66 CC-GATATACAG
* * *
47459928 CTCTCATGAGCTTCCCGATTA-ATGGCTCTTTTGAGCTTCCCGATAAT-TAGCTCACATGAGCTT
1 CTCTCATGAGCTTCCCGATTATATGGCTCTTATGAGCATCCCGAT-ATGTAGCTCACACGAGCTT
*
47459991 TCCGTTATACAG
65 TCCGATATACAG
*
47460003 CTCACATGAGCTTCCCG-TTATATGGCTC
1 CTCTCATGAGCTTCCCGATTATATGGCTC
47460031 GAAAGAGCTT
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
74 3 0.03
75 75 0.87
76 8 0.09
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.34
Consensus pattern (76 bp):
CTCTCATGAGCTTCCCGATTATATGGCTCTTATGAGCATCCCGATATGTAGCTCACACGAGCTTT
CCGATATACAG
Found at i:47460020 original size:25 final size:25
Alignment explanation
Indices: 47459959--47460055 Score: 92
Period size: 25 Copynumber: 3.9 Consensus size: 25
47459949 ATGGCTCTTT
* *
47459959 TGAGCTTCCCGATA-ATTAGCTCACA
1 TGAGCTTCCCGTTATA-CAGCTCACA
*
47459984 TGAGCTTTCCGTTATACAGCTCACA
1 TGAGCTTCCCGTTATACAGCTCACA
**
47460009 TGAGCTTCCCGTTATATGGCTCGA-A
1 TGAGCTTCCCGTTATACAGCTC-ACA
*
47460034 AGAGCTTCCCGTT-TACATGCTC
1 TGAGCTTCCCGTTATACA-GCTC
47460056 GTATGAGCAT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
24 2 0.03
25 56 0.93
26 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.31
Consensus pattern (25 bp):
TGAGCTTCCCGTTATACAGCTCACA
Found at i:47464548 original size:19 final size:20
Alignment explanation
Indices: 47464527--47464564 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
47464517 TTTTTCAATT
47464527 TTTTTA-AAAAAA-TTAAAA
1 TTTTTAGAAAAAATTTAAAA
47464545 TTTTTAGAAAAAATTTAAAA
1 TTTTTAGAAAAAATTTAAAA
47464565 AATTTTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 6 0.33
20 6 0.33
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (20 bp):
TTTTTAGAAAAAATTTAAAA
Found at i:47464578 original size:22 final size:24
Alignment explanation
Indices: 47464554--47464597 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 24
47464544 ATTTTTAGAA
47464554 AAAATTT-AAAAA-ATTT-TATTC
1 AAAATTTGAAAAACATTTATATTC
47464575 AAAATTTGAAAAACATTTATATT
1 AAAATTTGAAAAACATTTATATT
47464598 TTTAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
22 5 0.25
23 4 0.20
24 4 0.20
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (24 bp):
AAAATTTGAAAAACATTTATATTC
Found at i:47464944 original size:33 final size:34
Alignment explanation
Indices: 47464907--47464973 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
47464897 AAATAAATTC
* *
47464907 AATTCTTTTT-ATATCAAGTAAATATAATTATTT
1 AATTCTTTTTCACATCAAATAAATATAATTATTT
*
47464940 AATTCTTTTTCACATTAAATAAATATAATTATTT
1 AATTCTTTTTCACATCAAATAAATATAATTATTT
47464974 TTGTATACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 10 0.33
34 20 0.67
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.51
Consensus pattern (34 bp):
AATTCTTTTTCACATCAAATAAATATAATTATTT
Found at i:47469961 original size:47 final size:47
Alignment explanation
Indices: 47469907--47470000 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
47469897 GAATTTTATG
*
47469907 AGTGCAGAATTTACATCATAAAATCATGTTAATAAAATTTAAGTATA
1 AGTGCAGAATTTACATCATAAAATCATGTTAACAAAATTTAAGTATA
*
47469954 AGTGCAGAATTTACATTATAAAATCATGTTAACAAAATTTAAGTATA
1 AGTGCAGAATTTACATCATAAAATCATGTTAACAAAATTTAAGTATA
47470001 GAATATAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.34
Consensus pattern (47 bp):
AGTGCAGAATTTACATCATAAAATCATGTTAACAAAATTTAAGTATA
Found at i:47470907 original size:16 final size:15
Alignment explanation
Indices: 47470865--47470913 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
47470855 CATGCATTAT
* *
47470865 AAAAGAAGAAAAGAA
1 AAAAAAAGAAAATAA
*
47470880 AAATAAAGGAAAATAA
1 AAA-AAAAGAAAATAA
47470896 AGAAAAAAGAAAATAA
1 A-AAAAAAGAAAATAA
47470912 AA
1 AA
47470914 GAATTAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 4 0.14
16 22 0.79
17 2 0.07
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (15 bp):
AAAAAAAGAAAATAA
Found at i:47478649 original size:34 final size:33
Alignment explanation
Indices: 47478593--47478715 Score: 120
Period size: 34 Copynumber: 3.6 Consensus size: 33
47478583 TCTGATATGG
* * *
47478593 TATGGCATTCTGATATGATATATGTTTTTGAAAA
1 TATGACATTCTAATCTGATATATGTTTTTG-AAA
* * *
47478627 TATGATATTCTAATCTGGTATATGTTTCTCGAAA
1 TATGACATTCTAATCTGATATATGTTT-TTGAAA
* * *
47478661 TATGACATTCTGATTTGATATATGTTTTTGGTAA
1 TATGACATTCTAATCTGATATATGTTTTT-GAAA
* *
47478695 TATGACATTCTGATATGATAT
1 TATGACATTCTAATCTGATAT
47478716 TTGTATATGT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
33 1 0.01
34 71 0.96
35 2 0.03
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (33 bp):
TATGACATTCTAATCTGATATATGTTTTTGAAA
Found at i:47480580 original size:17 final size:19
Alignment explanation
Indices: 47480553--47480592 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
47480543 ATTTCATGTA
47480553 TTTTATAATATTTTA-AAT
1 TTTTATAATATTTTAGAAT
47480571 TTTTAT-ATATTTTAGAAT
1 TTTTATAATATTTTAGAAT
47480589 TTTT
1 TTTT
47480593 CGTGAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTATAATATTTTAGAAT
Found at i:47483694 original size:17 final size:17
Alignment explanation
Indices: 47483672--47483722 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
47483662 ATGTAGTCAT
*
47483672 TTGAAAAACTTTCAAAA
1 TTGAAAAACTTTAAAAA
* *
47483689 TTGAAATATTTTAAAAA
1 TTGAAAAACTTTAAAAA
*
47483706 TT-AAAAATGTTTAAAAA
1 TTGAAAAA-CTTTAAAAA
47483723 CTATTTAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
16 4 0.14
17 24 0.86
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (17 bp):
TTGAAAAACTTTAAAAA
Found at i:47483905 original size:41 final size:41
Alignment explanation
Indices: 47483859--47483952 Score: 95
Period size: 41 Copynumber: 2.3 Consensus size: 41
47483849 AAATTTTTTA
47483859 AAATTATTTAAATAATTAAAAGTAAT-TT-TTATTTATTATTT
1 AAATTATTTAAATAATTAAAA-TAATATTATT-TTTATTATTT
* ** *
47483900 AAATTA-ATATTTAATTGAAATAATATTAGTTTTTATTATTT
1 AAATTATTTAAATAATTAAAATAATATTA-TTTTTATTATTT
*
47483941 AAATAATTTAAA
1 AAATTATTTAAA
47483953 AAAACTGATT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
39 4 0.10
40 12 0.29
41 21 0.51
42 4 0.10
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (41 bp):
AAATTATTTAAATAATTAAAATAATATTATTTTTATTATTT
Found at i:47487971 original size:11 final size:11
Alignment explanation
Indices: 47487957--47487986 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
47487947 GCGGCGATAA
47487957 GGCGGAGCTAC
1 GGCGGAGCTAC
*
47487968 GGCGGAGCTGC
1 GGCGGAGCTAC
47487979 GGCGGAGC
1 GGCGGAGC
47487987 CACCGTGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.13, C:0.27, G:0.53, T:0.07
Consensus pattern (11 bp):
GGCGGAGCTAC
Found at i:47488589 original size:27 final size:29
Alignment explanation
Indices: 47488558--47488627 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 29
47488548 AAATTTTGTT
*
47488558 ATATATATACATTCATAC-A-TTTTTATA
1 ATATATATACATACATACAATTTTTTATA
* *
47488585 ATATATATATACACATACATATTTTTTATA
1 ATATATATACATACATACA-ATTTTTTATA
47488615 ATATATATACATA
1 ATATATATACATA
47488628 TGCCTACTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 15 0.43
29 1 0.03
30 19 0.54
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (29 bp):
ATATATATACATACATACAATTTTTTATA
Found at i:47490000 original size:49 final size:49
Alignment explanation
Indices: 47489947--47490045 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
47489937 TAAATGTACG
47489947 ATCCTTTCGTTGCATTTTGTCCTTTATTTTTGTGATCTTTAATATGTTT
1 ATCCTTTCGTTGCATTTTGTCCTTTATTTTTGTGATCTTTAATATGTTT
47489996 ATCCTTTCGTTGCATTTTGTCCTTTATTTTTGTGATCTTTAATATGTTT
1 ATCCTTTCGTTGCATTTTGTCCTTTATTTTTGTGATCTTTAATATGTTT
47490045 A
1 A
47490046 CTTTTTTGGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.15, C:0.14, G:0.12, T:0.59
Consensus pattern (49 bp):
ATCCTTTCGTTGCATTTTGTCCTTTATTTTTGTGATCTTTAATATGTTT
Found at i:47491026 original size:24 final size:25
Alignment explanation
Indices: 47490981--47491034 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
47490971 TCTTTTTGCA
*
47490981 TTCATTCCATGCATCTGCATTACAT
1 TTCATTCCATGCATCTGCATTAAAT
* * *
47491006 TTCATTGCAT-CATTTGTATTAAAT
1 TTCATTCCATGCATCTGCATTAAAT
47491030 TTCAT
1 TTCAT
47491035 GAAAGAGCCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.26, C:0.20, G:0.07, T:0.46
Consensus pattern (25 bp):
TTCATTCCATGCATCTGCATTAAAT
Found at i:47493770 original size:6 final size:7
Alignment explanation
Indices: 47493753--47493802 Score: 57
Period size: 7 Copynumber: 6.9 Consensus size: 7
47493743 AAAAAAGAGA
47493753 AAAAAAT
1 AAAAAAT
47493760 AAAAAAT
1 AAAAAAT
47493767 AAAAGAA-
1 AAAA-AAT
47493774 AAAGAAAT
1 AAA-AAAT
47493782 AAGAAAAT
1 AA-AAAAT
*
47493790 AAAAAAC
1 AAAAAAT
47493797 AAAAAA
1 AAAAAA
47493803 AACCTCTACT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
7 26 0.68
8 11 0.29
9 1 0.03
ACGTcount: A:0.84, C:0.02, G:0.06, T:0.08
Consensus pattern (7 bp):
AAAAAAT
Found at i:47494261 original size:6 final size:6
Alignment explanation
Indices: 47494250--47494294 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 6
47494240 AAAAAGGAAC
*
47494250 AAAAAG AAAAAG AAAAAG -AAAAG -AAAAG AAGAACG AAAAA- AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AA-AAAG AAAAAG AAAAA
47494295 TGAGAGTCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
5 15 0.43
6 15 0.43
7 5 0.14
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:47494265 original size:12 final size:12
Alignment explanation
Indices: 47494250--47494294 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
47494240 AAAAAGGAAC
47494250 AAAAAGAAAAAG
1 AAAAAGAAAAAG
47494262 AAAAAG-AAAAG
1 AAAAAGAAAAAG
*
47494273 -AAAAGAAGAACG
1 AAAAAGAA-AAAG
47494285 AAAAA-AAAAA
1 AAAAAGAAAAA
47494295 TGAGAGTCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
10 5 0.18
11 8 0.29
12 11 0.39
13 4 0.14
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAG
Found at i:47494271 original size:17 final size:18
Alignment explanation
Indices: 47494251--47494293 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
47494241 AAAAGGAACA
47494251 AAAAGAAAAAGAA-AAAG
1 AAAAGAAAAAGAAGAAAG
*
47494268 AAAAG-AAAAGAAGAACG
1 AAAAGAAAAAGAAGAAAG
47494285 AAAA-AAAAA
1 AAAAGAAAAA
47494294 ATGAGAGTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAGAAGAAAG
Found at i:47495518 original size:45 final size:45
Alignment explanation
Indices: 47495467--47495788 Score: 411
Period size: 45 Copynumber: 7.2 Consensus size: 45
47495457 GTGGAGTAAG
* *
47495467 TCGAAGATTGCAAGTCTTATCTTCCTGTATTGGCAGCGAAGTAGA
1 TCGAAGATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGA
* *
47495512 TCGAAGATAGCAGGTCTTGTCTTCCTGTATTGGCAGCGAAATAGA
1 TCGAAGATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGA
* *
47495557 -CTGAAGATAGC-AGATCTTTTCTTCCTGTATTGGCAGCAAAGTAGA
1 TC-GAAGATAGCAAG-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGA
* *
47495602 TCGAAGATAGCAGGTCTTGTCTTCCTGTATTGGTAGCGAAGTAGA
1 TCGAAGATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGA
* *
47495647 -CTGAAGATAGC-AGATCTTATCTTCCTGTATTGGCAACGAAGTAGA
1 TC-GAAGATAGCAAG-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGA
* * * * *
47495692 TTGAAGATAGTAGGTCTTGTCTTCCTATATTGGCAACGAAGTAGA
1 TCGAAGATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGA
* *
47495737 TCGAAGATAGC-AGATCTTTTCTTCCTGTATTGGCAGCGAAGCAGA
1 TCGAAGATAGCAAG-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGA
47495782 TCGAAGA
1 TCGAAGA
47495789 CACCAGCATC
Statistics
Matches: 240, Mismatches: 28, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
44 5 0.02
45 232 0.97
46 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (45 bp):
TCGAAGATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGA
Found at i:47495589 original size:90 final size:90
Alignment explanation
Indices: 47495481--47495877 Score: 498
Period size: 90 Copynumber: 4.4 Consensus size: 90
47495471 AGATTGCAAG
47495481 TCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGGTCTTGTCTTCCTGTATTGGC
1 TCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGGTCTTGTCTTCCTGTATTGGC
47495546 AGCGAAATAGACTGAAGATAGCAGA
66 AGCGAAATAGACTGAAGATAGCAGA
* * *
47495571 TCTTTTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGATAGCAGGTCTTGTCTTCCTGTATTGGT
1 TCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGGTCTTGTCTTCCTGTATTGGC
*
47495636 AGCGAAGTAGACTGAAGATAGCAGA
66 AGCGAAATAGACTGAAGATAGCAGA
* * * *
47495661 TCTTATCTTCCTGTATTGGCAACGAAGTAGATTGAAGATAGTAGGTCTTGTCTTCCTATATTGGC
1 TCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGGTCTTGTCTTCCTGTATTGGC
* *
47495726 AACGAAGTAGA-TCGAAGATAGCAGA
66 AGCGAAATAGACT-GAAGATAGCAGA
* * * * * ** * *
47495751 TCTTTTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCA-G-CATCACCTCCT-TGAGTTT
1 TCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGGTCTTGTCTTCCTGT-A-TTG
* *
47495813 GCAGC-AAATCAGACTGAAGATTGTAGA
64 GCAGCGAAAT-AGACTGAAGATAGCAGA
* * * *
47495840 TCTTGTCTTCCTGTACTGGCAGTGAAGTAGATTGAAGA
1 TCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA
47495878 CACCAGTCCT
Statistics
Matches: 269, Mismatches: 33, Indels: 11
0.86 0.11 0.04
Matches are distributed among these distances:
87 1 0.00
88 11 0.04
89 54 0.20
90 203 0.75
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (90 bp):
TCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGGTCTTGTCTTCCTGTATTGGC
AGCGAAATAGACTGAAGATAGCAGA
Found at i:47495715 original size:135 final size:135
Alignment explanation
Indices: 47495467--47495788 Score: 466
Period size: 135 Copynumber: 2.4 Consensus size: 135
47495457 GTGGAGTAAG
* * * *
47495467 TCGAAGATTGCAAGTCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGGTCTTGT
1 TCGAAGATAGCAGGTCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTAT
* * * *
47495532 CTTCCTGTATTGGCAGCGAAATAGACTGAAGATAGCAGATCTTTTCTTCCTGTATTGGCAGCAAA
66 CTTCCTGTATTGGCAACGAAATAGACTGAAGATAGCAGATCTTGTCTTCCTATATTGGCAACAAA
47495597 GTAGA
131 GTAGA
* *
47495602 TCGAAGATAGCAGGTCTTGTCTTCCTGTATTGGTAGCGAAGTAGA-CTGAAGATAGCAGATCTTA
1 TCGAAGATAGCAGGTCTTATCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATAGCAGATCTTA
* * * * *
47495666 TCTTCCTGTATTGGCAACGAAGTAGATTGAAGATAGTAGGTCTTGTCTTCCTATATTGGCAACGA
65 TCTTCCTGTATTGGCAACGAAATAGACTGAAGATAGCAGATCTTGTCTTCCTATATTGGCAACAA
47495731 AGTAGA
130 AGTAGA
* * *
47495737 TCGAAGATAGCAGATCTTTTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGA
1 TCGAAGATAGCAGGTCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA
47495789 CACCAGCATC
Statistics
Matches: 166, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
134 1 0.01
135 164 0.99
136 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (135 bp):
TCGAAGATAGCAGGTCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTAT
CTTCCTGTATTGGCAACGAAATAGACTGAAGATAGCAGATCTTGTCTTCCTATATTGGCAACAAA
GTAGA
Found at i:47496016 original size:50 final size:50
Alignment explanation
Indices: 47495962--47496259 Score: 260
Period size: 50 Copynumber: 6.0 Consensus size: 50
47495952 GTAGTGGAAT
* * ** *
47495962 AGATTGAAGCTACAACAGCGAATCTTGTTTCCTCGATATTGTAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCTCGACATTGTAATTAAAA
* * * * * * *
47496012 AGATTTAAGCCACAACGACGAATCTTACTTCC-CTAGCAGTG-CAGTAGAAT
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCTCGA-CATTGTAATTA-AAA
* * * * **
47496062 AGATTGAAGCTACAACGGCAAATCTTACTTCCCCGATATTACAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCTCGACATTGTAATTAAAA
* * * * * ** *
47496112 AGATTGAAGCCACAACAGCGAATCTTACTTCCTTGGCAGTG-CAGCAGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCTCGACATTGTAATTA-AAA
* * * *
47496162 AGATTGAAGCTACAATGGCGAATCTTGCTTCCCCGACATTGTAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCTCGACATTGTAATTAAAA
* *
47496212 AGATTGAAGCCACAACGGCGGATCTTACTTCCTCGACATTGTAGTTAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCTCGACATTGTAATTAA
47496260 TTAGACAGAA
Statistics
Matches: 188, Mismatches: 54, Indels: 12
0.74 0.21 0.05
Matches are distributed among these distances:
49 7 0.04
50 174 0.93
51 7 0.04
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTCCTCGACATTGTAATTAAAA
Found at i:47496244 original size:100 final size:100
Alignment explanation
Indices: 47495962--47496244 Score: 413
Period size: 100 Copynumber: 2.8 Consensus size: 100
47495952 GTAGTGGAAT
* * * *
47495962 AGATTGAAGCTACAACAGCGAATCTTGTTTCCTCGATATTGTAATTAAAAAGATTTAAGCCACAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGATATTGTAATTAAAAAGATTGAAGCCACAA
* * * *
47496027 CGACGAATCTTACTTCCCTAGCAGTGCAGTAGAAT
66 CGGCGAATCTTACTTCCTTAGCAGTGCAGCAGAAC
* * **
47496062 AGATTGAAGCTACAACGGCAAATCTTACTTCCCCGATATTACAATTAAAAAGATTGAAGCCACAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGATATTGTAATTAAAAAGATTGAAGCCACAA
* *
47496127 CAGCGAATCTTACTTCCTTGGCAGTGCAGCAGAAC
66 CGGCGAATCTTACTTCCTTAGCAGTGCAGCAGAAC
* *
47496162 AGATTGAAGCTACAATGGCGAATCTTGCTTCCCCGACATTGTAATTAAAAAGATTGAAGCCACAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGATATTGTAATTAAAAAGATTGAAGCCACAA
*
47496227 CGGCGGATCTTACTTCCT
66 CGGCGAATCTTACTTCCT
47496245 CGACATTGTA
Statistics
Matches: 161, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 161 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (100 bp):
AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGATATTGTAATTAAAAAGATTGAAGCCACAA
CGGCGAATCTTACTTCCTTAGCAGTGCAGCAGAAC
Found at i:47496483 original size:44 final size:45
Alignment explanation
Indices: 47496378--47496485 Score: 137
Period size: 45 Copynumber: 2.4 Consensus size: 45
47496368 GTCTTAGCCT
* ** *
47496378 CCTGAAGTTGCAGTGGGGCAGACTGAAGATAACGGGTCTTATCTC
1 CCTGAAGTTGCAGTGGAGCAGACTGAAGATAACGAATCCTATCTC
* * *
47496423 CCTGAAGTTGCAGTGGAGCAGACTGAAGCT-ACTAATCCTATTTC
1 CCTGAAGTTGCAGTGGAGCAGACTGAAGATAACGAATCCTATCTC
*
47496467 CCTGAAATTGCAGTGGAGC
1 CCTGAAGTTGCAGTGGAGC
47496486 GAATTAAACC
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 27 0.49
45 28 0.51
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (45 bp):
CCTGAAGTTGCAGTGGAGCAGACTGAAGATAACGAATCCTATCTC
Found at i:47498306 original size:27 final size:29
Alignment explanation
Indices: 47498275--47498344 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
47498265 AAATTTTGTT
*
47498275 ATATATATACATTCATAC-A-TTTTTATA
1 ATATATATACATACATACAATTTTTTATA
* *
47498302 ATATATATATACACATACATATTTTTTATA
1 ATATATATACATACATACA-ATTTTTTATA
*
47498332 ATTTATATACATA
1 ATATATATACATA
47498345 TACCTACTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
27 15 0.44
29 1 0.03
30 18 0.53
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (29 bp):
ATATATATACATACATACAATTTTTTATA
Found at i:47498363 original size:28 final size:27
Alignment explanation
Indices: 47498278--47498363 Score: 66
Period size: 28 Copynumber: 3.0 Consensus size: 27
47498268 TTTTGTTATA
* *
47498278 TATATACATTCATACAT-TTTTATAATATA
1 TATATACA--CATACATATTATAT-ATATT
* *
47498307 TATATACACATACATATTTTTTATAATT
1 TATATACACATACATATTATATAT-ATT
* *
47498335 TATATACATATACCTACTTATATATATT
1 TATATACACATACATA-TTATATATATT
47498363 T
1 T
47498364 CTTATTATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
27 9 0.19
28 25 0.52
29 14 0.29
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.49
Consensus pattern (27 bp):
TATATACACATACATATTATATATATT
Found at i:47504668 original size:9 final size:9
Alignment explanation
Indices: 47504654--47504697 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
47504644 TGCAAACATT
47504654 AGAAAAGAA
1 AGAAAAGAA
47504663 AGAAAAAGAA
1 AG-AAAAGAA
47504673 A-AGAAAGAA
1 AGA-AAAGAA
*
47504682 AGAAAAGAG
1 AGAAAAGAA
47504691 AGAAAAG
1 AGAAAAG
47504698 GGCGCACGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
8 1 0.03
9 21 0.68
10 9 0.29
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (9 bp):
AGAAAAGAA
Found at i:47504674 original size:15 final size:15
Alignment explanation
Indices: 47504654--47504696 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
47504644 TGCAAACATT
47504654 AGAAAAGAAAGAAAA
1 AGAAAAGAAAGAAAA
47504669 AGAAAAGAAAG--AA
1 AGAAAAGAAAGAAAA
*
47504682 AGAAAAGAGAGAAAA
1 AGAAAAGAAAGAAAA
47504697 GGGCGCACGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 12 0.48
15 13 0.52
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
AGAAAAGAAAGAAAA
Found at i:47505829 original size:19 final size:18
Alignment explanation
Indices: 47505795--47505836 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
47505785 AATGACAAAG
47505795 ATGAAAAATGAATATGAA
1 ATGAAAAATGAATATGAA
* *
47505813 ATGAGAAATGAAATATGGA
1 ATGAAAAATG-AATATGAA
47505832 ATGAA
1 ATGAA
47505837 GTAATGAGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.21, T:0.21
Consensus pattern (18 bp):
ATGAAAAATGAATATGAA
Found at i:47508236 original size:21 final size:21
Alignment explanation
Indices: 47508215--47508505 Score: 178
Period size: 21 Copynumber: 14.0 Consensus size: 21
47508205 CTTTCCGTTT
* *
47508215 AACTCTTACGAGCTTCTGTTT
1 AACTCTTATGAGCTTCTGTTC
*
47508236 AACTCATATGAGCTT-TCGTTC
1 AACTCTTATGAGCTTCT-GTTC
* *
47508257 AACTCTTTTGAGCTTCTATTC
1 AACTCTTATGAGCTTCTGTTC
*
47508278 AACTCTTATGAGTTTCTGTTC
1 AACTCTTATGAGCTTCTGTTC
* * *
47508299 AGCTCTTATAAGCTTCTGTTT
1 AACTCTTATGAGCTTCTGTTC
* * * *
47508320 ATCTCATATGAGTTTCCGTTC
1 AACTCTTATGAGCTTCTGTTC
* * *
47508341 AGCTCTTTTGAGCTTCTGTTT
1 AACTCTTATGAGCTTCTGTTC
* * * *
47508362 AACCCTAATG-GGTTTTCGTTC
1 AACTCTTATGAGCTTCT-GTTC
* * * *
47508383 AATTCTTTTAAGCTTCTGTTT
1 AACTCTTATGAGCTTCTGTTC
* * *
47508404 AACCCTTATG-GGTTTTCGTTC
1 AACTCTTATGAGCTTCT-GTTC
* * *
47508425 AGCTCTTTTGAGCTTCTGTTT
1 AACTCTTATGAGCTTCTGTTC
* * * * *
47508446 TACCCTTATGGGTTTCTGTTT
1 AACTCTTATGAGCTTCTGTTC
*
47508467 AGCTCTTATGAGCTTCTGTTC
1 AACTCTTATGAGCTTCTGTTC
* *
47508488 AGCT-TT-CGAGCTTCTGTT
1 AACTCTTATGAGCTTCTGTT
47508506 AACGATATAC
Statistics
Matches: 198, Mismatches: 66, Indels: 14
0.71 0.24 0.05
Matches are distributed among these distances:
19 11 0.06
20 11 0.06
21 167 0.84
22 9 0.05
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.46
Consensus pattern (21 bp):
AACTCTTATGAGCTTCTGTTC
Found at i:47508261 original size:42 final size:41
Alignment explanation
Indices: 47508224--47508486 Score: 283
Period size: 42 Copynumber: 6.3 Consensus size: 41
47508214 TAACTCTTAC
* *
47508224 GAGCTTCTGTTTAACTCATATGAGCTTTCGTTCAACTCTTTT
1 GAGCTTCTGTTTAACTCTTATGAG-TTTCGTTCAGCTCTTTT
* * *
47508266 GAGCTTCTATTCAACTCTTATGAGTTTCTGTTCAGCTCTTAT
1 GAGCTTCTGTTTAACTCTTATGAGTTTC-GTTCAGCTCTTTT
* * *
47508308 AAGCTTCTGTTTATCTCATATGAGTTTCCGTTCAGCTCTTTT
1 GAGCTTCTGTTTAACTCTTATGAGTTT-CGTTCAGCTCTTTT
* * * **
47508350 GAGCTTCTGTTTAACCCTAATGGGTTTTCGTTCAATTCTTTT
1 GAGCTTCTGTTTAACTCTTATGAG-TTTCGTTCAGCTCTTTT
* * *
47508392 AAGCTTCTGTTTAACCCTTATGGGTTTTCGTTCAGCTCTTTT
1 GAGCTTCTGTTTAACTCTTATGAG-TTTCGTTCAGCTCTTTT
* * * * *
47508434 GAGCTTCTGTTTTACCCTTATGGGTTTCTGTTTAGCTCTTAT
1 GAGCTTCTGTTTAACTCTTATGAGTTTC-GTTCAGCTCTTTT
47508476 GAGCTTCTGTT
1 GAGCTTCTGTT
47508487 CAGCTTTCGA
Statistics
Matches: 190, Mismatches: 27, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
41 8 0.04
42 178 0.94
43 4 0.02
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (41 bp):
GAGCTTCTGTTTAACTCTTATGAGTTTCGTTCAGCTCTTTT
Found at i:47508383 original size:84 final size:83
Alignment explanation
Indices: 47508225--47508486 Score: 337
Period size: 84 Copynumber: 3.1 Consensus size: 83
47508215 AACTCTTACG
* * * * *
47508225 AGCTTCTGTTTAACTCATATGAGCTTTCGTTCAACTCTTTTGAGCTTCTATTCAACTCTTATGAG
1 AGCTTCTGTTTAACTCATATGAG-TTTCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
47508290 TTTCTGTTCAGCTCTTATA
65 TTTCTGTTCAGCTCTTATA
* *
47508309 AGCTTCTGTTTATCTCATATGAGTTTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTAATGGG
1 AGCTTCTGTTTAACTCATATGAGTTT-CGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
** *
47508374 TTT-TCGTTCAATTCTTTTA
65 TTTCT-GTTCAGCTCTTATA
* * * *
47508393 AGCTTCTGTTTAACCCTTATGGGTTTTCGTTCAGCTCTTTTGAGCTTCTGTTTTACCCTTATGGG
1 AGCTTCTGTTTAACTCATATGAG-TTTCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGG
* *
47508458 TTTCTGTTTAGCTCTTATG
65 TTTCTGTTCAGCTCTTATA
47508477 AGCTTCTGTT
1 AGCTTCTGTT
47508487 CAGCTTTCGA
Statistics
Matches: 153, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
83 4 0.03
84 145 0.95
85 4 0.03
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (83 bp):
AGCTTCTGTTTAACTCATATGAGTTTCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGGT
TTCTGTTCAGCTCTTATA
Found at i:47510705 original size:22 final size:24
Alignment explanation
Indices: 47510680--47510723 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
47510670 CTATCTAGAT
47510680 ATCAGATC-TCT-AAGATTACATA
1 ATCAGATCTTCTAAAGATTACATA
*
47510702 ATCATATCTTCTAAAGATTACA
1 ATCAGATCTTCTAAAGATTACA
47510724 CTTAATGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 3 0.16
24 9 0.47
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (24 bp):
ATCAGATCTTCTAAAGATTACATA
Found at i:47510781 original size:35 final size:35
Alignment explanation
Indices: 47510740--47510809 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
47510730 GTCTAGGATC
*
47510740 ACATATCTCTGAAGATCACCTTCCATATTTGCCAA
1 ACATATCTCTGAAGATCACCTTCCATATTTACCAA
* *
47510775 ACATATCTTTGAAGATCACTTTCCATATTTACCAA
1 ACATATCTCTGAAGATCACCTTCCATATTTACCAA
47510810 GCTCCGGAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.34
Consensus pattern (35 bp):
ACATATCTCTGAAGATCACCTTCCATATTTACCAA
Found at i:47515341 original size:35 final size:35
Alignment explanation
Indices: 47515294--47515364 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
47515284 TCTAGGATCA
*
47515294 CATATCTCTGAAGATCACATTCCATATTTGCCAAG
1 CATATCTCTGAAGATCACATTCCATATTTACCAAG
* **
47515329 CATATCTTTGAAGATCATTTTCCATATTTACCAAG
1 CATATCTCTGAAGATCACATTCCATATTTACCAAG
47515364 C
1 C
47515365 TCCGAATATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (35 bp):
CATATCTCTGAAGATCACATTCCATATTTACCAAG
Found at i:47524192 original size:16 final size:17
Alignment explanation
Indices: 47524171--47524207 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
47524161 AAATAAAATG
47524171 CAAAAA-AACACAA-AAA
1 CAAAAATAA-ACAACAAA
47524187 CAAAAATAAACAACAAA
1 CAAAAATAAACAACAAA
47524204 CAAA
1 CAAA
47524208 CGCCATCCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.78, C:0.19, G:0.00, T:0.03
Consensus pattern (17 bp):
CAAAAATAAACAACAAA
Found at i:47528001 original size:38 final size:38
Alignment explanation
Indices: 47527950--47528038 Score: 133
Period size: 38 Copynumber: 2.3 Consensus size: 38
47527940 TATCACTGGT
*
47527950 ACAAAGCCTGAATATCACCAGCACAAAGCCTGCTAGGC
1 ACAAAGCCTGAATATCACCAGCACAAAGCCTACTAGGC
* *
47527988 ACAAAGCCTGAATATCACCGGCACGAAGCCTACTAGGC
1 ACAAAGCCTGAATATCACCAGCACAAAGCCTACTAGGC
* *
47528026 ACAGAGCCCGAAT
1 ACAAAGCCTGAAT
47528039 TAATCTTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.36, C:0.31, G:0.20, T:0.12
Consensus pattern (38 bp):
ACAAAGCCTGAATATCACCAGCACAAAGCCTACTAGGC
Found at i:47528016 original size:22 final size:22
Alignment explanation
Indices: 47527921--47528018 Score: 100
Period size: 22 Copynumber: 4.7 Consensus size: 22
47527911 TATATAATTA
*
47527921 CACCAGCACAAAGCCTGAATAT
1 CACCGGCACAAAGCCTGAATAT
* *
47527943 CACTGGTACAAAGCCTGAATAT
1 CACCGGCACAAAGCCTGAATAT
* *
47527965 CACCAGCACAAAGCCTG---CT
1 CACCGGCACAAAGCCTGAATAT
47527984 -A--GGCACAAAGCCTGAATAT
1 CACCGGCACAAAGCCTGAATAT
*
47528003 CACCGGCACGAAGCCT
1 CACCGGCACAAAGCCT
47528019 ACTAGGCACA
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
16 12 0.20
18 1 0.02
19 2 0.03
20 1 0.02
22 44 0.73
ACGTcount: A:0.36, C:0.32, G:0.18, T:0.14
Consensus pattern (22 bp):
CACCGGCACAAAGCCTGAATAT
Found at i:47529797 original size:18 final size:18
Alignment explanation
Indices: 47529771--47529805 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47529761 CTAATTAACA
*
47529771 TAGATGTAGACGTAGCAG
1 TAGAGGTAGACGTAGCAG
*
47529789 TAGAGGTAGAGGTAGCA
1 TAGAGGTAGACGTAGCA
47529806 TTGACTACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.09, G:0.37, T:0.20
Consensus pattern (18 bp):
TAGAGGTAGACGTAGCAG
Found at i:47533099 original size:24 final size:24
Alignment explanation
Indices: 47533055--47533104 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
47533045 CATGTTCATA
* * * *
47533055 TTCATCTCCATCGTCGTCTTTGTC
1 TTCATCTCCACCCTCGGCTTTATC
47533079 TTCATCTCCACCCTCGGCTTTATC
1 TTCATCTCCACCCTCGGCTTTATC
47533103 TT
1 TT
47533105 TGTCCCCATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.10, C:0.36, G:0.10, T:0.44
Consensus pattern (24 bp):
TTCATCTCCACCCTCGGCTTTATC
Found at i:47536545 original size:18 final size:17
Alignment explanation
Indices: 47536522--47536569 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
47536512 TATAAATCAT
47536522 AAAAATAATAAATTTTA
1 AAAAATAATAAATTTTA
*
47536539 GAAAAATTATTAAATTTTA
1 -AAAAA-TAATAAATTTTA
47536558 ATAAAAT-ATAAA
1 A-AAAATAATAAA
47536570 AAGTTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 4 0.15
18 7 0.27
19 15 0.58
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AAAAATAATAAATTTTA
Found at i:47536563 original size:19 final size:20
Alignment explanation
Indices: 47536520--47536564 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
47536510 ATTATAAATC
*
47536520 ATAAAAATAATAAATTTTAG
1 ATAAAATTAATAAATTTTAG
*
47536540 A-AAAATTATTAAATTTTA-
1 ATAAAATTAATAAATTTTAG
47536558 ATAAAAT
1 ATAAAAT
47536565 ATAAAAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 1 0.05
19 20 0.91
20 1 0.05
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
ATAAAATTAATAAATTTTAG
Found at i:47536603 original size:39 final size:38
Alignment explanation
Indices: 47536550--47536641 Score: 94
Period size: 39 Copynumber: 2.4 Consensus size: 38
47536540 AAAAATTATT
* * * **
47536550 AAATTTTAATAAAATATAAAAAGTTATAATTTTTTTATAA
1 AAATTATAA-AAAATAAAAAAAATTATAAAATTTTT-TAA
* *
47536590 AAATTGTAAAAAATAAAAAAAATTGTAAAATTTTTTAA
1 AAATTATAAAAAATAAAAAAAATTATAAAATTTTTTAA
*
47536628 AAATCATAAAAAAT
1 AAATTATAAAAAAT
47536642 TAATAACCCG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
38 15 0.34
39 21 0.48
40 8 0.18
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (38 bp):
AAATTATAAAAAATAAAAAAAATTATAAAATTTTTTAA
Found at i:47536789 original size:9 final size:9
Alignment explanation
Indices: 47536772--47536963 Score: 56
Period size: 9 Copynumber: 20.2 Consensus size: 9
47536762 TTTTGGTACA
*
47536772 ATAACTTTT
1 ATAATTTTT
47536781 ATAATTTTTTT
1 ATAA--TTTTT
*
47536792 ATGAAAT-TT
1 AT-AATTTTT
47536801 AT-ATTTTT
1 ATAATTTTT
*
47536809 TTACATTTTGT
1 ATA-ATTTT-T
47536820 ATAATTTTCTT
1 ATAA-TTT-TT
* *
47536831 ATGACT-TT
1 ATAATTTTT
*
47536839 ATAAATTTT
1 ATAATTTTT
47536848 ATAATTTTT
1 ATAATTTTT
*
47536857 -TATATTTCT
1 ATA-ATTTTT
47536866 AT-ATATTTT
1 ATAAT-TTTT
*
47536875 ATAACTTTT
1 ATAATTTTT
*
47536884 ACAATTTTTTAT
1 ATAA--TTTT-T
47536896 ATATATTTTTT
1 ATA-A-TTTTT
*
47536907 ATGATTTTT
1 ATAATTTTT
*
47536916 ATATTTTTCTT
1 ATA-ATTT-TT
*
47536927 CTAATTTTT
1 ATAATTTTT
*
47536936 AATAAATTTT
1 -ATAATTTTT
*
47536946 -TAATATTT
1 ATAATTTTT
47536954 A-AATTTTT
1 ATAATTTTT
47536962 AT
1 AT
47536964 TAAAATTTAA
Statistics
Matches: 134, Mismatches: 26, Indels: 46
0.65 0.13 0.22
Matches are distributed among these distances:
7 2 0.01
8 26 0.19
9 44 0.33
10 24 0.18
11 26 0.19
12 11 0.08
13 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (9 bp):
ATAATTTTT
Found at i:47536858 original size:19 final size:19
Alignment explanation
Indices: 47536836--47536896 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
47536826 TTCTTATGAC
47536836 TTTATAAATTTTATAATTT
1 TTTATAAATTTTATAATTT
*
47536855 TTTAT--ATTTCTAT-ATAT
1 TTTATAAATTT-TATAATTT
* *
47536872 TTTATAACTTTTACAATTT
1 TTTATAAATTTTATAATTT
47536891 TTTATA
1 TTTATA
47536897 TATATTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 12 0.35
18 5 0.15
19 17 0.50
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATAAATTTTATAATTT
Found at i:47536859 original size:10 final size:10
Alignment explanation
Indices: 47536777--47536947 Score: 60
Period size: 9 Copynumber: 17.5 Consensus size: 10
47536767 GTACAATAAC
47536777 TTTTATAATTT
1 TTTTATAA-TT
47536788 TTTTATGAA--
1 TTTTAT-AATT
*
47536797 ATTTAT-ATT
1 TTTTATAATT
47536806 TTTT-TACATT
1 TTTTATA-ATT
*
47536816 TTGTATAATT
1 TTTTATAATT
*
47536826 TTCTTATGA--
1 TT-TTATAATT
* *
47536835 CTTTATAA-A
1 TTTTATAATT
47536844 TTTTATAATT
1 TTTTATAATT
47536854 TTTTAT-A-T
1 TTTTATAATT
* *
47536862 TTCTAT-ATA
1 TTTTATAATT
*
47536871 TTTTATAA-C
1 TTTTATAATT
*
47536880 TTTTACAATTT
1 TTTTATAA-TT
47536891 TTTATATATATT
1 TTT-TATA-ATT
*
47536903 TTTTATGA-T
1 TTTTATAATT
*
47536912 TTTTATATTT
1 TTTTATAATT
*
47536922 TTCTTCTAATT
1 TT-TTATAATT
* *
47536933 TTTAATAAAT
1 TTTTATAATT
47536943 TTTTA
1 TTTTA
47536948 ATATTTAAAT
Statistics
Matches: 118, Mismatches: 25, Indels: 35
0.66 0.14 0.20
Matches are distributed among these distances:
7 1 0.01
8 13 0.11
9 36 0.31
10 31 0.26
11 26 0.22
12 10 0.08
13 1 0.01
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:47536868 original size:27 final size:27
Alignment explanation
Indices: 47536819--47536883 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
47536809 TTACATTTTG
47536819 TATAATTTTCTTATGACTTTATAAATTT
1 TATAATTTT-TTATGACTTTATAAATTT
* *
47536847 TATAATTTTTTAT-ATTTCTATATATTT
1 TATAATTTTTTATGACTT-TATAAATTT
*
47536874 TATAACTTTT
1 TATAATTTTT
47536884 ACAATTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.09
27 21 0.64
28 9 0.27
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (27 bp):
TATAATTTTTTATGACTTTATAAATTT
Found at i:47536954 original size:18 final size:18
Alignment explanation
Indices: 47536928--47536984 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
47536918 ATTTTTCTTC
*
47536928 TAATTTTTAATAAATTTT
1 TAATATTTAATAAATTTT
**
47536946 TAATATTTAA-ATTTTTAT
1 TAATATTTAATAAATTT-T
*
47536964 TAAAATTTAATAATATTTT
1 TAATATTTAATAA-ATTTT
47536983 TA
1 TA
47536985 TCTTTTTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
17 4 0.13
18 19 0.63
19 4 0.13
20 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TAATATTTAATAAATTTT
Found at i:47536960 original size:26 final size:28
Alignment explanation
Indices: 47536929--47536981 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
47536919 TTTTTCTTCT
*
47536929 AATTTTTAAT-AAATTT-TTAATATTTA
1 AATTTTTAATAAAATTTAATAATATTTA
*
47536955 AATTTTTATTAAAATTTAATAATATTT
1 AATTTTTAATAAAATTTAATAATATTT
47536982 TTATCTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.39
27 6 0.26
28 8 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
AATTTTTAATAAAATTTAATAATATTTA
Found at i:47537019 original size:36 final size:36
Alignment explanation
Indices: 47536928--47537019 Score: 89
Period size: 36 Copynumber: 2.6 Consensus size: 36
47536918 ATTTTTCTTC
* *
47536928 TAATTTTTAATAAATTTTTAATATTTAAATTTTTAT
1 TAATTTTTAATAAATTTTTTATATTTAAATTATTAT
** * **
47536964 TAAAATTTAAT-AATATTTTTATCTTTTTATTGATT-T
1 TAATTTTTAATAAAT-TTTTTATATTTAAATT-ATTAT
47537000 TAATTTTTAATAAATTTTTT
1 TAATTTTTAATAAATTTTTT
47537020 TCTAATTTTA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
35 3 0.07
36 36 0.82
37 5 0.11
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (36 bp):
TAATTTTTAATAAATTTTTTATATTTAAATTATTAT
Found at i:47537199 original size:19 final size:19
Alignment explanation
Indices: 47537167--47537207 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
47537157 TTGAGGGCCT
47537167 TTTTAATATATTTTAAAAG
1 TTTTAATATATTTTAAAAG
* * *
47537186 TTTTATTATTTTTTTAAAG
1 TTTTAATATATTTTAAAAG
47537205 TTT
1 TTT
47537208 GAGGGCTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTTAATATATTTTAAAAG
Found at i:47537295 original size:20 final size:20
Alignment explanation
Indices: 47537270--47537309 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
47537260 CGTAAAATGA
*
47537270 TTTCTGGAAAATGCTTTACT
1 TTTCTGGAAAATGATTTACT
*
47537290 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
47537310 GAAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:47537761 original size:13 final size:13
Alignment explanation
Indices: 47537743--47537770 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
47537733 ATTCTTTCTC
47537743 TATTTATGAAGTT
1 TATTTATGAAGTT
47537756 TATTTATGAAGTT
1 TATTTATGAAGTT
47537769 TA
1 TA
47537771 CTTGTACAAG
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:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (13 bp):
TATTTATGAAGTT
Found at i:47539166 original size:12 final size:12
Alignment explanation
Indices: 47539149--47539174 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47539139 TTTTCCAGAA
47539149 AACATTATATCG
1 AACATTATATCG
47539161 AACATTATATCG
1 AACATTATATCG
47539173 AA
1 AA
47539175 TACACAAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (12 bp):
AACATTATATCG
Found at i:47539903 original size:18 final size:18
Alignment explanation
Indices: 47539880--47539937 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
47539870 ATTTGAAGGA
47539880 ATGAAGGGAGAAGAATGG
1 ATGAAGGGAGAAGAATGG
* *** *
47539898 ATGAAGGAAGCTTACTGG
1 ATGAAGGGAGAAGAATGG
*
47539916 ATGAAGGGAGAAGAATGC
1 ATGAAGGGAGAAGAATGG
47539934 ATGA
1 ATGA
47539938 GAGCTAAATG
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.41, C:0.05, G:0.38, T:0.16
Consensus pattern (18 bp):
ATGAAGGGAGAAGAATGG
Found at i:47541470 original size:6 final size:6
Alignment explanation
Indices: 47541459--47541486 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
47541449 TAGCCCTTCA
47541459 TTTTTC TTTTTC TTTTTC TTTTTC TTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTT
47541487 ATATTCCTAT
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:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:47549844 original size:28 final size:29
Alignment explanation
Indices: 47549809--47549868 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
47549799 TTAAAACTTT
*
47549809 AAAAATT-AAAAATA-TATAAATTATTTAA
1 AAAAATTAAAAAACATTA-AAATTATTTAA
47549837 AAAAATTAAAAAACATTAAAATTATTTAA
1 AAAAATTAAAAAACATTAAAATTATTTAA
47549866 AAA
1 AAA
47549869 GTATAAACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 7 0.24
29 20 0.69
30 2 0.07
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (29 bp):
AAAAATTAAAAAACATTAAAATTATTTAA
Found at i:47554615 original size:20 final size:20
Alignment explanation
Indices: 47554590--47554636 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
47554580 ATGCCTCCCA
47554590 AGAAAACTAT-ATATAGGATG
1 AGAAAA-TATCATATAGGATG
*
47554610 AGAAAATTTCATATAGGATG
1 AGAAAATATCATATAGGATG
47554630 AGAAAAT
1 AGAAAAT
47554637 TTCCATGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.51, C:0.04, G:0.19, T:0.26
Consensus pattern (20 bp):
AGAAAATATCATATAGGATG
Found at i:47554637 original size:20 final size:20
Alignment explanation
Indices: 47554600--47554639 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
47554590 AGAAAACTAT
47554600 ATATAGGATGAGAAAATTTC
1 ATATAGGATGAGAAAATTTC
47554620 ATATAGGATGAGAAAATTTC
1 ATATAGGATGAGAAAATTTC
47554640 CATGTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (20 bp):
ATATAGGATGAGAAAATTTC
Found at i:47555254 original size:31 final size:31
Alignment explanation
Indices: 47555219--47555292 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
47555209 TTAATTTTAG
**
47555219 AAAATCATAAAATTTTAATTAAAAATACATA
1 AAAATCATAAAATTAAAATTAAAAATACATA
* **
47555250 AAAAT-TTCAAAATTAAAATTAAAAATATTTA
1 AAAATCAT-AAAATTAAAATTAAAAATACATA
47555281 AAAATACATAAA
1 AAAAT-CATAAA
47555293 TAAAACAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
30 1 0.03
31 29 0.85
32 3 0.09
33 1 0.03
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (31 bp):
AAAATCATAAAATTAAAATTAAAAATACATA
Found at i:47556245 original size:30 final size:30
Alignment explanation
Indices: 47556211--47556278 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
47556201 TTAATTAAAA
* * *
47556211 AAAAGTTACATTTTAGTC-TCTAAATTATTT
1 AAAAGTTACATTTAAGTCAT-TAAACTATTC
*
47556241 AAAAGTTTTCATTTAAGTCATTAAACTATTC
1 AAAAG-TTACATTTAAGTCATTAAACTATTC
47556272 AAAAGTT
1 AAAAGTT
47556279 TTTATTTAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 7 0.22
31 24 0.75
32 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (30 bp):
AAAAGTTACATTTAAGTCATTAAACTATTC
Found at i:47556276 original size:31 final size:31
Alignment explanation
Indices: 47556231--47556291 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
47556221 TTTTAGTCTC
* *
47556231 TAAATTATTTAAAAGTTTTCATTTAAGTCAT
1 TAAACTATTCAAAAGTTTTCATTTAAGTCAT
*
47556262 TAAACTATTCAAAAGTTTTTATTTAAGTCA
1 TAAACTATTCAAAAGTTTTCATTTAAGTCA
47556292 CTGAACTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (31 bp):
TAAACTATTCAAAAGTTTTCATTTAAGTCAT
Found at i:47558915 original size:3 final size:3
Alignment explanation
Indices: 47558909--47558963 Score: 83
Period size: 3 Copynumber: 18.0 Consensus size: 3
47558899 ATCATTACAT
* *
47558909 TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA CTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
47558955 TTA TTA TTA
1 TTA TTA TTA
47558964 GTTTTATTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:47560821 original size:23 final size:24
Alignment explanation
Indices: 47560776--47560845 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 24
47560766 TTAATATTTA
* **
47560776 AATTTTTTAGTTCAATTCGGTACCC
1 AATTTTTTACTT-AATTTAGTACCC
* **
47560801 ACTTTTTT-CTTAATTTAGTACTT
1 AATTTTTTACTTAATTTAGTACCC
*
47560824 AATTTTTTATTTAATTTAGTAC
1 AATTTTTTACTTAATTTAGTAC
47560846 TTAAACTTGT
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
23 15 0.42
24 14 0.39
25 7 0.19
ACGTcount: A:0.26, C:0.13, G:0.07, T:0.54
Consensus pattern (24 bp):
AATTTTTTACTTAATTTAGTACCC
Found at i:47560826 original size:12 final size:12
Alignment explanation
Indices: 47560809--47560849 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
47560799 CCACTTTTTT
47560809 CTTAATTTAGTA
1 CTTAATTTAGTA
**
47560821 CTTAATTTTTTA
1 CTTAATTTAGTA
*
47560833 TTTAATTTAGTA
1 CTTAATTTAGTA
47560845 CTTAA
1 CTTAA
47560850 ACTTGTCAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (12 bp):
CTTAATTTAGTA
Found at i:47561615 original size:2 final size:2
Alignment explanation
Indices: 47561608--47561634 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
47561598 AAATAAATAA
47561608 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
47561635 AAAACATAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47572012 original size:34 final size:34
Alignment explanation
Indices: 47571935--47572088 Score: 200
Period size: 35 Copynumber: 4.5 Consensus size: 34
47571925 TTATTTTACA
* * *
47571935 TGAACATGAGAGATTTCCTGCAACAACATAATGCG
1 TGAACAGGAGAGATTCCCTGCAAGAA-ATAATGCG
* *
47571970 TGAACAGGAGAGATTCCCTGCAAGAAATGATGTG
1 TGAACAGGAGAGATTCCCTGCAAGAAATAATGCG
*
47572004 TGAACAGGAGAGATTCCCTGCAACAAAATAATGCG
1 TGAACAGGAGAGATTCCCTGCAA-GAAATAATGCG
* *
47572039 TGAACAGGAGAGATTCCCTGCAAGAAATGATGTG
1 TGAACAGGAGAGATTCCCTGCAAGAAATAATGCG
* *
47572073 TAAACATGAGAGATTC
1 TGAACAGGAGAGATTC
47572089 TATAAAATAA
Statistics
Matches: 105, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
34 51 0.49
35 54 0.51
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.21
Consensus pattern (34 bp):
TGAACAGGAGAGATTCCCTGCAAGAAATAATGCG
Found at i:47572046 original size:69 final size:69
Alignment explanation
Indices: 47571935--47572088 Score: 272
Period size: 69 Copynumber: 2.2 Consensus size: 69
47571925 TTATTTTACA
* *
47571935 TGAACATGAGAGATTTCCTGCAACAACATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGA
1 TGAACATGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGA
47572000 TGTG
66 TGTG
*
47572004 TGAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGA
1 TGAACATGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGA
47572069 TGTG
66 TGTG
*
47572073 TAAACATGAGAGATTC
1 TGAACATGAGAGATTC
47572089 TATAAAATAA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 80 1.00
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.21
Consensus pattern (69 bp):
TGAACATGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGA
TGTG
Found at i:47586504 original size:53 final size:54
Alignment explanation
Indices: 47586436--47586551 Score: 155
Period size: 53 Copynumber: 2.2 Consensus size: 54
47586426 CCCCATAAGA
* *
47586436 TAAAATGACCGAAATACCCCCATAG-GATAAAATGACCAAAATACC-CGATAGCG
1 TAAAATGACCAAAATACCCCCATAGAG-TAAAATGACCAAAATACCTCCATAGCG
* ** *
47586489 TAAAATGACCAAAATACCCCTATAGAGTAAAATGACTGAAATACCTCCATAGGG
1 TAAAATGACCAAAATACCCCCATAGAGTAAAATGACCAAAATACCTCCATAGCG
47586543 TAAAATGAC
1 TAAAATGAC
47586552 TGTTATACCC
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
53 39 0.71
54 16 0.29
ACGTcount: A:0.46, C:0.22, G:0.15, T:0.18
Consensus pattern (54 bp):
TAAAATGACCAAAATACCCCCATAGAGTAAAATGACCAAAATACCTCCATAGCG
Found at i:47586553 original size:27 final size:26
Alignment explanation
Indices: 47586419--47586551 Score: 149
Period size: 27 Copynumber: 5.0 Consensus size: 26
47586409 TATCTGCAGT
* *
47586419 GAAATACCCCCATAAGATAAAATGACC
1 GAAATA-CCCCATAGGGTAAAATGACC
*
47586446 GAAATACCCCCATAGGATAAAATGACC
1 GAAATA-CCCCATAGGGTAAAATGACC
* * *
47586473 AAAATACCCGATAGCGTAAAATGACC
1 GAAATACCCCATAGGGTAAAATGACC
* * *
47586499 AAAATACCCCTATAGAGTAAAATGACT
1 GAAATACCCC-ATAGGGTAAAATGACC
47586526 GAAATACCTCCATAGGGTAAAATGAC
1 GAAATACC-CCATAGGGTAAAATGAC
47586552 TGTTATACCC
Statistics
Matches: 94, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
26 26 0.28
27 66 0.70
28 2 0.02
ACGTcount: A:0.46, C:0.23, G:0.14, T:0.17
Consensus pattern (26 bp):
GAAATACCCCATAGGGTAAAATGACC
Found at i:47586559 original size:27 final size:26
Alignment explanation
Indices: 47586502--47586584 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 26
47586492 AATGACCAAA
* **
47586502 ATACCCCTATAGAGTAAAATGACTGAA
1 ATACCCC-ATAGGGTAAAATGACTGTT
47586529 ATACCTCCATAGGGTAAAATGACTGTT
1 ATACC-CCATAGGGTAAAATGACTGTT
*
47586556 ATA-CCCTTAGGAGATAAAATGACTGTT
1 ATACCCCATAGG-G-TAAAATGACTGTT
47586583 AT
1 AT
47586585 GGCCTTATCT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.12
26 2 0.04
27 39 0.80
28 2 0.04
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (26 bp):
ATACCCCATAGGGTAAAATGACTGTT
Found at i:47588189 original size:20 final size:21
Alignment explanation
Indices: 47588159--47588198 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
47588149 GCTAGGTTGG
47588159 GTAGTAAAAGAAAAAGAAAAC
1 GTAGTAAAAGAAAAAGAAAAC
*
47588180 GTAG-AAAAGAAGAAGAAAA
1 GTAGTAAAAGAAAAAGAAAA
47588199 GAAGAAAAAG
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:0.68, C:0.03, G:0.23, T:0.07
Consensus pattern (21 bp):
GTAGTAAAAGAAAAAGAAAAC
Found at i:47588196 original size:11 final size:10
Alignment explanation
Indices: 47588184--47588217 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
47588174 GAAAACGTAG
47588184 AAAAGAAGAA
1 AAAAGAAGAA
47588194 GAAAAGAAG-A
1 -AAAAGAAGAA
47588204 AAAAGAAGAA
1 AAAAGAAGAA
47588214 AAAA
1 AAAA
47588218 TTTCCAAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.36
10 6 0.27
11 8 0.36
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AAAAGAAGAA
Found at i:47588207 original size:20 final size:20
Alignment explanation
Indices: 47588164--47588217 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
47588154 GTTGGGTAGT
* *
47588164 AAAAGAAAAAGAAAACGTAG
1 AAAAGAAGAAGAAAACGAAG
47588184 AAAAGAAGAAGAAAA-GAAG
1 AAAAGAAGAAGAAAACGAAG
47588203 AAAAAGAAGAA-AAAA
1 -AAAAGAAGAAGAAAA
47588218 TTTCCAAAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 7 0.23
20 24 0.77
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (20 bp):
AAAAGAAGAAGAAAACGAAG
Found at i:47591409 original size:21 final size:20
Alignment explanation
Indices: 47591385--47591423 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
47591375 GGACTAATTT
*
47591385 AAAACAATTAGAAATTTTGGG
1 AAAA-AATTAAAAATTTTGGG
*
47591406 AAAAAGTTAAAAATTTTG
1 AAAAAATTAAAAATTTTG
47591424 AAAATAGGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.51, C:0.03, G:0.15, T:0.31
Consensus pattern (20 bp):
AAAAAATTAAAAATTTTGGG
Found at i:47592018 original size:86 final size:86
Alignment explanation
Indices: 47591919--47592087 Score: 329
Period size: 86 Copynumber: 2.0 Consensus size: 86
47591909 AATAAATCCA
47591919 ACATATCAATTTCAACATAATAAATCCATGACCACAACATACATCACACACACATCATATAATCA
1 ACATATCAATTTCAACATAATAAATCCATGACCACAACATACATCACACACACATCATATAATCA
47591984 CTTCATTCTCAATTTATAGCT
66 CTTCATTCTCAATTTATAGCT
47592005 ACATATCAATTTCAACATAATAAATCCATGACCACAACATACATCACACACACATCATATAATCA
1 ACATATCAATTTCAACATAATAAATCCATGACCACAACATACATCACACACACATCATATAATCA
*
47592070 CTTCTTTCTCAATTTATA
66 CTTCATTCTCAATTTATA
47592088 CCTAGCCTAT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 82 1.00
ACGTcount: A:0.42, C:0.27, G:0.02, T:0.30
Consensus pattern (86 bp):
ACATATCAATTTCAACATAATAAATCCATGACCACAACATACATCACACACACATCATATAATCA
CTTCATTCTCAATTTATAGCT
Found at i:47594948 original size:2 final size:2
Alignment explanation
Indices: 47594941--47594965 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
47594931 GGTAATGACG
47594941 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
47594966 GGAAATTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47595017 original size:23 final size:23
Alignment explanation
Indices: 47594987--47595030 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
47594977 TTGTGTGAAC
47594987 TTAGTAAAAGGTTAGGATACGTA
1 TTAGTAAAAGGTTAGGATACGTA
47595010 TTAGTAAAAGGTTAGGATACG
1 TTAGTAAAAGGTTAGGATACG
47595031 CATGGCATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.27, T:0.30
Consensus pattern (23 bp):
TTAGTAAAAGGTTAGGATACGTA
Found at i:47595193 original size:30 final size:29
Alignment explanation
Indices: 47595157--47595245 Score: 106
Period size: 30 Copynumber: 3.0 Consensus size: 29
47595147 GGTAACATTG
47595157 ATATAATGTCAACTTGTGTGAGCAATCTTA
1 ATATAATGTCAACTTGTGTGAGCAA-CTTA
* * * *
47595187 ATATAATGTCAACTTGTATGAGCAGCCCTG
1 ATATAATGTCAACTTGTGTGAGCA-ACTTA
* *
47595217 ATATAATGTCAGCTTGTGTAAGCAACTTA
1 ATATAATGTCAACTTGTGTGAGCAACTTA
47595246 TTCTCGTGTA
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 2 0.04
30 46 0.96
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.34
Consensus pattern (29 bp):
ATATAATGTCAACTTGTGTGAGCAACTTA
Found at i:47600120 original size:14 final size:14
Alignment explanation
Indices: 47600101--47600129 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
47600091 GGACTTAATT
47600101 AATAATAAACTTAA
1 AATAATAAACTTAA
47600115 AATAATAAACTTAA
1 AATAATAAACTTAA
47600129 A
1 A
47600130 GACCTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (14 bp):
AATAATAAACTTAA
Found at i:47605062 original size:27 final size:27
Alignment explanation
Indices: 47605020--47605435 Score: 492
Period size: 27 Copynumber: 15.4 Consensus size: 27
47605010 CTTAAAATAT
*
47605020 GTAAAATGACCAAAATACCCCTATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
* * * *
47605047 GTAGAATGATCGAAATACCTCCATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
47605074 GTAAAATGACCAAAATACCCCCATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
* *
47605101 GTAAAAGGACCAAAATACCCCCACAGG
1 GTAAAATGACCAAAATACCCCCATAGG
* *
47605128 GTAAAATAACCAAAATATCCCCATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
* * *
47605155 ATAAAATAACCGAAATACCCCCTATATGG
1 GTAAAATGACCAAAATACCCCC-ATA-GG
*
47605184 GTAAAATGAACAAAATACCCCCATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
* **
47605211 GTAGAATGACTGAAATA-CCCCATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
* *
47605237 ATAAAATGATCAAAATACCCCCATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
* **
47605264 GTAGAATGACTGAAATACCCCCATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
* *
47605291 GTAGAATGACCAAAATACCCCTATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
*
47605318 GTAAAATGACCGAAATACCCCCATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
** * *
47605345 GTAAAATGACTGAAATACTCCTATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
* * **
47605372 GTAGAATAACCAAAATACCCTTATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
* **
47605399 GTAAAATGACCGAAATACCCTTATAGG
1 GTAAAATGACCAAAATACCCCCATAGG
47605426 GTAAAATGAC
1 GTAAAATGAC
47605436 TGTTATACCC
Statistics
Matches: 332, Mismatches: 54, Indels: 6
0.85 0.14 0.02
Matches are distributed among these distances:
26 21 0.06
27 285 0.86
28 6 0.02
29 20 0.06
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.19
Consensus pattern (27 bp):
GTAAAATGACCAAAATACCCCCATAGG
Found at i:47605868 original size:29 final size:30
Alignment explanation
Indices: 47605835--47605899 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
47605825 ATATCTACAC
*
47605835 TGATTAATGATTTT-GTACTGTT-ACTGCA
1 TGATTAATGATTTTAATACTGTTCACTGCA
47605863 TTGATTAATGATTTTACATACTGTTCACTGCA
1 -TGATTAATGATTTTA-ATACTGTTCACTGCA
47605895 TGATT
1 TGATT
47605900 GATATCTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 14 0.44
31 12 0.38
32 6 0.19
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.46
Consensus pattern (30 bp):
TGATTAATGATTTTAATACTGTTCACTGCA
Found at i:47605945 original size:33 final size:35
Alignment explanation
Indices: 47605899--47605970 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 35
47605889 ACTGCATGAT
* ** *
47605899 TGATATCTGTTACTGTTA-TGGGCTAAGGCCCCAC
1 TGATATCTATTACTGAAATTGGGCAAAGGCCCCAC
*
47605933 TGATA-CTATTACTGAAATTGGGCAAAGGCCCTAC
1 TGATATCTATTACTGAAATTGGGCAAAGGCCCCAC
47605967 TGAT
1 TGAT
47605971 TACTGGCATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 9 0.28
34 23 0.72
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (35 bp):
TGATATCTATTACTGAAATTGGGCAAAGGCCCCAC
Found at i:47607565 original size:3 final size:3
Alignment explanation
Indices: 47607559--47607592 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
47607549 AAAAAAACGG
*
47607559 TGA TGA TGA TGA TGA TGA TGA TAA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
47607593 TTTTTAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:47608532 original size:50 final size:47
Alignment explanation
Indices: 47608425--47608532 Score: 105
Period size: 50 Copynumber: 2.3 Consensus size: 47
47608415 TCCATATAGA
* *
47608425 ACTACACTTCT-TTTATTTTATTTTAGAATAAGGTTTTTTAAACCTT
1 ACTACACTTCTATCTATTTTATTTTAGAATAAGGTTGTTTAAACCTT
* * * *
47608471 ATTAGAC-TCTATCTATTTGATATTGATTAGAATAAGG-TGTTTCAATCTT
1 ACTACACTTCTATCTATTT--TATT--TTAGAATAAGGTTGTTTAAACCTT
47608520 ACTACACTTCTAT
1 ACTACACTTCTAT
47608533 TAGAATATGG
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
45 3 0.06
46 11 0.23
48 4 0.08
49 14 0.29
50 16 0.33
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.47
Consensus pattern (47 bp):
ACTACACTTCTATCTATTTTATTTTAGAATAAGGTTGTTTAAACCTT
Found at i:47610862 original size:14 final size:14
Alignment explanation
Indices: 47610854--47610905 Score: 58
Period size: 13 Copynumber: 3.9 Consensus size: 14
47610844 AAATATATAT
47610854 AATATAATAAAGTA
1 AATATAATAAAGTA
47610868 AATATAATAAAAG-A
1 AATATAAT-AAAGTA
47610882 AATA-AATAAAAG-A
1 AATATAAT-AAAGTA
47610895 AATA-AATAAAG
1 AATATAATAAAG
47610906 AAAAGAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.11
13 16 0.43
14 13 0.35
15 4 0.11
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (14 bp):
AATATAATAAAGTA
Found at i:47610874 original size:19 final size:18
Alignment explanation
Indices: 47610844--47610889 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
47610834 ATATTTAAGT
* * *
47610844 AAATATATATAATATAAT
1 AAATAAATATAATAAAAG
47610862 AAAGTAAATATAATAAAAG
1 AAA-TAAATATAATAAAAG
47610881 AAATAAATA
1 AAATAAATA
47610890 AAAGAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.28
Consensus pattern (18 bp):
AAATAAATATAATAAAAG
Found at i:47610885 original size:23 final size:23
Alignment explanation
Indices: 47610840--47610891 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
47610830 CTTAATATTT
* *
47610840 AAGTAAATATATATAATATAATA
1 AAGTAAATATATATAAAAAAATA
47610863 AAGTAAATATA-ATAAAAGAAATA
1 AAGTAAATATATATAAAA-AAATA
47610886 AA-TAAA
1 AAGTAAA
47610892 AGAAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (23 bp):
AAGTAAATATATATAAAAAAATA
Found at i:47610891 original size:13 final size:13
Alignment explanation
Indices: 47610862--47610908 Score: 69
Period size: 13 Copynumber: 3.5 Consensus size: 13
47610852 ATAATATAAT
47610862 AAAGTAAATATAATA
1 AAAG-AAATA-AATA
47610877 AAAGAAATAAATA
1 AAAGAAATAAATA
47610890 AAAGAAATAAAT-
1 AAAGAAATAAATA
47610902 AAAGAAA
1 AAAGAAA
47610909 AGAAAAAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.22
13 16 0.50
14 5 0.16
15 4 0.12
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (13 bp):
AAAGAAATAAATA
Found at i:47615029 original size:20 final size:20
Alignment explanation
Indices: 47615004--47615056 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
47614994 GCGTGTGTGA
*
47615004 CCACACGGGCGTGTCCCAAG
1 CCACACGGGCATGTCCCAAG
* *
47615024 CCACACAGCCATGTCCCAAG
1 CCACACGGGCATGTCCCAAG
47615044 CCACACGGGCATG
1 CCACACGGGCATG
47615057 CGACCCCTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.25, C:0.42, G:0.25, T:0.09
Consensus pattern (20 bp):
CCACACGGGCATGTCCCAAG
Found at i:47615835 original size:5 final size:5
Alignment explanation
Indices: 47615825--47615885 Score: 77
Period size: 5 Copynumber: 11.4 Consensus size: 5
47615815 TTATTAAACA
*
47615825 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATTCAA TATAAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA-T-AT TAT-AT
47615873 TATAT TAATAT TA
1 TATAT T-ATAT TA
47615886 ATTGTAAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
5 36 0.72
6 11 0.22
7 3 0.06
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:47619592 original size:12 final size:13
Alignment explanation
Indices: 47619559--47619595 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
47619549 ACTTTTCAAA
47619559 AGCACTTTTTCAC
1 AGCACTTTTTCAC
47619572 AGCACTTTTTCAC
1 AGCACTTTTTCAC
47619585 AGCA-TTTTTCA
1 AGCACTTTTTCA
47619596 AAAGCGCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 7 0.29
13 17 0.71
ACGTcount: A:0.24, C:0.27, G:0.08, T:0.41
Consensus pattern (13 bp):
AGCACTTTTTCAC
Found at i:47620104 original size:39 final size:39
Alignment explanation
Indices: 47620041--47620118 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
47620031 AAGTTCATAA
* *
47620041 ATTAGAATATCTAAATTCGTATAATACATGGACAAAAAT
1 ATTAAAATATCTAAATTCGAATAATACATGGACAAAAAT
*
47620080 ATTAAAATATCTAAATTTGAATAATACATGGACAAAAAT
1 ATTAAAATATCTAAATTCGAATAATACATGGACAAAAAT
47620119 TATAATTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (39 bp):
ATTAAAATATCTAAATTCGAATAATACATGGACAAAAAT
Found at i:47622716 original size:20 final size:20
Alignment explanation
Indices: 47622691--47622728 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
47622681 AATGTGTAAC
47622691 AGAGGCACCGAAGTGCAAAT
1 AGAGGCACCGAAGTGCAAAT
47622711 AGAGGCACCGAAGTGCAA
1 AGAGGCACCGAAGTGCAA
47622729 TCCCGTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.21, G:0.32, T:0.08
Consensus pattern (20 bp):
AGAGGCACCGAAGTGCAAAT
Found at i:47628412 original size:20 final size:18
Alignment explanation
Indices: 47628371--47628412 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
47628361 TGAAAATAAG
*
47628371 CATTATTATTAGGTTTTA
1 CATTATTATTAGGCTTTA
47628389 -ATTATTATTAGGACTTTA
1 CATTATTATTAGG-CTTTA
47628407 CCATTA
1 -CATTA
47628413 ACCAGTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 12 0.60
18 4 0.20
20 4 0.20
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.50
Consensus pattern (18 bp):
CATTATTATTAGGCTTTA
Found at i:47647877 original size:9 final size:9
Alignment explanation
Indices: 47647863--47647889 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
47647853 AATCCGGTTT
47647863 ATTTCTAAC
1 ATTTCTAAC
47647872 ATTTCTAAC
1 ATTTCTAAC
47647881 ATTTCTAAC
1 ATTTCTAAC
47647890 TTATTCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTTCTAAC
Found at i:47652341 original size:11 final size:11
Alignment explanation
Indices: 47652333--47652357 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
47652323 GCTATGGTTC
47652333 TTATATGGTAA
1 TTATATGGTAA
47652344 TTATATGGTAA
1 TTATATGGTAA
47652355 TTA
1 TTA
47652358 GACCATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (11 bp):
TTATATGGTAA
Found at i:47661411 original size:104 final size:104
Alignment explanation
Indices: 47661231--47661443 Score: 426
Period size: 104 Copynumber: 2.0 Consensus size: 104
47661221 ACTTATATTA
47661231 GATGTATGTTTAATATAGATCATGGCATTCCAAAAATGGAAATTTTGGGCTGAAATAGAGTCGAT
1 GATGTATGTTTAATATAGATCATGGCATTCCAAAAATGGAAATTTTGGGCTGAAATAGAGTCGAT
47661296 GTTGTGCGTGCATACTGCAAGAATCGAAGAAAGCACCTT
66 GTTGTGCGTGCATACTGCAAGAATCGAAGAAAGCACCTT
47661335 GATGTATGTTTAATATAGATCATGGCATTCCAAAAATGGAAATTTTGGGCTGAAATAGAGTCGAT
1 GATGTATGTTTAATATAGATCATGGCATTCCAAAAATGGAAATTTTGGGCTGAAATAGAGTCGAT
47661400 GTTGTGCGTGCATACTGCAAGAATCGAAGAAAGCACCTT
66 GTTGTGCGTGCATACTGCAAGAATCGAAGAAAGCACCTT
47661439 GATGT
1 GATGT
47661444 CACGACACGG
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 109 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.29
Consensus pattern (104 bp):
GATGTATGTTTAATATAGATCATGGCATTCCAAAAATGGAAATTTTGGGCTGAAATAGAGTCGAT
GTTGTGCGTGCATACTGCAAGAATCGAAGAAAGCACCTT
Found at i:47664510 original size:43 final size:43
Alignment explanation
Indices: 47664457--47664602 Score: 125
Period size: 43 Copynumber: 3.4 Consensus size: 43
47664447 TCGATATGTG
* *
47664457 ATTACATGTAAGACCATGTATGGGACATCTG-CATTG-TATTATA
1 ATTACGTGTAAGACCATGTATGGGACAT-TGTCATCGTTA-TATA
* *
47664500 ATTACGTGTAAGACCATGTCTGGGACATTGTCATCGTTATATG
1 ATTACGTGTAAGACCATGTATGGGACATTGTCATCGTTATATA
* * * * * * * * *
47664543 ATTTCGTGTAAGACCCTCTCTGGGACAGTGGCATCGATATGTG
1 ATTACGTGTAAGACCATGTATGGGACATTGTCATCGTTATATA
* *
47664586 ATAACATGTAAGACCAT
1 ATTACGTGTAAGACCAT
47664603 ATTCGGGATA
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
42 2 0.02
43 82 0.95
44 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (43 bp):
ATTACGTGTAAGACCATGTATGGGACATTGTCATCGTTATATA
Found at i:47678543 original size:82 final size:82
Alignment explanation
Indices: 47678406--47678572 Score: 289
Period size: 82 Copynumber: 2.0 Consensus size: 82
47678396 ATCATCATAA
47678406 CAATTCCTCACCACATATTATAGTTGATCAAGATTTGGCATAGTAGTACATTTATGAAGAACCAT
1 CAATTCCTCACCACATATTATAGTTGATCAAGATTTGGCATAGTAGTACATTTATGAAGAACCAT
* *
47678471 ACCATCACGACATTTTC
66 ACCATCAAGACAATTTC
* * *
47678488 CAATTCCTCACCACATATTATAGTTGATTAAGATTTGGCATATTAGTACATTTATGAAGAACTAT
1 CAATTCCTCACCACATATTATAGTTGATCAAGATTTGGCATAGTAGTACATTTATGAAGAACCAT
47678553 ACCATCAAGACAATTTC
66 ACCATCAAGACAATTTC
47678570 CAA
1 CAA
47678573 ACCAAAGTAA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.32
Consensus pattern (82 bp):
CAATTCCTCACCACATATTATAGTTGATCAAGATTTGGCATAGTAGTACATTTATGAAGAACCAT
ACCATCAAGACAATTTC
Found at i:47678846 original size:16 final size:16
Alignment explanation
Indices: 47678825--47678881 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
47678815 GTTTGGTTCA
* *
47678825 CTGTAATGGAATAGAG
1 CTGTAATAGAATAAAG
*
47678841 CTGTAATTGAATAAAG
1 CTGTAATAGAATAAAG
47678857 CTGTAATAGAATAAAG
1 CTGTAATAGAATAAAG
47678873 CTGTAATAG
1 CTGTAATAG
47678882 TAATTCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (16 bp):
CTGTAATAGAATAAAG
Found at i:47678951 original size:44 final size:45
Alignment explanation
Indices: 47678865--47678953 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 45
47678855 AGCTGTAATA
47678865 GAATAAAGCTGTAATAGTAATTCAATTGTTTGGTTGAATGGAATG
1 GAATAAAGCTGTAATAGTAATTCAATTGTTTGGTTGAATGGAATG
* *
47678910 GAATAGAA-CTGTAATAGT-ATTC-TTGTGTTTGGTTGCATGGAATG
1 GAATA-AAGCTGTAATAGTAATTCAAT-TGTTTGGTTGAATGGAATG
47678954 ATGTTGTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
43 1 0.03
44 22 0.55
45 15 0.38
46 2 0.05
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (45 bp):
GAATAAAGCTGTAATAGTAATTCAATTGTTTGGTTGAATGGAATG
Found at i:47679135 original size:58 final size:59
Alignment explanation
Indices: 47679056--47679211 Score: 167
Period size: 58 Copynumber: 2.7 Consensus size: 59
47679046 TTTTAATAAG
* ** * * *
47679056 ATTATTATTAAAAACGATTTAATAAAAATAATAAATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAAAATTCTTAACATA
** *
47679114 ATTATTATTAAATATAATTTAAT-AAAATTTTATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAAAATTCTTAACATA
*
47679172 ATTATTATT--ATATGAATTTACTAAAATCATAATATATAAT
1 ATTATTATTAAATAT-AATTTAATAAAA--ATAATATATAAT
47679212 ACTATAAAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
56 4 0.05
57 28 0.35
58 39 0.48
60 10 0.12
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAAAATTCTTAACATA
Found at i:47679142 original size:10 final size:10
Alignment explanation
Indices: 47679124--47679162 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
47679114 ATTATTATTA
*
47679124 AATATAATTT
1 AATAAAATTT
47679134 AATAAAATTT
1 AATAAAATTT
* *
47679144 TATATAATTT
1 AATAAAATTT
47679154 AATAAAATT
1 AATAAAATT
47679163 CTTAATATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
AATAAAATTT
Found at i:47679150 original size:20 final size:22
Alignment explanation
Indices: 47679124--47679174 Score: 88
Period size: 20 Copynumber: 2.4 Consensus size: 22
47679114 ATTATTATTA
47679124 AATATAATTTAATAAAATT-TT
1 AATATAATTTAATAAAATTCTT
47679145 -ATATAATTTAATAAAATTCTT
1 AATATAATTTAATAAAATTCTT
47679166 AATATAATT
1 AATATAATT
47679175 ATTATTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.64
21 2 0.07
22 8 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
AATATAATTTAATAAAATTCTT
Found at i:47679236 original size:22 final size:23
Alignment explanation
Indices: 47679180--47679236 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 23
47679170 TAATTATTAT
*
47679180 TATATGAATTTACTAAAATCATAA
1 TATAT-AATTTACTAAAATAATAA
47679204 TATATAA--TACTATAAA-AAT-A
1 TATATAATTTACTA-AAATAATAA
47679224 TATATAATTTACT
1 TATATAATTTACT
47679237 TTATTATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
20 8 0.28
21 7 0.24
22 7 0.24
23 2 0.07
24 5 0.17
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (23 bp):
TATATAATTTACTAAAATAATAA
Found at i:47679440 original size:14 final size:14
Alignment explanation
Indices: 47679421--47679459 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
47679411 TCATTAGTTT
47679421 ATATGTCATAAACC
1 ATATGTCATAAACC
* * *
47679435 ATATGTTATTAAGC
1 ATATGTCATAAACC
47679449 ATATGTCATAA
1 ATATGTCATAA
47679460 TTTATTAAGC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (14 bp):
ATATGTCATAAACC
Found at i:47683386 original size:110 final size:108
Alignment explanation
Indices: 47683076--47683549 Score: 494
Period size: 110 Copynumber: 4.4 Consensus size: 108
47683066 AGTACAAATA
* * * * * *
47683076 AAAATTTTAAGAAAATCATTTAAAATTTTAATAAAATTATAAAAATATAAAAAAGTTCCAAAAAT
1 AAAATTTTAAGAAATTCATTTAAAAATTCAATAAAACTATAAATATAT-AAAAA-CTCCAAAAAT
* *
47683141 TCAAAAAAAAAGTGTGTTATTTACTTT-TTCAATGGTAAAATGTCTATCT
64 T--AAAAAAAA--GTGTTATTT-GTTTCTTGAATGGTAAAATGTCTATCT
*
47683190 AAAATTTTAAAAAATTCATTTAAAAATTC-----AA-TA-AAAT-TAT-AAAACTCCAAAAATT-
1 AAAATTTTAAGAAATTCATTTAAAAATTCAATAAAACTATAAATATATAAAAACTCCAAAAATTA
* *
47683245 AAAAAAATTGTTATTT-TTTCTTGAATGGTAAAATATCTATCT
66 AAAAAAAGTGTTATTTGTTTCTTGAATGGTAAAATGTCTATCT
* * *
47683287 AAATTTTTAAGAAATTCATTTAAAAATTCAAT-AAAGTCATACAA-ATATAAAAACTCCAAAAGT
1 AAAATTTTAAGAAATTCATTTAAAAATTCAATAAAACT-ATA-AATATATAAAAACTCCAAAA-A
*
47683350 TTAAAAAAAACGTGTTATTTGTTTCTTGAATAGTAAAATGTCTATCT
63 TTAAAAAAAA-GTGTTATTTGTTTCTTGAATGGTAAAATGTCTATCT
* *
47683397 AAAATTTTAAGAAACTT-ATTT-AAAATTCAATAAAACTATAAATATATAAAAAGTTTCAAAAAC
1 AAAATTTTAAGAAA-TTCATTTAAAAATTCAATAAAACTATAAATATATAAAAA-CTCCAAAAA-
* * * *
47683460 TCAAAAAAAATGTGTTATTTGCTTCTTGAAGGGTAAATTGTCTATCT
63 TTAAAAAAAA-GTGTTATTTGTTTCTTGAATGGTAAAATGTCTATCT
* *
47683507 AAAATTTTAAGAAATTCATTTAAAAGTTCAATAAAATTATAAA
1 AAAATTTTAAGAAATTCATTTAAAAATTCAATAAAACTATAAA
47683550 AAGTTCCAAA
Statistics
Matches: 310, Mismatches: 28, Indels: 47
0.81 0.07 0.12
Matches are distributed among these distances:
96 3 0.01
97 47 0.15
98 8 0.03
100 7 0.02
101 2 0.01
102 1 0.00
103 11 0.04
104 5 0.02
105 5 0.02
106 15 0.05
107 5 0.02
108 11 0.04
109 34 0.11
110 110 0.35
111 21 0.07
114 25 0.08
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (108 bp):
AAAATTTTAAGAAATTCATTTAAAAATTCAATAAAACTATAAATATATAAAAACTCCAAAAATTA
AAAAAAAGTGTTATTTGTTTCTTGAATGGTAAAATGTCTATCT
Found at i:47688474 original size:20 final size:22
Alignment explanation
Indices: 47688434--47688475 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
47688424 GTTCCTCGTC
*
47688434 CGTTATGGAGTCGAAGTCAACT
1 CGTTATGGAGTCGAAGGCAACT
47688456 CGTT-TGGAG-CGAAGGCAACT
1 CGTTATGGAGTCGAAGGCAACT
47688476 TGGTCATAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 5 0.26
22 4 0.21
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (22 bp):
CGTTATGGAGTCGAAGGCAACT
Found at i:47689208 original size:21 final size:19
Alignment explanation
Indices: 47689182--47689221 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
47689172 TTATTTTTTT
47689182 CAATTAAATTATATATTATAA
1 CAATT-AATT-TATATTATAA
*
47689203 CAATTAATTTTTATTATAA
1 CAATTAATTTATATTATAA
47689222 TTATTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 4 0.22
21 5 0.28
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
CAATTAATTTATATTATAA
Found at i:47690014 original size:27 final size:24
Alignment explanation
Indices: 47689984--47690034 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
47689974 AAAATAAAAA
47689984 AAGATAAAAAGATAATAATAAATATTT
1 AAGA-AAAAA-AT-ATAATAAATATTT
* *
47690011 AAGAAAAGAATATATTAAATATTT
1 AAGAAAAAAATATAATAAATATTT
47690035 TCCAATCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 12 0.55
25 2 0.09
26 4 0.18
27 4 0.18
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (24 bp):
AAGAAAAAAATATAATAAATATTT
Found at i:47690873 original size:15 final size:15
Alignment explanation
Indices: 47690853--47690886 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
47690843 TTTGGTAAGT
47690853 AATATTCATCAATCA
1 AATATTCATCAATCA
* *
47690868 AATATTTATGAATCA
1 AATATTCATCAATCA
47690883 AATA
1 AATA
47690887 AAAAAGGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (15 bp):
AATATTCATCAATCA
Found at i:47706214 original size:30 final size:30
Alignment explanation
Indices: 47706180--47706242 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
47706170 AATTATTTTA
47706180 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
47706210 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
47706240 TTG
1 TTG
47706243 CTTATTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:47706360 original size:18 final size:18
Alignment explanation
Indices: 47706324--47706361 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
47706314 GAAACATTTA
*
47706324 TTTTGATGTTTTTAGTAT
1 TTTTGATGTTTATAGTAT
47706342 TTTTGATGTATTATA-TAT
1 TTTTGATGT-TTATAGTAT
47706360 TT
1 TT
47706362 AAAAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (18 bp):
TTTTGATGTTTATAGTAT
Found at i:47707810 original size:45 final size:44
Alignment explanation
Indices: 47707695--47707815 Score: 143
Period size: 47 Copynumber: 2.6 Consensus size: 44
47707685 ATATATATAA
* * *
47707695 ATATATTTGTTATGCATGAAAATGAATTAATCTATAGCTGAATGT
1 ATATATTTGTTATGCATG-AAATAAATTAAACTATAGCCGAATGT
* * *
47707740 ATATGTAATTGTTATGCAGAGAAATAAATTAAACTATGGCCGAATGT
1 ATA--TATTTGTTATGCA-TGAAATAAATTAAACTATAGCCGAATGT
47707787 ATATATTTGTTATGCATTGAAATAAATTA
1 ATATATTTGTTATGCA-TGAAATAAATTA
47707816 TTTGAAATTA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
45 26 0.41
47 37 0.58
48 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.38
Consensus pattern (44 bp):
ATATATTTGTTATGCATGAAATAAATTAAACTATAGCCGAATGT
Found at i:47707879 original size:108 final size:107
Alignment explanation
Indices: 47707731--47707925 Score: 257
Period size: 108 Copynumber: 1.8 Consensus size: 107
47707721 TTAATCTATA
* * * *
47707731 GCTGAATGTATATGTAATTGTTATGCAGAGAAATAAATTAAACTATGGCCGAATGTATA-TATTT
1 GCTGAATGTATATCTAATTGTTATACAGAGAAATAAATTAAACTATAGCCGAATGTATAGTAATT
**
47707795 GTTATGCATTGAAATAAATTATTTGAAATTACATAGGTTATG
66 GTTATGCAGAGAAATAAATTATTTGAAATTACATAGGTTATG
** * * *
47707837 GCTGAATGTATATCTATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATATGTA
1 GCTGAATGTATATCTA-A-TTGTTATACAGAGAAATAAATTAAACTATAGCCGAATGTATA-GTA
47707902 ATTGTTATGCAGAGAAATAAATTA
63 ATTGTTATGCAGAGAAATAAATTA
47707926 AACTATGCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
106 15 0.20
107 1 0.01
108 35 0.47
110 23 0.31
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (107 bp):
GCTGAATGTATATCTAATTGTTATACAGAGAAATAAATTAAACTATAGCCGAATGTATAGTAATT
GTTATGCAGAGAAATAAATTATTTGAAATTACATAGGTTATG
Found at i:47707925 original size:47 final size:49
Alignment explanation
Indices: 47707851--47708055 Score: 231
Period size: 47 Copynumber: 4.2 Consensus size: 49
47707841 AATGTATATC
** *
47707851 TATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATATG
1 TATATTTGTTATACAGAGAAATGAATTAAACTATAGCTGAATGTATATG
* * * *
47707900 TA-A-TTGTTATGCAGAGAAATAAATTAAACTAT-GCCGAATGTATATA
1 TATATTTGTTATACAGAGAAATGAATTAAACTATAGCTGAATGTATATG
** *
47707946 TATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATATG
1 TATATTTGTTATACAGAGAAATGAATTAAACTATAGCTGAATGTATATG
* * * *
47707995 TA-A-TTGTTATGCAGAGAAATGAATTAAACTATGGCCGAATGTATATATA
1 TATATTTGTTATACAGAGAAATGAATTAAACTATAGCTGAATG--TATATG
47708044 TATATTTGTTAT
1 TATATTTGTTAT
47708056 GCATTGAAAT
Statistics
Matches: 128, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
46 14 0.11
47 57 0.45
48 26 0.20
49 23 0.18
50 1 0.01
51 7 0.05
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.40
Consensus pattern (49 bp):
TATATTTGTTATACAGAGAAATGAATTAAACTATAGCTGAATGTATATG
Done.