Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 31 of 199
Found at i:8829301 original size:28 final size:28
Alignment explanation
Indices: 8829248--8829301 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
8829238 TGATTCTATT
* *
8829248 AAAACACGAGAAATTTTTATTTTTTTTA
1 AAAACACGAGAAATTTTTAATATTTTTA
*
8829276 AAAACACGAGAATTTTTTAATATTTT
1 AAAACACGAGAAATTTTTAATATTTT
8829302 CGATTTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (28 bp):
AAAACACGAGAAATTTTTAATATTTTTA
Found at i:8829566 original size:8 final size:8
Alignment explanation
Indices: 8829555--8829616 Score: 56
Period size: 8 Copynumber: 8.0 Consensus size: 8
8829545 GCCCTTTTCC
8829555 CTTTTTTT
1 CTTTTTTT
8829563 CTTTTTTT
1 CTTTTTTT
* *
8829571 CTCTTCTT
1 CTTTTTTT
**
8829579 -TTTTCCT
1 CTTTTTTT
8829586 CTTTTTTT
1 CTTTTTTT
8829594 C-TTTTTT
1 CTTTTTTT
* *
8829601 CATTTTTC
1 CTTTTTTT
8829609 CTTTTTTT
1 CTTTTTTT
8829617 TTCTGCTTGC
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
7 12 0.28
8 31 0.72
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (8 bp):
CTTTTTTT
Found at i:8829569 original size:10 final size:10
Alignment explanation
Indices: 8829556--8829600 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
8829546 CCCTTTTCCC
8829556 TTTTTTTCTT
1 TTTTTTTCTT
*
8829566 TTTTTCTCTT
1 TTTTTTTCTT
* *
8829576 CTTTTTTCCTC
1 -TTTTTTTCTT
8829587 TTTTTTTCTT
1 TTTTTTTCTT
8829597 TTTT
1 TTTT
8829601 CATTTTTCCT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
10 21 0.75
11 7 0.25
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:8829606 original size:25 final size:24
Alignment explanation
Indices: 8829562--8829620 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 24
8829552 TCCCTTTTTT
*
8829562 TCTTTTTTTC-TCTTCTTTTTTCC
1 TCTTTTTTTCTTCTTCATTTTTCC
*
8829585 TCTTTTTTTCTTTTTTCATTTTTCC
1 TCTTTTTTTC-TTCTTCATTTTTCC
*
8829610 TTTTTTTTTCT
1 TCTTTTTTTCT
8829621 GCTTGCTGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 10 0.32
24 1 0.03
25 20 0.65
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (24 bp):
TCTTTTTTTCTTCTTCATTTTTCC
Found at i:8829911 original size:11 final size:11
Alignment explanation
Indices: 8829897--8829937 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 11
8829887 TTTTTTCATT
8829897 TTTTTCTTTCC
1 TTTTTCTTTCC
8829908 TTTTT-TTTCTC
1 TTTTTCTTTC-C
8829919 TTTTTTCTTT-C
1 -TTTTTCTTTCC
8829930 TTTTTCTT
1 TTTTTCTT
8829938 CTTCTTCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 12 0.44
11 7 0.26
12 5 0.19
13 3 0.11
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTCTTTCC
Found at i:8829911 original size:13 final size:12
Alignment explanation
Indices: 8829886--8829940 Score: 53
Period size: 13 Copynumber: 4.6 Consensus size: 12
8829876 CTGTTTTAGG
8829886 TTTT-TTTCATTT
1 TTTTCTTTC-TTT
*
8829898 TTTTCTTTC-CT
1 TTTTCTTTCTTT
8829909 TTTT-TTTCTCTT
1 TTTTCTTTCT-TT
8829921 TTTTCTTTCTTT
1 TTTTCTTTCTTT
8829933 TTCTTCTT
1 TT-TTCTT
8829941 CTTCTTCAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
10 4 0.11
11 5 0.14
12 13 0.36
13 14 0.39
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTCTTTCTTT
Found at i:8829915 original size:23 final size:22
Alignment explanation
Indices: 8829886--8829939 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 22
8829876 CTGTTTTAGG
8829886 TTTTTTTCAT-TTTTTTCTTTCCT
1 TTTTTTTC-TCTTTTTTCTTT-CT
8829909 TTTTTTTCTCTTTTTTCTTTCT
1 TTTTTTTCTCTTTTTTCTTTCT
*
8829931 TTTTCTTCT
1 TTTTTTTCT
8829940 TCTTCTTCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 11 0.38
23 18 0.62
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTTTTCTCTTTTTTCTTTCT
Found at i:8829943 original size:23 final size:23
Alignment explanation
Indices: 8829896--8829939 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
8829886 TTTTTTTCAT
*
8829896 TTTTTTCTTTCCTTTTTTTTCTC
1 TTTTTTCTTTCCTTTTTCTTCTC
8829919 TTTTTTCTTT-CTTTTTCTTCT
1 TTTTTTCTTTCCTTTTTCTTCT
8829940 TCTTCTTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTTCTTTCCTTTTTCTTCTC
Found at i:8830294 original size:12 final size:12
Alignment explanation
Indices: 8830266--8830295 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8830256 TTTGCTATTG
*
8830266 TTTTGTTTGGTT
1 TTTTTTTTGGTT
8830278 TTTTTTTTGGTT
1 TTTTTTTTGGTT
8830290 TTTTTT
1 TTTTTT
8830296 GATTGATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (12 bp):
TTTTTTTTGGTT
Found at i:8830797 original size:59 final size:57
Alignment explanation
Indices: 8830685--8830799 Score: 133
Period size: 59 Copynumber: 2.0 Consensus size: 57
8830675 TAATTTTAGA
* * **
8830685 AAAATATAGGGCCAAAATGTAATTTTTGGAAAGTTTAGGGGACCGAATATAATTTAC
1 AAAATATAGGGCCAAAATGTAAATTTTGAAAAGTTTAGGGGACAAAATATAATTTAC
* * *
8830742 AAAATATTAAGGGTCAAGATGTAAATTTTGAAAAGTTTAGGGG-CTAAAATGTAATTTA
1 AAAATA-T-AGGGCCAAAATGTAAATTTTGAAAAGTTTAGGGGAC-AAAATATAATTTA
8830800 TATTTTTTTG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
57 6 0.12
58 2 0.04
59 40 0.83
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (57 bp):
AAAATATAGGGCCAAAATGTAAATTTTGAAAAGTTTAGGGGACAAAATATAATTTAC
Found at i:8830822 original size:16 final size:17
Alignment explanation
Indices: 8830791--8830825 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
8830781 GGGGCTAAAA
8830791 TGTAATTTATATTTTTT
1 TGTAATTTATATTTTTT
*
8830808 TGTATTTTATATTTTTT
1 TGTAATTTATATTTTTT
8830825 T
1 T
8830826 TCAAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (17 bp):
TGTAATTTATATTTTTT
Found at i:8831343 original size:81 final size:78
Alignment explanation
Indices: 8831143--8831538 Score: 486
Period size: 81 Copynumber: 5.1 Consensus size: 78
8831133 TGGGTTGACC
* * * * * *
8831143 TTTGAAAAATAGAAATTGAAAAATACCTTGGCATGTAACCCGAGGCTCAACTTATCTCTCACAAT
1 TTTGAAAAATAGAAATTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
8831208 ATGAGTTGA--TT
66 ATGAGTTGATTTT
* * *
8831219 TTTGAAAAGTAGAAATTTAAAAAAAGTACCTCGGCATGTGACCCGAGGCTCAACTCACCTCCCGT
1 TTTGAAAAATAGAAA-TT-AAAAAA-TACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGC
*
8831284 AATATAAGTTGATTTT
63 AATATGAGTTGATTTT
*
8831300 TTTGAAAAATAGAAATTAAAAAGTAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTTGC
1 TTTGAAAAATAGAAATT-AAAA--AATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGC
8831365 AATATGAGTTGATTTT
63 AATATGAGTTGATTTT
* * * **
8831381 TTT-ATAAACAAAAATTAAAAAATACCTCGATATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAATAGAAATTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
8831445 ATGAGTTGA--TT
66 ATGAGTTGATTTT
** * * *
8831456 TTTG-AAAA-A-AAA-TAAAAAATACCTCAACGTGCGAACCGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAATAGAAATTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
8831517 ATGAGTTGATTTT
66 ATGAGTTGATTTT
8831530 TTTGAAAAA
1 TTTGAAAAA
8831539 AATTGAAATT
Statistics
Matches: 282, Mismatches: 27, Indels: 23
0.85 0.08 0.07
Matches are distributed among these distances:
72 53 0.19
73 3 0.01
74 7 0.02
75 12 0.04
76 14 0.05
77 52 0.18
78 5 0.02
79 47 0.17
80 17 0.06
81 70 0.25
82 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.29
Consensus pattern (78 bp):
TTTGAAAAATAGAAATTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGATTTT
Found at i:8843166 original size:30 final size:30
Alignment explanation
Indices: 8843132--8843197 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
8843122 TTTTGGGCTC
8843132 ATTGGGCTAAAGTTCGGGTTTAGGTATTGT
1 ATTGGGCTAAAGTTCGGGTTTAGGTATTGT
* *
8843162 ATTGGGCTAGAGTTTGGGTTTAGGTATTGT
1 ATTGGGCTAAAGTTCGGGTTTAGGTATTGT
8843192 ATTGGG
1 ATTGGG
8843198 TATTAGATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.18, C:0.05, G:0.36, T:0.41
Consensus pattern (30 bp):
ATTGGGCTAAAGTTCGGGTTTAGGTATTGT
Found at i:8843198 original size:18 final size:18
Alignment explanation
Indices: 8843147--8843203 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
8843137 GCTAAAGTTC
8843147 GGGTTTAGGTATTGTATT
1 GGGTTTAGGTATTGTATT
*
8843165 GGG-CTA-G-A--GT-TT
1 GGGTTTAGGTATTGTATT
8843177 GGGTTTAGGTATTGTATT
1 GGGTTTAGGTATTGTATT
8843195 GGGTATTAG
1 GGGT-TTAG
8843204 ATTAAAACGA
Statistics
Matches: 30, Mismatches: 2, Indels: 13
0.67 0.04 0.29
Matches are distributed among these distances:
12 5 0.17
13 4 0.13
14 1 0.03
15 2 0.07
16 1 0.03
17 4 0.13
18 9 0.30
19 4 0.13
ACGTcount: A:0.18, C:0.02, G:0.37, T:0.44
Consensus pattern (18 bp):
GGGTTTAGGTATTGTATT
Found at i:8844596 original size:19 final size:16
Alignment explanation
Indices: 8844560--8844686 Score: 101
Period size: 17 Copynumber: 7.2 Consensus size: 16
8844550 CACGAGATTT
* *
8844560 TTTTAAAACACGAGAA
1 TTTTGAAACACGAAAA
8844576 TTTTGAAACACGATAATAA
1 TTTTGAAACACG--AA-AA
8844595 TTTTTGAAAACACGAAAA
1 -TTTTG-AAACACGAAAA
**
8844613 TTTGTGAAACACGGGAA
1 TTT-TGAAACACGAAAA
8844630 TTGTTGAAAACACGAAAA
1 TT-TTG-AAACACGAAAA
*
8844648 TTTTAGAAACACCAAAA
1 TTTT-GAAACACGAAAA
*
8844665 TTTTTGAAAACACGAAGA
1 -TTTTG-AAACACGAAAA
8844683 TTTT
1 TTTT
8844687 TAAAACACAA
Statistics
Matches: 91, Mismatches: 9, Indels: 21
0.75 0.07 0.17
Matches are distributed among these distances:
16 11 0.12
17 33 0.36
18 31 0.34
19 4 0.04
20 5 0.05
21 7 0.08
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (16 bp):
TTTTGAAACACGAAAA
Found at i:8844620 original size:18 final size:18
Alignment explanation
Indices: 8844564--8844752 Score: 115
Period size: 18 Copynumber: 10.6 Consensus size: 18
8844554 AGATTTTTTT
*
8844564 AAAACACGAGAATTT-TG
1 AAAACACGAAAATTTGTG
*
8844581 -AAACACGATAATAATTTTTG
1 AAAACACG--AA-AATTTGTG
8844601 AAAACACGAAAATTTGTG
1 AAAACACGAAAATTTGTG
**
8844619 -AAACACGGGAA-TTGTTG
1 AAAACACGAAAATTTG-TG
8844636 AAAACACGAAAATTT-T-
1 AAAACACGAAAATTTGTG
* *
8844652 AGAAACACCAAAATTTTTG
1 A-AAACACGAAAATTTGTG
* *
8844671 AAAACACGAAGATTT-TT
1 AAAACACGAAAATTTGTG
** * *
8844688 AAAACAC-AATTTTTTTTA
1 AAAACACGAA-AATTTGTG
* *
8844706 AGAAACACAAAAATTTGTA
1 A-AAACACGAAAATTTGTG
*
8844725 AAAACACGAAGATTTGTG
1 AAAACACGAAAATTTGTG
*
8844743 AACACACGAA
1 AAAACACGAA
8844753 TTTTTCAATT
Statistics
Matches: 137, Mismatches: 20, Indels: 29
0.74 0.11 0.16
Matches are distributed among these distances:
16 13 0.09
17 36 0.26
18 55 0.40
19 22 0.16
20 4 0.03
21 7 0.05
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (18 bp):
AAAACACGAAAATTTGTG
Found at i:8844644 original size:35 final size:34
Alignment explanation
Indices: 8844544--8844686 Score: 142
Period size: 35 Copynumber: 4.1 Consensus size: 34
8844534 AGTGATCCGA
* * * * *
8844544 TTGAAACACGAGATTTTTTTAAAACACGAGAATT
1 TTGAAACACCAAAATTTTTGAAAACACGAAAATT
*
8844578 TTGAAACACGATAATAATTTTTGAAAACACGAAAATT
1 TTGAAACAC--CAA-AATTTTTGAAAACACGAAAATT
*** *
8844615 TGTGAAACACGGGAATTGTTGAAAACACGAAAATT
1 T-TGAAACACCAAAATTTTTGAAAACACGAAAATT
*
8844650 TTAGAAACACCAAAATTTTTGAAAACACGAAGATT
1 TT-GAAACACCAAAATTTTTGAAAACACGAAAATT
8844685 TT
1 TT
8844687 TAAAACACAA
Statistics
Matches: 90, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
34 10 0.11
35 51 0.57
36 1 0.01
37 20 0.22
38 8 0.09
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.29
Consensus pattern (34 bp):
TTGAAACACCAAAATTTTTGAAAACACGAAAATT
Found at i:8844729 original size:54 final size:55
Alignment explanation
Indices: 8844602--8844757 Score: 153
Period size: 54 Copynumber: 2.9 Consensus size: 55
8844592 TAATTTTTGA
* * * * **
8844602 AAACACGAAAATTTGT-GAAACACG-GGAATTGTTGAAAACACGAA--AATTTTAG
1 AAACACAAAAATTTGTAAAAACACGAAGATTTG-TGAAAACACGAATTTTTTTTAG
* * * *
8844654 AAACACCAAAATTTTTGAAAACACGAAGATTT-TTAAAACAC-AATTTTTTTTAAG
1 AAACACAAAAATTTGTAAAAACACGAAGATTTGTGAAAACACGAATTTTTTTT-AG
*
8844708 AAACACAAAAATTTGTAAAAACACGAAGATTTGTGAACACACGAATTTTT
1 AAACACAAAAATTTGTAAAAACACGAAGATTTGTGAAAACACGAATTTTT
8844758 CAATTTTTTT
Statistics
Matches: 84, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
51 2 0.02
52 22 0.26
53 11 0.13
54 35 0.42
55 7 0.08
56 7 0.08
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.28
Consensus pattern (55 bp):
AAACACAAAAATTTGTAAAAACACGAAGATTTGTGAAAACACGAATTTTTTTTAG
Found at i:8845787 original size:11 final size:11
Alignment explanation
Indices: 8845773--8845812 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
8845763 TTTTCTCTCA
8845773 TTTCCTTTCTT
1 TTTCCTTTCTT
8845784 TTTCCTTTCTT
1 TTTCCTTTCTT
*
8845795 TTTCTTTTCTT
1 TTTCCTTTCTT
8845806 TTTCCTT
1 TTTCCTT
8845813 CGAAAGCTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTCCTTTCTT
Found at i:8845801 original size:21 final size:21
Alignment explanation
Indices: 8845745--8845812 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
8845735 TTCTCTCCTC
* *
8845745 CCTTTCACTTTCTCTCTTTTT
1 CCTTTCATTTTCTTTCTTTTT
* * *
8845766 TCTCTCATTTCCTTTCTTTTT
1 CCTTTCATTTTCTTTCTTTTT
*
8845787 CCTTTCTTTTTCTTTTCTTTTT
1 CCTTTCATTTTC-TTTCTTTTT
8845809 CCTT
1 CCTT
8845813 CGAAAGCTCG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
21 24 0.65
22 13 0.35
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (21 bp):
CCTTTCATTTTCTTTCTTTTT
Found at i:8846493 original size:16 final size:17
Alignment explanation
Indices: 8846462--8846496 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
8846452 AGGGCTAAAA
8846462 TGTAATTTATATTTTTT
1 TGTAATTTATATTTTTT
*
8846479 TGTATTTTATATTTTTT
1 TGTAATTTATATTTTTT
8846496 T
1 T
8846497 TCAAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (17 bp):
TGTAATTTATATTTTTT
Found at i:8847459 original size:194 final size:194
Alignment explanation
Indices: 8847130--8847522 Score: 610
Period size: 194 Copynumber: 2.0 Consensus size: 194
8847120 AAAATATGAG
8847130 AAAAACTAAAAACAGATGTCACATGGCTGTGTGGCCAGATCGTGTGACAGAGGTCAGCCCGTGTG
1 AAAAACTAAAAACAGATGTCACATGGCTGTGTGGCCAGATCGTGTGACAGAGGTCAGCCCGTGTG
*
8847195 GCCCCAAGCATGGTCGTGTGGCTACTTCACATGCCCGTGTGCTTAGACTGTGTACAAATCGAAAA
66 GCCCCAAGCATGGTCGTGTGACTACTTCACATGCCCGTGTGCTTAGACTGTGTACAAATCGAAAA
* * * * *
8847260 TAGGGTCACACGGTCGTGTCCTCAAGCCGTGTAACTAATTGTGC-CTGTGTGAAAAATCCTGCAC
131 TAGGGTCACACGGTCATGTCCCCAAGCCGTGTAACTAACTATGCTC-GTATGAAAAATCCTGCAC
* * * * * *
8847324 AAAAACTGAAAATAGATGTCTCATGGCTGTTTGGTCAG-GCTGTGTGACAGAGGTCAGCCCGTGT
1 AAAAACTAAAAACAGATGTCACATGGCTGTGTGGCCAGATC-GTGTGACAGAGGTCAGCCCGTGT
*
8847388 GGCCCCAAGCATGGTCGTGTGACTACTTCACATGCCTGTGTGCTTAGACTGTGTACAAATCGAAA
65 GGCCCCAAGCATGGTCGTGTGACTACTTCACATGCCCGTGTGCTTAGACTGTGTACAAATCGAAA
* **
8847453 ATAGGGTCACATGGTCATGTCCCCCGGCCGTGTAACTAACTATGCTCGTATGAAAAATCCTGCAC
130 ATAGGGTCACACGGTCATGTCCCCAAGCCGTGTAACTAACTATGCTCGTATGAAAAATCCTGCAC
8847518 AAAAA
1 AAAAA
8847523 ATCAAGCAAC
Statistics
Matches: 181, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
193 1 0.01
194 179 0.99
195 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.24
Consensus pattern (194 bp):
AAAAACTAAAAACAGATGTCACATGGCTGTGTGGCCAGATCGTGTGACAGAGGTCAGCCCGTGTG
GCCCCAAGCATGGTCGTGTGACTACTTCACATGCCCGTGTGCTTAGACTGTGTACAAATCGAAAA
TAGGGTCACACGGTCATGTCCCCAAGCCGTGTAACTAACTATGCTCGTATGAAAAATCCTGCAC
Found at i:8851627 original size:13 final size:13
Alignment explanation
Indices: 8851611--8851654 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
8851601 TTTGTATAAC
8851611 CATTTCATTTAAA
1 CATTTCATTTAAA
* *
8851624 CATTTCATTTTAC
1 CATTTCATTTAAA
* *
8851637 CACTTCATTTACA
1 CATTTCATTTAAA
8851650 CATTT
1 CATTT
8851655 AACACATTAT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.48
Consensus pattern (13 bp):
CATTTCATTTAAA
Found at i:8851630 original size:39 final size:39
Alignment explanation
Indices: 8851546--8851631 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 39
8851536 TCATACATCT
*
8851546 ATTTCCATATAACCAATTTATATAACCATCTCATGTAATC
1 ATTT-CATATAACCAATTTATATAACCATCTCATGTAAAC
* * * * * *
8851586 GTTTCATATAACTATTTTGTATAACCATTTCATTTAAAC
1 ATTTCATATAACCAATTTATATAACCATCTCATGTAAAC
8851625 ATTTCAT
1 ATTTCAT
8851632 TTTACCACTT
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
39 35 0.92
40 3 0.08
ACGTcount: A:0.35, C:0.19, G:0.03, T:0.43
Consensus pattern (39 bp):
ATTTCATATAACCAATTTATATAACCATCTCATGTAAAC
Found at i:8853333 original size:139 final size:139
Alignment explanation
Indices: 8853083--8853351 Score: 502
Period size: 139 Copynumber: 1.9 Consensus size: 139
8853073 GACGGCAGCA
*
8853083 GTAGTCTAACTTTGAAAAATCACCAAAAATTGTAAAGATCTAATTGGAGGATGAATAAAATATTA
1 GTAGTCTAACTTTGAAAAATCACCAAAAATTGTAAAGATCTAATTAGAGGATGAATAAAATATTA
*
8853148 AATTAAAGCTTATTGAGTCTAGTTTCTTATAAAAGAAACAGTGTAAGCAATGGAATTGTAAATCA
66 AATTAAAGCTTATTGAGTCTAGTTTCTTATAAAAGAAACAATGTAAGCAATGGAATTGTAAATCA
8853213 CCACAAATT
131 CCACAAATT
* *
8853222 GTAGTCTAATTTTGAAAAATCACCAAAAATTGTAGAGATCTAATTAGAGGATGAATAAAATATTA
1 GTAGTCTAACTTTGAAAAATCACCAAAAATTGTAAAGATCTAATTAGAGGATGAATAAAATATTA
8853287 AATTAAAGCTTATTGAGTCTAGTTTCTTATAAAAGAAACAATGTAAGCAATGGAATTGTAAATCA
66 AATTAAAGCTTATTGAGTCTAGTTTCTTATAAAAGAAACAATGTAAGCAATGGAATTGTAAATCA
8853352 TGAGATATAA
Statistics
Matches: 126, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
139 126 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (139 bp):
GTAGTCTAACTTTGAAAAATCACCAAAAATTGTAAAGATCTAATTAGAGGATGAATAAAATATTA
AATTAAAGCTTATTGAGTCTAGTTTCTTATAAAAGAAACAATGTAAGCAATGGAATTGTAAATCA
CCACAAATT
Found at i:8856137 original size:3 final size:3
Alignment explanation
Indices: 8856129--8856170 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
8856119 TTTAATTCAT
8856129 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8856171 GCATTAACCG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8856735 original size:25 final size:25
Alignment explanation
Indices: 8856701--8856748 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
8856691 CATCTCATAC
8856701 AGTGATACCTAACG-CTAAAAGTAAA
1 AGTGATACCTAACGTC-AAAAGTAAA
8856726 AGTGATACCTAACGTCAAAAGTA
1 AGTGATACCTAACGTCAAAAGTA
8856749 TAGCAATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.21
Consensus pattern (25 bp):
AGTGATACCTAACGTCAAAAGTAAA
Found at i:8857751 original size:60 final size:59
Alignment explanation
Indices: 8857629--8857744 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 59
8857619 TTAATATAAT
* * * * *
8857629 ATTTGGTACTTGAATTTAACTTTTTTCTAATTTGGTATCTAAACTTTATTTTGGGCAAA
1 ATTTGGTACATGAATTGAACTTTTTCCTAATTTGGCACCTAAACTTTATTTTGGGCAAA
8857688 ATTTGGTACATGAACTTGACACTTTTTCCTAATTTGGCACCTAAACTTT-TTTTGGGC
1 ATTTGGTACATGAA-TTGA-ACTTTTTCCTAATTTGGCACCTAAACTTTATTTTGGGC
8857745 CCAATTTACA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 13 0.26
60 11 0.22
61 26 0.52
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.46
Consensus pattern (59 bp):
ATTTGGTACATGAATTGAACTTTTTCCTAATTTGGCACCTAAACTTTATTTTGGGCAAA
Found at i:8858004 original size:4 final size:4
Alignment explanation
Indices: 8857995--8858020 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
8857985 CATTATTTTC
8857995 AATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AA
8858021 AACTAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (4 bp):
AATT
Found at i:8858298 original size:31 final size:31
Alignment explanation
Indices: 8858263--8858321 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
8858253 ATCAACTTAC
* * *
8858263 GAAAAAGTATCAAGTTTAGGTACTAAATTAA
1 GAAAAAGTAACAAGTTCAAGTACTAAATTAA
8858294 GAAAAAGTAACAAGTTCAAGTACTAAAT
1 GAAAAAGTAACAAGTTCAAGTACTAAAT
8858322 GTTATATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.51, C:0.08, G:0.15, T:0.25
Consensus pattern (31 bp):
GAAAAAGTAACAAGTTCAAGTACTAAATTAA
Found at i:8858356 original size:2 final size:2
Alignment explanation
Indices: 8858349--8858391 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
8858339 TAATTGGAGG
8858349 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8858390 AT
1 AT
8858392 TTGAAAGTGC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:8873018 original size:20 final size:20
Alignment explanation
Indices: 8872993--8873032 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8872983 ACAATTTAAA
*
8872993 ATATAAATTTATTAATATAT
1 ATATAAATGTATTAATATAT
*
8873013 ATATAAATGTATTAGTATAT
1 ATATAAATGTATTAATATAT
8873033 GTAAGAACAG
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:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
ATATAAATGTATTAATATAT
Found at i:8873158 original size:20 final size:19
Alignment explanation
Indices: 8873113--8873150 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
8873103 CATCCAAACA
8873113 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
8873132 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
8873151 TTCAGAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:8873179 original size:14 final size:14
Alignment explanation
Indices: 8873142--8873172 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8873132 CCAGAAAAGT
*
8873142 AAATCATTTTTCAG
1 AAATCATTTTCCAG
8873156 AAATCATTTTCCAG
1 AAATCATTTTCCAG
8873170 AAA
1 AAA
8873173 ATATTTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.35
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:8873377 original size:14 final size:14
Alignment explanation
Indices: 8873358--8873389 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
8873348 GAATCTTCTA
*
8873358 GTTCTTTAATGAAT
1 GTTCTTTAACGAAT
8873372 GTTCTTTAACGAAT
1 GTTCTTTAACGAAT
8873386 GTTC
1 GTTC
8873390 ATATAAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.47
Consensus pattern (14 bp):
GTTCTTTAACGAAT
Found at i:8876194 original size:24 final size:24
Alignment explanation
Indices: 8876167--8876226 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
8876157 TATTCATAAC
*
8876167 AAAAAATATTTTTTATAAAATTCT
1 AAAAAATATTTATTATAAAATTCT
* *
8876191 AAAATATA-TAATTATAAAATTCT
1 AAAAAATATTTATTATAAAATTCT
*
8876214 ACAAAGATATTTA
1 A-AAAAATATTTA
8876227 AATTTCAAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 14 0.48
24 13 0.45
25 2 0.07
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (24 bp):
AAAAAATATTTATTATAAAATTCT
Found at i:8880603 original size:25 final size:26
Alignment explanation
Indices: 8880575--8880625 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
8880565 AATGCCAATA
*
8880575 AATAATTTAAAAATTATA-AAAAATT
1 AATAATTTAAAAAGTATATAAAAATT
*
8880600 AATAATTTGAAAAGTATATAAAAATT
1 AATAATTTAAAAAGTATATAAAAATT
8880626 CAAAAACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (26 bp):
AATAATTTAAAAAGTATATAAAAATT
Found at i:8891021 original size:4 final size:4
Alignment explanation
Indices: 8891012--8891036 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
8891002 TCCACAATTC
8891012 TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT T
8891037 TCTCTCTCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:8911274 original size:5 final size:5
Alignment explanation
Indices: 8911264--8911289 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8911254 TAAGCATTCG
8911264 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
8911290 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:8912298 original size:9 final size:9
Alignment explanation
Indices: 8912284--8912320 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
8912274 TATAGTTTGA
8912284 TATTCGAAT
1 TATTCGAAT
8912293 TATTCGAAT
1 TATTCGAAT
*
8912302 TATTCGAGT
1 TATTCGAAT
8912311 TATTCGAAT
1 TATTCGAAT
8912320 T
1 T
8912321 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:8914739 original size:33 final size:33
Alignment explanation
Indices: 8914697--8914763 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
8914687 ACTATATGCT
8914697 TAAGTTTAGATAACAATAGCAATCATGGGCAAA
1 TAAGTTTAGATAACAATAGCAATCATGGGCAAA
8914730 TAAGTTTAGATAACAATAGCAATCATGGGCAAA
1 TAAGTTTAGATAACAATAGCAATCATGGGCAAA
8914763 T
1 T
8914764 TTACAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.25
Consensus pattern (33 bp):
TAAGTTTAGATAACAATAGCAATCATGGGCAAA
Found at i:8917436 original size:15 final size:15
Alignment explanation
Indices: 8917418--8917472 Score: 65
Period size: 15 Copynumber: 3.7 Consensus size: 15
8917408 AACCCTAATC
*
8917418 CTATTAGACACATCA
1 CTATCAGACACATCA
* *
8917433 CTATCAAATACATCA
1 CTATCAGACACATCA
* *
8917448 CTAACATACACATCA
1 CTATCAGACACATCA
8917463 CTATCAGACA
1 CTATCAGACA
8917473 TTTCTTCTTC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.44, C:0.29, G:0.04, T:0.24
Consensus pattern (15 bp):
CTATCAGACACATCA
Found at i:8919563 original size:37 final size:38
Alignment explanation
Indices: 8919521--8919608 Score: 160
Period size: 37 Copynumber: 2.3 Consensus size: 38
8919511 TTTTGATTTT
8919521 TGCTGTTAATGGTGTTCTAATTTTGA-TTTGCTGTTAA
1 TGCTGTTAATGGTGTTCTAATTTTGATTTTGCTGTTAA
*
8919558 TGCTGTTAATGGTGTTCTGATTTTGATTTTGCTGTTAA
1 TGCTGTTAATGGTGTTCTAATTTTGATTTTGCTGTTAA
8919596 TGCTGTTAATGGT
1 TGCTGTTAATGGT
8919609 TGTGTTTTTT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 25 0.51
38 24 0.49
ACGTcount: A:0.17, C:0.08, G:0.24, T:0.51
Consensus pattern (38 bp):
TGCTGTTAATGGTGTTCTAATTTTGATTTTGCTGTTAA
Found at i:8919616 original size:29 final size:29
Alignment explanation
Indices: 8919558--8919617 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
8919548 TTGCTGTTAA
* * *
8919558 TGCTGTTAATGGTGTTCTGATTTTGATTT
1 TGCTGTTAATGCTGTTATGATTGTGATTT
* *
8919587 TGCTGTTAATGCTGTTAATGGTTGTGTTTT
1 TGCTGTTAATGCTGTT-ATGATTGTGATTT
8919617 T
1 T
8919618 TATTTTTGCT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.13, C:0.07, G:0.25, T:0.55
Consensus pattern (29 bp):
TGCTGTTAATGCTGTTATGATTGTGATTT
Found at i:8923154 original size:9 final size:9
Alignment explanation
Indices: 8923140--8923176 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
8923130 GGTTGCAAAA
8923140 AGGACGATG
1 AGGACGATG
8923149 AGGACGATG
1 AGGACGATG
8923158 AGGACGATG
1 AGGACGATG
8923167 AGGACGATG
1 AGGACGATG
8923176 A
1 A
8923177 TGATGATGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.35, C:0.11, G:0.43, T:0.11
Consensus pattern (9 bp):
AGGACGATG
Found at i:8923995 original size:25 final size:25
Alignment explanation
Indices: 8923961--8924008 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
8923951 TTAAGATTTG
8923961 ATTGTTTGTAATTAAATTCAAATTA
1 ATTGTTTGTAATTAAATTCAAATTA
8923986 ATTGTTTGTAATTAAATTCAAAT
1 ATTGTTTGTAATTAAATTCAAAT
8924009 AAGTAATCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (25 bp):
ATTGTTTGTAATTAAATTCAAATTA
Found at i:8942379 original size:14 final size:15
Alignment explanation
Indices: 8942350--8942379 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8942340 TCATGCCAGT
8942350 TTTTAACAATAAAAA
1 TTTTAACAATAAAAA
8942365 TTTTAACAA-AAAAA
1 TTTTAACAATAAAAA
8942379 T
1 T
8942380 CAATTTACTC
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:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (15 bp):
TTTTAACAATAAAAA
Found at i:8961658 original size:19 final size:21
Alignment explanation
Indices: 8961624--8961664 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
8961614 TTTGGGTGAA
8961624 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
8961645 TCAGCT-TT-CGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
8961664 T
1 T
8961665 GACATATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.60
20 2 0.10
21 6 0.30
ACGTcount: A:0.12, C:0.27, G:0.20, T:0.41
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:8961867 original size:21 final size:20
Alignment explanation
Indices: 8961841--8961888 Score: 78
Period size: 21 Copynumber: 2.4 Consensus size: 20
8961831 ATAGAAGTTG
8961841 TGAATGACAGGAAATTGACAA
1 TGAATGACAGGAAATTGAC-A
*
8961862 TGAATGACAGGGAATTGACA
1 TGAATGACAGGAAATTGACA
8961882 TGAATGA
1 TGAATGA
8961889 TTTTATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.44, C:0.08, G:0.27, T:0.21
Consensus pattern (20 bp):
TGAATGACAGGAAATTGACA
Found at i:8964090 original size:2 final size:2
Alignment explanation
Indices: 8964067--8964117 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
8964057 TATTTTAATT
* * *
8964067 TA TA TC TA TA TA CA TA TT TA TA TA TA TA TA TA 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
8964109 TA TA TA TA T
1 TA TA TA TA T
8964118 CTTTACATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8968378 original size:27 final size:26
Alignment explanation
Indices: 8968348--8968413 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
8968338 ATATTTAAAA
8968348 AAAATAAAGAAAAAAGAAAAAAGAAGG
1 AAAATAAAGAAAAAAGAAAAAAGAA-G
* *
8968375 AAAATAAAGGAAAAAGAAAGAAGAAG
1 AAAATAAAGAAAAAAGAAAAAAGAAG
*
8968401 AAGA-AAAGAAAAA
1 AAAATAAAGAAAAA
8968414 TAAAAAGGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 8 0.23
26 4 0.11
27 23 0.66
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (26 bp):
AAAATAAAGAAAAAAGAAAAAAGAAG
Found at i:8969741 original size:44 final size:45
Alignment explanation
Indices: 8969667--8969795 Score: 154
Period size: 44 Copynumber: 2.9 Consensus size: 45
8969657 GTAAAGATAG
* * *
8969667 CAGATCTTGCCTTCCTGTACTGGCAATGAAGCAGATCGAAGACAC
1 CAGACCTTGCCTTCCTGTACTGACAGTGAAGCAGATCGAAGACAC
* * *
8969712 CAG-CCTTGCATTCCTGTACTGACAGTGAAGCAGA-CTGAAGATAG
1 CAGACCTTGCCTTCCTGTACTGACAGTGAAGCAGATC-GAAGACAC
* * *
8969756 TAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAA
1 CAGACCTTGCCTTCCTGTACTGACAGTGAAGCAGATCGAA
8969796 ACCATTAGTC
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
43 1 0.01
44 35 0.49
45 34 0.48
46 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (45 bp):
CAGACCTTGCCTTCCTGTACTGACAGTGAAGCAGATCGAAGACAC
Found at i:8969776 original size:45 final size:45
Alignment explanation
Indices: 8969660--8969795 Score: 177
Period size: 45 Copynumber: 3.0 Consensus size: 45
8969650 CAAATATGTA
* *
8969660 AAGATAGCAGATCTTGCCTTCCTGTACTGGCAATGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCG
* * * *
8969705 AAGACACCAG-CCTTGCATTCCTGTACTGACAGTGAAGCAGA-CTG
1 AAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATC-G
* *
8969749 AAGATAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCG
8969794 AA
1 AA
8969796 ACCATTAGTC
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
43 1 0.01
44 35 0.46
45 39 0.51
46 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.23
Consensus pattern (45 bp):
AAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCG
Found at i:8969951 original size:44 final size:43
Alignment explanation
Indices: 8969894--8971016 Score: 211
Period size: 44 Copynumber: 25.6 Consensus size: 43
8969884 GCCATTAGTC
8969894 CTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGTAGATT
1 CTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGA-TGTAGATT
* * * * * ** *
8969938 CTGTCTCCTTAAGCAGTAGTGGAGCAGATCAAAGATGGCGAAT
1 CTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATGTAGATT
* * *
8969981 CTTATCTTCCC-AAG-A-TAGTGGAGAAGCAGATTTAAGCCAT-TAG-TC
1 C-TATC-TCCCTAAGCAGTAGTGGAGTAG--G-TTAAAG--ATGTAGATT
* *
8970026 CTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATT
1 CTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGA-TGTAGATT
* * * * ** *
8970070 CTGTCTCCCTAAGCAGTAGTAGAGCAGATCGAAGATGGT-GAAT
1 CTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGAT-GTAGATT
* * *
8970113 CTTATCTTCCC-AAG-A-TAGTGGAGAAGCAGATTTAAGCCAT-TAG-TC
1 C-TATC-TCCCTAAGCAGTAGTGGAGTAG--G-TTAAAG--ATGTAGATT
* * * **
8970158 CTATCTCCCTAAGCAGTAGTGGAGTAAGTTGAAGATTGCAGGGT
1 CTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGA-TGTAGATT
* * ** ** *
8970202 CTGTCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGAAT
1 CTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATGTAGATT
* * * ** * *
8970245 CTTATCTCCCCAAG-A-TCGTGGAAAAGCATATTTAAGCCAT-TAG-TC
1 C-TATCTCCCTAAGCAGTAGTGG---AGTAGGTTAAAG--ATGTAGATT
* *
8970290 CTATATCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATT
1 CTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGA-TGTAGATT
* * * * * *
8970334 CTGTCTCCCTAAGCAGTAGTAGAGCAGATCGAAA-ATGGT-GAAT
1 CTATCTCCCTAAGCAGTAGTGGAGTAGGT-TAAAGAT-GTAGATT
* * * * * * *
8970377 CTTATCT-TCTCAAG-ATGGTAGAGAAGCAGATTTAAGCCAT-TAG-TC
1 C-TATCTCCCT-AAGCA--GTAGTGGAGTAGGTTAAAG--ATGTAGATT
* *
8970422 CTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATT
1 CTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGA-TGTAGATT
* * * * ** *
8970466 CTGTCCCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTA-AAT
1 CTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGAT-GTAGATT
* *
8970509 CTTATCTTCCC-AAG-A-TAGTGGAGAAGCAGGTTTAAGCCAT-TAG-TT
1 C-TATC-TCCCTAAGCAGTAGT-G-G-AGTAGGTTAAAG--ATGTAGATT
* * *
8970554 CTATCTCCCTAAGCAATACTGGAGTAGGTTGAAA-ATTGCAGATT
1 CTATCTCCCTAAGCAGTAGTGGAGTAGGTT-AAAGA-TGTAGATT
* * * * ** *
8970598 CTATCCCCCTAAACAATAGTGGAGTAGATCGAAGATGGT-GAAT
1 CTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGAT-GTAGATT
* * * * *
8970641 CT-TACTTTCC-AAG-A-TCGTGGAGAAGCAGATTTAAGACAT-TAG-TC
1 CTAT-C-TCCCTAAGCAGTAGTGGAGTAG--G--TTAA-AGATGTAGATT
* * **
8970685 CTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGGGT
1 CTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGA-TGTAGATT
* * * * ** *
8970729 CTGTCCCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGT-GAAT
1 CTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGAT-GTAGATT
* * *
8970772 CTTATCTTCCC-AAG-A-TAGTGGAGAAGCAGATTTAAGCCAT-TAG-TC
1 C-TATC-TCCCTAAGCAGTAGTGGAGTAG--G-TTAAAG--ATGTAGATT
* * * **
8970817 CTATCTCCCTAAGCAGTAGTGGAGTAAGTTGAAGATTGCAGGGT
1 CTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGA-TGTAGATT
* * * * ** * *
8970861 CTGTCCCCCTAAGCAGTAGTGGAGCAGATCGAACATGGT-GAAT
1 CTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGAT-GTAGATT
* *
8970904 CTTATCTTCCC-AAG-A-TAGTGGAGAAGTAGATTTAAGCCAT-TAG--T
1 C-TATC-TCCCTAAGCAGTAGT-G-G-AGTAGGTTAAAG--ATGTAGATT
* *
8970948 CATATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAA-ATTGCAGATC
1 C-TATCTCCCTAAGCAGTAGTGGAGTAGGTT-AAAGA-TGTAGATT
*
8970993 CTGTCTCCCTAAGCAGTAGTGGAG
1 CTATCTCCCTAAGCAGTAGTGGAG
8971017 CAGATCGAAG
Statistics
Matches: 776, Mismatches: 184, Indels: 238
0.65 0.15 0.20
Matches are distributed among these distances:
41 18 0.02
42 55 0.07
43 145 0.19
44 389 0.50
45 97 0.12
46 58 0.07
47 14 0.02
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (43 bp):
CTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATGTAGATT
Found at i:8971067 original size:132 final size:132
Alignment explanation
Indices: 8969809--8971044 Score: 1972
Period size: 132 Copynumber: 9.4 Consensus size: 132
8969799 ATTAGTCCTA
* *
8969809 TCTCCCTAAGCAATAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCAAGATAGTGGAGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAA
* * *
8969874 GCAAATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGTAGATTC
66 GCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC
8969939 TG
131 TG
* * *
8969941 TCTCCTTAAGCAGTAGTGGAGCAGATCAAAGATGGCGAATCTTATCTTCCCAAGATAGTGGAGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAA
8970006 GCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC
66 GCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC
8970071 TG
131 TG
*
8970073 TCTCCCTAAGCAGTAGTAGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAA
* **
8970138 GCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAAGTTGAAGATTGCAGGGTC
66 GCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC
8970203 TG
131 TG
* * * * *
8970205 TCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGAATCTTATCTCCCCAAGATCGTGGAAAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAA
* * *
8970270 GCATATTTAAGCCATTAGTCCTATATCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTC
66 GCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC
8970335 TG
131 TG
* * * * *
8970337 TCTCCCTAAGCAGTAGTAGAGCAGATCGAAAATGGTGAATCTTATCTTCTCAAGATGGTAGAGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAA
8970402 GCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC
66 GCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC
8970467 TG
131 TG
* *
8970469 TCCCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAAATCTTATCTTCCCAAGATAGTGGAGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAA
* * * * *
8970534 GCAGGTTTAAGCCATTAGTTCTATCTCCCTAAGCAATACTGGAGTAGGTTGAAAATTGCAGATTC
66 GCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC
*
8970599 TA
131 TG
* * * * * *
8970601 TCCCCCTAAACAATAGTGGAGTAGATCGAAGATGGTGAATCTTA-CTTTCCAAGATCGTGGAGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAA
* **
8970665 GCAGATTTAAGACATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGGGTC
66 GCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC
8970730 TG
131 TG
*
8970732 TCCCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAA
* **
8970797 GCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAAGTTGAAGATTGCAGGGTC
66 GCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC
8970862 TG
131 TG
* *
8970864 TCCCCCTAAGCAGTAGTGGAGCAGATCGAACATGGTGAATCTTATCTTCCCAAGATAGTGGAGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAA
* * * *
8970929 GTAGATTTAAGCCATTAGTCATATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTGCAGATCC
66 GCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC
8970994 TG
131 TG
* *
8970996 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTAT-TTCC
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCC
8971045 TAGGCGGTGC
Statistics
Matches: 1019, Mismatches: 84, Indels: 3
0.92 0.08 0.00
Matches are distributed among these distances:
131 121 0.12
132 898 0.88
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (132 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAA
GCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC
TG
Found at i:8975818 original size:40 final size:41
Alignment explanation
Indices: 8975760--8975889 Score: 133
Period size: 40 Copynumber: 3.2 Consensus size: 41
8975750 ACGTTTGGAT
* * *
8975760 AAAAAAGCCGTTAAAGATCGAGCATTAGCGGCGCTTTC-T-
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTCTTG
* * **
8975799 AACAAACGCCTCTATAGATCGAGCATTAGAGATGC-TTCTTG
1 AA-AAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTCTTG
**
8975840 AAAAATTCCGCTATAGATCGAGCATTAGCGGCGCTTT-TTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTCTTG
*
8975880 AAAAATGCCG
1 AAAAACGCCG
8975890 TAAAAAATTT
Statistics
Matches: 73, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
39 5 0.07
40 64 0.88
41 4 0.05
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (41 bp):
AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTCTTG
Found at i:8976064 original size:15 final size:15
Alignment explanation
Indices: 8976044--8976102 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
8976034 ACTATTTTAA
8976044 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
8976059 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
*
8976073 GGTTTATGGTTTATG
1 GGTTTATGGATTATG
* *
8976088 GGTTAATGGTTTATG
1 GGTTTATGGATTATG
8976103 TTTTATGATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 12 0.31
15 27 0.69
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.47
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:8976064 original size:22 final size:21
Alignment explanation
Indices: 8975984--8976085 Score: 64
Period size: 22 Copynumber: 4.8 Consensus size: 21
8975974 GAGCATTAGC
* *
8975984 TATGGATTATAGG-TTAGGGTA
1 TATGGATTAT-GGTTTAAGGTT
* * *
8976005 TATGGTTTAGGGTTTAAAGTT
1 TATGGATTATGGTTTAAGGTT
**
8976026 TA-GGAGTTACTATTTTAAGGTT
1 TATGGA-TTA-TGGTTTAAGGTT
* *
8976048 TATGGATTATGGGTTTAGGGAT
1 TATGGATTAT-GGTTTAAGGTT
*
8976070 TATGGTTTATGGTTTA
1 TATGGATTATGGTTTA
8976086 TGGGTTAATG
Statistics
Matches: 61, Mismatches: 15, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
20 4 0.07
21 25 0.41
22 29 0.48
23 3 0.05
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.45
Consensus pattern (21 bp):
TATGGATTATGGTTTAAGGTT
Found at i:8976076 original size:29 final size:29
Alignment explanation
Indices: 8976044--8976150 Score: 94
Period size: 29 Copynumber: 3.8 Consensus size: 29
8976034 ACTATTTTAA
8976044 GGTTTATGGATTATGGGTTTAGGGATTAT
1 GGTTTATGGATTATGGGTTTAGGGATTAT
* * * *
8976073 GGTTTATGGTTTATGGGTTAATGGTTTAT
1 GGTTTATGGATTATGGGTTTAGGGATTAT
* * *
8976102 GTTTTAT-GATT-TAGGGTTTAGGGGTTAG
1 GGTTTATGGATTAT-GGGTTTAGGGATTAT
* * *
8976130 GGTTAAGGGTTTA-GGGTTTAG
1 GGTTTATGGATTATGGGTTTAG
8976151 ATTAATTAGT
Statistics
Matches: 61, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
27 1 0.02
28 26 0.43
29 34 0.56
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.46
Consensus pattern (29 bp):
GGTTTATGGATTATGGGTTTAGGGATTAT
Found at i:8976121 original size:14 final size:14
Alignment explanation
Indices: 8975997--8976149 Score: 103
Period size: 14 Copynumber: 10.7 Consensus size: 14
8975987 GGATTATAGG
*
8975997 TTAGGGTATATGGT
1 TTAGGGTTTATGGT
**
8976011 TTAGGGTTTAAAGT
1 TTAGGGTTTATGGT
8976025 TTAGGAGTTACTAT--T
1 TTAGG-GTT--TATGGT
* *
8976040 TTAAGGTTTATGGA
1 TTAGGGTTTATGGT
* *
8976054 TTATGGGTTTAGGGA
1 TTA-GGGTTTATGGT
*
8976069 TTATGGTTTATGGT
1 TTAGGGTTTATGGT
*
8976083 TTATGGGTTAATGGT
1 TTA-GGGTTTATGGT
* * *
8976098 TTATGTTTTATGAT
1 TTAGGGTTTATGGT
* *
8976112 TTAGGGTTTAGGGG
1 TTAGGGTTTATGGT
* *
8976126 TTAGGGTTAAGGGT
1 TTAGGGTTTATGGT
8976140 TTAGGGTTTA
1 TTAGGGTTTA
8976150 GATTAATTAG
Statistics
Matches: 107, Mismatches: 25, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
12 3 0.03
14 70 0.65
15 32 0.30
17 2 0.02
ACGTcount: A:0.22, C:0.01, G:0.32, T:0.46
Consensus pattern (14 bp):
TTAGGGTTTATGGT
Found at i:8976150 original size:7 final size:7
Alignment explanation
Indices: 8976039--8976150 Score: 80
Period size: 7 Copynumber: 15.7 Consensus size: 7
8976029 GAGTTACTAT
*
8976039 TTTAAGG
1 TTTAGGG
*
8976046 TTTATGG
1 TTTAGGG
*
8976053 ATTATGGG
1 TTTA-GGG
8976061 TTTAGGG
1 TTTAGGG
* *
8976068 ATTATGG
1 TTTAGGG
*
8976075 TTTATGG
1 TTTAGGG
8976082 TTTATGGG
1 TTTA-GGG
* *
8976090 TTAATGG
1 TTTAGGG
* *
8976097 TTTATGT
1 TTTAGGG
* *
8976104 TTTATGA
1 TTTAGGG
8976111 TTTAGGG
1 TTTAGGG
8976118 TTTAGGG
1 TTTAGGG
*
8976125 GTTAGGG
1 TTTAGGG
*
8976132 TTAAGGG
1 TTTAGGG
8976139 TTTAGGG
1 TTTAGGG
8976146 TTTAG
1 TTTAG
8976151 ATTAATTAGT
Statistics
Matches: 84, Mismatches: 19, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
7 74 0.88
8 10 0.12
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:8978391 original size:23 final size:22
Alignment explanation
Indices: 8978348--8978391 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
8978338 TTCTAAGTCG
8978348 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
8978371 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
8978392 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:8978508 original size:45 final size:45
Alignment explanation
Indices: 8978444--8978529 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
8978434 CTCTGTAGAT
*
8978444 TCAGCACATAACAACCACCTTATTAATCAATGATGTCCGGTGGAA
1 TCAGCACATAACAACCACCTTACTAATCAATGATGTCCGGTGGAA
* *
8978489 TCAGCACATAGCAACCACCTTACTAATCAATGATGTTCGGT
1 TCAGCACATAACAACCACCTTACTAATCAATGATGTCCGGT
8978530 TCACATAGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (45 bp):
TCAGCACATAACAACCACCTTACTAATCAATGATGTCCGGTGGAA
Found at i:8978593 original size:51 final size:50
Alignment explanation
Indices: 8978535--8978721 Score: 207
Period size: 51 Copynumber: 3.7 Consensus size: 50
8978525 TCGGTTCACA
* *
8978535 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATAGACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCGGTAGACG
* * * *
8978586 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCCGGTACG-CA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCCGGTA-GACG
* * * * * *
8978637 TAGTATCCTGCACATAGTACTTCACAAGCGA-CATATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCCGGTAGACG
*
8978687 TAGTAGCCTGCACATAGTACTATACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
8978722 CATTTTCACT
Statistics
Matches: 110, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
49 3 0.03
50 34 0.31
51 70 0.64
52 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGGTAGACG
Found at i:8978714 original size:101 final size:102
Alignment explanation
Indices: 8978533--8978717 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 102
8978523 GTTCGGTTCA
* * *
8978533 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATAGACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACAAGCGACCATTACCATCCGATACACGTAGTAGCCTGCA
8978598 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
66 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
* * * *
8978635 CATAGTATCCTGCACATAGTACTTCACAAGCGA-CA-TATCATTCCGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACAAGCGACCATTACCA-TCCGATACACGTAGTAGCCTGC
*
8978698 ACATAGTACTATACACGTGA
65 ACATAGTACTACACACGTGA
8978718 CCATCATTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 4 0.05
101 41 0.55
102 29 0.39
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACAAGCGACCATTACCATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:8984571 original size:16 final size:16
Alignment explanation
Indices: 8984550--8984591 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
8984540 TTATTAAATT
*
8984550 ATATATTTTAATTATA
1 ATATATTTTAATAATA
8984566 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
8984581 AT-TATGTTTAA
1 ATATAT-TTTAA
8984592 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:8984576 original size:15 final size:15
Alignment explanation
Indices: 8984541--8984582 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
8984531 TTAAGAATTT
*
8984541 TATTAAATTAT-ATA
1 TATTTAATTATAATA
8984555 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
8984569 TATTTAATAATAAT
1 TATTTAATTATAAT
8984583 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:8985939 original size:47 final size:45
Alignment explanation
Indices: 8985885--8986013 Score: 132
Period size: 47 Copynumber: 2.7 Consensus size: 45
8985875 CATTATCTCC
* * *
8985885 ATCTCTTTGATTATCTTGAGACATGTTAAGGTTTTTAATATTTTACT
1 ATCTCTTT-ATTATCTTGAAACAT-TTAAGGTTTTAAATAATTTACT
* * * *
8985932 CTCTCTTTCTTTGTCTTGAAACATTCTAAGATTTTAAATAATTTACT
1 ATCTCTTT-ATTATCTTGAAACATT-TAAGGTTTTAAATAATTTACT
*
8985979 ATCTCTTTATCAGTCTTGAAACATTTTAAGGTTTT
1 ATCTCTTTATTA-TCTTGAAACA-TTTAAGGTTTT
8986014 CTTGAAATAT
Statistics
Matches: 66, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
46 2 0.03
47 62 0.94
48 2 0.03
ACGTcount: A:0.26, C:0.14, G:0.10, T:0.50
Consensus pattern (45 bp):
ATCTCTTTATTATCTTGAAACATTTAAGGTTTTAAATAATTTACT
Found at i:8986016 original size:21 final size:21
Alignment explanation
Indices: 8985992--8986034 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
8985982 TCTTTATCAG
8985992 TCTTGAAACATTTTAAGGTTT
1 TCTTGAAACATTTTAAGGTTT
* *
8986013 TCTTGAAATATTTTGAGGTTT
1 TCTTGAAACATTTTAAGGTTT
8986034 T
1 T
8986035 TTTTTTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.07, G:0.16, T:0.51
Consensus pattern (21 bp):
TCTTGAAACATTTTAAGGTTT
Found at i:8986137 original size:77 final size:77
Alignment explanation
Indices: 8986044--8986192 Score: 210
Period size: 77 Copynumber: 1.9 Consensus size: 77
8986034 TTTTTTTATA
* * *
8986044 ATTTACTATGTCTTTGTCTCTCTTAAAACATTTTGAGGTTTTTAATAATTTACTATTTCTTTGGT
1 ATTTACTATCTCTTTGTCTCTCTTAAAACATTTTGAGGTTTTAAATAATTTACTATATCTTT-GT
8986109 -TGTCTTGGAATG
65 CTGTCTTGGAATG
* * * * *
8986121 ATTTACTATCTCTTTGTTTGTTTTGAAATATTTTGAGGTTTTAAATAATTTACTATATCTTTGTC
1 ATTTACTATCTCTTTGTCTCTCTTAAAACATTTTGAGGTTTTAAATAATTTACTATATCTTTGTC
8986186 TGTCTTG
66 TGTCTTG
8986193 AAACATTTTG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
76 2 0.03
77 61 0.97
ACGTcount: A:0.22, C:0.11, G:0.13, T:0.54
Consensus pattern (77 bp):
ATTTACTATCTCTTTGTCTCTCTTAAAACATTTTGAGGTTTTAAATAATTTACTATATCTTTGTC
TGTCTTGGAATG
Found at i:8986194 original size:47 final size:47
Alignment explanation
Indices: 8986121--8986210 Score: 144
Period size: 47 Copynumber: 1.9 Consensus size: 47
8986111 TCTTGGAATG
* * * *
8986121 ATTTACTATCTCTTTGTTTGTTTTGAAATATTTTGAGGTTTTAAATA
1 ATTTACTATATCTTTGTCTGTCTTGAAACATTTTGAGGTTTTAAATA
8986168 ATTTACTATATCTTTGTCTGTCTTGAAACATTTTGAGGTTTTA
1 ATTTACTATATCTTTGTCTGTCTTGAAACATTTTGAGGTTTTA
8986211 TTGAAATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.24, C:0.09, G:0.13, T:0.53
Consensus pattern (47 bp):
ATTTACTATATCTTTGTCTGTCTTGAAACATTTTGAGGTTTTAAATA
Found at i:8986214 original size:21 final size:21
Alignment explanation
Indices: 8986190--8986231 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
8986180 TTTGTCTGTC
*
8986190 TTGAAACATTTTGAGGTTTTA
1 TTGAAACATTTTGAGGCTTTA
*
8986211 TTGAAATATTTTGAGGCTTTA
1 TTGAAACATTTTGAGGCTTTA
8986232 AATAATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.05, G:0.19, T:0.48
Consensus pattern (21 bp):
TTGAAACATTTTGAGGCTTTA
Found at i:8986256 original size:68 final size:68
Alignment explanation
Indices: 8986143--8986279 Score: 238
Period size: 68 Copynumber: 2.0 Consensus size: 68
8986133 TTTGTTTGTT
* *
8986143 TTGAAATATTTTGAGGTTTTAAATAATTTACTATATCTTTGTCTGTCTTGAAACATTTTGAGGTT
1 TTGAAATATTTTGAGGCTTTAAATAATTTACTATATCTTTATCTGTCTTGAAACATTTTGAGGTT
8986208 TTA
66 TTA
* *
8986211 TTGAAATATTTTGAGGCTTTAAATAATTTATTATCTCTTTATCTGTCTTGAAACATTTTGAGGTT
1 TTGAAATATTTTGAGGCTTTAAATAATTTACTATATCTTTATCTGTCTTGAAACATTTTGAGGTT
8986276 TTA
66 TTA
8986279 T
1 T
8986280 GGTCTTCGAT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.28, C:0.08, G:0.14, T:0.50
Consensus pattern (68 bp):
TTGAAATATTTTGAGGCTTTAAATAATTTACTATATCTTTATCTGTCTTGAAACATTTTGAGGTT
TTA
Found at i:8987532 original size:42 final size:43
Alignment explanation
Indices: 8987451--8987579 Score: 161
Period size: 43 Copynumber: 3.0 Consensus size: 43
8987441 GAACGGTACT
* * *
8987451 TTTAGCGGCGTTTGTCGGTACAGTGCCGCTAAAGGTCATGTTC
1 TTTAACGGCGTTTGTCGGTAAAGCGCCGCTAAAGGTCATGTTC
* * **
8987494 TTTAATGGCGTTTGT-GATAAAGCGCCGCTAAAACTCATGTTC
1 TTTAACGGCGTTTGTCGGTAAAGCGCCGCTAAAGGTCATGTTC
* * *
8987536 TTTAGCGGCGTTTGTGGGTAAAGCGCCACTAAAGGTCATGTTC
1 TTTAACGGCGTTTGTCGGTAAAGCGCCGCTAAAGGTCATGTTC
8987579 T
1 T
8987580 ATAGCAGTAT
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 35 0.49
43 37 0.51
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (43 bp):
TTTAACGGCGTTTGTCGGTAAAGCGCCGCTAAAGGTCATGTTC
Found at i:8987854 original size:19 final size:19
Alignment explanation
Indices: 8987830--8987870 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
8987820 TCCAATTCAA
*
8987830 TCTCAACTCTCTCTCACAT
1 TCTCAACTCTCTCTCAAAT
*
8987849 TCTCAATTCTCTCTCAAAT
1 TCTCAACTCTCTCTCAAAT
8987868 TCT
1 TCT
8987871 TCTCAATACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.22, C:0.37, G:0.00, T:0.41
Consensus pattern (19 bp):
TCTCAACTCTCTCTCAAAT
Found at i:8993855 original size:31 final size:32
Alignment explanation
Indices: 8993798--8993858 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
8993788 ACTATATATG
*
8993798 AATTTTGATTTGATATGTAGTTTCATAAATGA
1 AATTTTGATTTGATATGTAATTTCATAAATGA
8993830 AATTTTGATTTGAT-T-TAATTCTCATAAAT
1 AATTTTGATTTGATATGTAATT-TCATAAAT
8993859 TATTAATACG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 4 0.15
31 9 0.33
32 14 0.52
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.49
Consensus pattern (32 bp):
AATTTTGATTTGATATGTAATTTCATAAATGA
Found at i:8996036 original size:7 final size:7
Alignment explanation
Indices: 8996024--8996054 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
8996014 AGGTGTAATC
8996024 GCTTAAA
1 GCTTAAA
8996031 GCTTAAA
1 GCTTAAA
8996038 GCTTAAA
1 GCTTAAA
8996045 GCTTAAA
1 GCTTAAA
8996052 GCT
1 GCT
8996055 GACAGAGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (7 bp):
GCTTAAA
Found at i:8996750 original size:14 final size:14
Alignment explanation
Indices: 8996728--8996757 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8996718 AAAGTTATTA
*
8996728 ATCATTATATATGT
1 ATCAATATATATGT
8996742 ATCAATATATATGT
1 ATCAATATATATGT
8996756 AT
1 AT
8996758 AGAATTAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (14 bp):
ATCAATATATATGT
Found at i:8997291 original size:3 final size:3
Alignment explanation
Indices: 8997283--8997328 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
8997273 TTTAGGCCCT
*
8997283 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAC TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
8997329 GATATACCGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:8997816 original size:16 final size:16
Alignment explanation
Indices: 8997795--8997864 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
8997785 TTTGGTTCGC
* *
8997795 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* *
8997811 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
8997827 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
8997843 TGTAATGGAATAGATG
1 TGTAATGGAATAGAGG
8997859 TGTAAT
1 TGTAAT
8997865 AGCAAATCAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:8997894 original size:45 final size:44
Alignment explanation
Indices: 8997843--8997933 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
8997833 GGAATAGAGG
* *
8997843 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAAGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
8997888 TGTAATGGAATAGAAGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAAGCGTAATAGAAATCAACTGTTTGGTTGAA
8997932 TG
1 TG
8997934 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAAGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:9001448 original size:35 final size:34
Alignment explanation
Indices: 9001409--9001476 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 34
9001399 TTGAGGTTCA
*
9001409 AGTTTATGGTTCAAGGATTT-GAGGTTTATGGGTTG
1 AGTTTAAGGTTCAAGGATTTCG-GG-TTATGGGTTG
* *
9001444 AGTTTAAGGTTTAAGGGTTTCGGGTTATGGGTT
1 AGTTTAAGGTTCAAGGATTTCGGGTTATGGGTT
9001477 ATGAGCTCGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 9 0.31
35 19 0.66
36 1 0.03
ACGTcount: A:0.19, C:0.03, G:0.35, T:0.43
Consensus pattern (34 bp):
AGTTTAAGGTTCAAGGATTTCGGGTTATGGGTTG
Found at i:9002002 original size:14 final size:13
Alignment explanation
Indices: 9001979--9002026 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
9001969 AACCCTAATC
9001979 AAATTATAAACACT
1 AAATT-TAAACACT
*
9001993 AAATTCTAAACCCT
1 AAATT-TAAACACT
*
9002007 AAATATGAAACACT
1 AAAT-TTAAACACT
9002021 AAATTT
1 AAATTT
9002027 TACTCAACTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
13 1 0.04
14 26 0.93
15 1 0.04
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.29
Consensus pattern (13 bp):
AAATTTAAACACT
Found at i:9008402 original size:15 final size:16
Alignment explanation
Indices: 9008365--9008407 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
9008355 TATATACATT
*
9008365 AAAAATAATTACATATG
1 AAAAATAA-TAAATATG
*
9008382 AAAAATTATAAATAT-
1 AAAAATAATAAATATG
9008397 AAAAATAATAA
1 AAAAATAATAA
9008408 TTACATTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 10 0.43
16 6 0.26
17 7 0.30
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (16 bp):
AAAAATAATAAATATG
Found at i:9010230 original size:18 final size:18
Alignment explanation
Indices: 9010179--9010230 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
9010169 TATGTTGTTA
*
9010179 TTATTTTATTGTTAATGT
1 TTATTTTATTGTTAATAT
**
9010197 TTA-CATATTGTATAATAT
1 TTATTTTATTGT-TAATAT
9010215 TTATTTTATTGTTAAT
1 TTATTTTATTGTTAAT
9010231 TTTGTTATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 6 0.22
18 15 0.56
19 6 0.22
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.62
Consensus pattern (18 bp):
TTATTTTATTGTTAATAT
Found at i:9016518 original size:19 final size:20
Alignment explanation
Indices: 9016494--9016545 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
9016484 GTTTTCCTAC
*
9016494 AAAAATAAAATAA-AATAGT
1 AAAAATAAAATAATAATAGG
9016513 AAAAATAAATAATAATAATAGG
1 AAAAAT-AA-AATAATAATAGG
*
9016535 AAAATTAAAAT
1 AAAAATAAAAT
9016546 TTTTTTCNNN
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 6 0.21
20 5 0.18
21 7 0.25
22 10 0.36
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (20 bp):
AAAAATAAAATAATAATAGG
Found at i:9022085 original size:30 final size:30
Alignment explanation
Indices: 9022051--9022107 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
9022041 TTAGGCACTT
9022051 AGATATTTTTCTGT-AGACTTGTCAAATACG
1 AGATATTTTTCTGTGA-ACTTGTCAAATACG
9022081 AGATATTTTTCTGTGAACTTGTCAAAT
1 AGATATTTTTCTGTGAACTTGTCAAAT
9022108 TCTAAACAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (30 bp):
AGATATTTTTCTGTGAACTTGTCAAATACG
Found at i:9022858 original size:28 final size:28
Alignment explanation
Indices: 9022809--9022897 Score: 87
Period size: 28 Copynumber: 3.2 Consensus size: 28
9022799 AGCCCCGTGA
*
9022809 CAAGTGGTA-TCAGAG-TAAGGTTCGAAC
1 CAAGTGGTATTC-GAGCCAAGGTTCGAAC
*
9022836 CAAG-GAGATATTCGAGCC-AGGTTCAAAC
1 CAAGTG-G-TATTCGAGCCAAGGTTCGAAC
* *
9022864 CAAGTGGTATTCGAGCCAAGTTTTGAAC
1 CAAGTGGTATTCGAGCCAAGGTTCGAAC
9022892 CAAGTG
1 CAAGTG
9022898 ATATCTGAGT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
26 1 0.02
27 15 0.29
28 32 0.63
29 3 0.06
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (28 bp):
CAAGTGGTATTCGAGCCAAGGTTCGAAC
Found at i:9031159 original size:2 final size:2
Alignment explanation
Indices: 9031152--9031185 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
9031142 ATCACAAACA
*
9031152 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9031186 GCGAATTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:9033029 original size:44 final size:44
Alignment explanation
Indices: 9032996--9033211 Score: 299
Period size: 44 Copynumber: 4.9 Consensus size: 44
9032986 GACAGGATCC
**
9032996 ACAATCTTCAACCTATTCCACTGCTATTCAGGGAGATAGGA-TAT
1 ACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACT-T
* *
9033040 ACAATCTTCCACCTATTCCACTGCTGGTCAGGGAGTTAGGACTT
1 ACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTT
* * * *
9033084 GCAATCTTCAACCTATTCCACTGCTAGTCAGGGAGTTAGGACTG
1 ACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTT
* * **
9033128 GCAATCTTCTACCTATTCGTCTGCTGGTCAGGGAGATAGGACTT
1 ACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTT
*
9033172 ACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGCTAGG
1 ACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGG
9033212 TTTTGTGATT
Statistics
Matches: 152, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
44 151 0.99
45 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (44 bp):
ACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTT
Found at i:9040000 original size:2 final size:2
Alignment explanation
Indices: 9039993--9040017 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9039983 TGTTAAGTTT
9039993 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
9040018 TCGGATGTAT
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:9040309 original size:41 final size:41
Alignment explanation
Indices: 9040216--9040293 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
9040206 CAGTGACATA
* *
9040216 ATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAAGT
1 ATTCAGACTATACATCTAGCAGGCTTAATGCCGGTGAAAGT
9040257 ATTCAGACTATACATCTAGCAGGCTTAATGCCGGTGA
1 ATTCAGACTATACATCTAGCAGGCTTAATGCCGGTGA
9040294 TACATTTCGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (41 bp):
ATTCAGACTATACATCTAGCAGGCTTAATGCCGGTGAAAGT
Found at i:9040316 original size:41 final size:42
Alignment explanation
Indices: 9040216--9040318 Score: 135
Period size: 41 Copynumber: 2.5 Consensus size: 42
9040206 CAGTGACATA
*
9040216 ATTCAGACTTTAC-GTCTAGCAGGCTTAATGCCGGTGAAAGT
1 ATTCAGACTATACAGTCTAGCAGGCTTAATGCCGGTGAAAGT
9040257 ATTCAGACTATACA-TCTAGCAGGCTTAATGCCGGTGATACA-T
1 ATTCAGACTATACAGTCTAGCAGGCTTAATGCCGGTGA-A-AGT
*
9040299 -TTCGGACTATA-AGTCTAGCA
1 ATTCAGACTATACAGTCTAGCA
9040319 AGCTCAAGAG
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
40 1 0.02
41 52 0.93
42 2 0.04
43 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (42 bp):
ATTCAGACTATACAGTCTAGCAGGCTTAATGCCGGTGAAAGT
Found at i:9040585 original size:37 final size:37
Alignment explanation
Indices: 9040540--9040654 Score: 176
Period size: 37 Copynumber: 3.1 Consensus size: 37
9040530 ATAGATAAAA
* *
9040540 ATATATGTATGCATTTGGCATAGGTGAATATAAGGGT
1 ATATATGTATGCATTCGGCATAGGTGAATATAAGTGT
*
9040577 ATATATGTATGCATTCGGCATAGGTGAAAATAAGTGT
1 ATATATGTATGCATTCGGCATAGGTGAATATAAGTGT
* **
9040614 ATATATGTATGCATTCGGCATAAGTGGGTATAAGTGT
1 ATATATGTATGCATTCGGCATAGGTGAATATAAGTGT
9040651 ATAT
1 ATAT
9040655 GTGCATTCGG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.35
Consensus pattern (37 bp):
ATATATGTATGCATTCGGCATAGGTGAATATAAGTGT
Found at i:9040665 original size:33 final size:35
Alignment explanation
Indices: 9040540--9040667 Score: 125
Period size: 37 Copynumber: 3.6 Consensus size: 35
9040530 ATAGATAAAA
* * * *
9040540 ATATATGTATGCATTTGGCATAGGTGAATATAAGGG
1 ATATATG-ATGCATTCGGCATAAGTGAAAATAAGTG
*
9040576 TATATATGTATGCATTCGGCATAGGTGAAAATAAGTG
1 -ATATATG-ATGCATTCGGCATAAGTGAAAATAAGTG
***
9040613 TATATATGTATGCATTCGGCATAAGTGGGTATAAGTG
1 -ATATATG-ATGCATTCGGCATAAGTGAAAATAAGTG
9040650 -TATATG-TGCATTCGGCAT
1 ATATATGATGCATTCGGCAT
9040668 TTATGGTTGA
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
33 12 0.14
35 6 0.07
37 66 0.79
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (35 bp):
ATATATGATGCATTCGGCATAAGTGAAAATAAGTG
Found at i:9048723 original size:2 final size:2
Alignment explanation
Indices: 9048716--9048749 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
9048706 ATCACAAACA
*
9048716 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9048750 GCGAATTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:9050155 original size:27 final size:26
Alignment explanation
Indices: 9050125--9050176 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
9050115 TTTTTTGGAC
9050125 ATTTAATTT-TTAATTTGGTTTTATTTT
1 ATTT-ATTTGTTAATTTGG-TTTATTTT
*
9050152 ATTTATTTGTTTATTTGGTTTATTT
1 ATTTATTTGTTAATTTGGTTTATTT
9050177 CACTAACGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (26 bp):
ATTTATTTGTTAATTTGGTTTATTTT
Found at i:9050281 original size:5 final size:6
Alignment explanation
Indices: 9050254--9050292 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
9050244 GAATGATGCC
* *
9050254 AAAAGA AAGAAGC AAAAGA AAAAGA AAAATA AAAAGA AA
1 AAAAGA AA-AAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
9050293 CGGTGAGGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:9054023 original size:64 final size:64
Alignment explanation
Indices: 9053914--9054038 Score: 178
Period size: 64 Copynumber: 2.0 Consensus size: 64
9053904 CATCCCGATT
* ** ***
9053914 GGTATTGATCTTGCATGTGTTGTGGACATACCGCAGCTTTTTGTGAGCGTCCTATTATATGATC
1 GGTAGTGATCTTGCATGTGTTGCAGACATACCGCAGCTCACTGTGAGCGTCCTATTATATGATC
* *
9053978 GGTAGTGATCTTGCATGTGTTGCAGATATACCGCAGCTCACTGTGAGCGTCCTGTTATATG
1 GGTAGTGATCTTGCATGTGTTGCAGACATACCGCAGCTCACTGTGAGCGTCCTATTATATG
9054039 GTTCTCCGGA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.36
Consensus pattern (64 bp):
GGTAGTGATCTTGCATGTGTTGCAGACATACCGCAGCTCACTGTGAGCGTCCTATTATATGATC
Found at i:9054123 original size:24 final size:24
Alignment explanation
Indices: 9054081--9054126 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
9054071 AACTTCCAGA
*
9054081 ATTTATGGCTATCCGGAGCTTCTG
1 ATTTATGGCTATCCAGAGCTTCTG
* *
9054105 ATTTATGGCTCTTCAGAGCTTC
1 ATTTATGGCTATCCAGAGCTTC
9054127 CCGTTAAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (24 bp):
ATTTATGGCTATCCAGAGCTTCTG
Found at i:9056322 original size:20 final size:20
Alignment explanation
Indices: 9056293--9056330 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9056283 ATAATTATAT
* *
9056293 TAATTGTATATGTTAAATAA
1 TAATTATATATATTAAATAA
9056313 TAATTATATATATTAAAT
1 TAATTATATATATTAAAT
9056331 CATCAACCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TAATTATATATATTAAATAA
Found at i:9056421 original size:15 final size:16
Alignment explanation
Indices: 9056403--9056433 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9056393 TATATTTATG
9056403 ATAAAT-TTTTTTAAT
1 ATAAATATTTTTTAAT
9056418 ATAAATATTTTTTAAT
1 ATAAATATTTTTTAAT
9056434 GTGTTAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATAAATATTTTTTAAT
Found at i:9061058 original size:32 final size:32
Alignment explanation
Indices: 9061021--9061089 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
9061011 AGTCATTGGT
*
9061021 CTCGTGTTTGTTGCTGTTTCGGTTTAGGTAAG
1 CTCGTGTTTGTTGCTGTTTCGATTTAGGTAAG
9061053 CTCGTGTTTGTTGCTGTTTCGATTTAGGTAAG
1 CTCGTGTTTGTTGCTGTTTCGATTTAGGTAAG
9061085 CTCGT
1 CTCGT
9061090 ATAATGATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.10, C:0.14, G:0.29, T:0.46
Consensus pattern (32 bp):
CTCGTGTTTGTTGCTGTTTCGATTTAGGTAAG
Found at i:9067194 original size:20 final size:20
Alignment explanation
Indices: 9067166--9067214 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
9067156 GAATCTTTGA
* *
9067166 TTTTCTTTCTATCTTTGTTG
1 TTTTATTTCTATCCTTGTTG
*
9067186 TTTTATTTCTTTCCTTGTTG
1 TTTTATTTCTATCCTTGTTG
*
9067206 TTTTGTTTC
1 TTTTATTTC
9067215 CTTGCAGGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.04, C:0.14, G:0.10, T:0.71
Consensus pattern (20 bp):
TTTTATTTCTATCCTTGTTG
Found at i:9067663 original size:21 final size:21
Alignment explanation
Indices: 9067637--9067691 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
9067627 CGAAGGCTGC
*
9067637 ACAGAAGCACATAAGTGCTAA
1 ACAGAAGCACATAAGGGCTAA
* * * *
9067658 ACAGAAACCCGTAAGGGTTAA
1 ACAGAAGCACATAAGGGCTAA
*
9067679 ACAGAAGCTCATA
1 ACAGAAGCACATA
9067692 GCAGCTGAAT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.15
Consensus pattern (21 bp):
ACAGAAGCACATAAGGGCTAA
Found at i:9067781 original size:42 final size:41
Alignment explanation
Indices: 9067661--9067781 Score: 143
Period size: 42 Copynumber: 2.9 Consensus size: 41
9067651 GTGCTAAACA
* *
9067661 GAAACCCGTAAGGGTTAAACAGAAGCTCATAGCAGCTGAATG
1 GAAACCCATAAGGGTTAAACAGAAGCTCATAG-AGTTGAATG
* * * *
9067703 GAAATCTATAAGGGTTAAACTGAAGCTCAAAAGAGTTGAATG
1 GAAACCCATAAGGGTTAAACAGAAGCTC-ATAGAGTTGAATG
* *
9067745 GAAGCCCATAAGGGTTAAACAGAAACTCATATGAGTT
1 GAAACCCATAAGGGTTAAACAGAAGCTCATA-GAGTT
9067782 AACAGAAGCT
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
41 2 0.03
42 60 0.92
43 3 0.05
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (41 bp):
GAAACCCATAAGGGTTAAACAGAAGCTCATAGAGTTGAATG
Found at i:9067892 original size:24 final size:24
Alignment explanation
Indices: 9067860--9067907 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
9067850 TACTTAGGTA
*
9067860 ATTTGCCATCAATTCATCATTTGC
1 ATTTACCATCAATTCATCATTTGC
9067884 ATTTACCATCAATTCATCATTTGC
1 ATTTACCATCAATTCATCATTTGC
9067908 CACAGAACGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.42
Consensus pattern (24 bp):
ATTTACCATCAATTCATCATTTGC
Found at i:9072409 original size:25 final size:25
Alignment explanation
Indices: 9072375--9072439 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
9072365 CATTTCACAG
9072375 CTCGTGTGAGCATTTA-CAGTTACAA
1 CTCGTGTGAGCATTTATC-GTTACAA
* *
9072400 CTCGTGTGAGCAATTATCGTTATAA
1 CTCGTGTGAGCATTTATCGTTACAA
*
9072425 CTCGTGTGATCATTT
1 CTCGTGTGAGCATTT
9072440 TCCCTCGTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 34 0.97
26 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (25 bp):
CTCGTGTGAGCATTTATCGTTACAA
Found at i:9080063 original size:28 final size:29
Alignment explanation
Indices: 9080027--9080090 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
9080017 AAAGGAATGT
* * * **
9080027 CTTTGTGGCAATTTCTG-TAAATGGATGC
1 CTTTATGGCAATCTCTGTTAAAAGGACAC
*
9080055 CTTTATGGCTATCTCTGTTAAAAGGACAC
1 CTTTATGGCAATCTCTGTTAAAAGGACAC
9080084 CTTTATG
1 CTTTATG
9080091 ACTCTCTTAG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.39
Consensus pattern (29 bp):
CTTTATGGCAATCTCTGTTAAAAGGACAC
Found at i:9086429 original size:18 final size:18
Alignment explanation
Indices: 9086406--9086466 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
9086396 TACTAGCTAA
9086406 TATTGATCAGCAAAGTGG
1 TATTGATCAGCAAAGTGG
* * **
9086424 TATTGATTTA-C-AGGCTAA
1 TATTGA-TCAGCAAAG-TGG
9086442 TATTGATCAGCAAAGTGG
1 TATTGATCAGCAAAGTGG
9086460 TATTGAT
1 TATTGAT
9086467 GATAGAAGCA
Statistics
Matches: 31, Mismatches: 8, Indels: 8
0.66 0.17 0.17
Matches are distributed among these distances:
17 4 0.13
18 23 0.74
19 4 0.13
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.34
Consensus pattern (18 bp):
TATTGATCAGCAAAGTGG
Found at i:9094509 original size:21 final size:21
Alignment explanation
Indices: 9094483--9094525 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
9094473 CGCGAATCAA
9094483 TTTTTTATATTAAA-AAAATAT
1 TTTTTTAT-TTAAATAAAATAT
*
9094504 TTTTTTGTTTAAATAAAATAT
1 TTTTTTATTTAAATAAAATAT
9094525 T
1 T
9094526 AATTTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTTTTATTTAAATAAAATAT
Found at i:9094534 original size:20 final size:20
Alignment explanation
Indices: 9094492--9094534 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
9094482 ATTTTTTATA
**
9094492 TTAAAAAAATATTTTTTTGT
1 TTAAAAAAATATTAATTTGT
9094512 TTAAATAAAATATTAATTT-T
1 TTAAA-AAAATATTAATTTGT
9094532 TTA
1 TTA
9094535 TTTTTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TTAAAAAAATATTAATTTGT
Found at i:9094944 original size:17 final size:17
Alignment explanation
Indices: 9094924--9094962 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
9094914 GAAAAGAGAG
9094924 AAAGGAGAAAAAAAAAA
1 AAAGGAGAAAAAAAAAA
* *
9094941 AAAGAAGAAAGAAAAAA
1 AAAGGAGAAAAAAAAAA
9094958 AAAGG
1 AAAGG
9094963 TAATGTATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAAGGAGAAAAAAAAAA
Found at i:9094949 original size:24 final size:23
Alignment explanation
Indices: 9094915--9094960 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
9094905 AGAGAGAAAG
9094915 AAAAGAGAGAAAGGAGAAAAAAAAA
1 AAAAGAGAGAAA-GA-AAAAAAAAA
9094940 AAAAGA-AGAAAGAAAAAAAAA
1 AAAAGAGAGAAAGAAAAAAAAA
9094961 GGTAATGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.38
23 2 0.10
24 5 0.24
25 6 0.29
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (23 bp):
AAAAGAGAGAAAGAAAAAAAAAA
Found at i:9095188 original size:60 final size:60
Alignment explanation
Indices: 9095123--9095241 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 60
9095113 TTGCTTTTTA
* * *
9095123 TAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTTG
9095183 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTT
9095242 AGTTTAGTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.54
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTTG
Found at i:9097463 original size:6 final size:6
Alignment explanation
Indices: 9097452--9097493 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
9097442 GCATCATGCA
* *
9097452 CCAGAG CCAGAG CTAGAG CCAGAG CCAGAG CCGGAG CCAGAG
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
9097494 ACGGAACTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.31, C:0.31, G:0.36, T:0.02
Consensus pattern (6 bp):
CCAGAG
Found at i:9097693 original size:33 final size:34
Alignment explanation
Indices: 9097632--9097734 Score: 95
Period size: 33 Copynumber: 3.1 Consensus size: 34
9097622 AGTCATCCTA
* * **
9097632 GCTC-GTATCCACTTCAGTACTCTGCTCCTTCCG
1 GCTCTGTATACACCTCAGTACTCCACTCCTTCCG
* **
9097665 GCTC-GTATATACCTCAGTACTCCACTCCTTTTG
1 GCTCTGTATACACCTCAGTACTCCACTCCTTCCG
* * *
9097698 GC-CTGTATCCACCGCCGTACTCCACTCCTTCCG
1 GCTCTGTATACACCTCAGTACTCCACTCCTTCCG
9097731 GCTC
1 GCTC
9097735 AAGTTCATCG
Statistics
Matches: 55, Mismatches: 13, Indels: 3
0.77 0.18 0.04
Matches are distributed among these distances:
32 1 0.02
33 53 0.96
34 1 0.02
ACGTcount: A:0.14, C:0.41, G:0.15, T:0.31
Consensus pattern (34 bp):
GCTCTGTATACACCTCAGTACTCCACTCCTTCCG
Found at i:9101229 original size:27 final size:26
Alignment explanation
Indices: 9101191--9101248 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
9101181 CCACCATTCA
*
9101191 CGCCTCTGAGTTAGGCACAACTAGTC
1 CGCCTCTGAGTTAAGCACAACTAGTC
* *
9101217 GCGCCTTTGAGTTAAGCTCAACTAGTC
1 -CGCCTCTGAGTTAAGCACAACTAGTC
9101244 CGCCT
1 CGCCT
9101249 ATCAAATAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (26 bp):
CGCCTCTGAGTTAAGCACAACTAGTC
Found at i:9101623 original size:192 final size:194
Alignment explanation
Indices: 9101287--9101669 Score: 603
Period size: 192 Copynumber: 2.0 Consensus size: 194
9101277 TCTATACCCG
*
9101287 GGTTATATACTGACCCGAGAAAAAAATTAATAATATTTTATTAAACGAGAAAAAATAAAATATTT
1 GGTTATATACTGACCCGAGAAAAAAATTAATAATATTTTATTAAACAAGAAAAAATAAAATATTT
* * * *
9101352 TAATATAAAAATTTGATTCGCGCCTGTCAGATAGGCGCAATTAAAGAAACGTACCATTTCGGTAA
66 TAATATAAAAAATTGATTCGCGCCTGTCAGATAGGCACAATTAAAGAAACATACCATTTCGATAA
* *
9101417 TTAATTTAGCTGACAACCTATTTAGGTATTTAAA-TTTTTTTAATATATTTGGGCAAAAAACCT
131 TTAATCTAGCTGACAACCTATTTAGGTATTTAAATTTTTTTTAATATATTTGAGCAAAAAACCT
* *
9101480 GGTTATATACTGATCCGGGAAAAAAA-TAATAATATTTTATTAAAACAAG-AAAAA-AAAATATT
1 GGTTATATACTGACCCGAGAAAAAAATTAATAATATTTTATT-AAACAAGAAAAAATAAAATATT
* * *
9101542 TTAATATAAAAAATTGATTCGTGCCTGTCAGATAGGTACGATTAAAGAAAACATACCATTTCGAT
65 TTAATATAAAAAATTGATTCGCGCCTGTCAGATAGGCACAATTAAAG-AAACATACCATTTCGAT
*
9101607 AATTAATCTAGCTGACAACCTATTTAGGTATTTAAATTTTTTTTAATATATTTGAGTAAAAAA
129 AATTAATCTAGCTGACAACCTATTTAGGTATTTAAATTTTTTTTAATATATTTGAGCAAAAAA
9101670 AACCCCTCAA
Statistics
Matches: 174, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
191 50 0.29
192 70 0.40
193 54 0.31
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.34
Consensus pattern (194 bp):
GGTTATATACTGACCCGAGAAAAAAATTAATAATATTTTATTAAACAAGAAAAAATAAAATATTT
TAATATAAAAAATTGATTCGCGCCTGTCAGATAGGCACAATTAAAGAAACATACCATTTCGATAA
TTAATCTAGCTGACAACCTATTTAGGTATTTAAATTTTTTTTAATATATTTGAGCAAAAAACCT
Found at i:9103745 original size:14 final size:14
Alignment explanation
Indices: 9103728--9103755 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9103718 CTTTCTTGGG
9103728 AAATTCTACTTGTC
1 AAATTCTACTTGTC
9103742 AAATTCTACTTGTC
1 AAATTCTACTTGTC
9103756 GTTTGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (14 bp):
AAATTCTACTTGTC
Done.