Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 71 of 79
Found at i:23564319 original size:41 final size:42
Alignment explanation
Indices: 23564274--23564352 Score: 124
Period size: 41 Copynumber: 1.9 Consensus size: 42
23564264 GAGGTGTGAT
* *
23564274 TTCGTGTAAGACCATGTCTGGGACATTGGCATC-ATATATGA
1 TTCGTATAAGACCATGTCTGGGACAGTGGCATCGATATATGA
*
23564315 TTCGTATAAGACCCTGTCTGGGACAGTGGCATCGATAT
1 TTCGTATAAGACCATGTCTGGGACAGTGGCATCGATAT
23564353 GCGTTAACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
41 30 0.88
42 4 0.12
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
TTCGTATAAGACCATGTCTGGGACAGTGGCATCGATATATGA
Found at i:23577841 original size:30 final size:30
Alignment explanation
Indices: 23577805--23577885 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
23577795 AATTAATATG
**
23577805 GCACACAACCATGTGAGTAGGCCATGTGTA
1 GCACACAACTGTGTGAGTAGGCCATGTGTA
* * * * *
23577835 GCACACAACTGTTTAAGTAGACCGTGTGTT
1 GCACACAACTGTGTGAGTAGGCCATGTGTA
23577865 GCACACAACTGTGTGAGTAGG
1 GCACACAACTGTGTGAGTAGG
23577886 TTGTGTATTA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (30 bp):
GCACACAACTGTGTGAGTAGGCCATGTGTA
Found at i:23583252 original size:21 final size:19
Alignment explanation
Indices: 23583208--23583261 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 19
23583198 TTTTTGGATT
*
23583208 TAAA-TTGTT-TTCTTATA
1 TAAATTTGTTATTTTTATA
23583225 TAAATTT-TATATTTTTATAA
1 TAAATTTGT-TATTTTTAT-A
23583245 TAATATTTGTTATTTTT
1 TAA-ATTTGTTATTTTT
23583262 TTAAATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
17 5 0.17
18 3 0.10
19 6 0.20
20 4 0.13
21 11 0.37
22 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (19 bp):
TAAATTTGTTATTTTTATA
Found at i:23583684 original size:5 final size:5
Alignment explanation
Indices: 23583674--23583698 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
23583664 CAATTTAAGG
23583674 TTAAA TTAAA TTAAA TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA
23583699 GGGTCTGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TTAAA
Found at i:23587158 original size:11 final size:11
Alignment explanation
Indices: 23587142--23587167 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23587132 CTAGCATGTC
23587142 AATTTTATTAA
1 AATTTTATTAA
23587153 AATTTTATTAA
1 AATTTTATTAA
23587164 AATT
1 AATT
23587168 ATTTCAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
AATTTTATTAA
Found at i:23589621 original size:20 final size:21
Alignment explanation
Indices: 23589593--23589631 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
23589583 TACTTTGTCC
*
23589593 AAACTTTTTCTAAG-TGTTCA
1 AAACATTTTCTAAGATGTTCA
23589613 AAACATTTTCTAAGATGTT
1 AAACATTTTCTAAGATGTT
23589632 TGGAAGTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (21 bp):
AAACATTTTCTAAGATGTTCA
Found at i:23609980 original size:14 final size:15
Alignment explanation
Indices: 23609961--23609992 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
23609951 GTGGTTATAG
23609961 TTAAAATA-ATAAAA
1 TTAAAATAGATAAAA
23609975 TTAAAATAGATAAAA
1 TTAAAATAGATAAAA
23609990 TTA
1 TTA
23609993 TGATGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
TTAAAATAGATAAAA
Found at i:23623581 original size:21 final size:20
Alignment explanation
Indices: 23623552--23623618 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
23623542 CTAATGTATG
23623552 ATAACTTTAAATAATATAATTA
1 ATAA-TTTAAATAATATAA-TA
* *
23623574 ATAATTTAAATCATAAAACT-
1 ATAATTTAAATAATATAA-TA
* *
23623594 ATATTTTAAATTATACTAATA
1 ATAATTTAAATAATA-TAATA
23623615 ATAA
1 ATAA
23623619 GCTTAAAAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
20 14 0.39
21 18 0.50
22 4 0.11
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAATTTAAATAATATAATA
Found at i:23626035 original size:21 final size:20
Alignment explanation
Indices: 23626006--23626072 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
23625996 CTAATGTATG
23626006 ATAACTTTAAATAATATAATTA
1 ATAA-TTTAAATAATATAA-TA
* *
23626028 ATAATTTAAATCATAAAACT-
1 ATAATTTAAATAATATAA-TA
* *
23626048 ATATTTTAAATTATACTAATA
1 ATAATTTAAATAATA-TAATA
23626069 ATAA
1 ATAA
23626073 GCTTAAAAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
20 14 0.39
21 18 0.50
22 4 0.11
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAATTTAAATAATATAATA
Found at i:23629359 original size:13 final size:13
Alignment explanation
Indices: 23629341--23629365 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23629331 TAAAAGAGTT
23629341 ATTAATTAAAAAG
1 ATTAATTAAAAAG
23629354 ATTAATTAAAAA
1 ATTAATTAAAAA
23629366 AATAAAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAG
Found at i:23632715 original size:35 final size:35
Alignment explanation
Indices: 23632675--23632742 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
23632665 CATCTTCGGA
* *
23632675 GCTTGGTAAATATGGAAAGTGATCTTTAAAGATGT
1 GCTTGGCAAATATGGAAAGTGATCTTCAAAGATGT
*
23632710 GCTTGGCAAATATGGAATGTGATCTTCAAAGAT
1 GCTTGGCAAATATGGAAAGTGATCTTCAAAGAT
23632743 ATGTGATCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.32
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGTGATCTTCAAAGATGT
Found at i:23633744 original size:18 final size:18
Alignment explanation
Indices: 23633723--23633761 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
23633713 TGGTATAAGC
23633723 TTTATTTTTCTTATT-ATT
1 TTTATTTTTCTT-TTGATT
23633741 TTTATTTTTCTTTTGATT
1 TTTATTTTTCTTTTGATT
23633759 TTT
1 TTT
23633762 CTTCCTTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTATTTTTCTTTTGATT
Found at i:23642616 original size:7 final size:7
Alignment explanation
Indices: 23642604--23642667 Score: 51
Period size: 7 Copynumber: 8.9 Consensus size: 7
23642594 TCAGACTCAA
23642604 AAAAAAC
1 AAAAAAC
23642611 AAAAAAAC
1 -AAAAAAC
23642619 AAAAATA-
1 AAAAA-AC
23642626 AAAACAA-
1 AAAA-AAC
23642633 AAAAAATC
1 AAAAAA-C
*
23642641 AAAAATC
1 AAAAAAC
*
23642648 AAAAATC
1 AAAAAAC
*
23642655 AAAAAAT
1 AAAAAAC
23642662 AAAAAA
1 AAAAAA
23642668 ATCAAAGTCA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
6 2 0.04
7 33 0.67
8 14 0.29
ACGTcount: A:0.83, C:0.09, G:0.00, T:0.08
Consensus pattern (7 bp):
AAAAAAC
Found at i:23642628 original size:14 final size:14
Alignment explanation
Indices: 23642605--23642666 Score: 61
Period size: 14 Copynumber: 4.4 Consensus size: 14
23642595 CAGACTCAAA
*
23642605 AAAAACAAAAAAAC
1 AAAAATAAAAAAAC
*
23642619 AAAAATAAAAACAAA
1 AAAAATAAAAA-AAC
* *
23642634 AAAAATCAAAAATC
1 AAAAATAAAAAAAC
* *
23642648 AAAAATCAAAAAAT
1 AAAAATAAAAAAAC
23642662 AAAAA
1 AAAAA
23642667 AATCAAAGTC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
14 28 0.70
15 12 0.30
ACGTcount: A:0.82, C:0.10, G:0.00, T:0.08
Consensus pattern (14 bp):
AAAAATAAAAAAAC
Found at i:23642638 original size:30 final size:31
Alignment explanation
Indices: 23642602--23642673 Score: 96
Period size: 30 Copynumber: 2.4 Consensus size: 31
23642592 GTTCAGACTC
*
23642602 AAAAAAAACAAAAAAACAAAAAT-AAAAACA-
1 AAAAAAATCAAAAAAACAAAAATCAAAAA-AT
*
23642632 AAAAAAATC-AAAAATCAAAAATCAAAAAAT
1 AAAAAAATCAAAAAAACAAAAATCAAAAAAT
23642662 AAAAAAATCAAA
1 AAAAAAATCAAA
23642674 GTCAAAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
29 13 0.35
30 22 0.59
31 2 0.05
ACGTcount: A:0.82, C:0.10, G:0.00, T:0.08
Consensus pattern (31 bp):
AAAAAAATCAAAAAAACAAAAATCAAAAAAT
Found at i:23642652 original size:8 final size:8
Alignment explanation
Indices: 23642603--23642673 Score: 62
Period size: 8 Copynumber: 9.4 Consensus size: 8
23642593 TTCAGACTCA
*
23642603 AAAAAAAC
1 AAAAAATC
*
23642611 AAAAAAAC
1 AAAAAATC
23642619 -AAAAAT-
1 AAAAAATC
*
23642625 AAAAACA-A
1 AAAAA-ATC
23642633 AAAAAATC
1 AAAAAATC
23642641 -AAAAATC
1 AAAAAATC
23642648 -AAAAATC
1 AAAAAATC
*
23642655 AAAAAATA
1 AAAAAATC
23642663 AAAAAATC
1 AAAAAATC
23642671 AAA
1 AAA
23642674 GTCAAAAATA
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
7 24 0.44
8 30 0.56
ACGTcount: A:0.82, C:0.10, G:0.00, T:0.08
Consensus pattern (8 bp):
AAAAAATC
Found at i:23642678 original size:22 final size:22
Alignment explanation
Indices: 23642604--23642681 Score: 65
Period size: 22 Copynumber: 3.5 Consensus size: 22
23642594 TCAGACTCAA
*
23642604 AAAAAACAAAAAA-ACAAAAAT-
1 AAAAATCAAAAAATA-AAAAATC
*
23642625 AAAAA-CAAAAAAAATCAAAAATC
1 AAAAATC-AA-AAAATAAAAAATC
23642648 AAAAATCAAAAAATAAAAAAATC
1 AAAAATCAAAAAATAAAA-AATC
*
23642671 -AAAGTCAAAAA
1 AAAAATCAAAAA
23642682 TAGGAGAAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
20 1 0.02
21 7 0.15
22 28 0.58
23 11 0.23
24 1 0.02
ACGTcount: A:0.79, C:0.10, G:0.01, T:0.09
Consensus pattern (22 bp):
AAAAATCAAAAAATAAAAAATC
Found at i:23642682 original size:29 final size:29
Alignment explanation
Indices: 23642601--23642683 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 29
23642591 AGTTCAGACT
*
23642601 CAAAAAAAA-CAAAAAAACAAAAATAAAAA
1 CAAAAAAAATC-AAAAATCAAAAATAAAAA
23642630 CAAAAAAAATCAAAAATCAAAAATCAAAAA
1 CAAAAAAAATCAAAAATCAAAAAT-AAAAA
*
23642660 -ATAAAAAAATC-AAAGTCAAAAATA
1 CA-AAAAAAATCAAAAATCAAAAATA
23642684 GGAGAAAGAG
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
28 1 0.02
29 33 0.67
30 15 0.31
ACGTcount: A:0.78, C:0.11, G:0.01, T:0.10
Consensus pattern (29 bp):
CAAAAAAAATCAAAAATCAAAAATAAAAA
Found at i:23642717 original size:5 final size:6
Alignment explanation
Indices: 23642686--23642725 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
23642676 CAAAAATAGG
*
23642686 AGAAAG AGAAATA AGAAAAA AGAAAA AGAAAA AGAAAA AG
1 AGAAAA AGAAA-A AG-AAAA AGAAAA AGAAAA AGAAAA AG
23642726 GAGAGGTCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 23 0.74
7 5 0.16
8 3 0.10
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.03
Consensus pattern (6 bp):
AGAAAA
Found at i:23644940 original size:88 final size:88
Alignment explanation
Indices: 23644792--23646032 Score: 2196
Period size: 88 Copynumber: 14.1 Consensus size: 88
23644782 ATGAAGTTGC
* * * *
23644792 AGATCCTGCCTTCCTGCATTGACAGCGAAGCAGGTCAAAGATACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
* * *
23644857 T-AGCGGAGCTGGTTGAAAACAAC
66 TGA-TGGAGCTGGTTGAAGACAAA
* * *
23644880 AGATCTTGCCTTCCTGTCTTTACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGCTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
* *
23644945 TGATGGAGCTAGTTGAAGAGAAA
66 TGATGGAGCTGGTTGAAGACAAA
* *
23644968 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
23645033 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* *
23645056 CGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
23645121 TAATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
*
23645144 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGCTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
23645209 TGATGGAGCTGGTTGAAAACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * * *
23645232 AGATCCTGCCTTCCTGTATTGACAGCGAACCAGGTCGAAGACACAAACCTTGCCTCTTTCGCTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
23645297 TGATGGGGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
** * *
23645320 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGGTCGAAGATACAAACCTTTCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
23645385 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* *
23645408 AGATCTTGCCTTCCTATATTGATAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
23645473 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
23645496 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
23645561 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
23645584 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
23645649 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
23645672 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
23645737 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
23645760 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
23645825 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
23645848 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
23645913 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
23645936 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
23646001 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
23646024 AGATCTTGC
1 AGATCTTGC
23646033 NNNNNNNNNN
Statistics
Matches: 1103, Mismatches: 49, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
88 1102 1.00
89 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
TGATGGAGCTGGTTGAAGACAAA
Found at i:23648431 original size:44 final size:44
Alignment explanation
Indices: 23648283--23648432 Score: 144
Period size: 44 Copynumber: 3.4 Consensus size: 44
23648273 GTGGGGCAAA
* * * *
23648283 TTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATC
1 TTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGATC
** * * *
23648327 TTATCTCCCTG-AGATTACAACGGAGCAGATCGAAGA-CAC-TATC
1 TTATCTCCCTGAAG-TTACAGTGGAGCAGAT-TAAAACCACAGATC
* * *
23648370 CTATATCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATC
1 TTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGATC
*
23648414 TTATCTCTCTGAAGTTACA
1 TTATCTCCCTGAAGTTACA
23648433 ACAGAGTAGA
Statistics
Matches: 81, Mismatches: 20, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
42 3 0.04
43 29 0.36
44 48 0.59
45 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.26
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCACAGATC
Found at i:23652510 original size:18 final size:19
Alignment explanation
Indices: 23652483--23652521 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
23652473 TGGTGGTCTA
*
23652483 TTATTGGGTAGAAT-TTTT
1 TTATTAGGTAGAATATTTT
*
23652501 TTATTAGGTATAATATTTT
1 TTATTAGGTAGAATATTTT
23652520 TT
1 TT
23652522 GTGAAAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (19 bp):
TTATTAGGTAGAATATTTT
Found at i:23652934 original size:22 final size:22
Alignment explanation
Indices: 23652893--23652949 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
23652883 TTTTAATTAT
23652893 ATTTATTA-TTAACAAAATTTA
1 ATTTATTATTTAACAAAATTTA
*
23652914 GTTTATTATTTAA-AAATATTTA
1 ATTTATTATTTAACAAA-ATTTA
23652936 ATTTAAATTATTTA
1 ATTT--ATTATTTA
23652950 TTTTTAAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 10 0.33
22 12 0.40
24 8 0.27
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
ATTTATTATTTAACAAAATTTA
Found at i:23654769 original size:12 final size:12
Alignment explanation
Indices: 23654752--23654782 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
23654742 GAAGCAGGGG
23654752 AGAAAAAGCGAA
1 AGAAAAAGCGAA
*
23654764 AGAAAAAGGGAA
1 AGAAAAAGCGAA
23654776 AGAAAAA
1 AGAAAAA
23654783 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.03, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGCGAA
Found at i:23655971 original size:37 final size:38
Alignment explanation
Indices: 23655871--23655980 Score: 87
Period size: 37 Copynumber: 2.8 Consensus size: 38
23655861 GACCTCGAGT
* *
23655871 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA--A-CTTTCTTCGGATAGATC
** ** * **
23655912 CGATGAGGTACTGGGTACCAACTTTCTTCGGCTTTA-C
1 CGATGAGACACTGGGTGTCAACTTTCTTCGGATAGATC
23655949 CGATGAGACACTGGGTGTCAACTGTTGCTTCG
1 CGATGAGACACTGGGTGTCAACT-TT-CTTCG
23655981 AACTATCAAA
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
37 19 0.35
38 13 0.24
39 6 0.11
41 16 0.30
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAACTTTCTTCGGATAGATC
Found at i:23664981 original size:3 final size:3
Alignment explanation
Indices: 23664973--23665012 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
23664963 GTTGTGGCGT
*
23664973 TTG TTG TTG CTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
23665013 AAATTAGGGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.03, G:0.33, T:0.65
Consensus pattern (3 bp):
TTG
Found at i:23665043 original size:6 final size:6
Alignment explanation
Indices: 23665032--23665056 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
23665022 GAGGAATTAA
23665032 GGTTAG GGTTAG GGTTAG GGTTAG G
1 GGTTAG GGTTAG GGTTAG GGTTAG G
23665057 AATGGGGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (6 bp):
GGTTAG
Found at i:23665237 original size:3 final size:3
Alignment explanation
Indices: 23665231--23665273 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
23665221 GGAGAAGAAA
* * *
23665231 TTG TTG TTG TTG TTG CTG TTG TTG TTG TTG TTG CTG TTT TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
23665274 AAGAGAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.05, G:0.30, T:0.65
Consensus pattern (3 bp):
TTG
Found at i:23672723 original size:26 final size:26
Alignment explanation
Indices: 23672689--23672738 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
23672679 TCCTATAACC
*
23672689 CTCTTAGAGTTTGTTAAAAAAAAACT
1 CTCTTAGAGTTTGTAAAAAAAAAACT
23672715 CTCTTAGAGTTTGTAAAAAAAAAA
1 CTCTTAGAGTTTGTAAAAAAAAAA
23672739 AAAACACTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (26 bp):
CTCTTAGAGTTTGTAAAAAAAAAACT
Found at i:23677974 original size:16 final size:16
Alignment explanation
Indices: 23677953--23677986 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23677943 TTCACAAAAA
23677953 TTACCAATGAGGTAAT
1 TTACCAATGAGGTAAT
* *
23677969 TTACCAGTGGGGTAAT
1 TTACCAATGAGGTAAT
23677985 TT
1 TT
23677987 TATAATTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (16 bp):
TTACCAATGAGGTAAT
Found at i:23678060 original size:25 final size:26
Alignment explanation
Indices: 23678022--23678073 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
23678012 AAGTTGTAAG
23678022 TAAAAAAATATCTTTAGA-AATTTTC
1 TAAAAAAATATCTTTAGAGAATTTTC
* *
23678047 TAAAATAATCTCTTTAGAGAATTTTC
1 TAAAAAAATATCTTTAGAGAATTTTC
23678073 T
1 T
23678074 TTCTACAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (26 bp):
TAAAAAAATATCTTTAGAGAATTTTC
Found at i:23687690 original size:75 final size:75
Alignment explanation
Indices: 23687546--23687691 Score: 213
Period size: 75 Copynumber: 1.9 Consensus size: 75
23687536 GACAGCATTG
* *
23687546 AATGTGAGCCCAGCTTTAGTTGGATAAACCAACAATGTTTGCGCCCAACGCTAGTTGGATATATC
1 AATGTGAGCCCAGCTTTAGTTGGATAAACCAACAATGTTTGCGCCCAACGCTAGTCGGATAAATC
23687611 GATGATAATA
66 GATGATAATA
* * * * *
23687621 AATGTGAGCCCAGCTTTAGTTGGATGAACCAACAGTGTTTGTGCTCAGCGCTAGTCGGATAAA-C
1 AATGTGAGCCCAGCTTTAGTTGGATAAACCAACAATGTTTGCGCCCAACGCTAGTCGGATAAATC
23687685 TGATGAT
66 -GATGAT
23687692 TGTGTGCCCA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
74 1 0.02
75 62 0.98
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (75 bp):
AATGTGAGCCCAGCTTTAGTTGGATAAACCAACAATGTTTGCGCCCAACGCTAGTCGGATAAATC
GATGATAATA
Found at i:23690646 original size:31 final size:31
Alignment explanation
Indices: 23690567--23690635 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
23690557 GTTACAAGAT
**
23690567 AGTCATTAAACTATTTAAAAGTTTTCATTTA
1 AGTCATTAAACTATTCGAAAGTTTTCATTTA
*
23690598 AGTCATTAAACTATTCGAAAGTTTTTATTTA
1 AGTCATTAAACTATTCGAAAGTTTTCATTTA
23690629 AGTCATT
1 AGTCATT
23690636 GTATTATTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.36, C:0.10, G:0.09, T:0.45
Consensus pattern (31 bp):
AGTCATTAAACTATTCGAAAGTTTTCATTTA
Found at i:23691200 original size:43 final size:43
Alignment explanation
Indices: 23690859--23691204 Score: 369
Period size: 43 Copynumber: 8.1 Consensus size: 43
23690849 TTTCTCACGT
* ** * * * *
23690859 AAACGCCGTTAAAGAACATGATCTTTAGCGGCACTTTTACCA-C
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTA-TAGA
* ** * *
23690902 AAACGCCGCTAAAGATCATGACCTTTAGCGGCG-TTTAAATA-T
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTT-TATAGA
**
23690944 AAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATA-A
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAGA
* *
23690986 GAAACACCGCTAAAGGTCATGTTCTTTAGCGACGCTTTTATAAGA
1 -AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTAT-AGA
* * * * *
23691031 AAA-GCCGTTAAATGTCAAGTTCTTTAGCAGCGCTTTTATAGC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAGA
* * * * *
23691073 AAACGCCGCTAAAGGTCATGTTCTTTAACGACACTTTTCTAGC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAGA
*
23691116 AAACGCCGCTAAAGGTCATCTTCTTTAGCGGCGCTTTTATAGA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAGA
*
23691159 AAACGCCACTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAGA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAGA
23691202 AAA
1 AAA
23691205 GACCACTAAC
Statistics
Matches: 256, Mismatches: 41, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
42 40 0.16
43 211 0.82
44 4 0.02
45 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAGA
Found at i:23691510 original size:21 final size:19
Alignment explanation
Indices: 23691478--23691517 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
23691468 TCGTACTTTC
23691478 TACTCTGCTCTGCTTCCCT
1 TACTCTGCTCTGCTTCCCT
23691497 TACTACTGCCTCTGCTTCCCT
1 TACT-CTG-CTCTGCTTCCCT
23691518 CGCTGCTACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.21
20 3 0.16
21 12 0.63
ACGTcount: A:0.07, C:0.42, G:0.10, T:0.40
Consensus pattern (19 bp):
TACTCTGCTCTGCTTCCCT
Found at i:23696649 original size:56 final size:56
Alignment explanation
Indices: 23696582--23696936 Score: 602
Period size: 56 Copynumber: 6.3 Consensus size: 56
23696572 TGTATTATGC
* *
23696582 AAGTTATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTATT
1 AAGTTAAGTAAGTTATGTGAGTTATGTAAGTTATGGTATGATATATATAAGTTATT
*
23696638 AAGTTAAGTAAGTTATGTGAGTTATTTAAGTTATGGTATGATATATATAAGTTATT
1 AAGTTAAGTAAGTTATGTGAGTTATGTAAGTTATGGTATGATATATATAAGTTATT
*
23696694 AAGTTATGTAAGTTATGTGAGTTATGTAAGTTATGGTATGATATATATATAAGTTATT
1 AAGTTAAGTAAGTTATGTGAGTTATGTAAGTTATGGTATG--ATATATATAAGTTATT
* * * *
23696752 AAGTTATGCAAGTTATGTGAGTTATGTAAATTATGATATGATATATATAAGTTATT
1 AAGTTAAGTAAGTTATGTGAGTTATGTAAGTTATGGTATGATATATATAAGTTATT
*
23696808 AAGTTAAGTAAGTTATGTGAGTTATTTAAGTTATGGTATGATATATATAAGTTATT
1 AAGTTAAGTAAGTTATGTGAGTTATGTAAGTTATGGTATGATATATATAAGTTATT
*
23696864 AAGTTAAGTAAGTTATGTGAGTTATTTAAGTTATGGTATGATATATATAAGTTATT
1 AAGTTAAGTAAGTTATGTGAGTTATGTAAGTTATGGTATGATATATATAAGTTATT
23696920 AAGTTAAGTAAGTTATG
1 AAGTTAAGTAAGTTATG
23696937 GTATGACTGA
Statistics
Matches: 284, Mismatches: 13, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
56 231 0.81
58 53 0.19
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (56 bp):
AAGTTAAGTAAGTTATGTGAGTTATGTAAGTTATGGTATGATATATATAAGTTATT
Found at i:23696848 original size:170 final size:170
Alignment explanation
Indices: 23696540--23696936 Score: 654
Period size: 170 Copynumber: 2.3 Consensus size: 170
23696530 AGTATAATTA
* * * * *
23696540 AGTTATATAACTTATGATATGATATATATTTATGTATTATGCAAGTTATGTAAGTTATGTGAGTT
1 AGTTATATAAGTTATGGTATGATATATATATAAG--TTAT-TAAGTTATGTAAGTTATGTGAGTT
*
23696605 ATGTAAGTTATGATATGATATATATAAGTTATTAAGTTAAGTAAGTTATGTGAGTTATTTAAGTT
63 ATGTAAATTATGATATGATATATATAAGTTATTAAGTTAAGTAAGTTATGTGAGTTATTTAAGTT
*
23696670 ATGGTATGATATATATAAGTTATTAAGTTATGTAAGTTATGTG
128 ATGGTATGATATATATAAGTTATTAAGTTAAGTAAGTTATGTG
* *
23696713 AGTTATGTAAGTTATGGTATGATATATATATAAGTTATTAAGTTATGCAAGTTATGTGAGTTATG
1 AGTTATATAAGTTATGGTATGATATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATG
23696778 TAAATTATGATATGATATATATAAGTTATTAAGTTAAGTAAGTTATGTGAGTTATTTAAGTTATG
66 TAAATTATGATATGATATATATAAGTTATTAAGTTAAGTAAGTTATGTGAGTTATTTAAGTTATG
23696843 GTATGATATATATAAGTTATTAAGTTAAGTAAGTTATGTG
131 GTATGATATATATAAGTTATTAAGTTAAGTAAGTTATGTG
* *
23696883 AGTTATTTAAGTTATGGTATG--ATATATATAAGTTATTAAGTTAAGTAAGTTATG
1 AGTTATATAAGTTATGGTATGATATATATATAAGTTATTAAGTTATGTAAGTTATG
23696937 GTATGACTGA
Statistics
Matches: 212, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
168 31 0.15
170 148 0.70
171 4 0.02
173 29 0.14
ACGTcount: A:0.36, C:0.01, G:0.19, T:0.44
Consensus pattern (170 bp):
AGTTATATAAGTTATGGTATGATATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATG
TAAATTATGATATGATATATATAAGTTATTAAGTTAAGTAAGTTATGTGAGTTATTTAAGTTATG
GTATGATATATATAAGTTATTAAGTTAAGTAAGTTATGTG
Found at i:23702449 original size:41 final size:41
Alignment explanation
Indices: 23702335--23702484 Score: 169
Period size: 41 Copynumber: 3.7 Consensus size: 41
23702325 CATAATTTAA
* *
23702335 CATATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CATA-TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* *
23702377 CATATCACTGGCACGTAGCCTGCTAGGTTTATAACCTGATT
1 CATATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* ** **
23702418 CCA-ATCACCGGCACTTAGCCTGCTAGATTTATAGTCTGAAA
1 -CATATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* *
23702459 AAT-TCACCGGCATTTAGCCTGCTAGG
1 CATATCACCGGCACTTAGCCTGCTAGG
23702485 CGCTTAGCCT
Statistics
Matches: 92, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
40 22 0.24
41 64 0.70
42 6 0.07
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (41 bp):
CATATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
Found at i:23708750 original size:28 final size:28
Alignment explanation
Indices: 23708710--23708765 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
23708700 CTAATGAATG
23708710 TGGTAAATTACTCATTCGAGAACAACTA
1 TGGTAAATTACTCATTCGAGAACAACTA
23708738 TGGTAAATTACTCATTCGAGAACAACTA
1 TGGTAAATTACTCATTCGAGAACAACTA
23708766 ACCCGTGACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (28 bp):
TGGTAAATTACTCATTCGAGAACAACTA
Found at i:23714052 original size:16 final size:15
Alignment explanation
Indices: 23714011--23714052 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
23714001 CACTTTTTGG
23714011 GTTTTATTTT-AATA
1 GTTTTATTTTAAATA
*
23714025 GTTTAGATTTTAAATTA
1 GTTT-TATTTTAAA-TA
23714042 GTTTTATTTTA
1 GTTTTATTTTA
23714053 TTTACAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 4 0.17
15 5 0.22
16 8 0.35
17 6 0.26
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.62
Consensus pattern (15 bp):
GTTTTATTTTAAATA
Found at i:23717155 original size:25 final size:25
Alignment explanation
Indices: 23717126--23717199 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
23717116 TAGAGATTGA
23717126 CTTTTTCAACTATTATGATTTAGTC
1 CTTTTTCAACTATTATGATTTAGTC
* * *
23717151 CTTTTT--GC--TTA--ATTAACT-
1 CTTTTTCAACTATTATGATTTAGTC
*
23717169 ATTTTTCAACTATTATGATTTAGTC
1 CTTTTTCAACTATTATGATTTAGTC
23717194 CTTTTT
1 CTTTTT
23717200 GCTTAATTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 14
0.61 0.14 0.25
Matches are distributed among these distances:
18 5 0.15
19 5 0.15
20 1 0.03
21 3 0.09
22 3 0.09
23 1 0.03
24 5 0.15
25 11 0.32
ACGTcount: A:0.23, C:0.15, G:0.07, T:0.55
Consensus pattern (25 bp):
CTTTTTCAACTATTATGATTTAGTC
Found at i:23717188 original size:43 final size:43
Alignment explanation
Indices: 23717127--23717213 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
23717117 AGAGATTGAC
23717127 TTTTTCAACTATTATGATTTAGTCCTTTTTGCTTAATTAACTA
1 TTTTTCAACTATTATGATTTAGTCCTTTTTGCTTAATTAACTA
23717170 TTTTTCAACTATTATGATTTAGTCCTTTTTGCTTAATTAACTA
1 TTTTTCAACTATTATGATTTAGTCCTTTTTGCTTAATTAACTA
23717213 T
1 T
23717214 CTAAACATTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (43 bp):
TTTTTCAACTATTATGATTTAGTCCTTTTTGCTTAATTAACTA
Found at i:23719069 original size:16 final size:16
Alignment explanation
Indices: 23719048--23719091 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
23719038 AAAGGCTTTT
23719048 TTTTAATTTGTTTTAA
1 TTTTAATTTGTTTTAA
*
23719064 TTTTAATTT-TCTTTAT
1 TTTTAATTTGT-TTTAA
*
23719080 TTTTCATTTGTT
1 TTTTAATTTGTT
23719092 CATTTTCTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 1 0.04
16 22 0.92
17 1 0.04
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.73
Consensus pattern (16 bp):
TTTTAATTTGTTTTAA
Found at i:23720708 original size:30 final size:30
Alignment explanation
Indices: 23720672--23720733 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
23720662 TCCTTAAAAG
23720672 TATGGGAACACTCAGTGATTGGGTGAGCTC
1 TATGGGAACACTCAGTGATTGGGTGAGCTC
23720702 TATGGGAACACTCAGTGATTGGGTGAGCTC
1 TATGGGAACACTCAGTGATTGGGTGAGCTC
23720732 TA
1 TA
23720734 AACTTAATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.27
Consensus pattern (30 bp):
TATGGGAACACTCAGTGATTGGGTGAGCTC
Found at i:23722353 original size:29 final size:29
Alignment explanation
Indices: 23722141--23722342 Score: 228
Period size: 29 Copynumber: 7.0 Consensus size: 29
23722131 ATTTGTGACA
* *
23722141 ATCTCTGTTATAAAGAAGCCTTTGTGGCG
1 ATCTCTGTTATAAGGAAGCCTTTGTGGTG
23722170 ATCTCTGTTATAAGGAAGCCTTTGTGGTG
1 ATCTCTGTTATAAGGAAGCCTTTGTGGTG
* *
23722199 ATCTCTGTTATAAGAAAGCCTTTGTAGTG
1 ATCTCTGTTATAAGGAAGCCTTTGTGGTG
*
23722228 AT-TATTGTTATAAAGG-AGCCTTTGTGGTG
1 ATCT-CTGTTAT-AAGGAAGCCTTTGTGGTG
* * * ***
23722257 ATCTCTATCATAAGGAAGCCTTTCTAACG
1 ATCTCTGTTATAAGGAAGCCTTTGTGGTG
* * * **
23722286 ATCTCTATTGTAAGGAAGCCTTTATGGCA
1 ATCTCTGTTATAAGGAAGCCTTTGTGGTG
23722315 ATCTCTGTTATAAGGAAGCCTTTGTGGT
1 ATCTCTGTTATAAGGAAGCCTTTGTGGT
23722343 TGTTTTTGTT
Statistics
Matches: 145, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
28 5 0.03
29 136 0.94
30 4 0.03
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (29 bp):
ATCTCTGTTATAAGGAAGCCTTTGTGGTG
Found at i:23728962 original size:36 final size:36
Alignment explanation
Indices: 23728905--23728978 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
23728895 GGAGGAGCAC
*
23728905 ATCAGTCAGAATAGATTCGAAAGCCTACTGAACTGA
1 ATCAGTCAAAATAGATTCGAAAGCCTACTGAACTGA
* * *
23728941 ATCAGTCAAAATA-TTTCCGAAAGGCTGCTGAACTGA
1 ATCAGTCAAAATAGATT-CGAAAGCCTACTGAACTGA
23728977 AT
1 AT
23728979 AGAGTTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 2 0.06
36 31 0.94
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (36 bp):
ATCAGTCAAAATAGATTCGAAAGCCTACTGAACTGA
Found at i:23728990 original size:16 final size:16
Alignment explanation
Indices: 23728969--23729001 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
23728959 GAAAGGCTGC
23728969 TGAACTGAATAGAGTT
1 TGAACTGAATAGAGTT
23728985 TGAACTGAATAGAGTT
1 TGAACTGAATAGAGTT
23729001 T
1 T
23729002 ACTCTTTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.33
Consensus pattern (16 bp):
TGAACTGAATAGAGTT
Found at i:23735511 original size:18 final size:18
Alignment explanation
Indices: 23735488--23735523 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
23735478 TGAGTCATCG
23735488 AACGAATCCAAAATGGAA
1 AACGAATCCAAAATGGAA
23735506 AACGAATCCAAAATGGAA
1 AACGAATCCAAAATGGAA
23735524 GCTAACTCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.17, G:0.17, T:0.11
Consensus pattern (18 bp):
AACGAATCCAAAATGGAA
Found at i:23737731 original size:62 final size:62
Alignment explanation
Indices: 23737634--23737755 Score: 235
Period size: 62 Copynumber: 2.0 Consensus size: 62
23737624 TTTAATATGT
*
23737634 GATTTTTCACTATGTAGGAGGACCATTGAAGATATGACTAATGTGTATGAAACATGGACATG
1 GATTTTTCACTATGTAGGAGAACCATTGAAGATATGACTAATGTGTATGAAACATGGACATG
23737696 GATTTTTCACTATGTAGGAGAACCATTGAAGATATGACTAATGTGTATGAAACATGGACA
1 GATTTTTCACTATGTAGGAGAACCATTGAAGATATGACTAATGTGTATGAAACATGGACA
23737756 CATAAGTTAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.30
Consensus pattern (62 bp):
GATTTTTCACTATGTAGGAGAACCATTGAAGATATGACTAATGTGTATGAAACATGGACATG
Found at i:23753351 original size:21 final size:21
Alignment explanation
Indices: 23753326--23753367 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
23753316 TGGATTCATA
23753326 TGTTTAATTTTATTTGACTTG
1 TGTTTAATTTTATTTGACTTG
23753347 TGTTTAATTTTATTTGACTTG
1 TGTTTAATTTTATTTGACTTG
23753368 GTTGCTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.05, G:0.14, T:0.62
Consensus pattern (21 bp):
TGTTTAATTTTATTTGACTTG
Found at i:23754148 original size:5 final size:5
Alignment explanation
Indices: 23754138--23754162 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
23754128 CTAAATTAGG
23754138 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
23754163 AAAATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:23759472 original size:30 final size:30
Alignment explanation
Indices: 23759436--23759775 Score: 200
Period size: 30 Copynumber: 11.4 Consensus size: 30
23759426 TCATTGGACA
* *
23759436 ATGAAAAAGGATAGCTTCAGCTATCGAATC
1 ATGAAAAGGGATAGCTTCAGCTATCGAATT
*
23759466 ATGAAAAGGGATAGCTTC-GACTATCAAATT
1 ATGAAAAGGGATAGCTTCAG-CTATCGAATT
* * * *
23759496 ATGAAAATGGATAGTTTCGGCTATTGAATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAATT
* *
23759526 ATGAAAAGGGATAGTTTCGGCTAT-GAAATT
1 ATGAAAAGGGATAGCTTCAGCTATCG-AATT
* * *
23759556 ATGAAAAGGGAT-G-GTGACGACCATCGAATT
1 ATGAAAAGGGATAGCTTCA-G-CTATCGAATT
* *
23759586 ATGAAAAGGGATAACTTCAGCTATCGAAAT
1 ATGAAAAGGGATAGCTTCAGCTATCGAATT
* * * * *
23759616 ATGAAAAGGAAT-G-GTGACGACCATC-AACT
1 ATGAAAAGGGATAGCTTCA-G-CTATCGAATT
* * * *
23759645 ATGAAAAGGGAT-G-GTGACGACCATC-AACT
1 ATGAAAAGGGATAGCTTCA-G-CTATCGAATT
* * * * **
23759674 ATGAATAGGGAT-G-GTGATGACCATTAAATT
1 ATGAAAAGGGATAGCTTCA-G-CTATCGAATT
** *
23759704 ATGAAAAGGGATAGCTTTGGCTATCAAATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAATT
* *
23759734 ATGAAAAGGGATAGCTTCGGCTATCGGATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAATT
23759764 ATGAAAAGGGAT
1 ATGAAAAGGGAT
23759776 GCTGACAACC
Statistics
Matches: 260, Mismatches: 37, Indels: 26
0.80 0.11 0.08
Matches are distributed among these distances:
28 3 0.01
29 58 0.22
30 191 0.73
31 5 0.02
32 3 0.01
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCAGCTATCGAATT
Found at i:23759530 original size:60 final size:60
Alignment explanation
Indices: 23759436--23759775 Score: 271
Period size: 60 Copynumber: 5.7 Consensus size: 60
23759426 TCATTGGACA
* * * *
23759436 ATGAAAAAGGATAGCTTC-AGCTATCGAATCATGAAAAGGGATAGCTTCGACTATCAAATT
1 ATGAAAAGGGATAGTTTCGA-CCATCGAATTATGAAAAGGGATAGCTTCGACTATCAAATT
* * * * * * *
23759496 ATGAAAATGGATAGTTTCGGCTATTGAATTATGAAAAGGGATAGTTTCGGCTATGAAATT
1 ATGAAAAGGGATAGTTTCGACCATCGAATTATGAAAAGGGATAGCTTCGACTATCAAATT
* ** *
23759556 ATGAAAAGGGATGGTGACGACCATCGAATTATGAAAAGGGATAACTTC-AGCTATCGAAA-T
1 ATGAAAAGGGATAGTTTCGACCATCGAATTATGAAAAGGGATAGCTTCGA-CTATC-AAATT
* * ** * * * * *
23759616 ATGAAAAGGAATGGTGACGACCATC-AACTATGAAAAGGGAT-GGTGACGACCATC-AACT
1 ATGAAAAGGGATAGTTTCGACCATCGAATTATGAAAAGGGATAGCT-TCGACTATCAAATT
* * * ** * *
23759674 ATGAATAGGGATGGTGAT-GACCATTAAATTATGAAAAGGGATAGCTTTGGCTATCAAATT
1 ATGAAAAGGGATAGT-TTCGACCATCGAATTATGAAAAGGGATAGCTTCGACTATCAAATT
* * * *
23759734 ATGAAAAGGGATAGCTTCGGCTATCGGATTATGAAAAGGGAT
1 ATGAAAAGGGATAGTTTCGACCATCGAATTATGAAAAGGGAT
23759776 GCTGACAACC
Statistics
Matches: 223, Mismatches: 46, Indels: 22
0.77 0.16 0.08
Matches are distributed among these distances:
57 2 0.01
58 21 0.09
59 41 0.18
60 156 0.70
61 3 0.01
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (60 bp):
ATGAAAAGGGATAGTTTCGACCATCGAATTATGAAAAGGGATAGCTTCGACTATCAAATT
Found at i:23759589 original size:90 final size:89
Alignment explanation
Indices: 23759436--23759745 Score: 270
Period size: 90 Copynumber: 3.5 Consensus size: 89
23759426 TCATTGGACA
* * * * * * *
23759436 ATGAAAAAGGATAGCTTCAGCTATCG-AATCATGAAAAGGGATAGCT-TCGACTATCAAATTATG
1 ATGAAAAGGGATAGTTTCGGCTAT-GAAATTATGAAAAGGGAT-GGTGACGACCATC-AATTATG
*
23759499 AAAATGGATAGTTTCGGCTATTGAATT
63 AAAAGGGATAGTTTCGGCTATTGAATT
23759526 ATGAAAAGGGATAGTTTCGGCTATGAAATTATGAAAAGGGATGGTGACGACCATCGAATTATGAA
1 ATGAAAAGGGATAGTTTCGGCTATGAAATTATGAAAAGGGATGGTGACGACCATC-AATTATGAA
** * * *
23759591 AAGGGATAACTTCAGCTATCGAAAT
65 AAGGGATAGTTTCGGCTATTGAATT
* * ** * * * * * *
23759616 ATGAAAAGGAATGGTGACGACCAT-CAACTATGAAAAGGGATGGTGACGACCATCAACTATGAAT
1 ATGAAAAGGGATAGTTTCGGCTATGAAATTATGAAAAGGGATGGTGACGACCATCAATTATGAAA
* * * * *
23759680 AGGGATGGTGAT-GACCATTAAATT
66 AGGGATAGT-TTCGGCTATTGAATT
*
23759704 ATGAAAAGGGATAGCTTT-GGCTATCAAATTATGAAAAGGGAT
1 ATGAAAAGGGATAG-TTTCGGCTATGAAATTATGAAAAGGGAT
23759746 AGCTTCGGCT
Statistics
Matches: 173, Mismatches: 42, Indels: 11
0.77 0.19 0.05
Matches are distributed among these distances:
88 36 0.21
89 48 0.28
90 89 0.51
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.25
Consensus pattern (89 bp):
ATGAAAAGGGATAGTTTCGGCTATGAAATTATGAAAAGGGATGGTGACGACCATCAATTATGAAA
AGGGATAGTTTCGGCTATTGAATT
Found at i:23759653 original size:29 final size:29
Alignment explanation
Indices: 23759555--23759715 Score: 164
Period size: 29 Copynumber: 5.4 Consensus size: 29
23759545 GCTATGAAAT
*
23759555 TATGAAAAGGGATGGTGACGACCATCGAAT
1 TATGAAAAGGGATGGTGACGACCATC-AAC
** * * *
23759585 TATGAAAAGGGATAACT-TC-AGCTATCGAAA
1 TATGAAAAGGGAT-GGTGACGA-CCATC-AAC
*
23759615 TATGAAAAGGAATGGTGACGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
23759644 TATGAAAAGGGATGGTGACGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* * * *
23759673 TATGAATAGGGATGGTGATGACCATTAAAT
1 TATGAAAAGGGATGGTGACGACCA-TCAAC
23759703 TATGAAAAGGGAT
1 TATGAAAAGGGAT
23759716 AGCTTTGGCT
Statistics
Matches: 109, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
29 54 0.50
30 53 0.49
31 2 0.02
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.22
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAC
Found at i:23768351 original size:18 final size:18
Alignment explanation
Indices: 23768328--23768365 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
23768318 AGCTCCTTAA
23768328 TATTAAAGTTGCCAAATT
1 TATTAAAGTTGCCAAATT
23768346 TATTAAAGTTGCCAAATT
1 TATTAAAGTTGCCAAATT
23768364 TA
1 TA
23768366 ACTGTCTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (18 bp):
TATTAAAGTTGCCAAATT
Found at i:23770298 original size:25 final size:25
Alignment explanation
Indices: 23770270--23770319 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
23770260 CAGATACATG
*
23770270 GAGCTTATGCTTCTTACATTTCTAA
1 GAGCTTATGCATCTTACATTTCTAA
23770295 GAGCTTATGCATCTTACATTTCTAA
1 GAGCTTATGCATCTTACATTTCTAA
23770320 TTAACTGTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (25 bp):
GAGCTTATGCATCTTACATTTCTAA
Found at i:23776436 original size:17 final size:17
Alignment explanation
Indices: 23776377--23776439 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
23776367 ATTGAATCAC
*
23776377 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
** * *
23776394 TACATAAGCCTTTGAATCAC
1 TACATAA---TTAAAAACAT
23776414 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
23776431 TACATAATT
1 TACATAATT
23776440 CTTGAAATTA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 22 0.65
20 12 0.35
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:23776663 original size:13 final size:13
Alignment explanation
Indices: 23776635--23776669 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
23776625 TTTATTGGGT
*
23776635 TGGGTT-GGTAAT
1 TGGGTTGGGTAAC
23776647 TGGGTTGGGTAAC
1 TGGGTTGGGTAAC
23776660 TGGGTTGGGT
1 TGGGTTGGGT
23776670 TGGATAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.11, C:0.03, G:0.49, T:0.37
Consensus pattern (13 bp):
TGGGTTGGGTAAC
Found at i:23786426 original size:66 final size:67
Alignment explanation
Indices: 23786346--23786541 Score: 281
Period size: 67 Copynumber: 2.9 Consensus size: 67
23786336 TTTTTTCATA
*
23786346 AGAATTGTGCCATTAACTTTTTATTGACAAGCCTCACAATAGTGCCA-TTTTTCATGGGAATTAT
1 AGAATTGTGCCATTAACTTTTTATTGACAAGCCTCACAAGAGTGCCATTTTTTCATGGGAATTAT
23786410 TG
66 TG
* * * *
23786412 AGAATTGTGGCATTAAATTTTTATTCACAAGCCTCACAAGAGTGCCATTTTTTCATGGGAATTGT
1 AGAATTGTGCCATTAACTTTTTATTGACAAGCCTCACAAGAGTGCCATTTTTTCATGGGAATTAT
23786477 TG
66 TG
* * *
23786479 -GAAATTGTGCCATTTAAC-TTTTATTGAAAAGCGTCACAAGAGTGTCATTTTTTCATGGGAATT
1 AG-AATTGTGCCA-TTAACTTTTTATTGACAAGCCTCACAAGAGTGCCATTTTTTCATGGGAATT
23786542 GTACCATTAA
Statistics
Matches: 116, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
66 44 0.38
67 68 0.59
68 4 0.03
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (67 bp):
AGAATTGTGCCATTAACTTTTTATTGACAAGCCTCACAAGAGTGCCATTTTTTCATGGGAATTAT
TG
Found at i:23786574 original size:58 final size:58
Alignment explanation
Indices: 23786481--23786602 Score: 158
Period size: 58 Copynumber: 2.1 Consensus size: 58
23786471 AATTGTTGGA
* * *
23786481 AATTGTGCCATTTAACTTTTATTGAAAAGCGTCACAAGAGTGTCA-TTTTTTCATGGG
1 AATTGTACCATTTAACTTTTATTCAAAAGCGTCACAAGAGTGTCATTTTTTTAATGGG
* * *
23786538 AATTGTACCA-TTAACTTTTTTATTCACAAGCTTCACAAGATTGTCATTTTTTTAATGGG
1 AATTGTACCATTTAAC--TTTTATTCAAAAGCGTCACAAGAGTGTCATTTTTTTAATGGG
23786597 AATTGT
1 AATTGT
23786603 GAGGCTTGTG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
56 5 0.09
57 9 0.16
58 25 0.45
59 17 0.30
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.42
Consensus pattern (58 bp):
AATTGTACCATTTAACTTTTATTCAAAAGCGTCACAAGAGTGTCATTTTTTTAATGGG
Found at i:23790529 original size:12 final size:12
Alignment explanation
Indices: 23790512--23790543 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
23790502 AAGAAAAAAG
23790512 TTTGAAATAGAA
1 TTTGAAATAGAA
23790524 TTTGAAATAGAA
1 TTTGAAATAGAA
*
23790536 TTTAAAAT
1 TTTGAAAT
23790544 CAAGATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (12 bp):
TTTGAAATAGAA
Found at i:23790975 original size:45 final size:45
Alignment explanation
Indices: 23790909--23791078 Score: 153
Period size: 45 Copynumber: 3.8 Consensus size: 45
23790899 ACTATACGCC
* *
23790909 TAAAATGAGTAAGACCATAGCTGAAAGATGCTATGACATTATGGT
1 TAAAATGAGTAAGACCATAGCTAAAAGATACTATGACATTATGGT
* * * *
23790954 TAAAATGAGTAAGATCGTAGCTAAAAGATACTATGGCGTTATGGT
1 TAAAATGAGTAAGACCATAGCTAAAAGATACTATGACATTATGGT
* * * * * * * *
23790999 TAAGATAAGTAAAACCATAACTAAAAGAAACTATGGCATCAT-GA
1 TAAAATGAGTAAGACCATAGCTAAAAGATACTATGACATTATGGT
* * * * *
23791043 TAGAAATAAGTAAAACCATGGCTGAAAGATGCTATG
1 TA-AAATGAGTAAGACCATAGCTAAAAGATACTATG
23791079 TCATCATATG
Statistics
Matches: 102, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
44 3 0.03
45 99 0.97
ACGTcount: A:0.44, C:0.11, G:0.21, T:0.25
Consensus pattern (45 bp):
TAAAATGAGTAAGACCATAGCTAAAAGATACTATGACATTATGGT
Found at i:23793851 original size:20 final size:19
Alignment explanation
Indices: 23793830--23793883 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
23793820 TAAAAAAATA
*
23793830 TATAAAT-TTTGGAATTCT
1 TATAAATATTTTGAATTCT
23793848 TATAAATATTTTGAATT-T
1 TATAAATATTTTGAATTCT
*
23793866 TAAAAATTATTTTGAATT
1 TATAAA-TATTTTGAATT
23793884 TTTGAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 13 0.41
19 19 0.59
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (19 bp):
TATAAATATTTTGAATTCT
Found at i:23793853 original size:18 final size:17
Alignment explanation
Indices: 23793830--23793873 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
23793820 TAAAAAAATA
23793830 TATAAATTTTGGAATTCT
1 TATAAATTTTGGAATT-T
*
23793848 TATAAATATTTTGAATTT
1 TATAAAT-TTTGGAATTT
*
23793866 TAAAAATT
1 TATAAATT
23793874 ATTTTGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 14 0.61
19 8 0.35
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (17 bp):
TATAAATTTTGGAATTT
Found at i:23793891 original size:20 final size:20
Alignment explanation
Indices: 23793835--23793905 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
23793825 AAATATATAA
* *
23793835 ATTTTGGAATTCTTATAAA-T
1 ATTTT-GAATTTTTAAAAATT
23793855 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
*
23793874 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTTAAAAATT
*
23793894 ATTGTG-ATTTTT
1 ATTTTGAATTTTT
23793906 TTTGTAATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
18 7 0.16
19 18 0.40
20 20 0.44
ACGTcount: A:0.34, C:0.01, G:0.10, T:0.55
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:23793906 original size:20 final size:20
Alignment explanation
Indices: 23793833--23793905 Score: 66
Period size: 19 Copynumber: 3.9 Consensus size: 20
23793823 AAAAATATAT
* *
23793833 AAATT-TTG-GAATTCTTAT
1 AAATTATTGTGAATTTTTAA
*
23793851 AAA-TATTTTGAA-TTTTAA
1 AAATTATTGTGAATTTTTAA
* *
23793869 AAATTATTTTGAATTTTTGA
1 AAATTATTGTGAATTTTTAA
23793889 AAATTATTGTG-ATTTTT
1 AAATTATTGTGAATTTTT
23793906 TTTGTAATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
17 1 0.02
18 12 0.26
19 18 0.39
20 15 0.33
ACGTcount: A:0.36, C:0.01, G:0.10, T:0.53
Consensus pattern (20 bp):
AAATTATTGTGAATTTTTAA
Found at i:23796579 original size:33 final size:33
Alignment explanation
Indices: 23796537--23796625 Score: 117
Period size: 33 Copynumber: 2.7 Consensus size: 33
23796527 AAAATCTAGA
* *
23796537 TAGGTGAGACCAAGAAGGTATTTGTCATATGCC
1 TAGGTGAGACCAAGAGGGTATTCGTCATATGCC
**
23796570 TAGGTGAGA-CAGAGAGGGTATTCGTCATATGTT
1 TAGGTGAGACCA-AGAGGGTATTCGTCATATGCC
*
23796603 TAGGTGAGACCGAGAGGGTATTC
1 TAGGTGAGACCAAGAGGGTATTC
23796626 TTATCTAAGG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
32 2 0.04
33 46 0.94
34 1 0.02
ACGTcount: A:0.28, C:0.12, G:0.33, T:0.27
Consensus pattern (33 bp):
TAGGTGAGACCAAGAGGGTATTCGTCATATGCC
Found at i:23798085 original size:19 final size:20
Alignment explanation
Indices: 23798043--23798096 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
23798033 GCATCATTAC
* *
23798043 TTTTATAAATTTTTTGAATA
1 TTTTATATATTTTTTAAATA
23798063 TTTTATATATTTTTTAAAT-
1 TTTTATATATTTTTTAAATA
*
23798082 TTTTATGTATTTTTT
1 TTTTATATATTTTTT
23798097 GTTTTAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTTATATATTTTTTAAATA
Found at i:23798557 original size:15 final size:15
Alignment explanation
Indices: 23798530--23798568 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
23798520 TTTTAAAAAG
*
23798530 TTAAAAATATTTTTT
1 TTAAAATTATTTTTT
23798545 TT-AAATTATTTTTT
1 TTAAAATTATTTTTT
23798559 TTAAAATTAT
1 TTAAAATTAT
23798569 AAATTTGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTAAAATTATTTTTT
Found at i:23803192 original size:42 final size:42
Alignment explanation
Indices: 23803118--23803233 Score: 128
Period size: 42 Copynumber: 2.8 Consensus size: 42
23803108 TAGCTCCCAC
* * * * * *
23803118 GAGCTTCTGTTTAACTCATATGAGTTTATGTTCATA-TCTTTT
1 GAGCTTTTGTTTAACCCTTATGGGTTTCTGTTCA-ACTCTTAT
23803160 GAGCTTTTGTTTAACCCTTATGGGTTTCTGTTCAACTCTTAT
1 GAGCTTTTGTTTAACCCTTATGGGTTTCTGTTCAACTCTTAT
**
23803202 GAG-TTTCCATTTAACCCTTATGGGTTTCTGTT
1 GAGCTTT-TGTTTAACCCTTATGGGTTTCTGTT
23803234 TAGCACTTAT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 4 0.06
42 60 0.94
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.48
Consensus pattern (42 bp):
GAGCTTTTGTTTAACCCTTATGGGTTTCTGTTCAACTCTTAT
Found at i:23803208 original size:21 final size:21
Alignment explanation
Indices: 23803122--23803254 Score: 99
Period size: 21 Copynumber: 6.3 Consensus size: 21
23803112 TCCCACGAGC
*
23803122 TTCTGTTTAACTCATATGAGT
1 TTCTGTTTAACTCTTATGAGT
* * *
23803143 TTATGTTCATA-TCTTTTGAGCT
1 TTCTGTTTA-ACTCTTATGAG-T
* *
23803165 TT-TGTTTAACCCTTATGGGT
1 TTCTGTTTAACTCTTATGAGT
*
23803185 TTCTGTTCAACTCTTATGAGT
1 TTCTGTTTAACTCTTATGAGT
** * *
23803206 TTCCATTTAACCCTTATGGGT
1 TTCTGTTTAACTCTTATGAGT
* * * *
23803227 TTCTGTTTAGCACTTATGTGC
1 TTCTGTTTAACTCTTATGAGT
23803248 TTCTGTT
1 TTCTGTT
23803255 CAGCCTTCGG
Statistics
Matches: 86, Mismatches: 22, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
20 4 0.05
21 78 0.91
22 4 0.05
ACGTcount: A:0.17, C:0.17, G:0.16, T:0.50
Consensus pattern (21 bp):
TTCTGTTTAACTCTTATGAGT
Found at i:23805876 original size:4 final size:4
Alignment explanation
Indices: 23805867--23806200 Score: 517
Period size: 4 Copynumber: 83.8 Consensus size: 4
23805857 AAAGACACGC
23805867 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
23805915 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
23805963 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
23806011 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * * * * * * *
23806059 GGAT GCAT GGAT GCAT GGAT GCAT GTAT GCAT GTAT GCAT GGAT GCAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * * *
23806107 GGAT GCAT GTAT GCAT GTAT GCAT GTAT GCAT GTAT GCAT G-AT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
23806154 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA
23806201 GCCCCTAACT
Statistics
Matches: 307, Mismatches: 22, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
3 3 0.01
4 304 0.99
ACGTcount: A:0.25, C:0.03, G:0.27, T:0.45
Consensus pattern (4 bp):
GTAT
Found at i:23816725 original size:22 final size:22
Alignment explanation
Indices: 23816695--23816743 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
23816685 AGGGTGAAAA
23816695 GAAA-GCTAGGATGTGATAGGT
1 GAAAGGCTAGGATGTGATAGGT
* *
23816716 GAAAGGCTAGGATTTGATGGGT
1 GAAAGGCTAGGATGTGATAGGT
*
23816738 GTAAGG
1 GAAAGG
23816744 GTTTTTGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.31, C:0.04, G:0.41, T:0.24
Consensus pattern (22 bp):
GAAAGGCTAGGATGTGATAGGT
Found at i:23816877 original size:10 final size:11
Alignment explanation
Indices: 23816857--23816882 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23816847 GGTGCAAGGG
23816857 TTTTTGTTTTT
1 TTTTTGTTTTT
23816868 TTTTTGTTTTT
1 TTTTTGTTTTT
23816879 TTTT
1 TTTT
23816883 AATTGGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTGTTTTT
Found at i:23819488 original size:23 final size:24
Alignment explanation
Indices: 23819470--23819516 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
23819460 TCTTAATTAT
*
23819470 CAAATCAAATT-AAAATTAAAAAA
1 CAAATCAAATTAAAAATTAATAAA
*
23819493 CAAATTAAATTAAAAATTAATAAA
1 CAAATCAAATTAAAAATTAATAAA
23819517 AATTTGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (24 bp):
CAAATCAAATTAAAAATTAATAAA
Found at i:23819504 original size:17 final size:18
Alignment explanation
Indices: 23819475--23819508 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
23819465 ATTATCAAAT
23819475 CAAATTAAAATTAAAAAA
1 CAAATTAAAATTAAAAAA
23819493 CAAATT-AAATTAAAAA
1 CAAATTAAAATTAAAAA
23819509 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (18 bp):
CAAATTAAAATTAAAAAA
Found at i:23819527 original size:24 final size:23
Alignment explanation
Indices: 23819470--23819517 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
23819460 TCTTAATTAT
*
23819470 CAAATCAAATTAAAATTAAAAAA
1 CAAATTAAATTAAAATTAAAAAA
23819493 CAAATTAAATTAAAAATTAATAAAA
1 CAAATTAAATT-AAAATTAA-AAAA
23819518 ATTTGAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.45
24 8 0.36
25 4 0.18
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (23 bp):
CAAATTAAATTAAAATTAAAAAA
Found at i:23822537 original size:22 final size:22
Alignment explanation
Indices: 23822509--23822551 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
23822499 GGGAAGTCAA
*
23822509 GACACCAAGGTTTGGGTGTTGC
1 GACACCAAGGTTTAGGTGTTGC
23822531 GACACCAAGGTTTAGGTGTTG
1 GACACCAAGGTTTAGGTGTTG
23822552 TAACACCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.16, G:0.35, T:0.28
Consensus pattern (22 bp):
GACACCAAGGTTTAGGTGTTGC
Found at i:23822557 original size:22 final size:22
Alignment explanation
Indices: 23822510--23822558 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
23822500 GGAAGTCAAG
* *
23822510 ACACCAAGGTTTGGGTGTTGCG
1 ACACCAAGGTTTAGGTGTTGCA
*
23822532 ACACCAAGGTTTAGGTGTTGTA
1 ACACCAAGGTTTAGGTGTTGCA
23822554 ACACC
1 ACACC
23822559 GAAGCTGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (22 bp):
ACACCAAGGTTTAGGTGTTGCA
Found at i:23823622 original size:13 final size:13
Alignment explanation
Indices: 23823604--23823633 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
23823594 GATTTATTAG
23823604 ATGCTAATATAGA
1 ATGCTAATATAGA
23823617 ATGCTAATATAGA
1 ATGCTAATATAGA
23823630 ATGC
1 ATGC
23823634 CACCAGACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.30
Consensus pattern (13 bp):
ATGCTAATATAGA
Found at i:23826264 original size:29 final size:29
Alignment explanation
Indices: 23826231--23826329 Score: 109
Period size: 29 Copynumber: 3.5 Consensus size: 29
23826221 GGTGCACTGG
* *
23826231 AGTGCATTATTAGAATAGAACAACACCA-
1 AGTGCATTATCAGAACAGAACAACACCAT
*
23826259 ATGTGC-TTAATCAGAACAGAAAAACACCAT
1 A-GTGCATT-ATCAGAACAGAACAACACCAT
*
23826289 AGTG-ATTATCAGAACAGAACAACACCGT
1 AGTGCATTATCAGAACAGAACAACACCAT
23826317 AGTGCA--ATCAGAA
1 AGTGCATTATCAGAA
23826330 TAAAAAGCGC
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
27 7 0.11
28 26 0.43
29 27 0.44
30 1 0.02
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.19
Consensus pattern (29 bp):
AGTGCATTATCAGAACAGAACAACACCAT
Found at i:23826306 original size:28 final size:28
Alignment explanation
Indices: 23826231--23826320 Score: 101
Period size: 28 Copynumber: 3.1 Consensus size: 28
23826221 GGTGCACTGG
* *
23826231 AGTGCATTATTAGAATAGAACAACACCA-
1 AGTG-ATTATCAGAACAGAACAACACCAT
* *
23826259 ATGTGCTTAATCAGAACAGAAAAACACCAT
1 A-GTGATT-ATCAGAACAGAACAACACCAT
*
23826289 AGTGATTATCAGAACAGAACAACACCGT
1 AGTGATTATCAGAACAGAACAACACCAT
23826317 AGTG
1 AGTG
23826321 CAATCAGAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
28 26 0.50
29 25 0.48
30 1 0.02
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (28 bp):
AGTGATTATCAGAACAGAACAACACCAT
Found at i:23828145 original size:43 final size:43
Alignment explanation
Indices: 23828091--23828182 Score: 168
Period size: 43 Copynumber: 2.2 Consensus size: 43
23828081 TTAGATTGCT
*
23828091 TATG-ATCTGTATGCGTTTTGGAATATTTTTTTAAGTTGTGTA
1 TATGAATCTGTATGCGATTTGGAATATTTTTTTAAGTTGTGTA
23828133 TATGAATCTGTATGCGATTTGGAATATTTTTTTAAGTTGTGTA
1 TATGAATCTGTATGCGATTTGGAATATTTTTTTAAGTTGTGTA
23828176 TATGAAT
1 TATGAAT
23828183 TTATGATGAA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 4 0.08
43 44 0.92
ACGTcount: A:0.25, C:0.04, G:0.21, T:0.50
Consensus pattern (43 bp):
TATGAATCTGTATGCGATTTGGAATATTTTTTTAAGTTGTGTA
Found at i:23828893 original size:17 final size:17
Alignment explanation
Indices: 23828871--23828905 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
23828861 TAGAGAAAGG
23828871 ATCAATTTATAATGACT
1 ATCAATTTATAATGACT
23828888 ATCAATTTATAATGACT
1 ATCAATTTATAATGACT
23828905 A
1 A
23828906 ACCTTTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (17 bp):
ATCAATTTATAATGACT
Found at i:23833644 original size:11 final size:11
Alignment explanation
Indices: 23833630--23833675 Score: 78
Period size: 11 Copynumber: 4.4 Consensus size: 11
23833620 CTTTTTGGGC
23833630 AATTTTCGGGT
1 AATTTTCGGGT
23833641 AA--TTCGGGT
1 AATTTTCGGGT
23833650 AATTTTCGGGT
1 AATTTTCGGGT
23833661 AATTTTCGGGT
1 AATTTTCGGGT
23833672 AATT
1 AATT
23833676 CAATTAATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.27
11 24 0.73
ACGTcount: A:0.22, C:0.09, G:0.26, T:0.43
Consensus pattern (11 bp):
AATTTTCGGGT
Found at i:23833648 original size:9 final size:9
Alignment explanation
Indices: 23833634--23833728 Score: 84
Period size: 9 Copynumber: 10.2 Consensus size: 9
23833624 TTGGGCAATT
23833634 TTCGGGTAA
1 TTCGGGTAA
23833643 TTCGGGTAA
1 TTCGGGTAA
23833652 TTTTCGGGTAA
1 --TTCGGGTAA
23833663 TTTTCGGGTAA
1 --TTCGGGTAA
***
23833674 TTCAATTAA
1 TTCGGGTAA
*
23833683 TTCGGTTAA
1 TTCGGGTAA
* *
23833692 TTCAGTTAA
1 TTCGGGTAA
*
23833701 -TCAGGTAA
1 TTCGGGTAA
23833709 TTCGGGTAA
1 TTCGGGTAA
23833718 TTCGGGTAA
1 TTCGGGTAA
23833727 TT
1 TT
23833729 TTTAACCAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
8 7 0.09
9 48 0.64
11 20 0.27
ACGTcount: A:0.25, C:0.11, G:0.24, T:0.40
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:23833655 original size:20 final size:21
Alignment explanation
Indices: 23833630--23833675 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
23833620 CTTTTTGGGC
23833630 AATTTTCGGGTAA-TTCGGGT
1 AATTTTCGGGTAATTTCGGGT
23833650 AATTTTCGGGTAATTTTCGGGT
1 AATTTTCGGGTAA-TTTCGGGT
23833672 AATT
1 AATT
23833676 CAATTAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.54
22 11 0.46
ACGTcount: A:0.22, C:0.09, G:0.26, T:0.43
Consensus pattern (21 bp):
AATTTTCGGGTAATTTCGGGT
Found at i:23833684 original size:31 final size:31
Alignment explanation
Indices: 23833621--23833684 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
23833611 AACACCGAAC
* **
23833621 TTTTTGGGCAATTTTCGGGTAATTCGGGTAA
1 TTTTCGGGCAATTTTCGGGTAATTCAAGTAA
* *
23833652 TTTTCGGGTAATTTTCGGGTAATTCAATTAA
1 TTTTCGGGCAATTTTCGGGTAATTCAAGTAA
23833683 TT
1 TT
23833685 CGGTTAATTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.22, C:0.09, G:0.23, T:0.45
Consensus pattern (31 bp):
TTTTCGGGCAATTTTCGGGTAATTCAAGTAA
Found at i:23833847 original size:27 final size:28
Alignment explanation
Indices: 23833791--23833851 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
23833781 TTATTAACCG
* *
23833791 AAAAAAATTTCGGTTCGGTTAATTATTT
1 AAAAAAATTTCGGTTCGGTTAATCAGTT
*
23833819 AAAAAAATTTCGGTTCGGTTAA-CGGTT
1 AAAAAAATTTCGGTTCGGTTAATCAGTT
23833846 AAAAAA
1 AAAAAA
23833852 TTTGGGAGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 8 0.27
28 22 0.73
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.34
Consensus pattern (28 bp):
AAAAAAATTTCGGTTCGGTTAATCAGTT
Found at i:23834305 original size:121 final size:126
Alignment explanation
Indices: 23834153--23834393 Score: 278
Period size: 127 Copynumber: 1.9 Consensus size: 126
23834143 TATTTGATTT
* * *
23834153 ATATAAAAAACTTCCAACGGTTCAAT---TAAT-ATATA-CAATATTTTAAATTAATATGATAAA
1 ATATAAAAAACTTCCAACGATTCAATAAATATTAATATATCAATATTTTAAATTAATATAATAAA
* ** *
23834213 TATATCAGGTCAGA-TCGAAATTTTACATGTATGAAAAGTACAATTATATTGATAAATTTAC
66 GATATCAGAAC-GATTCAAAATTTTACATGTATGAAAAGTACAATTATATTGATAAATTTAC
** * * * *
23834274 ATATAAAAAACTTTTAACTATTTAATAAATATTAATATATTCAATATTTTAAATTGATATAATAG
1 ATATAAAAAACTTCCAACGATTCAATAAATATTAATATA-TCAATATTTTAAATTAATATAATAA
* * *
23834339 AGATATCAGAACGATTTAAAATTTTACATGTATGATAAGTAGAATTATATTGATA
65 AGATATCAGAACGATTCAAAATTTTACATGTATGAAAAGTACAATTATATTGATA
23834394 GGTTCAATAG
Statistics
Matches: 97, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
121 21 0.22
124 3 0.03
125 5 0.05
126 2 0.02
127 66 0.68
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (126 bp):
ATATAAAAAACTTCCAACGATTCAATAAATATTAATATATCAATATTTTAAATTAATATAATAAA
GATATCAGAACGATTCAAAATTTTACATGTATGAAAAGTACAATTATATTGATAAATTTAC
Found at i:23835490 original size:5 final size:5
Alignment explanation
Indices: 23835480--23835505 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
23835470 CTCAAAAATT
23835480 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
23835506 CGAATGCTCA
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:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:23838817 original size:46 final size:45
Alignment explanation
Indices: 23838729--23838824 Score: 120
Period size: 46 Copynumber: 2.1 Consensus size: 45
23838719 TCATGAATGA
* * * * *
23838729 TATTATGTATTTAATATATTGTTTAAAAATGGAGCGTTGTTAAAT
1 TATTATGTATTTAACATATTGTTGAAAAATGAAACGTAGTTAAAT
* *
23838774 TGATTATGTATTTAGCATATTGTTGAAAAATGAAATGTAGTTAAAT
1 T-ATTATGTATTTAACATATTGTTGAAAAATGAAACGTAGTTAAAT
23838820 TATTA
1 TATTA
23838825 ATTGAAATGA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 5 0.12
46 38 0.88
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.45
Consensus pattern (45 bp):
TATTATGTATTTAACATATTGTTGAAAAATGAAACGTAGTTAAAT
Found at i:23839777 original size:21 final size:21
Alignment explanation
Indices: 23839738--23839779 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23839728 TTTACCTAGG
*
23839738 ATGTGAATTGGATGGAATTGA
1 ATGTGAATTGGATGAAATTGA
* *
23839759 ATGTGAATTGTATTAAATTGA
1 ATGTGAATTGGATGAAATTGA
23839780 TTTAAAGTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (21 bp):
ATGTGAATTGGATGAAATTGA
Found at i:23840275 original size:64 final size:64
Alignment explanation
Indices: 23840157--23840284 Score: 139
Period size: 64 Copynumber: 2.0 Consensus size: 64
23840147 GTGAGTATCC
* * ** * * * * * * *
23840157 TGATCGGTATTGATCCTGCATGTGTTGCGGATAAATCGCAGCTCTTTGTAAGCGTTCTGTTATA
1 TGATCGGTATAGATCCTGCATATAATGCAGACAAACCGCAACTCTTTATAAGCGTCCTGATATA
* *
23840221 TGATCGGTATAGATCCTGCATATAATGCAGACATACCGCAACTCTTTATGAGCGTCCTGATATA
1 TGATCGGTATAGATCCTGCATATAATGCAGACAAACCGCAACTCTTTATAAGCGTCCTGATATA
23840285 GGAATTTTTT
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
64 51 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (64 bp):
TGATCGGTATAGATCCTGCATATAATGCAGACAAACCGCAACTCTTTATAAGCGTCCTGATATA
Found at i:23842224 original size:42 final size:42
Alignment explanation
Indices: 23842110--23842232 Score: 124
Period size: 42 Copynumber: 2.9 Consensus size: 42
23842100 TGTTAATTCA
* * * * *
23842110 TATGAGTTTTCGTTTAACCC-TAATAGGTTTCCATTCAGCTCT
1 TATGAGCTTTCGTTTAACCCTTAA-AGGTTTTCGTTTAGCTCC
* **
23842152 TTTGAGC-TTCAGTTTAACCCTTACGGGTTTTCGTTTAGCTCC
1 TATGAGCTTTC-GTTTAACCCTTAAAGGTTTTCGTTTAGCTCC
* *
23842194 TATGAGCTTTCGTTCAACCCTTAAAGGTTTTTGTTTAGC
1 TATGAGCTTTCGTTTAACCCTTAAAGGTTTTCGTTTAGC
23842233 ACTTATGTGC
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
41 3 0.05
42 57 0.88
43 5 0.08
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.43
Consensus pattern (42 bp):
TATGAGCTTTCGTTTAACCCTTAAAGGTTTTCGTTTAGCTCC
Found at i:23845024 original size:4 final size:4
Alignment explanation
Indices: 23845015--23845096 Score: 55
Period size: 4 Copynumber: 20.8 Consensus size: 4
23845005 CCGTGAGTTC
* * *
23845015 TTCT TTCT TTCT TTCT CTCT TT-T TTAT TT-T AT-T TTCT TTCT TTCCT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TT-CT
* * *
23845061 TTCTAT TTCT TT-T TGCT TTCT CTCT TTCT TTAT TTC
1 TTC--T TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC
23845097 ATTTTGTTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
3 9 0.15
4 45 0.73
5 4 0.06
6 4 0.06
ACGTcount: A:0.05, C:0.22, G:0.01, T:0.72
Consensus pattern (4 bp):
TTCT
Found at i:23845067 original size:25 final size:25
Alignment explanation
Indices: 23845022--23845089 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
23845012 TTCTTCTTTC
* *
23845022 TTTCTTTCTCTCTTTTTTATTT-TAT
1 TTTCTTTCTCTCCTTTCTATTTCT-T
*
23845047 TTTCTTTCTTTCCTTTCTATTTCTT
1 TTTCTTTCTCTCCTTTCTATTTCTT
23845072 TTTGCTTTCTCT-CTTTCT
1 TTT-CTTTCTCTCCTTTCT
23845090 TTATTTCATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 29 0.78
26 8 0.22
ACGTcount: A:0.04, C:0.22, G:0.01, T:0.72
Consensus pattern (25 bp):
TTTCTTTCTCTCCTTTCTATTTCTT
Found at i:23845302 original size:4 final size:4
Alignment explanation
Indices: 23845293--23845377 Score: 52
Period size: 4 Copynumber: 21.0 Consensus size: 4
23845283 GCCCTGAGTT
*
23845293 TTTC TTTC TTTC TTTC TCT- TTTC -TT- TTTC TTTTC TTTC TTTCC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTTC TTTC TTT-C TTTC
* * * *
23845340 TGTTTC GTT- TTGC TTTC TCTC TTTC TTTA TTTC ATTTC
1 --TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTTC
23845378 ATTTTATTAT
Statistics
Matches: 62, Mismatches: 10, Indels: 17
0.70 0.11 0.19
Matches are distributed among these distances:
3 7 0.11
4 39 0.63
5 12 0.19
6 4 0.06
ACGTcount: A:0.02, C:0.24, G:0.04, T:0.71
Consensus pattern (4 bp):
TTTC
Found at i:23845326 original size:30 final size:30
Alignment explanation
Indices: 23845292--23845367 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 30
23845282 GGCCCTGAGT
* *
23845292 TTTTCTTTCTTTCTTTCTCTTTTC-TTTTTC
1 TTTTCTTTCTTTCTTTCT-GTTTCGTTTTGC
23845322 TTTTCTTTCTTTCCTTTCTGTTTCGTTTTGC
1 TTTTCTTTCTTT-CTTTCTGTTTCGTTTTGC
*
23845353 -TTTCTCTCTTTCTTT
1 TTTTCTTTCTTTCTTT
23845368 ATTTCATTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
29 4 0.10
30 26 0.63
31 11 0.27
ACGTcount: A:0.00, C:0.24, G:0.04, T:0.72
Consensus pattern (30 bp):
TTTTCTTTCTTTCTTTCTGTTTCGTTTTGC
Found at i:23845327 original size:26 final size:24
Alignment explanation
Indices: 23845291--23845367 Score: 86
Period size: 26 Copynumber: 3.1 Consensus size: 24
23845281 AGGCCCTGAG
23845291 TTTTTC-TTTCTTTCTTTCTCTTTTC
1 TTTTTCTTTTCTTTCTTTC-C-TTTC
23845316 TTTTTCTTTTCTTTCTTTCCTTTC
1 TTTTTCTTTTCTTTCTTTCCTTTC
* *
23845340 TGTTTCGTTTTGCTTTCTCT-CTTTC
1 TTTTTC-TTTT-CTTTCTTTCCTTTC
23845365 TTT
1 TTT
23845368 ATTTCATTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
24 9 0.20
25 18 0.39
26 19 0.41
ACGTcount: A:0.00, C:0.23, G:0.04, T:0.73
Consensus pattern (24 bp):
TTTTTCTTTTCTTTCTTTCCTTTC
Found at i:23845399 original size:14 final size:14
Alignment explanation
Indices: 23845380--23845421 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
23845370 TTCATTTCAT
23845380 TTTATTATATTTAC
1 TTTATTATATTTAC
23845394 TTTATTATA-TTA-
1 TTTATTATATTTAC
23845406 -TTATATATATTTAC
1 TTTAT-TATATTTAC
23845420 TT
1 TT
23845422 AAATATTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
11 4 0.17
12 4 0.17
13 6 0.25
14 9 0.38
15 1 0.04
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTATTATATTTAC
Found at i:23845484 original size:38 final size:38
Alignment explanation
Indices: 23845408--23845486 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 38
23845398 TTATATTATT
* *
23845408 ATATATATTTACTTAAATATTAAGTAAAACATATTATA
1 ATATATATTAACTTAAATATTAAGTAAAACATAATATA
* *
23845446 ATATATATTAACTTAATTTATTAA-TAATA-ATAAATATA
1 ATATATATTAACTTAA-ATATTAAGTAAAACAT-AATATA
23845484 ATA
1 ATA
23845487 ATTTTATACT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
37 2 0.06
38 27 0.77
39 6 0.17
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (38 bp):
ATATATATTAACTTAAATATTAAGTAAAACATAATATA
Found at i:23849558 original size:4 final size:4
Alignment explanation
Indices: 23849532--23849617 Score: 66
Period size: 4 Copynumber: 20.5 Consensus size: 4
23849522 ATTATTATTA
* * **
23849532 TTAT TTACT TTAT GTTCAT TTAT TTAT TTAT TTAT TTAT TTAT ATGT CCATT
1 TTAT TTA-T TTAT -TT-AT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA-T
* *
23849584 TTTT TTAT GT-T TTAGT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTA-T TTAT TTAT TTAT TTAT TT
23849618 GTTATTGAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
3 2 0.03
4 48 0.74
5 13 0.20
6 2 0.03
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.70
Consensus pattern (4 bp):
TTAT
Found at i:23850043 original size:107 final size:108
Alignment explanation
Indices: 23849743--23850061 Score: 453
Period size: 108 Copynumber: 3.0 Consensus size: 108
23849733 AAGGAAAATG
* * * *
23849743 TTTCAAAGTAAGGCAATATTTTACGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTAGGTTT
1 TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTT
* * * *
23849808 CAATTTTTTTCATTCGACCAAATAGCTAAATATCCTTTT-AAAA
66 CGA-TTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAA
* * * *
23849851 TTTCAAAGTAAGGTAATATTTTGCATTTGGAGATTCGAGGAAACGTGCCATAATGTGCTGGGTTT
1 TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTT
* *
23849916 CGATTTTCTCGCTCGACCAAATAGCCGAATATCCTTTTAAAAA
66 CGATTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAA
** *
23849959 TTTCAAAAAAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTT
*
23850024 CGA-TTTCTCGTTGGACCAAATAGCCAAATATCCTTTTA
66 CGATTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTA
23850062 TATCTTAATC
Statistics
Matches: 186, Mismatches: 24, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
107 62 0.33
108 124 0.67
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (108 bp):
TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAA
Found at i:23851273 original size:24 final size:24
Alignment explanation
Indices: 23851237--23851282 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
23851227 GTTATTTTAA
*
23851237 AAAATATATAATTATA-CCAATATT
1 AAAATATAAAATT-TACCCAATATT
*
23851261 AAAATTTAAAATTTACCCAATA
1 AAAATATAAAATTTACCCAATA
23851283 GTCAAAGGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (24 bp):
AAAATATAAAATTTACCCAATATT
Found at i:23855168 original size:64 final size:64
Alignment explanation
Indices: 23855042--23855176 Score: 155
Period size: 65 Copynumber: 2.1 Consensus size: 64
23855032 TGGTAAATTA
* ** * ** * *
23855042 ATATAAAGTAGTATCTAAAAATTAATTTGGTAAAGAAAATAAGGTTAAATAATTGTAGTATCTC
1 ATATAAAGTAATCCCTAAAAATTAATTTGATAAAGAAAATAAACTTAAATAATTGCAATATCTC
* * *
23855106 AGTATAAAGTAATCCCTAAATATTATTTTGATAAA-AAAATAAACTTAAATAATTGCAATATCTT
1 A-TATAAAGTAATCCCTAAAAATTAATTTGATAAAGAAAATAAACTTAAATAATTGCAATATCTC
23855170 ATATAAA
1 ATATAAA
23855177 TTAAATATTT
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
63 6 0.10
64 26 0.44
65 27 0.46
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.35
Consensus pattern (64 bp):
ATATAAAGTAATCCCTAAAAATTAATTTGATAAAGAAAATAAACTTAAATAATTGCAATATCTC
Found at i:23861689 original size:176 final size:177
Alignment explanation
Indices: 23861395--23861750 Score: 696
Period size: 176 Copynumber: 2.0 Consensus size: 177
23861385 AAGAGGACAC
23861395 ACGGCTGAGACACACGCCCGTGTCTCAGGTCGTGTGGAACTAAAATGAGCTTTAAAACACAAGTT
1 ACGGCTGAGACACACGCCCGTGTCTCAGGTCGTGTGGAACTAAAATGAGCTTTAAAACACAAGTT
23861460 TACCATTTCAAGTTTGCTTGAACCTTAAGAAACTCAAATACCAACCAAAATACCTATTCAAAATG
66 TACCATTTCAAGTTTGCTTGAACCTTAAGAAACTCAAATACCAACCAAAATACCTATTCAAAATG
23861525 ACCTTGATCAAGCTAAAAGCACACCAAAATCAACC-TTAAGTGCCTA
131 ACCTTGATCAAGCTAAAAGCACACCAAAATCAACCATTAAGTGCCTA
23861571 ACGGCTGAGACACACGCCCGTGTCTCAGGTCGTGTGGAACTAAAATGAGCTTTAAAACACAAGTT
1 ACGGCTGAGACACACGCCCGTGTCTCAGGTCGTGTGGAACTAAAATGAGCTTTAAAACACAAGTT
23861636 TACCATTTCAAGTTTGCTTGAACCTTAAGAAACTCAAATACCAACCAAAATACCTATTCAAAATG
66 TACCATTTCAAGTTTGCTTGAACCTTAAGAAACTCAAATACCAACCAAAATACCTATTCAAAATG
23861701 ACCTTGATCAAGCTAAAAGCACACCAAAATCAACCTATTAAGTGCCTA
131 ACCTTGATCAAGCTAAAAGCACACCAAAATCAACC-ATTAAGTGCCTA
23861749 AC
1 AC
23861751 CAATTTACCC
Statistics
Matches: 178, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
176 165 0.93
178 13 0.07
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (177 bp):
ACGGCTGAGACACACGCCCGTGTCTCAGGTCGTGTGGAACTAAAATGAGCTTTAAAACACAAGTT
TACCATTTCAAGTTTGCTTGAACCTTAAGAAACTCAAATACCAACCAAAATACCTATTCAAAATG
ACCTTGATCAAGCTAAAAGCACACCAAAATCAACCATTAAGTGCCTA
Found at i:23863488 original size:11 final size:13
Alignment explanation
Indices: 23863458--23863482 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23863448 TACAACAATT
23863458 ATATCATCAAAAC
1 ATATCATCAAAAC
23863471 ATATCATCAAAA
1 ATATCATCAAAA
23863483 TATCATTCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (13 bp):
ATATCATCAAAAC
Found at i:23864820 original size:5 final size:5
Alignment explanation
Indices: 23864810--23864847 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
23864800 TTTGTTTTAT
23864810 TATAA TATAA TATAA TATAA TATAA TATAA TAT-A TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
23864848 CTTAATTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:23864877 original size:10 final size:10
Alignment explanation
Indices: 23864807--23864879 Score: 53
Period size: 10 Copynumber: 7.3 Consensus size: 10
23864797 TTATTTGTTT
23864807 TATTATAATA
1 TATTATAATA
*
23864817 TAATATAATA
1 TATTATAATA
*
23864827 TAATATAATA
1 TATTATAATA
*
23864837 TAATAT-ATA
1 TATTATAATA
*
23864846 TACT-TAAT-
1 TATTATAATA
*
23864854 TCTTAAGGTAATA
1 TATT-A--TAATA
23864867 TATTATAATA
1 TATTATAATA
23864877 TAT
1 TAT
23864880 ATTTTAACTT
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
8 3 0.06
9 8 0.15
10 33 0.63
12 5 0.10
13 3 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (10 bp):
TATTATAATA
Found at i:23865038 original size:5 final size:5
Alignment explanation
Indices: 23865021--23865067 Score: 78
Period size: 5 Copynumber: 9.6 Consensus size: 5
23865011 TTTATACCTA
*
23865021 ATAAT ATACT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT-AT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
23865068 CTTAAATCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
4 4 0.10
5 35 0.90
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:23865097 original size:10 final size:10
Alignment explanation
Indices: 23865021--23865099 Score: 56
Period size: 10 Copynumber: 7.9 Consensus size: 10
23865011 TTTATACCTA
*
23865021 ATAATATACT
1 ATAATATATT
*
23865031 ATAATATAAT
1 ATAATATATT
*
23865041 ATAATATAAT
1 ATAATATATT
*
23865051 ATAATATAAT
1 ATAATATATT
23865061 AT-ATATACTT
1 ATAATATA-TT
* *
23865071 A-AATCT-TA
1 ATAATATATT
23865079 AGGTAATATATT
1 A--TAATATATT
23865091 ATAATATAT
1 ATAATATAT
23865100 ATTTTAACTT
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
8 2 0.04
9 5 0.09
10 44 0.77
11 4 0.07
12 2 0.04
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.42
Consensus pattern (10 bp):
ATAATATATT
Found at i:23865183 original size:220 final size:220
Alignment explanation
Indices: 23864810--23865242 Score: 832
Period size: 220 Copynumber: 2.0 Consensus size: 220
23864800 TTTGTTTTAT
*
23864810 TATAATATAATATAATATAATATAATATAATATATATACTTAATTCTTAAGGTAATATATTATAA
1 TATAATATAATATAATATAATATAATATAATATATATACTTAAATCTTAAGGTAATATATTATAA
23864875 TATATATTTTAACTTAAAATTTAGGATATTTCATCCTTATGCCGCCTCATTTAAGAAAAATGCAT
66 TATATATTTTAACTTAAAATTTAGGATATTTCATCCTTATGCCGCCTCATTTAAGAAAAATGCAT
23864940 AATTGCTTATTTAGTCCCTTTAATTTTTCTTTAATCTATAATTCAACTTTCACCCTTTATGCAAT
131 AATTGCTTATTTAGTCCCTTTAATTTTTCTTTAATCTATAATTCAACTTTCACCCTTTATGCAAT
23865005 TTAGTCTTTATACCTAATAATATAC
196 TTAGTCTTTATACCTAATAATATAC
23865030 TATAATATAATATAATATAATATAATATAATATATATACTTAAATCTTAAGGTAATATATTATAA
1 TATAATATAATATAATATAATATAATATAATATATATACTTAAATCTTAAGGTAATATATTATAA
*
23865095 TATATATTTTAACTTAAAATTTAGGATGTTTCATCCTTATGCCGCCTCATTTAAG-AAAATGGCA
66 TATATATTTTAACTTAAAATTTAGGATATTTCATCCTTATGCCGCCTCATTTAAGAAAAAT-GCA
23865159 TAATTGCTTATTTAGTCCCTTTAATTTTTCTTTAATCTATAATTCAACTTTCACCCTTTATGCAA
130 TAATTGCTTATTTAGTCCCTTTAATTTTTCTTTAATCTATAATTCAACTTTCACCCTTTATGCAA
23865224 TTTAGTCTTTATACCTAAT
195 TTTAGTCTTTATACCTAAT
23865243 TACTCTTAAT
Statistics
Matches: 210, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
219 5 0.02
220 205 0.98
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (220 bp):
TATAATATAATATAATATAATATAATATAATATATATACTTAAATCTTAAGGTAATATATTATAA
TATATATTTTAACTTAAAATTTAGGATATTTCATCCTTATGCCGCCTCATTTAAGAAAAATGCAT
AATTGCTTATTTAGTCCCTTTAATTTTTCTTTAATCTATAATTCAACTTTCACCCTTTATGCAAT
TTAGTCTTTATACCTAATAATATAC
Found at i:23886311 original size:11 final size:12
Alignment explanation
Indices: 23886295--23886327 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
23886285 GGACCTAAGA
23886295 TGAATTAATTT-
1 TGAATTAATTTG
*
23886306 TGAATTCATTTG
1 TGAATTAATTTG
23886318 TGAATTAATT
1 TGAATTAATT
23886328 CACTTTTGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (12 bp):
TGAATTAATTTG
Found at i:23889298 original size:19 final size:20
Alignment explanation
Indices: 23889252--23889298 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
23889242 TTTATATTAT
*
23889252 TAAAAAA-TATTAATTACCA
1 TAAAAAATTATCAATTACCA
*
23889271 TAAAAAATTATCAA-TACGA
1 TAAAAAATTATCAATTACCA
23889290 TAAAAAATT
1 TAAAAAATT
23889299 TCTAAATGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.30
Consensus pattern (20 bp):
TAAAAAATTATCAATTACCA
Found at i:23891743 original size:26 final size:26
Alignment explanation
Indices: 23891707--23891760 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
23891697 ACTGATCAAA
23891707 AAGGGGTTGCTAAGTGCAGATTCCCC
1 AAGGGGTTGCTAAGTGCAGATTCCCC
*
23891733 AAGGGGTTGCTAAGTGCTGATTCCCC
1 AAGGGGTTGCTAAGTGCAGATTCCCC
23891759 AA
1 AA
23891761 ATTATTGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (26 bp):
AAGGGGTTGCTAAGTGCAGATTCCCC
Found at i:23891777 original size:67 final size:68
Alignment explanation
Indices: 23891666--23891796 Score: 176
Period size: 67 Copynumber: 1.9 Consensus size: 68
23891656 CATTGAATGT
**
23891666 AAGGGGTTGCTAAGTGCAGATTCCCCGGATCACTGATCAAAAAGG-GGTTGCTAAGTGCAGATTC
1 AAGGGGTTGCTAAGTGCAGATTCCCCAAATCACTGATCAAAAAGGTGGTTGCTAAGTGCAGATTC
23891730 CCC
66 CCC
* * * * *
23891733 AAGGGGTTGCTAAGTGCTGATTCCCCAAATTATTGATTC-TAAAGGTGGTTGCTAAGTGCTGATT
1 AAGGGGTTGCTAAGTGCAGATTCCCCAAATCACTGA-TCAAAAAGGTGGTTGCTAAGTGCAGATT
23891797 TCACCGTATC
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
67 36 0.65
68 19 0.35
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (68 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCAAATCACTGATCAAAAAGGTGGTTGCTAAGTGCAGATTC
CCC
Found at i:23891826 original size:43 final size:41
Alignment explanation
Indices: 23891733--23891881 Score: 156
Period size: 42 Copynumber: 3.6 Consensus size: 41
23891723 CAGATTCCCC
** *
23891733 AAGGGGTTGCTAAGTGCTGATTCCCCAAATTATTGATTCTA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTCTA
* * *
23891774 AAGGTGGTTGCTAAGTGCTGATTTCACCGTATCCTTGATTGTGA
1 AAGG-GGTTGCTAAGTGCTGA-TTCCCCGTATCATTGATTCT-A
* * * *
23891818 AAGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATAT-
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTCTA
*
23891858 AAGTTGGTTGCTAAGTGCTGATTC
1 AAG-GGGTTGCTAAGTGCTGATTC
23891882 TACCGAGTAA
Statistics
Matches: 90, Mismatches: 14, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
40 3 0.03
41 22 0.24
42 31 0.34
43 29 0.32
44 5 0.06
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.35
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTCTA
Found at i:23896358 original size:13 final size:13
Alignment explanation
Indices: 23896340--23896368 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
23896330 AATAAAAAAA
23896340 ATATATTTATTAT
1 ATATATTTATTAT
23896353 ATATATTTATTAT
1 ATATATTTATTAT
23896366 ATA
1 ATA
23896369 AATACTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATATTTATTAT
Done.