Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 95 of 144
Found at i:22239305 original size:11 final size:11
Alignment explanation
Indices: 22239289--22239318 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
22239279 TTTCCTTTTT
22239289 TATTTATTATG
1 TATTTATTATG
*
22239300 TATTTATTATT
1 TATTTATTATG
22239311 TATTTATT
1 TATTTATT
22239319 CAAAACATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (11 bp):
TATTTATTATG
Found at i:22242197 original size:28 final size:28
Alignment explanation
Indices: 22242153--22242208 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
22242143 GATATTTGAT
*
22242153 TTACTCTCTGTTAACCCAAAGGTCATGC
1 TTACTCCCTGTTAACCCAAAGGTCATGC
*
22242181 TTACTCCCTGTTGACCCAAAGGTCATGC
1 TTACTCCCTGTTAACCCAAAGGTCATGC
22242209 CTGTTACCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.30
Consensus pattern (28 bp):
TTACTCCCTGTTAACCCAAAGGTCATGC
Found at i:22247075 original size:23 final size:23
Alignment explanation
Indices: 22247016--22247139 Score: 110
Period size: 23 Copynumber: 5.3 Consensus size: 23
22247006 ACACTAGCGC
*
22247016 GCTCTCT-ATTTAGCAC-GTCTCGT
1 GCTCTCTGA-TTAGCACTGTGT-GT
22247039 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
* *
22247064 GCTCTCTGATTAGCACTTTGTGC
1 GCTCTCTGATTAGCACTGTGTGT
* *
22247087 GCTCTCTGATTAGTACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
22247110 ACTCTCT-ATTTGGCACTGTGTGT
1 GCTCTCTGA-TTAGCACTGTGTGT
*
22247133 ACTCTCT
1 GCTCTCT
22247140 ATTGCCCAGC
Statistics
Matches: 87, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
22 1 0.01
23 65 0.75
25 17 0.20
26 4 0.05
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:22247138 original size:46 final size:47
Alignment explanation
Indices: 22247017--22247139 Score: 126
Period size: 46 Copynumber: 2.6 Consensus size: 47
22247007 CACTAGCGCG
* *
22247017 CTCTCTATTTAGCAC-GTCTCGTGCTCTCTGTTATTAGCACTGTGTGTG
1 CTCTCTATTTAGCACTGTGT-GTGCTCTCTG-TATTAGCACTGTGTGTA
* * * *
22247065 CTCTCTGA-TTAGCACTTTGTGCGCTCTCTG-ATTAGTACTTTGTGTA
1 CTCTCT-ATTTAGCACTGTGTGTGCTCTCTGTATTAGCACTGTGTGTA
* *
22247111 CTCTCTATTTGGCACTGTGTGTACTCTCT
1 CTCTCTATTTAGCACTGTGTGTGCTCTCT
22247140 ATTGCCCAGC
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
45 1 0.02
46 36 0.58
48 22 0.35
49 3 0.05
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (47 bp):
CTCTCTATTTAGCACTGTGTGTGCTCTCTGTATTAGCACTGTGTGTA
Found at i:22248939 original size:14 final size:14
Alignment explanation
Indices: 22248913--22248963 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
22248903 TTGGACTCAA
22248913 AAAATA-TTAAAAT
1 AAAATATTTAAAAT
*
22248926 AAAATATTTGAAAT
1 AAAATATTTAAAAT
***
22248940 ATTTTATTTCAAAAT
1 AAAATATTT-AAAAT
22248955 AAAATATTT
1 AAAATATTT
22248964 TAATATAATT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
13 6 0.21
14 12 0.43
15 10 0.36
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (14 bp):
AAAATATTTAAAAT
Found at i:22249048 original size:61 final size:61
Alignment explanation
Indices: 22248983--22249110 Score: 204
Period size: 61 Copynumber: 2.1 Consensus size: 61
22248973 TTAATATAAA
* *
22248983 AATAATTATATTAAGAATGTTATTAAATTATATATTATTA-TTTTATTAAATTATATTTAAT
1 AATAATTATATTAA-AATATTATTAAATTATATATTATCATTTTTATTAAATTATATTTAAT
* *
22249044 AATAATTATATTAAAATATTATTAAATTATTTATTATCATTTTTATTAGATTATATTTAAT
1 AATAATTATATTAAAATATTATTAAATTATATATTATCATTTTTATTAAATTATATTTAAT
22249105 AATAAT
1 AATAAT
22249111 CCTATTATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
60 22 0.35
61 40 0.65
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (61 bp):
AATAATTATATTAAAATATTATTAAATTATATATTATCATTTTTATTAAATTATATTTAAT
Found at i:22250365 original size:20 final size:21
Alignment explanation
Indices: 22250335--22250373 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
22250325 AATGTATGTT
22250335 TATGTTTTATTTCTTGATTGG
1 TATGTTTTATTTCTTGATTGG
*
22250356 TATG-TTTATTTTTTGATT
1 TATGTTTTATTTCTTGATT
22250374 AATTTGCATA
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:0.15, C:0.03, G:0.15, T:0.67
Consensus pattern (21 bp):
TATGTTTTATTTCTTGATTGG
Found at i:22252381 original size:27 final size:27
Alignment explanation
Indices: 22252351--22252411 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
22252341 TAGGTGATAG
22252351 ATATCATACAA-GTTGGTCAAGCCATGA
1 ATATCATA-AAGGTTGGTCAAGCCATGA
* * *
22252378 ATATAATAAAGGTTGGTTAGGCCATGA
1 ATATCATAAAGGTTGGTCAAGCCATGA
*
22252405 GTATCAT
1 ATATCAT
22252412 TCGGAGTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (27 bp):
ATATCATAAAGGTTGGTCAAGCCATGA
Found at i:22252532 original size:27 final size:27
Alignment explanation
Indices: 22252494--22252545 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
22252484 ACCACCACAA
*
22252494 TACTCTACTCCT-TTCAGCCCATTACAG
1 TACTCTACTCCTCCTC-GCCCATTACAG
22252521 TACTCTACTCCTCCTCGCCCATTAC
1 TACTCTACTCCTCCTCGCCCATTAC
22252546 TGTCCCAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.19, C:0.42, G:0.06, T:0.33
Consensus pattern (27 bp):
TACTCTACTCCTCCTCGCCCATTACAG
Found at i:22252682 original size:25 final size:25
Alignment explanation
Indices: 22252654--22252705 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
22252644 CATACTCGTC
22252654 GACCACCACAAAGTTTTACTTCTAG
1 GACCACCACAAAGTTTTACTTCTAG
22252679 GACCACCACAAAGTTTTACTTCTAG
1 GACCACCACAAAGTTTTACTTCTAG
22252704 GA
1 GA
22252706 TCACACCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (25 bp):
GACCACCACAAAGTTTTACTTCTAG
Found at i:22252853 original size:26 final size:26
Alignment explanation
Indices: 22252813--22252865 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
22252803 ATGAGTTTGG
*
22252813 AATTAATTATGTTTATATTGGTATTT
1 AATTAATAATGTTTATATTGGTATTT
* * *
22252839 AATTAATAATTTTTATGTTTGTATTT
1 AATTAATAATGTTTATATTGGTATTT
22252865 A
1 A
22252866 GGGTTTATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.58
Consensus pattern (26 bp):
AATTAATAATGTTTATATTGGTATTT
Found at i:22253530 original size:26 final size:26
Alignment explanation
Indices: 22253452--22253532 Score: 108
Period size: 26 Copynumber: 3.1 Consensus size: 26
22253442 ATACAAACAT
* * *
22253452 AAACATAATTAATTATTTATTAAATAA
1 AAACATAA-AAATTATTAATTAAATAC
*
22253479 AAATATAAAAATTATTAATTAAATAC
1 AAACATAAAAATTATTAATTAAATAC
*
22253505 AAACATGAAAATTATTAATTAAATAC
1 AAACATAAAAATTATTAATTAAATAC
22253531 AA
1 AA
22253533 GTGGAAAATG
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 41 0.85
27 7 0.15
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.35
Consensus pattern (26 bp):
AAACATAAAAATTATTAATTAAATAC
Found at i:22253677 original size:21 final size:21
Alignment explanation
Indices: 22253639--22253678 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
22253629 CCCAAAAGTC
**
22253639 CTAAACCTTAAATTCTAAACT
1 CTAAACCTTAAACCCTAAACT
*
22253660 CTAAATCTTAAACCCTAAA
1 CTAAACCTTAAACCCTAAA
22253679 TACAAGCATC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (21 bp):
CTAAACCTTAAACCCTAAACT
Found at i:22253705 original size:26 final size:26
Alignment explanation
Indices: 22253675--22253779 Score: 111
Period size: 26 Copynumber: 4.0 Consensus size: 26
22253665 TCTTAAACCC
* *
22253675 TAAATACAAGCATCAACATAGTTAAT
1 TAAATACAAACATAAACATAGTTAAT
* *
22253701 TAAATACAAAAATAAACATAATTAAT
1 TAAATACAAACATAAACATAGTTAAT
* * *
22253727 TAAATAGAAACATAAAAATTGTTAAT
1 TAAATACAAACATAAACATAGTTAAT
* * * *
22253753 TAAATACATATATAAATATAATTAAT
1 TAAATACAAACATAAACATAGTTAAT
22253779 T
1 T
22253780 CCAAATTCAT
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 64 1.00
ACGTcount: A:0.57, C:0.08, G:0.04, T:0.31
Consensus pattern (26 bp):
TAAATACAAACATAAACATAGTTAAT
Found at i:22261037 original size:11 final size:10
Alignment explanation
Indices: 22261015--22261060 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
22261005 CTTCAGGCAA
22261015 TTTT-TAATT
1 TTTTATAATT
22261024 TTTTATAGATT
1 TTTTATA-ATT
22261035 TTTTATAA-T
1 TTTTATAATT
22261044 TTTTA-AATT
1 TTTTATAATT
*
22261053 ATTTATAA
1 TTTTATAA
22261061 AACATGACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
8 2 0.06
9 15 0.47
10 5 0.16
11 10 0.31
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTATAATT
Found at i:22263759 original size:23 final size:23
Alignment explanation
Indices: 22263733--22263777 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
22263723 CATTATGCTT
22263733 AAATAAACTTAAATCAATAAAAC
1 AAATAAACTTAAATCAATAAAAC
**
22263756 AAATGGACTTAAATCAATAAAA
1 AAATAAACTTAAATCAATAAAA
22263778 ATAATGAACG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.62, C:0.11, G:0.04, T:0.22
Consensus pattern (23 bp):
AAATAAACTTAAATCAATAAAAC
Found at i:22265335 original size:20 final size:21
Alignment explanation
Indices: 22265296--22265335 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22265286 TAATTAGATA
*
22265296 AATTGTTAAAAAATTGAAATG
1 AATTGTTAAAAAAATGAAATG
22265317 AATTGTTAAAAAAAT-AAAT
1 AATTGTTAAAAAAATGAAAT
22265336 TATATAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (21 bp):
AATTGTTAAAAAAATGAAATG
Found at i:22265760 original size:2 final size:2
Alignment explanation
Indices: 22265755--22265787 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
22265745 TAATTTTTAA
22265755 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22265788 ATACATCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22272491 original size:40 final size:40
Alignment explanation
Indices: 22272350--22272574 Score: 203
Period size: 40 Copynumber: 5.7 Consensus size: 40
22272340 AATAAGCAAT
* * * * *
22272350 TGAACTGGCAGTGACACTGTAAATACTGCAATACTGTTAT
1 TGAACTGGCAGTGACACTGTAAACACTGCAATATTATCAC
*
22272390 TG-ACTGGCAGTGACACTGTAAACACTGCAATACTAT---
1 TGAACTGGCAGTGACACTGTAAACACTGCAATATTATCAC
* * *
22272426 TCAAC-GAGTAGTGACACTGTAAACACTGCGATATTATCAC
1 TGAACTG-GCAGTGACACTGTAAACACTGCAATATTATCAC
* * *
22272466 TGAACTGGCAGTGACACTGTGAACACTGCAACATGA-CTAC
1 TGAACTGGCAGTGACACTGTAAACACTGCAATATTATC-AC
* * * *
22272506 TAAATTGGCAGTGACACTGTAAACACCGCAATATCATCAC
1 TGAACTGGCAGTGACACTGTAAACACTGCAATATTATCAC
* * *
22272546 TTAACTAGCCA-TGACACTGTAACCACTGC
1 TGAACT-GGCAGTGACACTGTAAACACTGC
22272575 TAGATTGTCA
Statistics
Matches: 153, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
36 2 0.01
37 29 0.19
39 33 0.22
40 84 0.55
41 5 0.03
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (40 bp):
TGAACTGGCAGTGACACTGTAAACACTGCAATATTATCAC
Found at i:22275096 original size:26 final size:26
Alignment explanation
Indices: 22275045--22275110 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
22275035 TAACAAAATA
* **
22275045 AAATAAAATAAC-ATAATCATGGTAAT
1 AAATAAAATAACAAT-ATAATCATAAT
22275071 AAATAAAATAACAATATAATCATAAT
1 AAATAAAATAACAATATAATCATAAT
*
22275097 -AAT-AAATGACAATA
1 AAATAAAATAACAATA
22275111 AATATTAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
24 10 0.29
25 3 0.09
26 20 0.57
27 2 0.06
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.26
Consensus pattern (26 bp):
AAATAAAATAACAATATAATCATAAT
Found at i:22275099 original size:29 final size:26
Alignment explanation
Indices: 22275045--22275103 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 26
22275035 TAACAAAATA
**
22275045 AAATAAAATAACATAATCATGGTAAT
1 AAATAAAATAACATAATCATAATAAT
22275071 AAATAAAATAACAATATAATCATAATAAT
1 AAATAAAATAAC---ATAATCATAATAAT
22275100 AAAT
1 AAAT
22275104 GACAATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 12 0.43
29 16 0.57
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.27
Consensus pattern (26 bp):
AAATAAAATAACATAATCATAATAAT
Found at i:22275538 original size:35 final size:35
Alignment explanation
Indices: 22275471--22275538 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
22275461 GGCATGAAAA
* *
22275471 TAAATGACAAATAAATAAATAAATAATCAATAAAT
1 TAAATGACAAATAAACAAATAAATAATAAATAAAT
* *
22275506 TAAATGTCAAAATAAACAACTAAAT-ATAAATAA
1 TAAATGAC-AAATAAACAAATAAATAATAAATAA
22275539 TAATAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 14 0.50
36 14 0.50
ACGTcount: A:0.65, C:0.07, G:0.03, T:0.25
Consensus pattern (35 bp):
TAAATGACAAATAAACAAATAAATAATAAATAAAT
Found at i:22282424 original size:11 final size:10
Alignment explanation
Indices: 22282370--22282424 Score: 51
Period size: 11 Copynumber: 5.3 Consensus size: 10
22282360 AATATCATCA
22282370 TAAATGATATT
1 TAAAT-ATATT
22282381 TAAATA-ATT
1 TAAATATATT
*
22282390 TAAGACAT-TT
1 TAA-ATATATT
22282400 ATAAATATATT
1 -TAAATATATT
22282411 TAAATATAATT
1 TAAATAT-ATT
22282422 TAA
1 TAA
22282425 CATAATGTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 6 0.16
10 15 0.41
11 16 0.43
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (10 bp):
TAAATATATT
Found at i:22288198 original size:12 final size:12
Alignment explanation
Indices: 22288181--22288208 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
22288171 GGATTCAAGT
22288181 TTCCATGGCAGC
1 TTCCATGGCAGC
22288193 TTCCATGGCAGC
1 TTCCATGGCAGC
22288205 TTCC
1 TTCC
22288209 TTAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.36, G:0.21, T:0.29
Consensus pattern (12 bp):
TTCCATGGCAGC
Found at i:22290229 original size:15 final size:14
Alignment explanation
Indices: 22290184--22290229 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
22290174 TTACGACAAA
22290184 TTCTTCCTCTTTCTC
1 TTCTT-CTCTTTCTC
*
22290199 GTCTTCT-TTTCT-
1 TTCTTCTCTTTCTC
22290211 TTCTTCTTCTTTCTC
1 TTCTTC-TCTTTCTC
22290226 TTCT
1 TTCT
22290230 ACATTCTCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 5 0.19
13 6 0.23
14 7 0.27
15 8 0.31
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (14 bp):
TTCTTCTCTTTCTC
Found at i:22292036 original size:13 final size:13
Alignment explanation
Indices: 22292014--22292045 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
22292004 TAATTGAAAG
*
22292014 AAAATAAAATATA
1 AAAATTAAATATA
22292027 AAAATTAAATATA
1 AAAATTAAATATA
22292040 AAAATT
1 AAAATT
22292046 GTAGGGACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAATTAAATATA
Found at i:22300768 original size:4 final size:4
Alignment explanation
Indices: 22300759--22300857 Score: 198
Period size: 4 Copynumber: 24.8 Consensus size: 4
22300749 GTATAATAAT
22300759 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
22300807 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
22300855 ATA
1 ATA
22300858 TATATATTCT
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 95 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:22302418 original size:17 final size:18
Alignment explanation
Indices: 22302384--22302419 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
22302374 TGAATTTCTA
22302384 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
22302402 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
22302419 T
1 T
22302420 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:22302900 original size:2 final size:2
Alignment explanation
Indices: 22302893--22302917 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22302883 TTATATCTTT
22302893 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
22302918 TAGTTAATAA
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:22308153 original size:23 final size:23
Alignment explanation
Indices: 22308079--22308292 Score: 169
Period size: 23 Copynumber: 9.5 Consensus size: 23
22308069 TAAACGGAAC
* * *
22308079 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
22308101 GAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
22308123 GAGCAACAGAGAGCACACAAAGTGCT
1 -A--AACAGAGAGCACACAAAGTGCT
*
22308149 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
* *
22308169 --AC--TGAGCACATAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
22308188 AATCAGAGAGCACACGAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
22308211 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
22308234 AATAACAGAGAGCACA-AGACGTGCT
1 -A-AACAGAGAGCACACA-AAGTGCT
* *
22308259 AAATAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
22308282 AAACAGAGAGC
1 AAACAGAGAGC
22308293 GCGCTAGTGT
Statistics
Matches: 153, Mismatches: 23, Indels: 31
0.74 0.11 0.15
Matches are distributed among these distances:
16 9 0.06
18 3 0.02
19 1 0.01
20 1 0.01
21 2 0.01
22 17 0.11
23 78 0.51
24 4 0.03
25 31 0.20
26 7 0.05
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:22308158 original size:48 final size:44
Alignment explanation
Indices: 22308079--22308292 Score: 165
Period size: 48 Copynumber: 4.8 Consensus size: 44
22308069 TAAACGGAAC
* * * *
22308079 AAACAGAGAGTAC-CGAAGTACTGAACAGAGAGCACATAAGTGCT
1 AAACAGAGAGCACACAAAGTGCTAAACAGAGAGCACA-AAGTGCT
22308123 GAGCAACAGAGAGCACACAAAGTGCTAAACAGAGAGTACACAAA--G-T
1 -A--AACAGAGAGCACACAAAGTGCTAAACAGAGAG--CACAAAGTGCT
* * *
22308169 --AC--TGAGCACATAAAGTGCTAATCAGAGAGCACACGAAGTGCT
1 AAACAGAGAGCACACAAAGTGCTAAACAGAGAGCACA--AAGTGCT
* *
22308211 AATCAGAGAGCACACACAGTGCTAATAACAGAGAGCACAAGACGTGCT
1 AAACAGAGAGCACACAAAGTGCT-A-AACAGAGAGCACAA-A-GTGCT
* *
22308259 AAATAGAGAGCACACACAGTGCTAAACAGAGAGC
1 AAACAGAGAGCACACAAAGTGCTAAACAGAGAGC
22308293 GCGCTAGTGT
Statistics
Matches: 137, Mismatches: 14, Indels: 35
0.74 0.08 0.19
Matches are distributed among these distances:
37 4 0.03
39 26 0.19
41 3 0.02
42 1 0.01
44 1 0.01
45 1 0.01
46 26 0.19
47 15 0.11
48 54 0.39
49 2 0.01
50 4 0.03
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (44 bp):
AAACAGAGAGCACACAAAGTGCTAAACAGAGAGCACAAAGTGCT
Found at i:22308187 original size:39 final size:39
Alignment explanation
Indices: 22308133--22308207 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
22308123 GAGCAACAGA
*
22308133 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* * *
22308172 GAGCACATAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
22308208 GCTAATCAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:22310915 original size:11 final size:11
Alignment explanation
Indices: 22310896--22310928 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
22310886 TTAGGATATT
22310896 ATTTATATTTA
1 ATTTATATTTA
*
22310907 ATTTTTATTTA
1 ATTTATATTTA
22310918 ATTTATATTTA
1 ATTTATATTTA
22310929 TCTTTCAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
ATTTATATTTA
Found at i:22316009 original size:11 final size:11
Alignment explanation
Indices: 22315990--22316022 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
22315980 TTAGGATATT
22315990 ATTTATATTTA
1 ATTTATATTTA
*
22316001 ATTTGTATTTA
1 ATTTATATTTA
22316012 ATTTATATTTA
1 ATTTATATTTA
22316023 TCTTTTTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (11 bp):
ATTTATATTTA
Found at i:22321162 original size:16 final size:15
Alignment explanation
Indices: 22321136--22321167 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
22321126 AATTAACATG
22321136 TATTTTTTTAATATT
1 TATTTTTTTAATATT
22321151 TATTTATTTTAATATT
1 TATTT-TTTTAATATT
22321167 T
1 T
22321168 TATTATACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TATTTTTTTAATATT
Found at i:22321984 original size:3 final size:3
Alignment explanation
Indices: 22321976--22322005 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
22321966 GATACCAAAA
22321976 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22322006 TTATTATCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22322656 original size:22 final size:21
Alignment explanation
Indices: 22322630--22322672 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
22322620 ATAAACTTAA
*
22322630 AAATTATATAAAATTTTTATTT
1 AAATTAT-CAAAATTTTTATTT
*
22322652 AAATTATCCAAATTTTTATTT
1 AAATTATCAAAATTTTTATTT
22322673 TTAACTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (21 bp):
AAATTATCAAAATTTTTATTT
Found at i:22323436 original size:22 final size:21
Alignment explanation
Indices: 22323408--22323451 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
22323398 TTTAGGAGAT
22323408 AAAAAAATTATATTCTATTCAA
1 AAAAAAATTATATTCTA-TCAA
*
22323430 AAAAAAATTCTATTCTATCAA
1 AAAAAAATTATATTCTATCAA
22323451 A
1 A
22323452 GGACTCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAAAAATTATATTCTATCAA
Found at i:22327149 original size:37 final size:37
Alignment explanation
Indices: 22327099--22327293 Score: 237
Period size: 37 Copynumber: 5.3 Consensus size: 37
22327089 AAATTTAGGT
* * *
22327099 TGTGTGCGTAGTAGGCTTCGTGTCGGTGTTTTCAGGC
1 TGTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAAGC
* *
22327136 TGTGTGCCTAGTAGACTTCGTGCCGGTGTTTTCAGGC
1 TGTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAAGC
* * **
22327173 TGTCTGCCTAGTAAGCTTCGTGCCAATGTTTTCAAGC
1 TGTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAAGC
* *
22327210 TGTGTGCCTAGTAGGCTTTGTGCCGGTGTTTGCAAGC
1 TGTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAAGC
* * * *
22327247 TATGTGCCAAATAGGCTTCGTGCCGGTGTATTCAAGC
1 TGTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAAGC
* *
22327284 TATATGCCTA
1 TGTGTGCCTA
22327294 ACAAGCTCTG
Statistics
Matches: 135, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 135 1.00
ACGTcount: A:0.15, C:0.21, G:0.30, T:0.35
Consensus pattern (37 bp):
TGTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAAGC
Found at i:22327307 original size:37 final size:36
Alignment explanation
Indices: 22327227--22327311 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 36
22327217 CTAGTAGGCT
* * *
22327227 TTGTGCCGGTGTTTGCAAGCTATGTGCCAAATAGGC
1 TTGTGCCGGTGTTTGCAAGCTATATGCCAAACAAGC
*
22327263 TTCGTGCCGGTGTATT-CAAGCTATATGCCTAACAAGC
1 TT-GTGCCGGTGT-TTGCAAGCTATATGCCAAACAAGC
22327300 TCTGTGCCGGTG
1 T-TGTGCCGGTG
22327312 ATCCAAGAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
36 2 0.05
37 37 0.88
38 3 0.07
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.31
Consensus pattern (36 bp):
TTGTGCCGGTGTTTGCAAGCTATATGCCAAACAAGC
Found at i:22327307 original size:111 final size:111
Alignment explanation
Indices: 22327099--22327300 Score: 269
Period size: 111 Copynumber: 1.8 Consensus size: 111
22327089 AAATTTAGGT
* * * * * * *
22327099 TGTGTGCGTAGTAGGCTTCGTGTCGGTGTTTTCAGGCTGTGTGCCTAGTAGACTTCGTGCCGGTG
1 TGTGTGCCTAGTAGGCTTCGTGCCGGTGTTTGCAAGCTATGTGCCAAATAGACTTCGTGCCGGTG
* * * * **
22327164 TTTTCAGGCTGTCTGCCTAGTAAGCTTCGTGCCAATGTTTTCAAGC
66 TATTCAAGCTATATGCCTAACAAGCTTCGTGCCAATGTTTTCAAGC
* *
22327210 TGTGTGCCTAGTAGGCTTTGTGCCGGTGTTTGCAAGCTATGTGCCAAATAGGCTTCGTGCCGGTG
1 TGTGTGCCTAGTAGGCTTCGTGCCGGTGTTTGCAAGCTATGTGCCAAATAGACTTCGTGCCGGTG
22327275 TATTCAAGCTATATGCCTAACAAGCT
66 TATTCAAGCTATATGCCTAACAAGCT
22327301 CTGTGCCGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
111 76 1.00
ACGTcount: A:0.16, C:0.21, G:0.29, T:0.34
Consensus pattern (111 bp):
TGTGTGCCTAGTAGGCTTCGTGCCGGTGTTTGCAAGCTATGTGCCAAATAGACTTCGTGCCGGTG
TATTCAAGCTATATGCCTAACAAGCTTCGTGCCAATGTTTTCAAGC
Found at i:22332006 original size:37 final size:37
Alignment explanation
Indices: 22331780--22331995 Score: 306
Period size: 37 Copynumber: 5.8 Consensus size: 37
22331770 ATAAATTTAG
*
22331780 GCTGTGTGCCTAATAGGCTTCGTGCCGGTGTTTTCAA
1 GCTGTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAA
* * *
22331817 GCAGTGTGCCTAATAGGCTTCGTGCCGGTATTTTCAA
1 GCTGTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAA
* * *
22331854 GCTGTATGCCTAGTAGACTTCGTGCCGATGTTTTCAA
1 GCTGTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAA
* *
22331891 GCTGTGTGCCTAGTAAGCTTCGTGTCGGTGTTTTCAA
1 GCTGTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAA
* * *
22331928 GCTGTGTGCCTAGCAGGCTTTGTGCCGGTGTTTGCAA
1 GCTGTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAA
* *
22331965 GCTATGTGCCTAGTAGGCTTCGTACCGGTGT
1 GCTGTGTGCCTAGTAGGCTTCGTGCCGGTGT
22331996 ATTCGGGCTA
Statistics
Matches: 157, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 157 1.00
ACGTcount: A:0.15, C:0.21, G:0.30, T:0.34
Consensus pattern (37 bp):
GCTGTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAA
Found at i:22358324 original size:16 final size:17
Alignment explanation
Indices: 22358290--22358338 Score: 66
Period size: 16 Copynumber: 2.9 Consensus size: 17
22358280 ATTATGATAA
22358290 AAATTTATATTATTTAT
1 AAATTTATATTATTTAT
22358307 AAATGTTATA-TA-TTAT
1 AAAT-TTATATTATTTAT
22358323 AAATTTCATATTATTT
1 AAATTT-ATATTATTT
22358339 TTTTACTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.07
16 11 0.39
17 8 0.29
18 7 0.25
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
AAATTTATATTATTTAT
Found at i:22365821 original size:65 final size:62
Alignment explanation
Indices: 22365735--22366133 Score: 250
Period size: 65 Copynumber: 6.2 Consensus size: 62
22365725 ATCAAAAGCA
* *
22365735 AGTG-AAAAACATAAAACTTTTCAGTTTCAGATAAAAGGTAAA-CTAAATAGCGTAAAAAATG
1 AGTGAAAAAACATAAGA-TTTTCAGTTTCAGCTAAAAGGTAAAGCTAAATAGCGTAAAAAATG
* *
22365796 AGTGAAAAAAAAACATAATGATTTTCAGTTTCAGCTAAAAGGTAAAGCTAAATAGCGTCAAAATT
1 AGTG---AAAAAACATAA-GATTTTCAGTTTCAGCTAAAAGGTAAAGCTAAATAGCGTAAAAAAT
22365861 G
62 G
* * * * * **
22365862 AGTGAAAAAACAAAACGATTTTCAGTTTCAGCTAAAAAGATGAAGCTAAATAGAGTCAAATTTG
1 AGTGAAAAAACATAA-GATTTTCAGTTTCAGCT-AAAAGGTAAAGCTAAATAGCGTAAAAAATG
* * * ** *
22365926 AGTTAAAAATAGATTAAGATTTACAGTTTCAGACTTTCAGCTCAAACATAAAGCTAAATAGCGTC
1 AGTGAAAAA-ACA-TAAGA--T----TTTCAG--TTTCAGCTAAAAGGTAAAGCTAAATAGCGTA
* * *
22365991 AACATTT
56 AAAAATG
* * * * * * * *
22365998 TGTGGAAAAA-ATAAAGATTTTCAG-TTCAGATACAAGATAAA-CTAAATAGCATCAAAATTG
1 AGTGAAAAAACAT-AAGATTTTCAGTTTCAGCTAAAAGGTAAAGCTAAATAGCGTAAAAAATG
* * * * * * *
22366058 AGTGAAAAAAGACGTAAAGATTTTCAGTTTCAGTTAAAAGATAAAGGTAAATAACGTCAAAATTG
1 AGTG-AAAAA-ACAT-AAGATTTTCAGTTTCAGCTAAAAGGTAAAGCTAAATAGCGTAAAAAATG
22366123 AGTGGAAAAAA
1 AGT-GAAAAAA
22366134 TAATAAAATA
Statistics
Matches: 276, Mismatches: 38, Indels: 45
0.77 0.11 0.13
Matches are distributed among these distances:
60 19 0.07
61 21 0.08
62 1 0.00
63 40 0.14
64 56 0.20
65 62 0.22
66 25 0.09
67 1 0.00
68 1 0.00
69 1 0.00
70 5 0.02
71 7 0.03
72 29 0.11
73 8 0.03
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (62 bp):
AGTGAAAAAACATAAGATTTTCAGTTTCAGCTAAAAGGTAAAGCTAAATAGCGTAAAAAATG
Found at i:22368023 original size:3 final size:3
Alignment explanation
Indices: 22368015--22368051 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
22368005 CATCTCCATT
*
22368015 TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TT- TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
22368052 ATTTTTTTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (3 bp):
TTC
Found at i:22370056 original size:16 final size:16
Alignment explanation
Indices: 22370018--22370056 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
22370008 ACAGACACGT
22370018 AATACGAGTACGACAC
1 AATACGAGTACGACAC
* *
22370034 AACACGAGTACGATAC
1 AATACGAGTACGACAC
*
22370050 GATACGA
1 AATACGA
22370057 ACATGGTGAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.44, C:0.23, G:0.21, T:0.13
Consensus pattern (16 bp):
AATACGAGTACGACAC
Found at i:22371826 original size:60 final size:60
Alignment explanation
Indices: 22371733--22371909 Score: 284
Period size: 60 Copynumber: 3.0 Consensus size: 60
22371723 CTCAAGAGGT
* *
22371733 CCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAACCTTTCCAAAATTACATTTTAAC
1 CCCTAAACTTTTCCAAAATTACATTTTGACCCTTAAACTTTTCCAAAATTACATTTTAAC
* * *
22371793 CCCTAAACTTTTCTAAAATTACATTCTGACCCTTAAACTTTTCCAAAGTTACATTTTAAC
1 CCCTAAACTTTTCCAAAATTACATTTTGACCCTTAAACTTTTCCAAAATTACATTTTAAC
*
22371853 CTCTAAACTTTTCCAAAATTACATTTTGACCGC-TAAACTTTTCCAAAATTACATTTT
1 CCCTAAACTTTTCCAAAATTACATTTTGACC-CTTAAACTTTTCCAAAATTACATTTT
22371910 GTAACACCCC
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
60 106 0.99
61 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.38
Consensus pattern (60 bp):
CCCTAAACTTTTCCAAAATTACATTTTGACCCTTAAACTTTTCCAAAATTACATTTTAAC
Found at i:22371889 original size:90 final size:90
Alignment explanation
Indices: 22371736--22371907 Score: 283
Period size: 90 Copynumber: 1.9 Consensus size: 90
22371726 AAGAGGTCCC
22371736 TAAACTTTTCCAAAATTACATTTTAACCCTTAAACCTTTCCAAAATTACATTTTAACCCCTAAAC
1 TAAACTTTTCCAAAATTACATTTTAACCCTTAAACCTTTCCAAAATTACATTTTAACCCCTAAAC
*
22371801 TTTTCTAAAATTACATTCTGACCCT
66 TTTTCCAAAATTACATTCTGACCCT
* * * *
22371826 TAAACTTTTCCAAAGTTACATTTTAA-CCTCTAAACTTTTCCAAAATTACATTTTGACCGCTAAA
1 TAAACTTTTCCAAAATTACATTTTAACCCT-TAAACCTTTCCAAAATTACATTTTAACCCCTAAA
22371890 CTTTTCCAAAATTACATT
65 CTTTTCCAAAATTACATT
22371908 TTGTAACACC
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
89 3 0.04
90 73 0.96
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.38
Consensus pattern (90 bp):
TAAACTTTTCCAAAATTACATTTTAACCCTTAAACCTTTCCAAAATTACATTTTAACCCCTAAAC
TTTTCCAAAATTACATTCTGACCCT
Found at i:22371910 original size:30 final size:29
Alignment explanation
Indices: 22371733--22371909 Score: 255
Period size: 30 Copynumber: 5.9 Consensus size: 29
22371723 CTCAAGAGGT
22371733 CCCTAAACTTTTCCAAAATTACATTTTAA
1 CCCTAAACTTTTCCAAAATTACATTTTAA
*
22371762 CCCTTAAACCTTTCCAAAATTACATTTTAA
1 CCC-TAAACTTTTCCAAAATTACATTTTAA
* * *
22371792 CCCCTAAACTTTTCTAAAATTACATTCTGA
1 -CCCTAAACTTTTCCAAAATTACATTTTAA
*
22371822 CCCTTAAACTTTTCCAAAGTTACATTTTAA
1 CCC-TAAACTTTTCCAAAATTACATTTTAA
*
22371852 CCTCTAAACTTTTCCAAAATTACATTTTGA
1 CC-CTAAACTTTTCCAAAATTACATTTTAA
22371882 CCGCTAAACTTTTCCAAAATTACATTTT
1 CC-CTAAACTTTTCCAAAATTACATTTT
22371910 GTAACACCCC
Statistics
Matches: 132, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
29 6 0.05
30 122 0.92
31 4 0.03
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.38
Consensus pattern (29 bp):
CCCTAAACTTTTCCAAAATTACATTTTAA
Found at i:22372686 original size:6 final size:6
Alignment explanation
Indices: 22372661--22372699 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
22372651 ACAATTCATA
* * *
22372661 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
22372700 ATTTTGATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (6 bp):
TCACTT
Found at i:22374477 original size:30 final size:30
Alignment explanation
Indices: 22374440--22374588 Score: 183
Period size: 30 Copynumber: 5.0 Consensus size: 30
22374430 GCGGATGTTA
22374440 CACATTTTGACCCCCAAACTTTTCCAAAAT
1 CACATTTTGACCCCCAAACTTTTCCAAAAT
* *
22374470 TAAATTTTGA-CCCCAAACTTTTCCAAAAT
1 CACATTTTGACCCCCAAACTTTTCCAAAAT
* * *
22374499 CACATTTTAACCCCTAAACTTTTTCAAAAT
1 CACATTTTGACCCCCAAACTTTTCCAAAAT
* * *
22374529 CATATTTCGATCCCCAAACTTTTCCAAAAT
1 CACATTTTGACCCCCAAACTTTTCCAAAAT
* * * *
22374559 CACATTTTAACCCTCAAACTTCTCTAAAAT
1 CACATTTTGACCCCCAAACTTTTCCAAAAT
22374589 TTCATTTTCA
Statistics
Matches: 98, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
29 26 0.27
30 72 0.73
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.34
Consensus pattern (30 bp):
CACATTTTGACCCCCAAACTTTTCCAAAAT
Found at i:22377860 original size:23 final size:22
Alignment explanation
Indices: 22377824--22377870 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
22377814 CAATGCTTTG
*
22377824 TTGCATGCATTTCAT-TATTCAT
1 TTGCATGCACTTCATGTATT-AT
22377846 TTGCATTGCACTTCATGTATTAT
1 TTGCA-TGCACTTCATGTATTAT
22377869 TT
1 TT
22377871 TTTAATAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.51
Consensus pattern (22 bp):
TTGCATGCACTTCATGTATTAT
Found at i:22378785 original size:13 final size:12
Alignment explanation
Indices: 22378757--22378790 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
22378747 CTCAAAAAAT
*
22378757 AAATTAAAATAA
1 AAATGAAAATAA
22378769 AAATGAAAATGAA
1 AAATGAAAAT-AA
22378782 AAATGAAAA
1 AAATGAAAA
22378791 AAATCAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.18
Consensus pattern (12 bp):
AAATGAAAATAA
Found at i:22379629 original size:7 final size:7
Alignment explanation
Indices: 22379619--22379675 Score: 73
Period size: 7 Copynumber: 8.4 Consensus size: 7
22379609 ATCTTACCCA
22379619 AAAAAAG
1 AAAAAAG
22379626 AAAAAA-
1 AAAAAAG
*
22379632 AAGAAA-
1 AAAAAAG
22379638 AAAAAAG
1 AAAAAAG
22379645 AAAAAAG
1 AAAAAAG
*
22379652 AACAAAG
1 AAAAAAG
22379659 AAAAAAG
1 AAAAAAG
*
22379666 AGAAAAG
1 AAAAAAG
22379673 AAA
1 AAA
22379676 GGTCAAGGTG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
6 10 0.23
7 33 0.77
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:22379632 original size:9 final size:9
Alignment explanation
Indices: 22379618--22379676 Score: 61
Period size: 9 Copynumber: 6.9 Consensus size: 9
22379608 GATCTTACCC
22379618 AAAAAAAGA
1 AAAAAAAGA
22379627 AAAAAAAGA
1 AAAAAAAGA
22379636 AAAAAAA-A
1 AAAAAAAGA
*
22379644 GAAAAAAG-
1 AAAAAAAGA
*
22379652 -AACAAAGA
1 AAAAAAAGA
*
22379660 AAAAAGAGA
1 AAAAAAAGA
*
22379669 AAAGAAAG
1 AAAAAAAG
22379677 GTCAAGGTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
7 6 0.15
8 7 0.17
9 28 0.68
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:22380768 original size:47 final size:47
Alignment explanation
Indices: 22380691--22380783 Score: 132
Period size: 47 Copynumber: 2.0 Consensus size: 47
22380681 TGGAGATGAA
* *
22380691 ATGGGAAAGATTTAAGCTGCAACGGCGAATCCAGTACCACAAAGATG
1 ATGGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACAAAGATG
* * * *
22380738 ATGGGAAAGATTTAAGCCGTAACGATGAATCTAGTACCACGAAGAT
1 ATGGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACAAAGAT
22380784 TGTACCTCAG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (47 bp):
ATGGGAAAGATTTAAGCCGCAACGACGAATCCAGTACCACAAAGATG
Found at i:22380901 original size:49 final size:50
Alignment explanation
Indices: 22380783--22380909 Score: 120
Period size: 49 Copynumber: 2.6 Consensus size: 50
22380773 ACCACGAAGA
* * * * *
22380783 TTGTACCTCAGAAGCATGAAGGGAAAGATTTGAGCCGCAACGACGAATCC
1 TTGTACCTCAGAAACATAAAGGGAAAGGTTTAAGCCACAACGACGAATCC
* ** *
22380833 -AGTA-C-CATGAAGATTTAAAGGGAAAGGTTTAAGTCACAACGACGAA-CC
1 TTGTACCTCA-GAA-ACATAAAGGGAAAGGTTTAAGCCACAACGACGAATCC
22380881 TTGTACCTCAGAAACATAAAGGG-AAGGTT
1 TTGTACCTCAGAAACATAAAGGGAAAGGTT
22380910 GAGGCGGCCA
Statistics
Matches: 60, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
47 2 0.03
48 12 0.20
49 40 0.67
50 4 0.07
51 2 0.03
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (50 bp):
TTGTACCTCAGAAACATAAAGGGAAAGGTTTAAGCCACAACGACGAATCC
Found at i:22383271 original size:30 final size:29
Alignment explanation
Indices: 22383234--22383463 Score: 219
Period size: 30 Copynumber: 7.7 Consensus size: 29
22383224 ACTCAAGGGT
*
22383234 CCCCAAACTTTTCTAAAATTACATTTTGA
1 CCCCAAACTTTTCTAAAATCACATTTTGA
* *
22383263 CCTTCAAACCTTTCTAAAATCACATTTTGA
1 CC-CCAAACTTTTCTAAAATCACATTTTGA
* * * *
22383293 CCCCTAAATTTTTCCAAAATTACATTTTAA
1 CCCC-AAACTTTTCTAAAATCACATTTTGA
* * *
22383323 CCCCTAAACTTTTTTCAAAATTACCTTTTGA
1 CCCC-AAACTTTTCT-AAAATCACATTTTGA
* * *
22383354 CCCTTAAACTTTTCCAAAATCACATTTTAA
1 CCC-CAAACTTTTCTAAAATCACATTTTGA
*
22383384 CTCCCAAACTTTT-TCAAAATCATATTTTGA
1 C-CCCAAACTTTTCT-AAAATCACATTTTGA
*
22383414 TCCCCAAACTTTTCCAAAATCACATTTTGA
1 -CCCCAAACTTTTCTAAAATCACATTTTGA
* *
22383444 CCCTCGAACTTCTCTAAAAT
1 CCC-CAAACTTTTCTAAAAT
22383464 TTCATTTTCA
Statistics
Matches: 163, Mismatches: 29, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
29 6 0.04
30 130 0.80
31 27 0.17
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (29 bp):
CCCCAAACTTTTCTAAAATCACATTTTGA
Found at i:22383373 original size:91 final size:92
Alignment explanation
Indices: 22383234--22383447 Score: 262
Period size: 91 Copynumber: 2.4 Consensus size: 92
22383224 ACTCAAGGGT
* * *
22383234 CCCCAAACTTTTCT-AAAATTACATTTTGA-CCTTCAAACCTTTCTAAAATCACATTTTGAC-CC
1 CCCCAAACTTTTTTCAAAATTACATTTTGACCCTTCAAACCTTTCCAAAATCACATTTTAACTCC
*
22383296 CTAAA-TTTTTCCAAAATTACATTTT-AA
66 C-AAACTTTTT-CAAAATCACATTTTGAA
* *
22383323 CCCCTAAACTTTTTTCAAAATTACCTTTTGACCCTT-AAACTTTTCCAAAATCACATTTTAACTC
1 CCCC-AAACTTTTTTCAAAATTACATTTTGACCCTTCAAACCTTTCCAAAATCACATTTTAACTC
* *
22383387 CCAAACTTTTTCAAAATCATATTTTGAT
65 CCAAACTTTTTCAAAATCACATTTTGAA
* *
22383415 CCCCAAAC-TTTTCCAAAATCACATTTTGACCCT
1 CCCCAAACTTTTTTCAAAATTACATTTTGACCCT
22383448 CGAACTTCTC
Statistics
Matches: 108, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
89 4 0.04
90 31 0.29
91 56 0.52
92 17 0.16
ACGTcount: A:0.33, C:0.27, G:0.02, T:0.38
Consensus pattern (92 bp):
CCCCAAACTTTTTTCAAAATTACATTTTGACCCTTCAAACCTTTCCAAAATCACATTTTAACTCC
CAAACTTTTTCAAAATCACATTTTGAA
Found at i:22386691 original size:13 final size:13
Alignment explanation
Indices: 22386675--22386699 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22386665 TCATAAATTT
22386675 TAAAATTAAAATA
1 TAAAATTAAAATA
22386688 TAAAATTAAAAT
1 TAAAATTAAAAT
22386700 TGAAATCCAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAATTAAAATA
Found at i:22391939 original size:14 final size:14
Alignment explanation
Indices: 22391920--22391948 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
22391910 TTTTTTTGAG
22391920 CTCACTTTCATACA
1 CTCACTTTCATACA
22391934 CTCACTTTCATACA
1 CTCACTTTCATACA
22391948 C
1 C
22391949 AATCTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.38, G:0.00, T:0.34
Consensus pattern (14 bp):
CTCACTTTCATACA
Found at i:22411121 original size:17 final size:17
Alignment explanation
Indices: 22411098--22411142 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
22411088 ATATTTATAT
22411098 TATATTTTTTAATATTTA
1 TATATTTTTTAAT-TTTA
**
22411116 -ATATTTAATAATTTTA
1 TATATTTTTTAATTTTA
22411132 TATATTTTTTA
1 TATATTTTTTA
22411143 TTTATTGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TATATTTTTTAATTTTA
Found at i:22411130 original size:24 final size:20
Alignment explanation
Indices: 22411087--22411138 Score: 50
Period size: 24 Copynumber: 2.4 Consensus size: 20
22411077 ATTTTTTAAA
*
22411087 AATATTTATATTATATTTTTT
1 AATATTTATATTATA-ATTTT
22411108 AATATTTAATATTTAATAATTTT
1 AATATTT-ATA-TT-ATAATTTT
22411131 ATATATTT
1 A-ATATTT
22411139 TTTATTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 7 0.27
22 3 0.12
23 7 0.27
24 9 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
AATATTTATATTATAATTTT
Found at i:22415377 original size:25 final size:24
Alignment explanation
Indices: 22415349--22415430 Score: 105
Period size: 23 Copynumber: 3.5 Consensus size: 24
22415339 ATGCTGTCTC
22415349 GTGCTCTCTGTTATTAGCACTGTGT
1 GTGCTCTCTG-TATTAGCACTGTGT
* *
22415374 GTGCTCTCTG-ATTAGTACTTTGT
1 GTGCTCTCTGTATTAGCACTGTGT
*
22415397 GTACTCTCTGT-TTAGCACTGTGT
1 GTGCTCTCTGTATTAGCACTGTGT
*
22415420 GAGCTCTCTGT
1 GTGCTCTCTGT
22415431 TGCCCGGCAC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
23 39 0.80
25 10 0.20
ACGTcount: A:0.12, C:0.21, G:0.23, T:0.44
Consensus pattern (24 bp):
GTGCTCTCTGTATTAGCACTGTGT
Found at i:22420907 original size:16 final size:16
Alignment explanation
Indices: 22420886--22420919 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
22420876 AGATTTTAGC
*
22420886 TTGAGAAGTAAAAGAG
1 TTGAGAAATAAAAGAG
22420902 TTGAGAAATAAAAGAG
1 TTGAGAAATAAAAGAG
22420918 TT
1 TT
22420920 CCTTTGGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.26, T:0.24
Consensus pattern (16 bp):
TTGAGAAATAAAAGAG
Found at i:22422697 original size:23 final size:23
Alignment explanation
Indices: 22422667--22422768 Score: 116
Period size: 23 Copynumber: 4.3 Consensus size: 23
22422657 ACACTAGCAC
* *
22422667 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
22422690 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
*
22422715 TCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
22422738 GCTCTCTGATTAGTACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
*
22422761 ACTCTCTG
1 GCTCTCTG
22422769 TTGCCTGGCA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
23 50 0.72
25 16 0.23
26 3 0.04
ACGTcount: A:0.12, C:0.24, G:0.22, T:0.43
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:22422740 original size:48 final size:46
Alignment explanation
Indices: 22422668--22422768 Score: 123
Period size: 48 Copynumber: 2.2 Consensus size: 46
22422658 CACTAGCACG
* *
22422668 CTCTCTGTTTAGCACGTCTCGTGCTCTCTGTTATTAGCACTGTGTGTT
1 CTCTCTGATTAGCACGTCTCGTGCTCTCTG--ATTAGCACTGTGTGTA
* * *
22422716 CTCTCTGATTAGCACTGTGT-GTGCTCTCTGATTAGTACTTTGTGTA
1 CTCTCTGATTAGCAC-GTCTCGTGCTCTCTGATTAGCACTGTGTGTA
22422762 CTCTCTG
1 CTCTCTG
22422769 TTGCCTGGCA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
46 20 0.43
48 24 0.51
49 3 0.06
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.44
Consensus pattern (46 bp):
CTCTCTGATTAGCACGTCTCGTGCTCTCTGATTAGCACTGTGTGTA
Found at i:22426466 original size:60 final size:61
Alignment explanation
Indices: 22426369--22426489 Score: 199
Period size: 60 Copynumber: 2.0 Consensus size: 61
22426359 GAAGATGGGG
* *
22426369 GGCTTGAGAGAAATGAAAAGAGAGGGGATAGGGTTTTT-TTTAATTGAAAGAAGGAAATGA
1 GGCTTGACAGAAATGAAAAGAGAGGGGATAGGGTTTTTCTTTAAATGAAAGAAGGAAATGA
* *
22426429 GGCTTGACAGAAATGAAAAGAGAGGGGATATGTTTTTTCTTTAAATGAAAGAAGGAAATGA
1 GGCTTGACAGAAATGAAAAGAGAGGGGATAGGGTTTTTCTTTAAATGAAAGAAGGAAATGA
22426490 AATTTTTTAA
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
60 35 0.62
61 21 0.38
ACGTcount: A:0.40, C:0.03, G:0.31, T:0.26
Consensus pattern (61 bp):
GGCTTGACAGAAATGAAAAGAGAGGGGATAGGGTTTTTCTTTAAATGAAAGAAGGAAATGA
Found at i:22430864 original size:23 final size:23
Alignment explanation
Indices: 22430812--22430914 Score: 134
Period size: 23 Copynumber: 4.5 Consensus size: 23
22430802 AGTACTGGGG
*
22430812 AAACAGTAAGCACACACAGTACA
1 AAACAGTAAGCACACACAGTGCA
* * *
22430835 AATCAGTAGGCACACACAGTGTA
1 AAACAGTAAGCACACACAGTGCA
* * * *
22430858 AAACAGTAATCGCGCACAGTGTA
1 AAACAGTAAGCACACACAGTGCA
22430881 AAACAGTAAGCACACACAGTGCA
1 AAACAGTAAGCACACACAGTGCA
22430904 AAACAGTAAGC
1 AAACAGTAAGC
22430915 GCGCTAATGT
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.46, C:0.23, G:0.18, T:0.13
Consensus pattern (23 bp):
AAACAGTAAGCACACACAGTGCA
Found at i:22433841 original size:22 final size:21
Alignment explanation
Indices: 22433812--22433855 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
22433802 AAAAGGAGAT
22433812 AAAAAAAGAGAAA-AAGAAAAA
1 AAAAAAAGA-AAAGAAGAAAAA
*
22433833 AAAACAAAGAAAAGAAGGAAAA
1 AAAA-AAAGAAAAGAAGAAAAA
22433855 A
1 A
22433856 GTCAAGATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (21 bp):
AAAAAAAGAAAAGAAGAAAAA
Found at i:22434679 original size:14 final size:14
Alignment explanation
Indices: 22434660--22434689 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22434650 TAGATTTTGG
*
22434660 TTAAATAATTGATA
1 TTAAATAATTAATA
22434674 TTAAATAATTAATA
1 TTAAATAATTAATA
22434688 TT
1 TT
22434690 GGTTAAGAAA
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:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
TTAAATAATTAATA
Found at i:22434705 original size:14 final size:14
Alignment explanation
Indices: 22434688--22434715 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
22434678 ATAATTAATA
22434688 TTGGTTAAGAAATT
1 TTGGTTAAGAAATT
22434702 TTGGTTAAGAAATT
1 TTGGTTAAGAAATT
22434716 CTATCGTTTA
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:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (14 bp):
TTGGTTAAGAAATT
Found at i:22436730 original size:149 final size:149
Alignment explanation
Indices: 22436460--22436758 Score: 580
Period size: 149 Copynumber: 2.0 Consensus size: 149
22436450 AAATACTGTA
22436460 GACTATTGTGCAAACATAGAAATTTATGTGTATATTTGACATTTGCATACTTGTTTCAGTAGTAT
1 GACTATTGTGCAAACATAGAAATTTATGTGTATATTTGACATTTGCATACTTGTTTCAGTAGTAT
*
22436525 TCTTGCTTGTATCGATAGAAGTACAGAGGAAGTGAGATGTAGGTTATTGACTTGTGTTGTTTCGG
66 TCTTGCTTGTACCGATAGAAGTACAGAGGAAGTGAGATGTAGGTTATTGACTTGTGTTGTTTCGG
22436590 AAGATGCAATATAAGTATT
131 AAGATGCAATATAAGTATT
*
22436609 GACTATTGTGCAAACTTAGAAATTTATGTGTATATTTGACATTTGCATACTTGTTTCAGTAGTAT
1 GACTATTGTGCAAACATAGAAATTTATGTGTATATTTGACATTTGCATACTTGTTTCAGTAGTAT
22436674 TCTTGCTTGTACCGATAGAAGTACAGAGGAAGTGAGATGTAGGTTATTGACTTGTGTTGTTTCGG
66 TCTTGCTTGTACCGATAGAAGTACAGAGGAAGTGAGATGTAGGTTATTGACTTGTGTTGTTTCGG
22436739 AAGATGCAATATAAGTATT
131 AAGATGCAATATAAGTATT
22436758 G
1 G
22436759 GTAGTTCTAC
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 148 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (149 bp):
GACTATTGTGCAAACATAGAAATTTATGTGTATATTTGACATTTGCATACTTGTTTCAGTAGTAT
TCTTGCTTGTACCGATAGAAGTACAGAGGAAGTGAGATGTAGGTTATTGACTTGTGTTGTTTCGG
AAGATGCAATATAAGTATT
Found at i:22441523 original size:45 final size:45
Alignment explanation
Indices: 22441454--22441664 Score: 307
Period size: 45 Copynumber: 4.7 Consensus size: 45
22441444 TGGAGTGAAA
*
22441454 TTACCCCTAATCAAGAGGGGCAGATTGAAGCCA-TCGTCCAATCTT
1 TTACCCCTAATCAAGAGGGGTAGATTGAAGCCACT-GTCCAATCTT
* * ** *
22441499 TTACCCCTAGTCAAGAGAGACAGATTGAAGCCACCGTCCAATCTT
1 TTACCCCTAATCAAGAGGGGTAGATTGAAGCCACTGTCCAATCTT
*
22441544 TTACCCCTAGTCAAGAGGGGTAGATTGAAGCCACTGTCCAATCTT
1 TTACCCCTAATCAAGAGGGGTAGATTGAAGCCACTGTCCAATCTT
* * * *
22441589 TTATCCTTAATCAAGAGGGGTAGATTGAACCCACTATCCAATCTT
1 TTACCCCTAATCAAGAGGGGTAGATTGAAGCCACTGTCCAATCTT
22441634 TTACCCCTAATCAAGAGGGGTAGATTGAAGC
1 TTACCCCTAATCAAGAGGGGTAGATTGAAGC
22441665 TACCATCTCA
Statistics
Matches: 149, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 149 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (45 bp):
TTACCCCTAATCAAGAGGGGTAGATTGAAGCCACTGTCCAATCTT
Found at i:22444537 original size:15 final size:15
Alignment explanation
Indices: 22444509--22444542 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
22444499 TTGAGACTTA
22444509 TTTTAAAAAAATAAT
1 TTTTAAAAAAATAAT
* *
22444524 TTTTACAAATATAAT
1 TTTTAAAAAAATAAT
22444539 TTTT
1 TTTT
22444543 TTAAAATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTTAAAAAAATAAT
Found at i:22447136 original size:18 final size:18
Alignment explanation
Indices: 22447113--22447150 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
22447103 TGTAGATGAT
22447113 ATCTTTCAAGAGACAATG
1 ATCTTTCAAGAGACAATG
22447131 ATCTTTCAAGAGACAATG
1 ATCTTTCAAGAGACAATG
22447149 AT
1 AT
22447151 TAATGTTCAA
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:0.16, G:0.16, T:0.29
Consensus pattern (18 bp):
ATCTTTCAAGAGACAATG
Found at i:22447242 original size:20 final size:20
Alignment explanation
Indices: 22447219--22447268 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
22447209 ATATTTGTAA
* *
22447219 TTTTATAATTTTTTTCTATT
1 TTTTATAATTATTTTCTAAT
* *
22447239 TTTTA-AATAATTTTGTAAT
1 TTTTATAATTATTTTCTAAT
22447258 TTTTATAATTA
1 TTTTATAATTA
22447269 AGGTTTTTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTATAATTATTTTCTAAT
Found at i:22454641 original size:11 final size:11
Alignment explanation
Indices: 22454627--22454680 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
22454617 TTTTTCACTC
22454627 ATTTTCTCTTA
1 ATTTTCTCTTA
*
22454638 ATTTTCTCTCA
1 ATTTTCTCTTA
22454649 ATTTTCTCTCTA
1 ATTTTCTCT-TA
* * *
22454661 AATTTCACATA
1 ATTTTCTCTTA
*
22454672 AATTTCTCT
1 ATTTTCTCT
22454681 ATAAAGCTCT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
11 28 0.80
12 7 0.20
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.54
Consensus pattern (11 bp):
ATTTTCTCTTA
Found at i:22454652 original size:22 final size:22
Alignment explanation
Indices: 22454618--22454668 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
22454608 CCCTTTTATT
22454618 TTTTCACTCATTTTCTCT-TAA
1 TTTTCACTCATTTTCTCTCTAA
*
22454639 TTTTCTCTCAATTTTCTCTCTAA
1 TTTTCACTC-ATTTTCTCTCTAA
*
22454662 ATTTCAC
1 TTTTCAC
22454669 ATAAATTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 8 0.32
22 9 0.36
23 8 0.32
ACGTcount: A:0.20, C:0.25, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTCACTCATTTTCTCTCTAA
Found at i:22454658 original size:13 final size:12
Alignment explanation
Indices: 22454627--22454666 Score: 57
Period size: 11 Copynumber: 3.5 Consensus size: 12
22454617 TTTTTCACTC
22454627 ATTTTCTCT-TA
1 ATTTTCTCTCTA
22454638 ATTTTCTCTC-A
1 ATTTTCTCTCTA
22454649 ATTTTCTCTCTA
1 ATTTTCTCTCTA
*
22454661 AATTTC
1 ATTTTC
22454667 ACATAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 20 0.77
12 6 0.23
ACGTcount: A:0.20, C:0.23, G:0.00, T:0.57
Consensus pattern (12 bp):
ATTTTCTCTCTA
Found at i:22454675 original size:24 final size:22
Alignment explanation
Indices: 22454619--22454759 Score: 59
Period size: 23 Copynumber: 6.6 Consensus size: 22
22454609 CCTTTTATTT
* *
22454619 TTTCACT-CATTTTCTCTTAAT
1 TTTCACTAAATTTTCTCTTAAA
* *
22454640 TTTCTCTCAATTTTCTCTCTAAA
1 TTTCACTAAATTTTCTCT-TAAA
22454663 TTTCACATAAA-TTTCTCTATAAA
1 TTTCAC-TAAATTTTCTCT-TAAA
** * *
22454686 GCTCTC-AAA-ATTCTC-TAAA
1 TTTCACTAAATTTTCTCTTAAA
*
22454705 -TTCTCTAAA--TTCTC-TAAA
1 TTTCACTAAATTTTCTCTTAAA
*
22454723 TTTCAC-ACAAATTTCTCTCTAAA
1 TTTCACTA-AATTTTCTCT-TAAA
* *
22454746 ATTCTCTAAATTTT
1 TTTCACTAAATTTT
22454760 GATCGTGTCA
Statistics
Matches: 94, Mismatches: 15, Indels: 20
0.73 0.12 0.16
Matches are distributed among these distances:
18 14 0.15
19 13 0.14
21 19 0.20
22 9 0.10
23 35 0.37
24 4 0.04
ACGTcount: A:0.30, C:0.23, G:0.01, T:0.46
Consensus pattern (22 bp):
TTTCACTAAATTTTCTCTTAAA
Found at i:22454705 original size:9 final size:9
Alignment explanation
Indices: 22454688--22454724 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
22454678 TCTATAAAGC
*
22454688 TCTCAAAAT
1 TCTCTAAAT
22454697 TCTCTAAAT
1 TCTCTAAAT
22454706 TCTCTAAAT
1 TCTCTAAAT
22454715 TCTCTAAAT
1 TCTCTAAAT
22454724 T
1 T
22454725 TCACACAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (9 bp):
TCTCTAAAT
Found at i:22454879 original size:11 final size:11
Alignment explanation
Indices: 22454857--22454932 Score: 53
Period size: 9 Copynumber: 7.7 Consensus size: 11
22454847 TAATTTCTTA
22454857 TATTATTT--T
1 TATTATTTAAT
*
22454866 TATAATTTAAT
1 TATTATTTAAT
*
22454877 TATTTTTTAA-
1 TATTATTTAAT
22454887 TATTATTTAAT
1 TATTATTTAAT
22454898 TA-T-TTT-A-
1 TATTATTTAAT
22454905 TATTATTT--T
1 TATTATTTAAT
*
22454914 TATAATTTAAT
1 TATTATTTAAT
*
22454925 TAATATTT
1 TATTATTT
22454933 TTATAATTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
7 2 0.04
8 2 0.04
9 20 0.38
10 10 0.19
11 18 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TATTATTTAAT
Found at i:22454883 original size:18 final size:17
Alignment explanation
Indices: 22454858--22454941 Score: 72
Period size: 20 Copynumber: 4.9 Consensus size: 17
22454848 AATTTCTTAT
22454858 ATTATTTTTATAATTTA
1 ATTATTTTTATAATTTA
22454875 ATTATTTTT-TAA--T-
1 ATTATTTTTATAATTTA
22454888 ATTATTTAATTAT--TTTA
1 ATTATTT--TTATAATTTA
22454905 TATTATTTTTATAATTTA
1 -ATTATTTTTATAATTTA
22454923 ATTAATATTTTTATAATTT
1 A-T--TATTTTTATAATTT
22454942 TTATGTGAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 21
0.72 0.00 0.28
Matches are distributed among these distances:
13 7 0.13
14 1 0.02
15 2 0.04
16 9 0.16
17 10 0.18
18 12 0.22
20 14 0.25
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTATTTTTATAATTTA
Found at i:22454892 original size:30 final size:31
Alignment explanation
Indices: 22454856--22454945 Score: 91
Period size: 30 Copynumber: 3.0 Consensus size: 31
22454846 TTAATTTCTT
22454856 ATATTATTT-TTATAATTTA-ATTATTTTT-TA
1 ATATTATTTATTAT--TTTATATTATTTTTATA
22454886 ATATTATTTAATTATTTTATATTATTTTTATA
1 ATATTATTT-ATTATTTTATATTATTTTTATA
* * *
22454918 AT-TTAATTAATATTTT-TATAATTTTTAT
1 ATATTATTTATTATTTTATATTATTTTTAT
22454946 GTGAATAATC
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
29 11 0.21
30 20 0.38
31 14 0.26
32 8 0.15
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (31 bp):
ATATTATTTATTATTTTATATTATTTTTATA
Found at i:22454911 original size:21 final size:21
Alignment explanation
Indices: 22454865--22454915 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
22454855 TATATTATTT
* *
22454865 TTATAATTTAATTATTTTTTA
1 TTATTATTTAATTATTTTATA
*
22454886 ATATTATTTAATTATTTTATA
1 TTATTATTTAATTATTTTATA
22454907 TTATT-TTTA
1 TTATTATTTA
22454916 TAATTTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTATTATTTAATTATTTTATA
Found at i:22454913 original size:31 final size:30
Alignment explanation
Indices: 22454871--22454945 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 30
22454861 ATTTTTATAA
*
22454871 TTTA-ATTATTTTT-TAATATTATTTAATTAT
1 TTTATATTATTTTTATAAT-TTAATTAA-TAT
22454901 TTTATATTATTTTTATAATTTAATTAATAT
1 TTTATATTATTTTTATAATTTAATTAATAT
*
22454931 TTT-TATAATTTTTAT
1 TTTATATTATTTTTAT
22454946 GTGAATAATC
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
29 11 0.27
30 10 0.24
31 16 0.39
32 4 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (30 bp):
TTTATATTATTTTTATAATTTAATTAATAT
Found at i:22457023 original size:62 final size:60
Alignment explanation
Indices: 22456915--22457031 Score: 164
Period size: 62 Copynumber: 1.9 Consensus size: 60
22456905 TGCATTGATT
* *
22456915 ATTTCGAATATTTTTGTAAAAATTATTTTTATATTGTTTCATTTAATAAAATCGAAGTTC
1 ATTTCGAATATTTTTGTAAAAATTATTTTCATATTATTTCATTTAATAAAATCGAAGTTC
* *
22456975 ATTT-GAATATTTTTTTACAAATTACTTTTGGCATATTATTTCATTTAATAAAATCGA
1 ATTTCGAATATTTTTGTAAAAATTA-TTTT--CATATTATTTCATTTAATAAAATCGA
22457032 TTTGAGATAG
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
59 18 0.36
60 8 0.16
62 24 0.48
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (60 bp):
ATTTCGAATATTTTTGTAAAAATTATTTTCATATTATTTCATTTAATAAAATCGAAGTTC
Found at i:22457240 original size:112 final size:112
Alignment explanation
Indices: 22457050--22457262 Score: 401
Period size: 112 Copynumber: 1.9 Consensus size: 112
22457040 AGAATTTATA
22457050 AAAATAAAAAAATAAAATTCAAAATTAAACCCTTTTCATCTGTAAGTTGAGTTAGAATTTTTGAA
1 AAAATAAAAAAATAAAATTCAAAATTAAACCCTTTTCATCTGTAAGTTGAGTTAGAATTTTTGAA
22457115 AGAAAAAAACAAAATGAATCAGTTTGATTCATAATTACTCAATTTTGT
66 AGAAAAAAACAAAATGAATCAGTTTGATTCA-AATTACTCAATTTTGT
*
22457163 AAAATTAAAAAATAAAATTCAAAATTAAACCC-TTTCATCTGTAAGTTGAGTTAGAATTTTTGAA
1 AAAATAAAAAAATAAAATTCAAAATTAAACCCTTTTCATCTGTAAGTTGAGTTAGAATTTTTGAA
22457227 AGAAAAAAACAAAATGAATCAGTTTGATTCAAATTA
66 AGAAAAAAACAAAATGAATCAGTTTGATTCAAATTA
22457263 TTTTTAATTA
Statistics
Matches: 99, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
111 5 0.05
112 63 0.64
113 31 0.31
ACGTcount: A:0.48, C:0.09, G:0.10, T:0.32
Consensus pattern (112 bp):
AAAATAAAAAAATAAAATTCAAAATTAAACCCTTTTCATCTGTAAGTTGAGTTAGAATTTTTGAA
AGAAAAAAACAAAATGAATCAGTTTGATTCAAATTACTCAATTTTGT
Found at i:22457384 original size:20 final size:21
Alignment explanation
Indices: 22457349--22457404 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
22457339 ATAAATATCA
* *
22457349 AAACCTTAATTTTAAAAA-CTT
1 AAACCCTAA-TTTAAAAACCCT
22457370 AAACCCTAATTTAAAAACCCT
1 AAACCCTAATTTAAAAACCCT
22457391 AAA-CCTAA-TTAAAA
1 AAACCCTAATTTAAAA
22457405 CAAAAATACC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.19
20 13 0.41
21 13 0.41
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.29
Consensus pattern (21 bp):
AAACCCTAATTTAAAAACCCT
Found at i:22460795 original size:15 final size:15
Alignment explanation
Indices: 22460775--22460809 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
22460765 TTTTAATGTT
*
22460775 TCTTTATTTTTTCTG
1 TCTTTATTCTTTCTG
*
22460790 TCTTTATTCTTTCTT
1 TCTTTATTCTTTCTG
22460805 TCTTT
1 TCTTT
22460810 GTCATTCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.17, G:0.03, T:0.74
Consensus pattern (15 bp):
TCTTTATTCTTTCTG
Found at i:22463246 original size:61 final size:60
Alignment explanation
Indices: 22463113--22463246 Score: 173
Period size: 61 Copynumber: 2.2 Consensus size: 60
22463103 TTTAATATAA
* * *
22463113 AATAATTTTATTAAGAATATTATTAATTATATATTATATTTTTATTAAATTATATTTAAT
1 AATAATTTTATTAAGAATATGATAAATTATATATTATATTTTTATTAAATTATATTTAAC
* * *
22463173 AATAAGTATATTAA-AATATGATAAAATTATTTATTATCATTTTTATTAAATTAT-TGTTAAC
1 AATAATTTTATTAAGAATATGAT-AAATTATATATTAT-ATTTTTATTAAATTATAT-TTAAC
22463234 AATAATTTTATTA
1 AATAATTTTATTA
22463247 TATTTAATAA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
59 7 0.11
60 25 0.40
61 31 0.49
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (60 bp):
AATAATTTTATTAAGAATATGATAAATTATATATTATATTTTTATTAAATTATATTTAAC
Found at i:22464361 original size:25 final size:24
Alignment explanation
Indices: 22464333--22464382 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
22464323 ATAAAAATTT
* * *
22464333 AATTTAATCTTTTAAAAATTATAAA
1 AATTTAATATATT-AAAATAATAAA
22464358 AATTTAATATATTAAAATAATAAA
1 AATTTAATATATTAAAATAATAAA
22464382 A
1 A
22464383 TTATATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
AATTTAATATATTAAAATAATAAA
Found at i:22465528 original size:6 final size:6
Alignment explanation
Indices: 22465517--22465610 Score: 71
Period size: 6 Copynumber: 16.7 Consensus size: 6
22465507 GACCCAACAG
* *
22465517 AATTTA AATTT- ATTTTA AATTTA AATTTA TAA--TA AATTTA AATCT-
1 AATTTA AATTTA AATTTA AATTTA AATTTA -AATTTA AATTTA AATTTA
*
22465562 -ATTTGA AATTTA AATTT- -ATTATA AATTTA AGTTTA AATTT- -ATTTA
1 AATTT-A AATTTA AATTTA AATT-TA AATTTA AATTTA AATTTA AATTTA
22465607 AATT
1 AATT
22465611 AATATATCAG
Statistics
Matches: 70, Mismatches: 6, Indels: 24
0.70 0.06 0.24
Matches are distributed among these distances:
4 12 0.17
5 7 0.10
6 42 0.60
7 9 0.13
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (6 bp):
AATTTA
Found at i:22465539 original size:17 final size:17
Alignment explanation
Indices: 22465517--22465596 Score: 108
Period size: 17 Copynumber: 4.7 Consensus size: 17
22465507 GACCCAACAG
*
22465517 AATTTAAATTTATTTTA
1 AATTTAAATTTATTATA
*
22465534 AATTTAAATTTATAATA
1 AATTTAAATTTATTATA
*
22465551 AATTTAAATCTATT-TGA
1 AATTTAAATTTATTAT-A
22465568 AATTTAAATTTATTATA
1 AATTTAAATTTATTATA
*
22465585 AATTTAAGTTTA
1 AATTTAAATTTA
22465597 AATTTATTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
16 1 0.02
17 53 0.96
18 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (17 bp):
AATTTAAATTTATTATA
Found at i:22465556 original size:34 final size:34
Alignment explanation
Indices: 22465517--22465596 Score: 124
Period size: 34 Copynumber: 2.4 Consensus size: 34
22465507 GACCCAACAG
*
22465517 AATTTAAATTTATTTTAAATTTAAATTTATAATA
1 AATTTAAATTTATTTGAAATTTAAATTTATAATA
* *
22465551 AATTTAAATCTATTTGAAATTTAAATTTATTATA
1 AATTTAAATTTATTTGAAATTTAAATTTATAATA
*
22465585 AATTTAAGTTTA
1 AATTTAAATTTA
22465597 AATTTATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (34 bp):
AATTTAAATTTATTTGAAATTTAAATTTATAATA
Found at i:22466088 original size:3 final size:3
Alignment explanation
Indices: 22466057--22466123 Score: 73
Period size: 3 Copynumber: 21.3 Consensus size: 3
22466047 AAACATGCAT
*
22466057 ATA ATA A-A TATA GTA ATAA ATA TATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA -ATA ATA AT-A ATA -ATA ATA ATA ATA ATA ATA ATA ATA
*
22466104 ATA ATA ATAA ATA TTA ATA A
1 ATA ATA AT-A ATA ATA ATA A
22466124 AAAAGGGAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
2 1 0.02
3 44 0.80
4 10 0.18
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:22467215 original size:30 final size:30
Alignment explanation
Indices: 22467181--22467393 Score: 106
Period size: 30 Copynumber: 7.2 Consensus size: 30
22467171 AAGGTCCTTG
* *
22467181 AACTTTTCAAAAATCATATTTTGACCCCCA
1 AACTTTTCAAAAATCACATTTTGACCCCTA
* * * ** * *
22467211 AACTTCAT-AAAAATTATATTTT-AATCTTG
1 AACTT-TTCAAAAATCACATTTTGACCCCTA
* *
22467240 AA-TTTTCCAAAAATTACATTTTGACCCTTA
1 AACTTTT-CAAAAATCACATTTTGACCCCTA
* *
22467270 AACTTTTCCAAAATCACATTTTAACCCCTA
1 AACTTTTCAAAAATCACATTTTGACCCCTA
* *
22467300 AAC--TACACAAAATTACATTTT--CCCCTA
1 AACTTTTCA-AAAATCACATTTTGACCCCTA
* * *
22467327 AACTTTCCAAAAATTACCATTTT-A-CCCTCG
1 AACTTTTCAAAAATCA-CATTTTGACCCCT-A
* *
22467357 AAC-TTCCAAAAAATCACATTTTTG-CCCCCA
1 AACTTTTC-AAAAATCACA-TTTTGACCCCTA
22467387 AACTTTT
1 AACTTTT
22467394 TGGAAATTAC
Statistics
Matches: 142, Mismatches: 25, Indels: 31
0.72 0.13 0.16
Matches are distributed among these distances:
27 10 0.07
28 11 0.08
29 48 0.34
30 63 0.44
31 10 0.07
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.35
Consensus pattern (30 bp):
AACTTTTCAAAAATCACATTTTGACCCCTA
Found at i:22467283 original size:59 final size:59
Alignment explanation
Indices: 22467177--22467293 Score: 130
Period size: 59 Copynumber: 2.0 Consensus size: 59
22467167 CCAGAAGGTC
* * *
22467177 CTTGAACTTTTCAAAAATCATATTTTGACCCCCAAACTTCATAAAAATTATATTTTAAT
1 CTTGAACTTTTCAAAAATCACATTTTGACCCCCAAACTTCATAAAAATCACATTTTAAT
* ** * *
22467236 CTTGAA-TTTTCCAAAAATTACATTTTGACCCTTAAACTT-TTCCAAAATCACATTTTAA
1 CTTGAACTTTT-CAAAAATCACATTTTGACCCCCAAACTTCAT-AAAAATCACATTTTAA
22467294 CCCCTAAACT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
58 5 0.10
59 43 0.90
ACGTcount: A:0.38, C:0.20, G:0.03, T:0.39
Consensus pattern (59 bp):
CTTGAACTTTTCAAAAATCACATTTTGACCCCCAAACTTCATAAAAATCACATTTTAAT
Found at i:22467363 original size:29 final size:29
Alignment explanation
Indices: 22467308--22467632 Score: 127
Period size: 29 Copynumber: 11.2 Consensus size: 29
22467298 TAAACTACAC
* *
22467308 AAAATTA-CATTTTCCCCT-AAACTTTCCA
1 AAAATTACCATTTTACCCTCGAAC-TTCCA
22467336 AAAATTACCATTTTACCCTCGAACTTCCA
1 AAAATTACCATTTTACCCTCGAACTTCCA
* * * * ***
22467365 AAAAAT-CACATTTTTGCCCCCAAACTTTTTG
1 AAAATTAC-CA-TTTTACCCTCGAAC-TTCCA
* *
22467396 GAAATTACCATTTTACCCTCAAACTTCCA
1 AAAATTACCATTTTACCCTCGAACTTCCA
* *
22467425 AAAATTA-CATTTTTGCTCC-CG-AGTGTCCA
1 AAAATTACCA-TTTTAC-CCTCGAACT-TCCA
* * * *
22467454 AAAATTATCATTTTGCCCCCGAAGTTTCC-
1 AAAATTACCATTTTACCCTCGAA-CTTCCA
* * **
22467483 AAAATTATCGTTTTACCCTCGAACATT-TG
1 AAAATTACCATTTTACCCTCGAAC-TTCCA
* ** *
22467512 AAAATTACCATTTT-GCCTCCGAGTTTCTA
1 AAAATTACCATTTTACCCT-CGAACTTCCA
* *
22467541 AAAATTACCATTTTTGCCC-CTG-ATTGTCCA
1 AAAATTACCA-TTTTACCCTC-GAACT-TCCA
* * *
22467571 AAAATTACCGTTTTATTCC-CGAACCTCCA
1 AAAATTACCATTTTA-CCCTCGAACTTCCA
** * *
22467600 AAAATTATTATTTTACCC-CGAGCATCCA
1 AAAATTACCATTTTACCCTCGAACTTCCA
22467628 AAAAT
1 AAAAT
22467633 CGCATTTTTG
Statistics
Matches: 228, Mismatches: 46, Indels: 46
0.71 0.14 0.14
Matches are distributed among these distances:
28 34 0.15
29 127 0.56
30 55 0.24
31 11 0.05
32 1 0.00
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.34
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTCGAACTTCCA
Found at i:22467484 original size:30 final size:30
Alignment explanation
Indices: 22467308--22467584 Score: 139
Period size: 29 Copynumber: 9.5 Consensus size: 30
22467298 TAAACTACAC
** *
22467308 AAAATTA-CATTTT-CCCCTAAACTTTCCA
1 AAAATTACCATTTTGCCCCCGAAGTTTCCA
* * *
22467336 AAAATTACCATTTTACCCTCGAA-CTTCCA
1 AAAATTACCATTTTGCCCCCGAAGTTTCCA
* * * ***
22467365 AAAAAT-CACATTTTTGCCCCCAAACTTTTTG
1 AAAATTAC-CA-TTTTGCCCCCGAAGTTTCCA
* * * **
22467396 GAAATTACCATTTTACCCTC-AAACTTCCA
1 AAAATTACCATTTTGCCCCCGAAGTTTCCA
* *
22467425 AAAATTA-CATTTTTGCTCCCG-AGTGTCCA
1 AAAATTACCA-TTTTGCCCCCGAAGTTTCCA
*
22467454 AAAATTATCATTTTGCCCCCGAAGTTTCC-
1 AAAATTACCATTTTGCCCCCGAAGTTTCCA
* * * * * *
22467483 AAAATTATCGTTTTACCCTCGAACATTT--G
1 AAAATTACCATTTTGCCCCCGAA-GTTTCCA
* *
22467512 AAAATTACCATTTTGCCTCCG-AGTTTCTA
1 AAAATTACCATTTTGCCCCCGAAGTTTCCA
*
22467541 AAAATTACCATTTTTGCCCCTG-A-TTGTCCA
1 AAAATTACCA-TTTTGCCCCCGAAGTT-TCCA
*
22467571 AAAATTACCGTTTT
1 AAAATTACCATTTT
22467585 ATTCCCGAAC
Statistics
Matches: 188, Mismatches: 45, Indels: 31
0.71 0.17 0.12
Matches are distributed among these distances:
27 3 0.02
28 11 0.06
29 109 0.58
30 56 0.30
31 8 0.04
32 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.35
Consensus pattern (30 bp):
AAAATTACCATTTTGCCCCCGAAGTTTCCA
Found at i:22468014 original size:94 final size:96
Alignment explanation
Indices: 22467853--22468141 Score: 370
Period size: 98 Copynumber: 3.0 Consensus size: 96
22467843 TAAACCTTTA
* * * * * * * * *
22467853 AAATCGAGGTAATATTCCTTTATTTC-GAGTTTTAAAAATTTGTGCATTAATTTACTAGGCGTGA
1 AAATCGAGGCAATGTTTCTTTATCTCTG-GTTTTGAAAATTTGTGCCTTAACTTACTAGACGCGA
*
22467917 -TTTTTT-AAATCGGGATAATCGCATACCCTT
65 TTTTTTTCAAATCGGGATAATCGAATACCCTT
22467947 AAATCGAGGCAATGTTTCTTTATCTCTGGTTTTGAAAATTTGTGCCTTAACTTACTAGACGCGAT
1 AAATCGAGGCAATGTTTCTTTATCTCTGGTTTTGAAAATTTGTGCCTTAACTTACTAGACGCGA-
*
22468012 TTTTTTTTCAAATCGGGATAATCGAATACCTTT
65 -TTTTTTTCAAATCGGGATAATCGAATACCCTT
* *
22468045 AAATCGAGGCAATGTTTCTTTATCTTTGGTTTTGAAAATTTGTCCCTTAACTTACTA-AGCGCGA
1 AAATCGAGGCAATGTTTCTTTATCTCTGGTTTTGAAAATTTGTGCCTTAACTTACTAGA-CGCGA
* *
22468109 CTTTTCTTCAAATGGGGATAATCGAATACCCTT
65 -TTTTTTTCAAATCGGGATAATCGAATACCCTT
22468142 TTCCAAGGTT
Statistics
Matches: 172, Mismatches: 17, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
94 53 0.31
95 1 0.01
97 36 0.21
98 82 0.48
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (96 bp):
AAATCGAGGCAATGTTTCTTTATCTCTGGTTTTGAAAATTTGTGCCTTAACTTACTAGACGCGAT
TTTTTTCAAATCGGGATAATCGAATACCCTT
Found at i:22468946 original size:30 final size:28
Alignment explanation
Indices: 22468885--22469127 Score: 184
Period size: 30 Copynumber: 8.1 Consensus size: 28
22468875 AAAAACAAAA
* *
22468885 TTTTAAAAGATTTGAGGGTC-AAATTTAAAT
1 TTTTGAAA-ATTTGA-GGTCAAAATAT-AAT
* *
22468915 TTTTGGAAAATTTGACAGTTAAAATATAAT
1 TTTT-GAAAATTTGA-GGTCAAAATATAAT
*
22468945 TTTTAGAAAATTTAGAGATCAAAATATAAT
1 TTTT-GAAAATTT-GAGGTCAAAATATAAT
* *
22468975 TTTTGAAAAGTTTGGGGTCAAAATATATTT
1 TTTTGAAAA-TTTGAGGTCAAAATATA-AT
* ** *
22469005 TTTTGGAAAACTCAAGGTTAAAATATAAT
1 TTTT-GAAAATTTGAGGTCAAAATATAAT
* *
22469034 TTTTGAAAAGTTAGGGGCTCAAAATATAAT
1 TTTTGAAAA-TTTGAGG-TCAAAATATAAT
*
22469064 TTTTCGAAAGTTTAGAGGTCAAAATAT-AT
1 TTTT-GAAAATTT-GAGGTCAAAATATAAT
*
22469093 TTTCTAGAAAATTTGAGGATTAAAATATAAT
1 TTT-T-GAAAATTTGAGG-TCAAAATATAAT
22469124 TTTT
1 TTTT
22469128 AATTAAAATA
Statistics
Matches: 171, Mismatches: 29, Indels: 26
0.76 0.13 0.12
Matches are distributed among these distances:
28 5 0.03
29 34 0.20
30 105 0.61
31 27 0.16
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (28 bp):
TTTTGAAAATTTGAGGTCAAAATATAAT
Found at i:22468993 original size:89 final size:89
Alignment explanation
Indices: 22468885--22469128 Score: 266
Period size: 89 Copynumber: 2.7 Consensus size: 89
22468875 AAAAACAAAA
* *
22468885 TTTT-AAAAGATTTGAGGGTCAAATTTAAATTTTTGGAAAATTTGACAGTTAAAATATAATTTTT
1 TTTTGAAAAG-TTTG-GGGTCAAATATATATTTTTGGAAAATTTGA-AGTTAAAATATAATTTTT
*
22468949 AGAAAATTTA-GAGATCAAAATATAAT
63 AGAAAAGTTAGGAGATCAAAATATAAT
* * *
22468975 TTTTGAAAAGTTTGGGGTCAAAATATATTTTTTTGGAAAA-CTCAAGGTTAAAATATAATTTTT-
1 TTTTGAAAAGTTTGGGGTC-AAATATATATTTTTGGAAAATTTGAA-GTTAAAATATAATTTTTA
* *
22469038 GAAAAGTTAGGGGCTCAAAATATAAT
64 GAAAAGTTAGGAGATCAAAATATAAT
* * *
22469064 TTTTCG-AAAGTTTAGAGGTCAAA-ATATATTTTCTAGAAAATTTGAGGATTAAAATATAATTTT
1 TTTT-GAAAAGTTT-GGGGTCAAATATATATTTT-TGGAAAATTTGAAG-TTAAAATATAATTTT
22469127 TA
62 TA
22469129 ATTAAAATAA
Statistics
Matches: 130, Mismatches: 14, Indels: 19
0.80 0.09 0.12
Matches are distributed among these distances:
88 17 0.13
89 59 0.45
90 49 0.38
91 5 0.04
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (89 bp):
TTTTGAAAAGTTTGGGGTCAAATATATATTTTTGGAAAATTTGAAGTTAAAATATAATTTTTAGA
AAAGTTAGGAGATCAAAATATAAT
Found at i:22469008 original size:60 final size:59
Alignment explanation
Indices: 22468935--22469128 Score: 223
Period size: 59 Copynumber: 3.3 Consensus size: 59
22468925 TTTGACAGTT
*
22468935 AAAATATAATTTTTAGAAAATTTAGAGATCAAAATATAATTTTTGAAAAGTTTGGGGTC
1 AAAATATAATTTTTAGAAAATTTAGAGGTCAAAATATAATTTTTGAAAAGTTTGGGGTC
* * * * * *
22468994 AAAATATATTTTTTTGGAAAACTCA-AGGTTAAAATATAATTTTTGAAAAGTTAGGGGCTC
1 AAAATATA-ATTTTTAGAAAATTTAGAGGTCAAAATATAATTTTTGAAAAGTTTGGGG-TC
* * * *
22469054 AAAATATAATTTTTCGAAAGTTTAGAGGTCAAAATAT-ATTTTCTAGAAAA-TTTGAGGATT
1 AAAATATAATTTTTAGAAAATTTAGAGGTCAAAATATAATTTT-T-GAAAAGTTTG-GGGTC
22469114 AAAATATAATTTTTA
1 AAAATATAATTTTTA
22469129 ATTAAAATAA
Statistics
Matches: 112, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
59 53 0.47
60 52 0.46
61 7 0.06
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (59 bp):
AAAATATAATTTTTAGAAAATTTAGAGGTCAAAATATAATTTTTGAAAAGTTTGGGGTC
Found at i:22472683 original size:60 final size:61
Alignment explanation
Indices: 22472584--22472713 Score: 174
Period size: 60 Copynumber: 2.1 Consensus size: 61
22472574 TTATTATAAT
* * *
22472584 ATTTGGTACTTGGACTTAACACTTTTTCTTAATTTGGTACTTAAAC-TTTTTTT-GACTCA
1 ATTTGGTACTTGAACTTAACACTTTTTCCTAATTTGGTACCTAAACTTTTTTTTAGACTCA
* * * *
22472643 ATTTGGTACTTGAACTTGACATTTTTTTCCTAATTTGGTACCTAAGCTTTTTTTTAGATTCA
1 ATTTGGTACTTGAACTTAACA-CTTTTTCCTAATTTGGTACCTAAACTTTTTTTTAGACTCA
22472705 ATTTGGTAC
1 ATTTGGTAC
22472714 CTAAATTAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
59 19 0.31
60 21 0.34
61 7 0.11
62 14 0.23
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.49
Consensus pattern (61 bp):
ATTTGGTACTTGAACTTAACACTTTTTCCTAATTTGGTACCTAAACTTTTTTTTAGACTCA
Found at i:22472948 original size:30 final size:31
Alignment explanation
Indices: 22472914--22472991 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 31
22472904 GGACCCCAAA
22472914 AAGTTTA-AGTACCAACA-TAA-AAAAAATGTC
1 AAGTTTATA-TACCAA-ATTAAGAAAAAATGTC
*
22472944 AAGTTTATATACCAAATTAAGAAAAAGTGTC
1 AAGTTTATATACCAAATTAAGAAAAAATGTC
* *
22472975 AAGTTCAGATACCAAAT
1 AAGTTTATATACCAAAT
22472992 ATTATATTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
29 1 0.02
30 16 0.38
31 25 0.60
ACGTcount: A:0.50, C:0.13, G:0.12, T:0.26
Consensus pattern (31 bp):
AAGTTTATATACCAAATTAAGAAAAAATGTC
Found at i:22473598 original size:5 final size:5
Alignment explanation
Indices: 22473588--22473631 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
22473578 TATAATGATT
22473588 GATGA GATGA GATGA GATGA GATGA GATGA GATGA GATGA GATG
1 GATGA GATGA GATGA GATGA GATGA GATGA GATGA GATGA GATG
22473632 GTGGTTGGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (5 bp):
GATGA
Found at i:22474155 original size:16 final size:17
Alignment explanation
Indices: 22474134--22474166 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
22474124 CATGTTAGAG
22474134 CATATAAATTT-AAAAT
1 CATATAAATTTGAAAAT
*
22474150 CATATATATTTGAAAAT
1 CATATAAATTTGAAAAT
22474167 TTCTCAAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (17 bp):
CATATAAATTTGAAAAT
Found at i:22488396 original size:19 final size:21
Alignment explanation
Indices: 22488368--22488414 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
22488358 ATCCAACATT
*
22488368 AAAAATATTAA-T-TTTTTCA
1 AAAAAAATTAATTATTTTTCA
22488387 AAAAAAATTAATTATTTTTCA
1 AAAAAAATTAATTATTTTTCA
22488408 AAAAAAA
1 AAAAAAA
22488415 AATTTGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 10 0.40
20 1 0.04
21 14 0.56
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAAAATTAATTATTTTTCA
Found at i:22500206 original size:15 final size:16
Alignment explanation
Indices: 22500181--22500220 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
22500171 GTAAGGGTCA
*
22500181 CCTTTTCTTTTCTTTT
1 CCTTTTTTTTTCTTTT
*
22500197 -CTTTTTTTTTTTTTT
1 CCTTTTTTTTTCTTTT
22500212 CCTTTTTTT
1 CCTTTTTTT
22500221 ATCATAAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (16 bp):
CCTTTTTTTTTCTTTT
Found at i:22501476 original size:14 final size:14
Alignment explanation
Indices: 22501457--22501486 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22501447 GCTGTCATTT
22501457 TACTATTATATTGC
1 TACTATTATATTGC
*
22501471 TACTATTTTATTGC
1 TACTATTATATTGC
22501485 TA
1 TA
22501487 TTGTTTGGAT
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:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (14 bp):
TACTATTATATTGC
Found at i:22504619 original size:23 final size:23
Alignment explanation
Indices: 22504591--22504713 Score: 135
Period size: 23 Copynumber: 5.3 Consensus size: 23
22504581 GAACACTAGA
22504591 GTGCTCTCTGATTAGCACTGCGT
1 GTGCTCTCTGATTAGCACTGCGT
*
22504614 GTGCTCTCTGTTTAGCAC-GTC-T
1 GTGCTCTCTGATTAGCACTG-CGT
*
22504636 CGTGCTCTCTGTTATTAGCACTGTGT
1 -GTGCTCTCTG--ATTAGCACTGCGT
*
22504662 GTGCTCT-TCGATTAGCACTTCGT
1 GTGCTCTCT-GATTAGCACTGCGT
**
22504685 GTGCTCTCTGATTAGCACTTTGT
1 GTGCTCTCTGATTAGCACTGCGT
22504708 GTGCTC
1 GTGCTC
22504714 AGTACTTTGT
Statistics
Matches: 86, Mismatches: 6, Indels: 16
0.80 0.06 0.15
Matches are distributed among these distances:
22 2 0.02
23 65 0.76
24 2 0.02
25 15 0.17
26 2 0.02
ACGTcount: A:0.11, C:0.25, G:0.24, T:0.40
Consensus pattern (23 bp):
GTGCTCTCTGATTAGCACTGCGT
Found at i:22504664 original size:48 final size:46
Alignment explanation
Indices: 22504591--22504713 Score: 160
Period size: 48 Copynumber: 2.6 Consensus size: 46
22504581 GAACACTAGA
* *
22504591 GTGCTCTCTGATTAGCACTGCGTGTGCTC-TCTGTTTAGCACGTC-T
1 GTGCTCTCTGATTAGCACTGTGTGTGCTCTTC-GATTAGCACGTCGT
*
22504636 CGTGCTCTCTGTTATTAGCACTGTGTGTGCTCTTCGATTAGCACTTCGT
1 -GTGCTCTCTG--ATTAGCACTGTGTGTGCTCTTCGATTAGCACGTCGT
*
22504685 GTGCTCTCTGATTAGCACTTTGTGTGCTC
1 GTGCTCTCTGATTAGCACTGTGTGTGCTC
22504714 AGTACTTTGT
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
46 28 0.41
48 38 0.55
49 3 0.04
ACGTcount: A:0.11, C:0.25, G:0.24, T:0.40
Consensus pattern (46 bp):
GTGCTCTCTGATTAGCACTGTGTGTGCTCTTCGATTAGCACGTCGT
Found at i:22504742 original size:39 final size:39
Alignment explanation
Indices: 22504678--22504752 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
22504668 TTCGATTAGC
*
22504678 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
* *
22504717 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTC
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTC
22504753 TCTGTTGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
Found at i:22504747 original size:23 final size:23
Alignment explanation
Indices: 22504712--22504805 Score: 86
Period size: 23 Copynumber: 4.0 Consensus size: 23
22504702 CTTTGTGTGC
*
22504712 TCAGTACTTTGTGTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
* *
22504735 TTAGCACTTTGTGTGCTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
*
22504758 TGCCCATCACTTATGTG--CTCTCTGT
1 T---CAGCACTT-TGTGTACTCTCTGT
*
22504783 TCAGTACTTTG-GTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
22504805 T
1 T
22504806 TGTTCCGTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
20 1 0.02
21 2 0.03
22 15 0.26
23 21 0.36
25 9 0.16
26 6 0.10
27 4 0.07
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.46
Consensus pattern (23 bp):
TCAGCACTTTGTGTACTCTCTGT
Found at i:22508364 original size:23 final size:23
Alignment explanation
Indices: 22508338--22508519 Score: 149
Period size: 23 Copynumber: 8.4 Consensus size: 23
22508328 AGTGCTGGGC
22508338 AACAGAGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
22508361 AACAGAGAGTACACAAA--G-T-
1 AACAGAGAGCACACAAAGTGCTA
*
22508380 -AC--TGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* *
22508400 ATCAGAGAGCACACACAGTGCTAA
1 AACAGAGAGCACACAAAGTGCT-A
*
22508424 TAACAGAGAGTACACAAA--G-T-
1 -AACAGAGAGCACACAAAGTGCTA
*
22508444 -AC--TGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* *
22508464 ATCAGAGAGCACACGAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* *
22508487 ATCAGAGAGCACACGAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
22508510 ATCAGAGAGC
1 AACAGAGAGC
22508520 GCGCTAGTGT
Statistics
Matches: 129, Mismatches: 14, Indels: 32
0.74 0.08 0.18
Matches are distributed among these distances:
16 20 0.16
18 6 0.05
19 2 0.02
20 1 0.01
21 3 0.02
22 1 0.01
23 81 0.63
24 1 0.01
25 14 0.11
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.13
Consensus pattern (23 bp):
AACAGAGAGCACACAAAGTGCTA
Found at i:22508430 original size:25 final size:23
Alignment explanation
Indices: 22508383--22508519 Score: 162
Period size: 23 Copynumber: 6.2 Consensus size: 23
22508373 ACAAAGTACT
22508383 GAGCACACAAAGTGCTAATCAGA
1 GAGCACACAAAGTGCTAATCAGA
*
22508406 GAGCACACACAGTGCTAATAACAGA
1 GAGCACACAAAGTGCTAAT--CAGA
* *
22508431 GAGTACACAAA--G-T-A-C--T
1 GAGCACACAAAGTGCTAATCAGA
22508447 GAGCACACAAAGTGCTAATCAGA
1 GAGCACACAAAGTGCTAATCAGA
*
22508470 GAGCACACGAAGTGCTAATCAGA
1 GAGCACACAAAGTGCTAATCAGA
*
22508493 GAGCACACGAAGTGCTAATCAGA
1 GAGCACACAAAGTGCTAATCAGA
22508516 GAGC
1 GAGC
22508520 GCGCTAGTGT
Statistics
Matches: 98, Mismatches: 7, Indels: 18
0.80 0.06 0.15
Matches are distributed among these distances:
16 10 0.10
18 2 0.02
19 1 0.01
20 1 0.01
21 2 0.02
22 1 0.01
23 68 0.69
25 13 0.13
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.13
Consensus pattern (23 bp):
GAGCACACAAAGTGCTAATCAGA
Found at i:22508432 original size:64 final size:63
Alignment explanation
Indices: 22508340--22508505 Score: 259
Period size: 64 Copynumber: 2.7 Consensus size: 63
22508330 TGCTGGGCAA
22508340 CAGAGAGCACACAAAGTGCT-A-AACAGAGAGTACACAAAGTACTGAGCACACAAAGTGCTAAT
1 CAGAGAGCACAC-AAGTGCTAATAACAGAGAGTACACAAAGTACTGAGCACACAAAGTGCTAAT
22508402 CAGAGAGCACACACAGTGCTAATAACAGAGAGTACACAAAGTACTGAGCACACAAAGTGCTAAT
1 CAGAGAGCACACA-AGTGCTAATAACAGAGAGTACACAAAGTACTGAGCACACAAAGTGCTAAT
* *
22508466 CAGAGAGCACACGAAGTGCTAAT--CAGAGAGCACACGAAGT
1 CAGAGAGCACAC-AAGTGCTAATAACAGAGAGTACACAAAGT
22508506 GCTAATCAGA
Statistics
Matches: 98, Mismatches: 2, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
61 1 0.01
62 33 0.34
63 1 0.01
64 62 0.63
65 1 0.01
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.13
Consensus pattern (63 bp):
CAGAGAGCACACAAGTGCTAATAACAGAGAGTACACAAAGTACTGAGCACACAAAGTGCTAAT
Found at i:22508470 original size:39 final size:40
Alignment explanation
Indices: 22508406--22508482 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 40
22508396 GCTAATCAGA
* *
22508406 GAGCACACACAGTGCTAATAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAT-ACAGAGAGCACACAAAGTACT
*
22508447 GAGCACACAAAGTGCTAAT-CAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAATACAGAGAGCACACAAAGT
22508483 GCTAATCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 15 0.45
41 18 0.55
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.13
Consensus pattern (40 bp):
GAGCACACAAAGTGCTAATACAGAGAGCACACAAAGTACT
Done.