Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 80 of 230
Found at i:22100844 original size:27 final size:27
Alignment explanation
Indices: 22100805--22100857 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
22100795 CATGGTAGTT
*
22100805 AAAGAACTGCCTTTGTGGCGAACTCTA
1 AAAGAACTACCTTTGTGGCGAACTCTA
*
22100832 AAAGAACTACCTTTGTGGTGAACTCT
1 AAAGAACTACCTTTGTGGCGAACTCT
22100858 GAATGAATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (27 bp):
AAAGAACTACCTTTGTGGCGAACTCTA
Found at i:22102608 original size:16 final size:17
Alignment explanation
Indices: 22102578--22102612 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
22102568 TAATAATAAC
*
22102578 TCATCCAAGTAATTATT
1 TCATCCAACTAATTATT
22102595 TCATCCAACT-ATTATT
1 TCATCCAACTAATTATT
22102611 TC
1 TC
22102613 TCTCCCCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.31, C:0.23, G:0.03, T:0.43
Consensus pattern (17 bp):
TCATCCAACTAATTATT
Found at i:22104010 original size:15 final size:15
Alignment explanation
Indices: 22103986--22104015 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22103976 AACTTATAAT
*
22103986 GCTTAGTTTCAATGA
1 GCTTAATTTCAATGA
22104001 GCTTAATTTCAATGA
1 GCTTAATTTCAATGA
22104016 ATCCATTTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (15 bp):
GCTTAATTTCAATGA
Found at i:22109775 original size:44 final size:44
Alignment explanation
Indices: 22109707--22109838 Score: 210
Period size: 44 Copynumber: 3.0 Consensus size: 44
22109697 CCTCATTAAT
*
22109707 ATTAGCTCTTCTAGAGTTTTCAACTAATTTTGTACTACCAAATA
1 ATTAGCTCTTCTAGAGCTTTCAACTAATTTTGTACTACCAAATA
* * * *
22109751 ATTAACTCTTCTAGAGCTTTCAACTAATTTTATGCTGCCAAATA
1 ATTAGCTCTTCTAGAGCTTTCAACTAATTTTGTACTACCAAATA
*
22109795 ATTAGCTCTTCTAGAGCTTTCAACTAATTTTGAACTACCAAATA
1 ATTAGCTCTTCTAGAGCTTTCAACTAATTTTGTACTACCAAATA
22109839 TTACATTAAT
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 78 1.00
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.39
Consensus pattern (44 bp):
ATTAGCTCTTCTAGAGCTTTCAACTAATTTTGTACTACCAAATA
Found at i:22110672 original size:2 final size:2
Alignment explanation
Indices: 22110665--22110716 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
22110655 AAATTGAGAG
22110665 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
22110707 CT CT CT CT CT
1 CT CT CT CT CT
22110717 TTTGCTTGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:22119922 original size:27 final size:28
Alignment explanation
Indices: 22119892--22119994 Score: 117
Period size: 27 Copynumber: 3.7 Consensus size: 28
22119882 TATTTCATTA
* *
22119892 AAATTATTAAAATTTATAAAAA-CTTAT
1 AAATTATTAAAATATATAAAAATCTAAT
22119919 AAA-TATTAAAAATATATAAAAATCTAAT
1 AAATTATT-AAAATATATAAAAATCTAAT
22119947 AAATTA-TAAAATATAT-AAAAT-TAAT
1 AAATTATTAAAATATATAAAAATCTAAT
22119972 AAAACTTATTTAAAATATATAAA
1 -AAA-TTA-TTAAAATATATAAA
22119995 TTTAAAAAAA
Statistics
Matches: 66, Mismatches: 2, Indels: 13
0.81 0.02 0.16
Matches are distributed among these distances:
25 4 0.06
26 12 0.18
27 28 0.42
28 8 0.12
29 12 0.18
30 2 0.03
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (28 bp):
AAATTATTAAAATATATAAAAATCTAAT
Found at i:22119948 original size:11 final size:10
Alignment explanation
Indices: 22119891--22119994 Score: 57
Period size: 10 Copynumber: 11.2 Consensus size: 10
22119881 TTATTTCATT
*
22119891 AAAAT-TATT
1 AAAATATATA
*
22119900 AAAATTTATA
1 AAAATATATA
22119910 AAAACT-TAT-
1 AAAA-TATATA
22119919 -AAATAT-TA
1 AAAATATATA
22119927 AAAATATATA
1 AAAATATATA
*
22119937 AAAATCTA-A
1 AAAATATATA
*
22119946 TAAAT-TAT-
1 AAAATATATA
22119954 AAAATATATA
1 AAAATATATA
*
22119964 AAATTA-ATA
1 AAAATATATA
* *
22119973 AAACT-TATTT
1 AAAATATA-TA
22119983 AAAATATATA
1 AAAATATATA
22119993 AA
1 AA
22119995 TTTAAAAAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 23
0.70 0.08 0.22
Matches are distributed among these distances:
7 2 0.03
8 10 0.14
9 27 0.36
10 32 0.43
11 3 0.04
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAATATATA
Found at i:22119985 original size:29 final size:28
Alignment explanation
Indices: 22119890--22120004 Score: 100
Period size: 27 Copynumber: 4.2 Consensus size: 28
22119880 ATTATTTCAT
*
22119890 TAAAATTA-TTAAAATTTATAAAAACTT-A
1 TAAAATTATTTAAAATATAT-AAAA-TTAA
*
22119918 T-AAA-TATTAAAAATATATAAAAATCTAA
1 TAAAATTATTTAAAATATAT-AAAAT-TAA
22119946 T-AAATTA--TAAAATATATAAAATTAA
1 TAAAATTATTTAAAATATATAAAATTAA
*
22119971 TAAAACTTATTTAAAATATATAAATTTAA
1 TAAAA-TTATTTAAAATATATAAAATTAA
*
22120000 AAAAA
1 TAAAA
22120005 AATAAAATTC
Statistics
Matches: 74, Mismatches: 5, Indels: 15
0.79 0.05 0.16
Matches are distributed among these distances:
25 4 0.05
26 11 0.15
27 30 0.41
28 6 0.08
29 23 0.31
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (28 bp):
TAAAATTATTTAAAATATATAAAATTAA
Found at i:22119994 original size:9 final size:9
Alignment explanation
Indices: 22119890--22119994 Score: 53
Period size: 9 Copynumber: 11.4 Consensus size: 9
22119880 ATTATTTCAT
22119890 TAAAAT-TA
1 TAAAATATA
*
22119898 TTAAAATTTA
1 -TAAAATATA
22119908 TAAAA-ACT-
1 TAAAATA-TA
22119916 TATAAATAT-
1 TA-AAATATA
22119925 TAAAAATATA
1 T-AAAATATA
*
22119935 TAAAA-ATC
1 TAAAATATA
22119943 TAATAA-ATTA
1 TAA-AATA-TA
22119953 TAAAATATA
1 TAAAATATA
22119962 TAAAAT-TAA
1 TAAAATAT-A
*
22119971 TAAAACTTATT
1 TAAAA--TATA
22119982 TAAAATATA
1 TAAAATATA
22119991 TAAA
1 TAAA
22119995 TTTAAAAAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 26
0.72 0.05 0.24
Matches are distributed among these distances:
8 8 0.10
9 53 0.68
10 10 0.13
11 6 0.08
12 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (9 bp):
TAAAATATA
Found at i:22120034 original size:21 final size:21
Alignment explanation
Indices: 22120008--22120052 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
22119998 AAAAAAAAAT
*
22120008 AAAATTCTTAAAAACTAATAA
1 AAAATTCTAAAAAACTAATAA
* * *
22120029 AAAATTGTAAAAAAGTATTAA
1 AAAATTCTAAAAAACTAATAA
22120050 AAA
1 AAA
22120053 TATTAAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.27
Consensus pattern (21 bp):
AAAATTCTAAAAAACTAATAA
Found at i:22120096 original size:19 final size:19
Alignment explanation
Indices: 22119891--22120096 Score: 69
Period size: 19 Copynumber: 11.1 Consensus size: 19
22119881 TTATTTCATT
*
22119891 AAAATTAT-TAAAATTTATA
1 AAAATTATATAAAA-ATATA
* *
22119910 AAAACT-TATAAATAT-TA
1 AAAATTATATAAAAATATA
*
22119927 AAAA-TATATAAAAATCTA
1 AAAATTATATAAAAATATA
*
22119945 ATAAATTATA-AAATATAT-
1 A-AAATTATATAAAAATATA
* *
22119963 AAAATTA-ATAAAACTTATTT
1 AAAATTATATAAAA-ATA-TA
*
22119983 AAAA-TATAT--AAATTTA
1 AAAATTATATAAAAATATA
* * * *
22119999 AAAA-AAAATAAAATTCTTA
1 AAAATTATATAAAAAT-ATA
* *
22120018 AAAACTA-ATAAAAAATTGTAA
1 AAAATTATAT-AAAAA-TAT-A
* *
22120039 AAAAGTAT-TAAAAATATT
1 AAAATTATATAAAAATATA
**
22120057 AAAATTGATATAAACTTATA
1 AAAATT-ATATAAAAATATA
*
22120077 AAAATTATATAAAAAAATA
1 AAAATTATATAAAAATATA
22120096 A
1 A
22120097 TACAAACTTG
Statistics
Matches: 140, Mismatches: 27, Indels: 40
0.68 0.13 0.19
Matches are distributed among these distances:
16 10 0.07
17 24 0.17
18 18 0.13
19 45 0.32
20 34 0.24
21 9 0.06
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (19 bp):
AAAATTATATAAAAATATA
Found at i:22120485 original size:9 final size:9
Alignment explanation
Indices: 22120457--22120714 Score: 94
Period size: 9 Copynumber: 27.1 Consensus size: 9
22120447 TCTGGCCTAG
*
22120457 TTTTTATGA
1 TTTTTATAA
22120466 TTTTCTAATAA
1 TTTT-T-ATAA
*
22120477 CTTTTATAA
1 TTTTTATAA
* *
22120486 GTTTATATCAG
1 -TTTTTAT-AA
* *
22120497 TTTTAATAT
1 TTTTTATAA
22120506 TTTTTATAA
1 TTTTTATAA
*
22120515 TTTTTATTA
1 TTTTTATAA
22120524 TTTTTATAGAA
1 TTTTTAT--AA
* *
22120535 TTTTAATATG
1 TTTTTATA-A
22120545 TTTTTATAAA
1 TTTTTAT-AA
* *
22120555 ATTTTAAACA
1 TTTTTATA-A
*
22120565 TTTTAACT-A
1 TTTTTA-TAA
22120574 TGTTTTATCAA
1 T-TTTTAT-AA
22120585 -TTTTATAA
1 TTTTTATAA
22120593 TTTTTTTATAA
1 --TTTTTATAA
*
22120604 TTTATTAGAA
1 TTT-TTATAA
22120614 TTTTTAT-A
1 TTTTTATAA
22120622 TTTTTATAA
1 TTTTTATAA
* *
22120631 TATTTACAA
1 TTTTTATAA
22120640 TTTTTTATAA
1 -TTTTTATAA
**
22120650 GTTCATATAGA
1 -TTTTTATA-A
*
22120661 TTTTTATAT
1 TTTTTATAA
*
22120670 TTTTTAAAA
1 TTTTTATAA
*
22120679 TATTTAATAA
1 T-TTTTATAA
* *
22120689 -ATTTAT-T
1 TTTTTATAA
* *
22120696 TTTTTGTGA
1 TTTTTATAA
22120705 TTTTTATAA
1 TTTTTATAA
22120714 T
1 T
22120715 AATTTTAATG
Statistics
Matches: 180, Mismatches: 46, Indels: 46
0.66 0.17 0.17
Matches are distributed among these distances:
8 18 0.10
9 72 0.40
10 65 0.36
11 25 0.14
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:22120519 original size:19 final size:19
Alignment explanation
Indices: 22120497--22120561 Score: 78
Period size: 19 Copynumber: 3.3 Consensus size: 19
22120487 TTTATATCAG
*
22120497 TTTTAATATTTTTTATAAT
1 TTTTAATATTTTTTATAAA
*
22120516 TTTTATTA-TTTTTATAGAA
1 TTTTAATATTTTTTATA-AA
22120535 TTTTAATATGTTTTTATAAAA
1 TTTTAATAT-TTTTTAT-AAA
22120556 TTTTAA
1 TTTTAA
22120562 ACATTTTAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
18 8 0.21
19 15 0.38
21 15 0.38
22 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTTAATATTTTTTATAAA
Found at i:22120617 original size:19 final size:18
Alignment explanation
Indices: 22120595--22120644 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
22120585 TTTTATAATT
22120595 TTTTTATAATTTATTAGAA
1 TTTTTATAATTT-TTAGAA
*
22120614 TTTTTAT-ATTTTTATAA
1 TTTTTATAATTTTTAGAA
* *
22120631 TATTTACAATTTTT
1 TTTTTATAATTTTT
22120645 TATAAGTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 10 0.37
18 10 0.37
19 7 0.26
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTTATAATTTTTAGAA
Found at i:22120681 original size:48 final size:46
Alignment explanation
Indices: 22120594--22120684 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 46
22120584 ATTTTATAAT
* *
22120594 TTTTTTATAATTTATTAGAATTTTTATATTTTTATAATATTTACAA
1 TTTTTTATAATTCATTAGAATTTTTATATTTTTAAAATATTTACAA
22120640 TTTTTTATAAGTTCATATAG-ATTTTTATATTTTTTAAAATATTTA
1 TTTTTTATAA-TTCAT-TAGAATTTTTATA-TTTTTAAAATATTTA
22120685 ATAAATTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
46 10 0.25
47 13 0.32
48 17 0.43
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.60
Consensus pattern (46 bp):
TTTTTTATAATTCATTAGAATTTTTATATTTTTAAAATATTTACAA
Found at i:22128830 original size:16 final size:18
Alignment explanation
Indices: 22128804--22128840 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
22128794 GTCATTGTGG
22128804 AAATAATAGCACAT-ATC
1 AAATAATAGCACATAATC
*
22128821 AAAT-ATAGCATATAATC
1 AAATAATAGCACATAATC
22128838 AAA
1 AAA
22128841 CTCAACTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (18 bp):
AAATAATAGCACATAATC
Found at i:22132267 original size:29 final size:28
Alignment explanation
Indices: 22132218--22132284 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 28
22132208 GATGGAGAAG
22132218 AAGTATAAACATATTGAGCCATTTACGCAAA
1 AAGTA-AAA-ATATTGAGCCATTTACG-AAA
*
22132249 AAGTAAAAATATT-AGGCCATTTATGAAA
1 AAGTAAAAATATTGA-GCCATTTACGAAA
22132277 AA-TAAAAA
1 AAGTAAAAA
22132285 AAAGGACAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 6 0.18
28 6 0.18
29 14 0.41
30 3 0.09
31 5 0.15
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.25
Consensus pattern (28 bp):
AAGTAAAAATATTGAGCCATTTACGAAA
Found at i:22132449 original size:31 final size:31
Alignment explanation
Indices: 22132411--22132489 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
22132401 TTAATGAGTG
22132411 ACTGATTTGTTACTTTTCGATAACATTAGAA
1 ACTGATTTGTTACTTTTCGATAACATTAGAA
* * **
22132442 ACTGATTTGTCACTTTTCGATAACGTTAGTG
1 ACTGATTTGTTACTTTTCGATAACATTAGAA
*
22132473 ACTGATTTGTTATTTTT
1 ACTGATTTGTTACTTTT
22132490 TTAAAGTTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.47
Consensus pattern (31 bp):
ACTGATTTGTTACTTTTCGATAACATTAGAA
Found at i:22139964 original size:83 final size:82
Alignment explanation
Indices: 22139812--22140040 Score: 251
Period size: 83 Copynumber: 2.7 Consensus size: 82
22139802 TACACCTGTT
* * * * * * * ***
22139812 CTTTTTGACACAATACTTAAAACTACTCATAACCCTTCTCTAACCGATAAATAATAAGATAATGT
1 CTTTTT-ACACAATGCTTAGAACTACTCAT-TCCCCTCCCCAACCGATAAATAGTAAGATAACAC
*
22139877 GCTTCAGCGCACTCAAACC
64 GCTTCAGCACACTCAAACC
22139896 CTTTTTACACAATGCTTAGAACTACTCATTCTCCCTCCCCAACCGATAAATAGTAAGATAACACG
1 CTTTTTACACAATGCTTAGAACTACTCATTC-CCCTCCCCAACCGATAAATAGTAAGATAACACG
*
22139961 CTTCAGCACACTCGAACC
65 CTTCAGCACACTCAAACC
* * * ** *
22139979 CTTTTTTACAAAATGCTTCGAACTACTCGTTACCCCTCCCCAACTAATAAATAGTAACATAA
1 C-TTTTTACACAATGCTTAGAACTACTCATT-CCCCTCCCCAACCGATAAATAGTAAGATAA
22140041 TATGTTTCAG
Statistics
Matches: 124, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
82 1 0.01
83 64 0.52
84 58 0.47
85 1 0.01
ACGTcount: A:0.35, C:0.29, G:0.08, T:0.28
Consensus pattern (82 bp):
CTTTTTACACAATGCTTAGAACTACTCATTCCCCTCCCCAACCGATAAATAGTAAGATAACACGC
TTCAGCACACTCAAACC
Found at i:22140050 original size:84 final size:83
Alignment explanation
Indices: 22139853--22140051 Score: 247
Period size: 84 Copynumber: 2.4 Consensus size: 83
22139843 ACCCTTCTCT
* * * * *
22139853 AACCGATAAATAATAAGATAATGTGCTTCAGCGCACTCAAACCCTTTTTACACAATGCTTAGAAC
1 AACCAATAAATAGTAAGATAATATGCTTCAGCACACTCAAACCCTTTTTACAAAATGCTTAGAAC
22139918 TACTCATTCTCCCTCCCC
66 TACTCATTCTCCCTCCCC
* * * * *
22139936 AACCGATAAATAGTAAGATAACACGCTTCAGCACACTCGAACCCTTTTTTACAAAATGCTTCGAA
1 AACCAATAAATAGTAAGATAATATGCTTCAGCACACTCAAACCC-TTTTTACAAAATGCTTAGAA
*
22140001 CTACTCGTTAC-CCCTCCCC
65 CTACTCATT-CTCCCTCCCC
* * *
22140020 AACTAATAAATAGTAACATAATATGTTTCAGC
1 AACCAATAAATAGTAAGATAATATGCTTCAGC
22140052 GTTTCAGCGC
Statistics
Matches: 99, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
83 38 0.38
84 60 0.61
85 1 0.01
ACGTcount: A:0.35, C:0.28, G:0.10, T:0.27
Consensus pattern (83 bp):
AACCAATAAATAGTAAGATAATATGCTTCAGCACACTCAAACCCTTTTTACAAAATGCTTAGAAC
TACTCATTCTCCCTCCCC
Found at i:22141246 original size:19 final size:19
Alignment explanation
Indices: 22141219--22141263 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
22141209 ATTAATTAAC
22141219 TTTTT-ATAATTTTATAT-A
1 TTTTTAATAATTTTA-ATGA
22141237 TTTTTAATAATTTTAATGA
1 TTTTTAATAATTTTAATGA
22141256 TTTTTAAT
1 TTTTTAAT
22141264 TTTTTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTTAATAATTTTAATGA
Found at i:22141268 original size:9 final size:9
Alignment explanation
Indices: 22141219--22141270 Score: 54
Period size: 10 Copynumber: 5.8 Consensus size: 9
22141209 ATTAATTAAC
22141219 TTTTT-ATA
1 TTTTTAATA
*
22141227 ATTTTATATA
1 TTTTTA-ATA
22141237 TTTTTAATA
1 TTTTTAATA
*
22141246 ATTTTAATGA
1 TTTTTAAT-A
22141256 TTTTTAAT-
1 TTTTTAATA
22141264 TTTTTAA
1 TTTTTAA
22141271 AAATTAATCA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
8 11 0.30
9 10 0.27
10 16 0.43
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTTAATA
Found at i:22141667 original size:29 final size:28
Alignment explanation
Indices: 22141635--22141799 Score: 89
Period size: 29 Copynumber: 5.6 Consensus size: 28
22141625 CGTTTTTTTA
22141635 GTCACCCAACTATCAATTCTTTTAATTTG
1 GTCACCCAACTATCAATT-TTTTAATTTG
*** * *
22141664 GTCATTTAACTATTGCAATTTTCTT-TTTTA
1 GTCACCCAACTA-T-CAATTTT-TTAATTTG
* * *
22141694 ATCACTCAACTATCAGTTCTTTTAATTTG
1 GTCACCCAACTATCAATT-TTTTAATTTG
** ** *
22141723 GTCACCCAACTATTGCTCTTTTTCTTTTTTT
1 GTCACCCAACTA-T-CAATTTTT-TAATTTG
* *
22141754 GTCACCTAACTATCATTTTTTTTAATTTG
1 GTCACCCAACTATCA-ATTTTTTAATTTG
*
22141783 ATCACCCAACTAATCAA
1 GTCACCCAACT-ATCAA
22141800 AATTGTTTTT
Statistics
Matches: 99, Mismatches: 27, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
28 6 0.06
29 39 0.39
30 29 0.29
31 25 0.25
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (28 bp):
GTCACCCAACTATCAATTTTTTAATTTG
Found at i:22141705 original size:59 final size:59
Alignment explanation
Indices: 22141628--22141794 Score: 201
Period size: 59 Copynumber: 2.8 Consensus size: 59
22141618 TTGTTCCCGT
***
22141628 TTTTTTAGTCACCCAACTATCAATTCTTTTAATTTGGTCATTTAACTATTGC-AATTTTC
1 TTTTTTAGTCA-CCAACTATCAATTCTTTTAATTTGGTCACCCAACTATTGCTAATTTTC
* * **
22141687 TTTTTTAATCACTCAACTATCAGTTCTTTTAATTTGGTCACCCAACTATTGCTCTTTTTC
1 TTTTTTAGTCAC-CAACTATCAATTCTTTTAATTTGGTCACCCAACTATTGCTAATTTTC
* * * *
22141747 TTTTTTTGTCACCTAACTATCATTTTTTTTAATTTGATCACCCAACTA
1 TTTTTTAGTCACC-AACTATCAATTCTTTTAATTTGGTCACCCAACTA
22141795 ATCAAAATTG
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
58 1 0.01
59 46 0.49
60 46 0.49
ACGTcount: A:0.24, C:0.21, G:0.06, T:0.49
Consensus pattern (59 bp):
TTTTTTAGTCACCAACTATCAATTCTTTTAATTTGGTCACCCAACTATTGCTAATTTTC
Found at i:22141777 original size:60 final size:59
Alignment explanation
Indices: 22141627--22141794 Score: 194
Period size: 60 Copynumber: 2.8 Consensus size: 59
22141617 ATTGTTCCCG
* ***
22141627 TTTTTTTAGTCACCCAACTATCAATTCTTTTAATTTGGTCATTTAACTATTGCAATTTTC
1 TTTTTTT-GTCACCTAACTATCAATTCTTTTAATTTGGTCACCCAACTATTGCAATTTTC
** * **
22141687 TTTTTTAATCA-CTCAACTATCAGTTCTTTTAATTTGGTCACCCAACTATTGCTCTTTTTC
1 TTTTTTTGTCACCT-AACTATCAATTCTTTTAATTTGGTCACCCAACTATTGC-AATTTTC
* * *
22141747 TTTTTTTGTCACCTAACTATCATTTTTTTTAATTTGATCACCCAACTA
1 TTTTTTTGTCACCTAACTATCAATTCTTTTAATTTGGTCACCCAACTA
22141795 ATCAAAATTG
Statistics
Matches: 91, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
58 1 0.01
59 37 0.41
60 51 0.56
61 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.06, T:0.49
Consensus pattern (59 bp):
TTTTTTTGTCACCTAACTATCAATTCTTTTAATTTGGTCACCCAACTATTGCAATTTTC
Found at i:22154388 original size:44 final size:44
Alignment explanation
Indices: 22154325--22154412 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
22154315 ATGCCAAGGC
22154325 ACGAGCAACAACCCGGGGTGACAAGCTTGTGTATCCATTCTTAG
1 ACGAGCAACAACCCGGGGTGACAAGCTTGTGTATCCATTCTTAG
22154369 ACGAGCAACAACCCGGGGTGACAAGCTTGTGTATCCATTCTTAG
1 ACGAGCAACAACCCGGGGTGACAAGCTTGTGTATCCATTCTTAG
22154413 TCTGTGTCTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (44 bp):
ACGAGCAACAACCCGGGGTGACAAGCTTGTGTATCCATTCTTAG
Found at i:22156325 original size:14 final size:14
Alignment explanation
Indices: 22156308--22156505 Score: 148
Period size: 14 Copynumber: 14.1 Consensus size: 14
22156298 ATAAACCTGT
*
22156308 ATCTATGAATCCAC
1 ATCTATGAATCTAC
*
22156322 ATCTATGAATCTAT
1 ATCTATGAATCTAC
*
22156336 ATCTATGAATCTGC
1 ATCTATGAATCTAC
*
22156350 ATCTATGAATCCAC
1 ATCTATGAATCTAC
***
22156364 ATCTATGAATCCGT
1 ATCTATGAATCTAC
* * *
22156378 ATATAAGAATCTGC
1 ATCTATGAATCTAC
**
22156392 ATCTATGAATCTGT
1 ATCTATGAATCTAC
22156406 ATCTATGAATCTAC
1 ATCTATGAATCTAC
** *
22156420 ATGGATAAATCTAC
1 ATCTATGAATCTAC
*
22156434 ATCTATGAATCCAC
1 ATCTATGAATCTAC
* * *
22156448 ATGTATGGAT-TCGC
1 ATCTATGAATCT-AC
*
22156462 ATCTATGAATCTGC
1 ATCTATGAATCTAC
* *
22156476 ATGTATAGATTC-AC
1 ATCTAT-GAATCTAC
* *
22156490 ATTTATAAATCTAC
1 ATCTATGAATCTAC
22156504 AT
1 AT
22156506 GTAAGAGTCT
Statistics
Matches: 144, Mismatches: 36, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
13 3 0.02
14 136 0.94
15 5 0.03
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (14 bp):
ATCTATGAATCTAC
Found at i:22156473 original size:42 final size:42
Alignment explanation
Indices: 22156294--22156505 Score: 185
Period size: 42 Copynumber: 5.0 Consensus size: 42
22156284 GACATTCTGT
* * * *
22156294 ATCTATAAACCTGTATCTATGAATCCACATCTATGAATCTAT
1 ATCTATGAATCTGCATCTATGAATCCACATCTATGAATCTAC
***
22156336 ATCTATGAATCTGCATCTATGAATCCACATCTATGAATCCGT
1 ATCTATGAATCTGCATCTATGAATCCACATCTATGAATCTAC
* * ***
22156378 ATATAAGAATCTGCATCTATGAATCTGTATCTATGAATCTAC
1 ATCTATGAATCTGCATCTATGAATCCACATCTATGAATCTAC
** * * * * *
22156420 ATGGATAAATCTACATCTATGAATCCACATGTATGGAT-TCGC
1 ATCTATGAATCTGCATCTATGAATCCACATCTATGAATCT-AC
* * * *
22156462 ATCTATGAATCTGCATGTAT-AGATTCACATTTATAAATCTAC
1 ATCTATGAATCTGCATCTATGA-ATCCACATCTATGAATCTAC
22156504 AT
1 AT
22156506 GTAAGAGTCT
Statistics
Matches: 133, Mismatches: 34, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
41 2 0.02
42 130 0.98
43 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.35
Consensus pattern (42 bp):
ATCTATGAATCTGCATCTATGAATCCACATCTATGAATCTAC
Found at i:22168206 original size:43 final size:43
Alignment explanation
Indices: 22168051--22168207 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
22168041 TGTGTTATCG
* *
22168051 TGTAAGACCACGTCTGGGACGTTGTCATCGAT-TTGAGATTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTA-A-TTACA
* * * * * *
22168095 TGTAAGACCATGTCTGGGACATTAGCGTCG-TATATT-ATTTCG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATAT-TTAATTACA
* *
22168137 TGTAAGACC-CTGTTTGGAACAG-TGGCATCGATATTTAATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTAATTACA
*
22168180 TGGAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
22168208 TGCACGAGCT
Statistics
Matches: 86, Mismatches: 19, Indels: 17
0.70 0.16 0.14
Matches are distributed among these distances:
42 28 0.33
43 30 0.35
44 27 0.31
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTAATTACA
Found at i:22170293 original size:20 final size:20
Alignment explanation
Indices: 22170270--22170373 Score: 73
Period size: 20 Copynumber: 5.2 Consensus size: 20
22170260 AGTACTAGCA
22170270 GCTTGTCTGCAATACTGGTG
1 GCTTGTCTGCAATACTGGTG
*** **
22170290 GCTTGTCCATAATACTGGCA
1 GCTTGTCTGCAATACTGGTG
* * *
22170310 GTTTGTCTGTAATACTAGTG
1 GCTTGTCTGCAATACTGGTG
* * * **
22170330 GCTTATCTACAATACTAGCA
1 GCTTGTCTGCAATACTGGTG
* *
22170350 GTTTATCTGCAATACTGGTG
1 GCTTGTCTGCAATACTGGTG
22170370 GCTT
1 GCTT
22170374 ATCCACAAAT
Statistics
Matches: 61, Mismatches: 23, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (20 bp):
GCTTGTCTGCAATACTGGTG
Found at i:22170331 original size:40 final size:40
Alignment explanation
Indices: 22170262--22170381 Score: 168
Period size: 40 Copynumber: 3.0 Consensus size: 40
22170252 AAGGAGGAAG
* * *
22170262 TACTAGCAGCTTGTCTGCAATACTGGTGGCTTGTCCATAA
1 TACTAGCAGTTTGTCTGCAATACTGGTGGCTTATCCACAA
* * * *
22170302 TACTGGCAGTTTGTCTGTAATACTAGTGGCTTATCTACAA
1 TACTAGCAGTTTGTCTGCAATACTGGTGGCTTATCCACAA
*
22170342 TACTAGCAGTTTATCTGCAATACTGGTGGCTTATCCACAA
1 TACTAGCAGTTTGTCTGCAATACTGGTGGCTTATCCACAA
22170382 ATTGGTATGT
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (40 bp):
TACTAGCAGTTTGTCTGCAATACTGGTGGCTTATCCACAA
Found at i:22174835 original size:26 final size:26
Alignment explanation
Indices: 22174799--22174851 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
22174789 TAGTCCTAAG
22174799 TCCGTTTAGTCAAACAAGGGTTTTAA
1 TCCGTTTAGTCAAACAAGGGTTTTAA
22174825 TCCGTTTAGTCAAACAAGGGTTTTAA
1 TCCGTTTAGTCAAACAAGGGTTTTAA
22174851 T
1 T
22174852 AAGAAATTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (26 bp):
TCCGTTTAGTCAAACAAGGGTTTTAA
Found at i:22174967 original size:28 final size:28
Alignment explanation
Indices: 22174935--22174998 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
22174925 ATGGTTGATG
22174935 AATTTTTTGAA-GCAAAGAGAGTT-GCAGA
1 AATTTTTTGAACG-AAAGAGAGTTCGC-GA
* *
22174963 AATTTTTTGAACGAAATAGGGTTCGCGA
1 AATTTTTTGAACGAAAGAGAGTTCGCGA
22174991 AATTTTTT
1 AATTTTTT
22174999 AAGGATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 29 0.91
29 3 0.09
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (28 bp):
AATTTTTTGAACGAAAGAGAGTTCGCGA
Found at i:22175815 original size:11 final size:11
Alignment explanation
Indices: 22175799--22175832 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
22175789 GCTATGTGTA
22175799 TATATAATTTT
1 TATATAATTTT
*
22175810 TATATATTTTT
1 TATATAATTTT
22175821 TA-ATAATTTT
1 TATATAATTTT
22175831 TA
1 TA
22175833 AAAATATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATATAATTTT
Found at i:22179755 original size:59 final size:59
Alignment explanation
Indices: 22179642--22179767 Score: 141
Period size: 59 Copynumber: 2.1 Consensus size: 59
22179632 TCATTTTTTA
* **
22179642 GAATTTTTAGTATTAGAACTAAACTAACAAATTTTGTAATGTTGATGACCAAATTTATT
1 GAATTTTTAGAATTAGAACTAAACTAACAAATTTTGTAACATTGATGACCAAATTTATT
* * * *
22179701 GCATTTTTAGAATTAGAACTAATA-TGAC-AATTTTGTAAACATTGATGGA-TAAATTTGTT
1 GAATTTTTAGAATTAGAACTAA-ACTAACAAATTTTGT-AACATTGAT-GACCAAATTTATT
22179760 GAATTTTT
1 GAATTTTT
22179768 TAGCTATAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
58 8 0.14
59 45 0.80
60 3 0.05
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.42
Consensus pattern (59 bp):
GAATTTTTAGAATTAGAACTAAACTAACAAATTTTGTAACATTGATGACCAAATTTATT
Found at i:22184904 original size:26 final size:25
Alignment explanation
Indices: 22184866--22184916 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
22184856 AAAATGTTTT
* *
22184866 TTTTTGCAAAAATAATATTATATTA
1 TTTTTGAAAAAATAATATGATATTA
*
22184891 TTTTTGAAAGAAATATTATGATATTA
1 TTTTTGAAA-AAATAATATGATATTA
22184917 AACTATTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (25 bp):
TTTTTGAAAAAATAATATGATATTA
Found at i:22194222 original size:23 final size:22
Alignment explanation
Indices: 22194196--22194238 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
22194186 TGTTATTAAT
22194196 ATTTATATTTATTATTTTTTGTA
1 ATTTATATTT-TTATTTTTTGTA
*
22194219 ATTTTTATTTTTATTTTTTG
1 ATTTATATTTTTATTTTTTG
22194239 AGTTAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (22 bp):
ATTTATATTTTTATTTTTTGTA
Found at i:22198502 original size:45 final size:45
Alignment explanation
Indices: 22198435--22198521 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
22198425 ATGATGTTAC
* * * * *
22198435 GTATTTAATATATTTTTGAAAAATGGAATGTTGTTAAATTATTAT
1 GTATTTAACATATTGTTAAAAAATGAAATATTGTTAAATTATTAT
*
22198480 GTATTTAGCATATTGTTAAAAAATGAAATATTGTTAAATTAT
1 GTATTTAACATATTGTTAAAAAATGAAATATTGTTAAATTAT
22198522 GAATTGAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.46
Consensus pattern (45 bp):
GTATTTAACATATTGTTAAAAAATGAAATATTGTTAAATTATTAT
Found at i:22198614 original size:24 final size:24
Alignment explanation
Indices: 22198582--22198627 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
22198572 GTTCTGTGGT
*
22198582 AAAGGATGAATTGACGACAAATGC
1 AAAGGATGAACTGACGACAAATGC
*
22198606 AAAGGATGAACTGACGGCAAAT
1 AAAGGATGAACTGACGACAAAT
22198628 TATCCAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.13, G:0.26, T:0.15
Consensus pattern (24 bp):
AAAGGATGAACTGACGACAAATGC
Found at i:22198789 original size:21 final size:21
Alignment explanation
Indices: 22198712--22198862 Score: 79
Period size: 21 Copynumber: 7.2 Consensus size: 21
22198702 TATTAACTCA
*
22198712 TATGAGTTTTAGTTTAACCCT
1 TATGAGTTTCAGTTTAACCCT
* * * * *
22198733 TATGGGTTTCCGTTCAGCTCT
1 TATGAGTTTCAGTTTAACCCT
* * *
22198754 TTTAAGTTTTAGTTTAACCCT
1 TATGAGTTTCAGTTTAACCCT
* * **
22198775 TATGAGTTTCCGTTTAGCTTT
1 TATGAGTTTCAGTTTAACCCT
* * *
22198796 TTTGAGCTTCAATTTAACCCT
1 TATGAGTTTCAGTTTAACCCT
* ** * *
22198817 TATGGGTTTTTGTTTAGCTCT
1 TATGAGTTTCAGTTTAACCCT
* *
22198838 TACGAGCTTCCA-TTTAACCCT
1 TATGAG-TTTCAGTTTAACCCT
22198859 TATG
1 TATG
22198863 GGGTTCTGCT
Statistics
Matches: 85, Mismatches: 44, Indels: 2
0.65 0.34 0.02
Matches are distributed among these distances:
21 83 0.98
22 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.47
Consensus pattern (21 bp):
TATGAGTTTCAGTTTAACCCT
Found at i:22198832 original size:42 final size:42
Alignment explanation
Indices: 22198724--22198864 Score: 174
Period size: 42 Copynumber: 3.4 Consensus size: 42
22198714 TGAGTTTTAG
* * * * *
22198724 TTTAACCCTTATGGGTTTCCGTTCAGCTCTTTTAAGTTTTAG
1 TTTAACCCTTATGGGTTTCCGTTTAGCTCTTTTGAGCTTCAA
* *
22198766 TTTAACCCTTATGAGTTTCCGTTTAGCTTTTTTGAGCTTCAA
1 TTTAACCCTTATGGGTTTCCGTTTAGCTCTTTTGAGCTTCAA
** ** *
22198808 TTTAACCCTTATGGGTTTTTGTTTAGCTCTTACGAGCTTCCA
1 TTTAACCCTTATGGGTTTCCGTTTAGCTCTTTTGAGCTTCAA
22198850 TTTAACCCTTATGGG
1 TTTAACCCTTATGGG
22198865 GTTCTGCTTA
Statistics
Matches: 85, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 85 1.00
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (42 bp):
TTTAACCCTTATGGGTTTCCGTTTAGCTCTTTTGAGCTTCAA
Found at i:22198889 original size:42 final size:42
Alignment explanation
Indices: 22198799--22198881 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
22198789 TAGCTTTTTT
* * * *
22198799 GAGCTTCAATTTAACCCTTATGGGTTTTTGTTTAGCTCTTAC
1 GAGCTTCAATTTAACCCTTATGGGGTTCTGCTTAGCACTTAC
* *
22198841 GAGCTTCCATTTAACCCTTATGGGGTTCTGCTTATCACTTA
1 GAGCTTCAATTTAACCCTTATGGGGTTCTGCTTAGCACTTA
22198882 TGTGCTTCTG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (42 bp):
GAGCTTCAATTTAACCCTTATGGGGTTCTGCTTAGCACTTAC
Found at i:22199944 original size:30 final size:28
Alignment explanation
Indices: 22199910--22199965 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 28
22199900 GTGATTAAAT
22199910 AAAATCGACA-CAAGCAGAATTTAAAAGAAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAAA
*
22199940 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
22199966 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 8 0.33
29 2 0.08
30 10 0.42
31 4 0.17
ACGTcount: A:0.61, C:0.11, G:0.14, T:0.14
Consensus pattern (28 bp):
AAAATCGACAGCAAGAAATTAAAAGAAA
Found at i:22201907 original size:20 final size:19
Alignment explanation
Indices: 22201879--22201928 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
22201869 CCACTCTCAA
22201879 TCTCTTTTTTCTCTTTTTCAT
1 TCTC-TTTTTCT-TTTTTCAT
*
22201900 TCTCTTTTTCTTTTTTGAT
1 TCTCTTTTTCTTTTTTCAT
22201919 T-TCTTTTTCT
1 TCTCTTTTTCT
22201929 GTCTTTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 7 0.25
21 4 0.14
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (19 bp):
TCTCTTTTTCTTTTTTCAT
Found at i:22201913 original size:18 final size:17
Alignment explanation
Indices: 22201885--22201928 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
22201875 TCAATCTCTT
22201885 TTTTCTCTTTTTCATTCTC
1 TTTT-TCTTTTTCATT-TC
*
22201904 TTTTTCTTTTTTGATTTC
1 TTTTTC-TTTTTCATTTC
22201922 TTTTTCT
1 TTTTTCT
22201929 GTCTTTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 1 0.04
18 10 0.43
19 12 0.52
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTTTCTTTTTCATTTC
Found at i:22203577 original size:30 final size:28
Alignment explanation
Indices: 22203543--22203598 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 28
22203533 GTGATTAAAT
22203543 AAAATCGACA-CAAGCAGAATTTAAAAGAAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAAA
*
22203573 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
22203599 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 8 0.33
29 2 0.08
30 10 0.42
31 4 0.17
ACGTcount: A:0.61, C:0.11, G:0.14, T:0.14
Consensus pattern (28 bp):
AAAATCGACAGCAAGAAATTAAAAGAAA
Found at i:22224492 original size:18 final size:17
Alignment explanation
Indices: 22224459--22224493 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
22224449 ATTTAAGTTA
*
22224459 TGATAAAAACATATTAT
1 TGATAAAAAAATATTAT
22224476 TGATAAAAAAATAATTAT
1 TGATAAAAAAAT-ATTAT
22224494 GTTGGATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (17 bp):
TGATAAAAAAATATTAT
Found at i:22230969 original size:67 final size:67
Alignment explanation
Indices: 22230861--22230991 Score: 226
Period size: 67 Copynumber: 2.0 Consensus size: 67
22230851 GTAATTGTCA
*
22230861 TTGCAGAGGATTTAGCCTAGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTC
1 TTGCAGAGGATTTAGCCTAGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTATGCTC
22230926 TC
66 TC
* * *
22230928 TTGCAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTTGCGGGAGTATGCT
1 TTGCAGAGGATTTAGCCTAGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTATGCT
22230992 TTCTGAATTG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (67 bp):
TTGCAGAGGATTTAGCCTAGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTATGCTC
TC
Found at i:22244234 original size:263 final size:261
Alignment explanation
Indices: 22243769--22244292 Score: 789
Period size: 263 Copynumber: 2.0 Consensus size: 261
22243759 CACCTTTTCT
* *
22243769 TATGAACAGAATTACTATCACGGTAATAGTCGTGCCCACGACTCGTGACAAGCTTGCTGAAAAAA
1 TATGAACAGAATTACTATCACAGTAATAGTCCTGCCCACGACTCGTGACAAGCTTGCTGAAAAAA
* ** *
22243834 AAGAAGTAAAATAAATGAGGGAATGAAAATGTTTGGGAAGTCAATAAAATGTAATAGCAGCAAAT
66 AAGAAATAAAATAAATGAGGGAATGAAAATGTTTGAAAAGTAAATAAAATGTAATAGCAGCAAAT
* * * *
22243899 AAAAATTATATTAATCGTAAATAAAAAAAGTAAATGGAGTTTAACTTCATAAGCAATAATATAAA
131 AAAAATTATATTAATCGAAAACAAAAAAAGTAAATAGAGTTGAACTTCATAAGCAATAATATAAA
*
22243964 GTCTTAGCCTTAAACTAGGTTAATTTTAGTTCTAAATCGATCATTGAAAATGAGTTTTCTCCTCC
196 GTCTTAGCCTTAAACTAGGTTAATTCTAGTTCTAAATCGATCATTGAAAATGAGTTTTCTCCTCC
22244029 A
261 A
* *
22244030 TATGAACAGAATTACTGTCGCAGTAATAGTCCTGCCCACGACTCGTG-CTAAGCTTGCTGAAAAA
1 TATGAACAGAATTACTATCACAGTAATAGTCCTGCCCACGACTCGTGAC-AAGCTTGCTGAAAAA
* *
22244094 AAAGAAATAAAATAAATAAGGGGGAATGAAAATGTTTGAAAAGTAAATAAAATGTAATAGTAGCA
65 AAAGAAATAAAATAAAT--GAGGGAATGAAAATGTTTGAAAAGTAAATAAAATGTAATAGCAGCA
* * * *
22244159 AATAACAATTATATTAATCGAAAACAAAATAAGTAAATAGAGTTGGACTTCGTAAGCAATAATAT
128 AATAAAAATTATATTAATCGAAAACAAAAAAAGTAAATAGAGTTGAACTTCATAAGCAATAATAT
* * * * * *
22244224 AAAGTCTTAGCCTTAGACTCGGTTAATTCTGGTTCTGAATCGATCCTTGAAAATGAGTTTTCTCT
193 AAAGTCTTAGCCTTAAACTAGGTTAATTCTAGTTCTAAATCGATCATTGAAAATGAGTTTTCTCC
22244289 TCCA
258 TCCA
22244293 CACCATAAGC
Statistics
Matches: 235, Mismatches: 25, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
260 1 0.00
261 74 0.31
263 160 0.68
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (261 bp):
TATGAACAGAATTACTATCACAGTAATAGTCCTGCCCACGACTCGTGACAAGCTTGCTGAAAAAA
AAGAAATAAAATAAATGAGGGAATGAAAATGTTTGAAAAGTAAATAAAATGTAATAGCAGCAAAT
AAAAATTATATTAATCGAAAACAAAAAAAGTAAATAGAGTTGAACTTCATAAGCAATAATATAAA
GTCTTAGCCTTAAACTAGGTTAATTCTAGTTCTAAATCGATCATTGAAAATGAGTTTTCTCCTCC
A
Found at i:22248507 original size:26 final size:25
Alignment explanation
Indices: 22248478--22248540 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
22248468 TCTTGTATAC
*
22248478 ATTAATATTATTAAGATAAGTATTAA
1 ATTAATATTATTAAGA-AACTATTAA
**
22248504 ATTAA-ATTTATTATTAAACTATTAA
1 ATTAATA-TTATTAAGAAACTATTAA
*
22248529 AATAATATTATT
1 ATTAATATTATT
22248541 TTTGGAATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
25 18 0.58
26 13 0.42
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (25 bp):
ATTAATATTATTAAGAAACTATTAA
Found at i:22249646 original size:23 final size:23
Alignment explanation
Indices: 22249620--22249666 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
22249610 AGGATATCAT
*
22249620 TAACTCTTTAATTGAGCTATGAA
1 TAACTCTTTAATTGAACTATGAA
22249643 TAACTCTTTAATTGAACTATGAA
1 TAACTCTTTAATTGAACTATGAA
22249666 T
1 T
22249667 TCCACTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (23 bp):
TAACTCTTTAATTGAACTATGAA
Found at i:22258788 original size:22 final size:22
Alignment explanation
Indices: 22258761--22258804 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
22258751 AAAGATAAAA
22258761 AAATATATATTATTCTTTTATC
1 AAATATATATTATTCTTTTATC
22258783 AAATATATATTATTCTTTTATC
1 AAATATATATTATTCTTTTATC
22258805 CAACTATGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (22 bp):
AAATATATATTATTCTTTTATC
Found at i:22259421 original size:52 final size:52
Alignment explanation
Indices: 22259365--22259470 Score: 131
Period size: 52 Copynumber: 2.0 Consensus size: 52
22259355 ACGACACTGG
* * * **
22259365 CCTTACTGTTGATCCGTGTTGCGACCACAATAAGTGCTTGTTGTGACATTGA
1 CCTTACTGTTGATCCATGTTACGACCACAACAAGTGCTTGTTGCAACATTGA
* * * *
22259417 CCTTATTGTTGGTCTATGTTATGACCACAACAAGTGCTTGTTGCAACATTGA
1 CCTTACTGTTGATCCATGTTACGACCACAACAAGTGCTTGTTGCAACATTGA
22259469 CC
1 CC
22259471 CCATTGAGTC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.35
Consensus pattern (52 bp):
CCTTACTGTTGATCCATGTTACGACCACAACAAGTGCTTGTTGCAACATTGA
Found at i:22263786 original size:16 final size:16
Alignment explanation
Indices: 22263761--22263861 Score: 157
Period size: 16 Copynumber: 6.3 Consensus size: 16
22263751 TTGGTTTGCT
*
22263761 GTAATAGAATAGAGGC
1 GTAATGGAATAGAGGC
**
22263777 GTAATGGAATAGAAAC
1 GTAATGGAATAGAGGC
*
22263793 GTAATGGTATAGAGGC
1 GTAATGGAATAGAGGC
*
22263809 GTAATGGAATAGAGAC
1 GTAATGGAATAGAGGC
22263825 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
22263841 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
22263857 GTAAT
1 GTAAT
22263862 AGCAATTCAA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 76 1.00
ACGTcount: A:0.41, C:0.06, G:0.33, T:0.21
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:22264035 original size:11 final size:11
Alignment explanation
Indices: 22264016--22264048 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
22264006 TTAATATAAA
22264016 TAATAAATAATT
1 TAAT-AATAATT
22264028 TAATAATAATT
1 TAATAATAATT
22264039 TAA-AATAATT
1 TAATAATAATT
22264049 ATTATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 10 0.48
12 4 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATAATAATT
Found at i:22264069 original size:24 final size:21
Alignment explanation
Indices: 22263993--22264105 Score: 79
Period size: 19 Copynumber: 5.1 Consensus size: 21
22263983 GTTATTAAAT
22263993 TTTAATAAGATTATTAATATAA
1 TTTAATAA-ATTATTAATATAA
* *
22264015 -ATAATAAATAATTTAATAATAA
1 TTTAATAAATTA-TTAAT-ATAA
22264037 TTTAAAATAATTATTATTAAATATAA
1 TTT--AATAA--ATTATT-AATATAA
* *
22264063 TTTAATAAA-AAAT-ATATAA
1 TTTAATAAATTATTAATATAA
*
22264082 TTTAATAAATTTCTTAATATAA
1 TTTAATAAA-TTATTAATATAA
22264104 TT
1 TT
22264106 ATTCTTATAT
Statistics
Matches: 71, Mismatches: 9, Indels: 22
0.70 0.09 0.22
Matches are distributed among these distances:
19 15 0.21
20 3 0.04
21 14 0.20
22 13 0.18
23 1 0.01
24 5 0.07
25 5 0.07
26 9 0.13
27 6 0.08
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (21 bp):
TTTAATAAATTATTAATATAA
Found at i:22264082 original size:56 final size:57
Alignment explanation
Indices: 22264006--22264134 Score: 147
Period size: 56 Copynumber: 2.3 Consensus size: 57
22263996 AATAAGATTA
22264006 TTAATATAAATAATAAATAATTTAAT-AATAAT-TTAAAATAATTATTATTAAATATAAT
1 TTAATA-AAATAATAAATAATTTAATAAAT-ATCTTAAAATAATTATTATTAAAT-TAAT
* * * * *
22264064 TTAATAAAA-AATATATAATTTAATAAATTTCTTAATATAATTATTCTTATATTAAT
1 TTAATAAAATAATAAATAATTTAATAAATATCTTAAAATAATTATTATTAAATTAAT
* *
22264120 TTACTAAAATCATAA
1 TTAATAAAATAATAA
22264135 TATATAATAA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
56 27 0.45
57 27 0.45
58 6 0.10
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (57 bp):
TTAATAAAATAATAAATAATTTAATAAATATCTTAAAATAATTATTATTAAATTAAT
Found at i:22264554 original size:77 final size:77
Alignment explanation
Indices: 22264427--22264588 Score: 306
Period size: 77 Copynumber: 2.1 Consensus size: 77
22264417 ATTTTTTGTC
*
22264427 CACTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATT
1 CACTTTAATAACTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATT
22264492 TTATTGACATAA
66 TTATTGACATAA
*
22264504 CACTTTAATAACTGAACTTGACACTTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATT
1 CACTTTAATAACTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATT
22264569 TTATTGACATAA
66 TTATTGACATAA
22264581 CACTTTAA
1 CACTTTAA
22264589 GATTGTCTCA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
77 83 1.00
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (77 bp):
CACTTTAATAACTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATT
TTATTGACATAA
Found at i:22265857 original size:5 final size:5
Alignment explanation
Indices: 22265839--22265880 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
22265829 CCACTTTTTT
* *
22265839 GGCCC GGGCCC GACCC GACCC GGCCC GGCCC GGCCC GGCCC G
1 GGCCC -GGCCC GGCCC GGCCC GGCCC GGCCC GGCCC GGCCC G
22265881 ATATAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.05, C:0.57, G:0.38, T:0.00
Consensus pattern (5 bp):
GGCCC
Found at i:22265933 original size:18 final size:17
Alignment explanation
Indices: 22265899--22265931 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
22265889 AACATATTTA
22265899 TTTTTTAATTTTAAAAT
1 TTTTTTAATTTTAAAAT
22265916 TTTTTTAATTTTAAAA
1 TTTTTTAATTTTAAAA
22265932 ATAAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTTTAATTTTAAAAT
Found at i:22265940 original size:22 final size:24
Alignment explanation
Indices: 22265912--22265956 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
22265902 TTTAATTTTA
22265912 AAATTTTTT-TAATT-TTAAAAAT
1 AAATTTTTTGTAATTATTAAAAAT
*
22265934 AAATTTTTTGTATTTATTAAAAA
1 AAATTTTTTGTAATTATTAAAAA
22265957 AATAGGCCGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 4 0.20
24 7 0.35
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
AAATTTTTTGTAATTATTAAAAAT
Found at i:22266883 original size:31 final size:31
Alignment explanation
Indices: 22266845--22266906 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
22266835 AGTTCCTTCA
22266845 AACAACACCCTTAGCAACAAAAATTAAGTTT
1 AACAACACCCTTAGCAACAAAAATTAAGTTT
22266876 AACAACACCCTTAGCAACAAAAATTAAGTTT
1 AACAACACCCTTAGCAACAAAAATTAAGTTT
22266907 TCTTTTTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.23, G:0.06, T:0.23
Consensus pattern (31 bp):
AACAACACCCTTAGCAACAAAAATTAAGTTT
Found at i:22267583 original size:15 final size:15
Alignment explanation
Indices: 22267563--22267591 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22267553 ATGAAGGAAA
22267563 AAAGGGAAATAAGAT
1 AAAGGGAAATAAGAT
22267578 AAAGGGAAATAAGA
1 AAAGGGAAATAAGA
22267592 AGGAAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.28, T:0.10
Consensus pattern (15 bp):
AAAGGGAAATAAGAT
Found at i:22272133 original size:22 final size:20
Alignment explanation
Indices: 22272087--22272157 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 20
22272077 ATATTATAAT
22272087 AAAAGAAAAGAAATAGAAAAAGA
1 AAAAG-AAAG-AA-AGAAAAAGA
22272110 AAAAGAAAGAAAGAACAAACGA
1 AAAAGAAAGAAAGAA-AAA-GA
*
22272132 AACAGAAAGGAAA-AAGAAAGA
1 AAAAGAAA-GAAAGAA-AAAGA
22272153 AAAAG
1 AAAAG
22272158 GAATAAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
20 4 0.10
21 11 0.26
22 18 0.43
23 9 0.21
ACGTcount: A:0.75, C:0.04, G:0.20, T:0.01
Consensus pattern (20 bp):
AAAAGAAAGAAAGAAAAAGA
Found at i:22272149 original size:11 final size:10
Alignment explanation
Indices: 22272105--22272157 Score: 61
Period size: 11 Copynumber: 5.0 Consensus size: 10
22272095 AGAAATAGAA
22272105 AAAGAAAAAG
1 AAAGAAAAAG
*
22272115 AAAGAAAGAAC
1 AAAGAAA-AAG
*
22272126 AAACGAAACAG
1 AAA-GAAAAAG
22272137 AAAGGAAAAAG
1 AAA-GAAAAAG
22272148 AAAGAAAAAG
1 AAAGAAAAAG
22272158 GAATAAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 14 0.39
11 18 0.50
12 4 0.11
ACGTcount: A:0.74, C:0.06, G:0.21, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:22272174 original size:28 final size:29
Alignment explanation
Indices: 22272115--22272176 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
22272105 AAAGAAAAAG
*
22272115 AAAGAAAGAACAAACGAAACAGAAAGGAA
1 AAAGAAAGAACAAACGAAACAAAAAGGAA
*
22272144 AAAGAAAGAA-AAAGGAATA-AAAAAGGAA
1 AAAGAAAGAACAAACGAA-ACAAAAAGGAA
22272172 AAAGA
1 AAAGA
22272177 CCAAATTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.73, C:0.05, G:0.21, T:0.02
Consensus pattern (29 bp):
AAAGAAAGAACAAACGAAACAAAAAGGAA
Found at i:22272529 original size:40 final size:40
Alignment explanation
Indices: 22272483--22272561 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
22272473 AGGTGCCAAT
**
22272483 TTACTTTGGTTTAGCCGATGAGACACTGGGTGTCAAACTA
1 TTACTTTGAATTAGCCGATGAGACACTGGGTGTCAAACTA
* * *
22272523 TTACTTTGAATTATCCGATGAGGCATTGGGTGTCAAACT
1 TTACTTTGAATTAGCCGATGAGACACTGGGTGTCAAACT
22272562 GGTGTGTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (40 bp):
TTACTTTGAATTAGCCGATGAGACACTGGGTGTCAAACTA
Found at i:22285516 original size:40 final size:40
Alignment explanation
Indices: 22285412--22285704 Score: 202
Period size: 40 Copynumber: 7.3 Consensus size: 40
22285402 ACTAGCATTT
* *
22285412 AGCCTACTAAGCACTAA--TTGATAAATTCACCAGCACAA
1 AGCCTGCTAAGCACTAAGCTTGATAAATACACCAGCACAA
* ** * * *
22285450 AGCCCTGCTAGGCAC-AACGCCCGATAACTACACCGGCAGAA
1 AG-CCTGCTAAGCACTAA-GCTTGATAAATACACCAGCACAA
* * * *
22285491 AGCCTGCTAAACACTAAGCTTGATAAATTCATCAACACAA
1 AGCCTGCTAAGCACTAAGCTTGATAAATACACCAGCACAA
* * * * *
22285531 AGCCTGCTAGGCACAAAACCTT-ATAACTACACCATCACAA
1 AGCCTGCTAAGCAC-TAAGCTTGATAAATACACCAGCACAA
* * * * *
22285571 AGCTTGCTAAACATTAAGCTTGATAAATTCACCAGCACGA
1 AGCCTGCTAAGCACTAAGCTTGATAAATACACCAGCACAA
* ** *
22285611 AGCCTGGTGGGCAC-AGAGCTTGATAACTACACC-GACACAA
1 AGCCTGCTAAGCACTA-AGCTTGATAAATACACCAG-CACAA
* * * * *
22285651 AGCTTGTTAAGCACTAAGCTTGATAAATTCATCGGCACAA
1 AGCCTGCTAAGCACTAAGCTTGATAAATACACCAGCACAA
* *
22285691 AACCTGCTAGGCAC
1 AGCCTGCTAAGCAC
22285705 AAAGTCCGAT
Statistics
Matches: 188, Mismatches: 56, Indels: 20
0.71 0.21 0.08
Matches are distributed among these distances:
38 4 0.02
39 17 0.09
40 141 0.75
41 26 0.14
ACGTcount: A:0.37, C:0.28, G:0.16, T:0.19
Consensus pattern (40 bp):
AGCCTGCTAAGCACTAAGCTTGATAAATACACCAGCACAA
Found at i:22285716 original size:80 final size:79
Alignment explanation
Indices: 22285429--22285716 Score: 344
Period size: 80 Copynumber: 3.6 Consensus size: 79
22285419 TAAGCACTAA
* * *
22285429 TTGATAAATTCACCAGCACAAAGCCCTGCTAGGCACAACGCCCGATAACTACACCGGCAGAAAGC
1 TTGATAAATTCACCAGCACAAAG-CCTGCTAGGCACAAAG-CCGATAACTACACCGACACAAAGC
*
22285494 CTGCTAAACACTAAGC
64 TTGCTAAACACTAAGC
* * * *
22285510 TTGATAAATTCATCAACACAAAGCCTGCTAGGCACAAAACCTTATAACTACACC-ATCACAAAGC
1 TTGATAAATTCACCAGCACAAAGCCTGCTAGGCACAAAGCC-GATAACTACACCGA-CACAAAGC
*
22285574 TTGCTAAACATTAAGC
64 TTGCTAAACACTAAGC
* * * * *
22285590 TTGATAAATTCACCAGCACGAAGCCTGGTGGGCACAGAGCTTGATAACTACACCGACACAAAGCT
1 TTGATAAATTCACCAGCACAAAGCCTGCTAGGCACAAAGC-CGATAACTACACCGACACAAAGCT
* *
22285655 TGTTAAGCACTAAGC
65 TGCTAAACACTAAGC
* * *
22285670 TTGATAAATTCATCGGCACAAAACCTGCTAGGCACAAAGTCCGATAA
1 TTGATAAATTCACCAGCACAAAGCCTGCTAGGCACAAAG-CCGATAA
22285717 TTTCATAACA
Statistics
Matches: 173, Mismatches: 29, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
79 2 0.01
80 148 0.86
81 23 0.13
ACGTcount: A:0.37, C:0.27, G:0.16, T:0.19
Consensus pattern (79 bp):
TTGATAAATTCACCAGCACAAAGCCTGCTAGGCACAAAGCCGATAACTACACCGACACAAAGCTT
GCTAAACACTAAGC
Found at i:22286927 original size:15 final size:14
Alignment explanation
Indices: 22286903--22286945 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
22286893 GTCACATCCC
22286903 AAAATCTGGGTTAGTA
1 AAAAT-TGGGTTA-TA
22286919 AAAATTGGGTTCATA
1 AAAATTGGGTT-ATA
*
22286934 AAAATTAGGTTA
1 AAAATTGGGTTA
22286946 ATGAACCGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 1 0.04
15 18 0.72
16 6 0.24
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.33
Consensus pattern (14 bp):
AAAATTGGGTTATA
Found at i:22288860 original size:24 final size:24
Alignment explanation
Indices: 22288780--22288854 Score: 114
Period size: 24 Copynumber: 3.1 Consensus size: 24
22288770 GAGGAAAAAT
*
22288780 TGGTGGCTTCATCCACAACCTACG
1 TGGTGGCTTCATCCACAACCTACA
* *
22288804 TGGTGGCTTCCTCCACGACCTACA
1 TGGTGGCTTCATCCACAACCTACA
*
22288828 TGGTGGCTTCGTCCACAACCTACA
1 TGGTGGCTTCATCCACAACCTACA
22288852 TGG
1 TGG
22288855 CAGCTTATCT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.19, C:0.33, G:0.23, T:0.25
Consensus pattern (24 bp):
TGGTGGCTTCATCCACAACCTACA
Found at i:22290548 original size:24 final size:24
Alignment explanation
Indices: 22290521--22290601 Score: 108
Period size: 24 Copynumber: 3.4 Consensus size: 24
22290511 GAAGAAGAAT
* *
22290521 TGGTGGCTTTGTCCACAACCTACG
1 TGGTGGCTTCGTCCACAACCTACA
* *
22290545 TGGTGGCTTCCTCCACGACCTACA
1 TGGTGGCTTCGTCCACAACCTACA
*
22290569 TGGTGGCTTCGTTCACAACCTACA
1 TGGTGGCTTCGTCCACAACCTACA
*
22290593 TGGTAGCTT
1 TGGTGGCTT
22290602 ATTTGCAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.17, C:0.30, G:0.23, T:0.30
Consensus pattern (24 bp):
TGGTGGCTTCGTCCACAACCTACA
Found at i:22291981 original size:11 final size:11
Alignment explanation
Indices: 22291967--22291992 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
22291957 ATTTTTTTAA
22291967 TTTTAAAATAC
1 TTTTAAAATAC
22291978 TTTTAAAATAC
1 TTTTAAAATAC
22291989 TTTT
1 TTTT
22291993 TTTAAAATTT
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:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:22292036 original size:13 final size:11
Alignment explanation
Indices: 22291967--22292074 Score: 51
Period size: 11 Copynumber: 10.4 Consensus size: 11
22291957 ATTTTTTTAA
*
22291967 TTTTAAAATAC
1 TTTTAAAATAT
22291978 TTTTAAAATACTTT
1 TTTTAAAATA---T
22291992 TTTTAAAAT-T
1 TTTTAAAATAT
*
22292002 TTTT----TAA
1 TTTTAAAATAT
22292009 TTTTAAAATAT
1 TTTTAAAATAT
22292020 TTTTAAAATACAT
1 TTTTAAAAT--AT
22292033 TTTT--AAT-T
1 TTTTAAAATAT
*
22292041 TTTT----TAA
1 TTTTAAAATAT
22292048 TTTTAAAATAT
1 TTTTAAAATAT
22292059 TTTTAAAATAAT
1 TTTTAAAAT-AT
22292071 TTTT
1 TTTT
22292075 TTTAATTTTT
Statistics
Matches: 76, Mismatches: 5, Indels: 31
0.68 0.04 0.28
Matches are distributed among these distances:
6 2 0.03
7 8 0.11
8 5 0.07
10 5 0.07
11 35 0.46
12 6 0.08
13 6 0.08
14 9 0.12
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:22292085 original size:39 final size:39
Alignment explanation
Indices: 22291950--22292086 Score: 161
Period size: 39 Copynumber: 3.4 Consensus size: 39
22291940 AATATTTTTA
* * *
22291950 TTTTTTTATTTTTTTAATTTTAAAATACTTTTAAAATACT
1 TTTTTTTA-ATTTTTAATTTTAAAATATTTTTAAAATAAT
*
22291990 TTTTTTAAAATTTTTTTAATTTTAAAATATTTTTAAAATACAT
1 TTTTTT-TAA--TTTTTAATTTTAAAATATTTTTAAAATA-AT
*
22292033 TTTTAATT--TTTTTAATTTTAAAATATTTTTAAAATAAT
1 TTTT-TTTAATTTTTAATTTTAAAATATTTTTAAAATAAT
22292071 TTTTTTTAATTTTTAA
1 TTTTTTTAATTTTTAA
22292087 AATAAATTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
37 2 0.02
38 6 0.07
39 35 0.42
40 6 0.07
41 1 0.01
42 27 0.33
43 5 0.06
44 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (39 bp):
TTTTTTTAATTTTTAATTTTAAAATATTTTTAAAATAAT
Found at i:22292104 original size:22 final size:21
Alignment explanation
Indices: 22292056--22292104 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
22292046 AATTTTAAAA
**
22292056 TATTTTTAAAATAATTTTTTT
1 TATTTTTAAAATAATTTTTGG
22292077 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAAT-AATTTTTGG
22292100 TATTT
1 TATTT
22292105 ATTTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 15 0.62
23 8 0.33
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
TATTTTTAAAATAATTTTTGG
Found at i:22297533 original size:3 final size:3
Alignment explanation
Indices: 22297525--22297557 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
22297515 AGGCAAGCAA
22297525 GAT GAT GAT GAT GAT GAT GAT GA- GAT AGAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT -GAT GAT
22297558 TTTGGGTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:22298414 original size:54 final size:56
Alignment explanation
Indices: 22298350--22298458 Score: 195
Period size: 54 Copynumber: 2.0 Consensus size: 56
22298340 AATGTTGTTT
22298350 CTGGTTAAGTGTAATTGACTCCATTTTCTTTCTA-CAAAAA-AAAAAGATTCAAAA
1 CTGGTTAAGTGTAATTGACTCCATTTTCTTTCTACCAAAAAGAAAAAGATTCAAAA
*
22298404 CTGGTTAAGTGTAATTGACTCTATTTTCTTTCTACCAAAAAGAAAAAGATTCAAA
1 CTGGTTAAGTGTAATTGACTCCATTTTCTTTCTACCAAAAAGAAAAAGATTCAAA
22298459 TCTTGTTATT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
54 33 0.63
55 6 0.12
56 13 0.25
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (56 bp):
CTGGTTAAGTGTAATTGACTCCATTTTCTTTCTACCAAAAAGAAAAAGATTCAAAA
Found at i:22298487 original size:56 final size:54
Alignment explanation
Indices: 22298350--22298485 Score: 139
Period size: 54 Copynumber: 2.5 Consensus size: 54
22298340 AATGTTGTTT
* * **
22298350 CTGGTTAAGTGTAATTGACTCCATTTTCTTTCTACAAAAAAAAAAGATTCAAAA
1 CTGGTTAAGTATAATCGACTATATTTTCTTTCTACAAAAAAAAAAGATTCAAAA
* * * *
22298404 CTGGTTAAGTGTAATTGACTCTATTTTCTTTCTACCAAAAAGAAAAAGATTCAAAT
1 CTGGTTAAGTATAATCGACTATATTTTCTTTCTA-CAAAAA-AAAAAGATTCAAAA
* * * *
22298460 CTTGTT-ATTATCATCGAGTATATTTT
1 CTGGTTAAGTATAATCGACTATATTTT
22298486 TCATTCATGA
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
54 33 0.46
55 20 0.28
56 18 0.25
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (54 bp):
CTGGTTAAGTATAATCGACTATATTTTCTTTCTACAAAAAAAAAAGATTCAAAA
Found at i:22301211 original size:22 final size:22
Alignment explanation
Indices: 22301162--22301216 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
22301152 ATTTAATTAA
*
22301162 ATTATTTA-AAATAATTAATTT
1 ATTATTTATAAATAAATAATTT
* *
22301183 ATAATTTATAAATAAATATTTT
1 ATTATTTATAAATAAATAATTT
*
22301205 TTTATTTTATAA
1 ATTA-TTTATAA
22301217 TTTTTAATCA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 7 0.26
22 13 0.48
23 7 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTATTTATAAATAAATAATTT
Found at i:22306404 original size:81 final size:81
Alignment explanation
Indices: 22306269--22306433 Score: 285
Period size: 81 Copynumber: 2.0 Consensus size: 81
22306259 AAATAAGTAA
* * * *
22306269 TTTTAATCAATTAACCACTTTTAGTGTTCAATTTAATCCACATTTCATATTTATGTAAAATTACC
1 TTTTAATCAATTAACCACTTCTAGTATTCAATTTAATCAACATTTCATATTTATGCAAAATTACC
*
22306334 AATTTACCCCTAATAT
66 AATTTACCCCAAATAT
22306350 TTTTAATCAATTAACCACTTCTAGTATTCAATTTAATCAACATTTCATATTTATGCAAAATTACC
1 TTTTAATCAATTAACCACTTCTAGTATTCAATTTAATCAACATTTCATATTTATGCAAAATTACC
22306415 AATTTACCCCAAATAT
66 AATTTACCCCAAATAT
22306431 TTT
1 TTT
22306434 AACTTTTTCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.42
Consensus pattern (81 bp):
TTTTAATCAATTAACCACTTCTAGTATTCAATTTAATCAACATTTCATATTTATGCAAAATTACC
AATTTACCCCAAATAT
Found at i:22308092 original size:59 final size:61
Alignment explanation
Indices: 22308021--22308137 Score: 150
Period size: 62 Copynumber: 1.9 Consensus size: 61
22308011 ATCACTTTAA
* * *
22308021 TATTAAATTAATATAATATTTA-T-CAACATAAATATTAGA-TTAAGTTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTACTACAACATAAATATTAAATTTAA-TTTAATATTAAATCT
* *
22308080 TATTAAAATAATAGAATGTTTATCTACAAGATAAATATTAAATTTAATTTAATATTAA
1 TATTAAAATAATAGAATATTTA-CTACAACATAAATATTAAATTTAATTTAATATTAA
22308138 GATAATCAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
59 19 0.39
61 1 0.02
62 25 0.51
63 4 0.08
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (61 bp):
TATTAAAATAATAGAATATTTACTACAACATAAATATTAAATTTAATTTAATATTAAATCT
Found at i:22315157 original size:16 final size:16
Alignment explanation
Indices: 22315136--22315167 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
22315126 AGAAACGAGT
22315136 TTGGAAAACGCAGCGA
1 TTGGAAAACGCAGCGA
22315152 TTGGAAAACGCAGCGA
1 TTGGAAAACGCAGCGA
22315168 AAAATAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.31, T:0.12
Consensus pattern (16 bp):
TTGGAAAACGCAGCGA
Found at i:22323233 original size:44 final size:44
Alignment explanation
Indices: 22323170--22323256 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
22323160 AAGACAATTG
*
22323170 GTTAATGCGTCTAACCTTCCTCTATCAAGTGACTAGATTTTTTA
1 GTTAATGCGTCTAACCTTCCCCTATCAAGTGACTAGATTTTTTA
* *
22323214 GTTAATGCGTTTAACCTTCCCCTATCAAGTGACTGGATTTTTT
1 GTTAATGCGTCTAACCTTCCCCTATCAAGTGACTAGATTTTTT
22323257 TACACACTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (44 bp):
GTTAATGCGTCTAACCTTCCCCTATCAAGTGACTAGATTTTTTA
Found at i:22325166 original size:51 final size:52
Alignment explanation
Indices: 22325098--22325210 Score: 140
Period size: 51 Copynumber: 2.2 Consensus size: 52
22325088 TTATAAAACT
* * * *
22325098 TATATATATATATATATAAAATACA-TAATGCATTTATGAAAACAAGGAAA-A
1 TATAAATATATACATATAAAATACATTAATGCATTTA-CAAAAAAAGGAAATA
* * *
22325149 TATAAATATATACATATAAAATATATTCATGCATTTACAAAAAAATGAAATA
1 TATAAATATATACATATAAAATACATTAATGCATTTACAAAAAAAGGAAATA
22325201 TATAAATATA
1 TATAAATATA
22325211 ATATAAAACG
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
51 32 0.60
52 21 0.40
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.33
Consensus pattern (52 bp):
TATAAATATATACATATAAAATACATTAATGCATTTACAAAAAAAGGAAATA
Found at i:22325483 original size:3 final size:3
Alignment explanation
Indices: 22325475--22325517 Score: 70
Period size: 3 Copynumber: 14.3 Consensus size: 3
22325465 ATATGTAGGT
22325475 ATA ATA ATA ATA ATA TATA AT- ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A
22325518 CAAAATTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:22325490 original size:24 final size:21
Alignment explanation
Indices: 22325474--22325516 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
22325464 TATATGTAGG
22325474 TATAATAATAATAATATATAA
1 TATAATAATAATAATATATAA
22325495 TATAATAATAATAATA-ATAA
1 TATAATAATAATAATATATAA
22325515 TA
1 TA
22325517 ACAAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TATAATAATAATAATATATAA
Found at i:22325527 original size:27 final size:27
Alignment explanation
Indices: 22325475--22325533 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
22325465 ATATGTAGGT
* *
22325475 ATAATAATAATAATATATAATATAATA
1 ATAATAATAATAATACAAAATATAATA
22325502 ATAATAATAATAATAACAAAAT-TAATA
1 ATAATAATAATAAT-ACAAAATATAATA
22325529 A-AATA
1 ATAATA
22325534 GACTAAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 4 0.14
27 20 0.69
28 5 0.17
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (27 bp):
ATAATAATAATAATACAAAATATAATA
Found at i:22325918 original size:21 final size:21
Alignment explanation
Indices: 22325881--22325963 Score: 93
Period size: 21 Copynumber: 4.1 Consensus size: 21
22325871 ATTATAAAAT
*
22325881 TATATC-T-TCTAAGATTGTA
1 TATATCATATCTAAAATTGTA
*
22325900 TATATCATATCTAAAATTGCA
1 TATATCATATCTAAAATTGTA
* *
22325921 TATATCATACCTAAGATTG--
1 TATATCATATCTAAAATTGTA
*
22325940 CATATCATATCTAAAATTGTA
1 TATATCATATCTAAAATTGTA
22325961 TAT
1 TAT
22325964 CTTCGAAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
19 22 0.42
20 1 0.02
21 29 0.56
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (21 bp):
TATATCATATCTAAAATTGTA
Found at i:22325964 original size:19 final size:19
Alignment explanation
Indices: 22325900--22325964 Score: 85
Period size: 19 Copynumber: 3.3 Consensus size: 19
22325890 TAAGATTGTA
22325900 TATATCATATCTAAAATTG
1 TATATCATATCTAAAATTG
* *
22325919 CATATATCATACCTAAGATTG
1 --TATATCATATCTAAAATTG
*
22325940 CATATCATATCTAAAATTG
1 TATATCATATCTAAAATTG
22325959 TATATC
1 TATATC
22325965 TTCGAAAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
19 21 0.55
21 17 0.45
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.38
Consensus pattern (19 bp):
TATATCATATCTAAAATTG
Found at i:22330983 original size:9 final size:9
Alignment explanation
Indices: 22330971--22331001 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
22330961 ATTGAAAATT
22330971 TTGAGAGAA
1 TTGAGAGAA
22330980 TTGAGAGAA
1 TTGAGAGAA
*
22330989 TGGAGAGAA
1 TTGAGAGAA
22330998 TTGA
1 TTGA
22331002 ATTTGAGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:22331714 original size:21 final size:21
Alignment explanation
Indices: 22331675--22331748 Score: 96
Period size: 21 Copynumber: 3.6 Consensus size: 21
22331665 AAATTGAAAA
*
22331675 TCAATTTGA-TTTGATTTTAT
1 TCAAATTGATTTTGATTTTAT
* * *
22331695 TCAACTTTATTTTTATTTTAT
1 TCAAATTGATTTTGATTTTAT
22331716 TCAAATTGATTTTGATTTTAT
1 TCAAATTGATTTTGATTTTAT
*
22331737 TCAAACTGATTT
1 TCAAATTGATTT
22331749 AAAGGTTCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
20 7 0.15
21 39 0.85
ACGTcount: A:0.27, C:0.08, G:0.07, T:0.58
Consensus pattern (21 bp):
TCAAATTGATTTTGATTTTAT
Found at i:22332502 original size:27 final size:26
Alignment explanation
Indices: 22332454--22332504 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
22332444 TAAATTTTGA
* *
22332454 TTTTTTTATAAATAAATTTAATAAAG
1 TTTTTTTAAAAATAAATATAATAAAG
22332480 TTTTTTTAAAAATAAATAATAATAA
1 TTTTTTTAAAAATAAAT-ATAATAA
22332505 TCAATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
TTTTTTTAAAAATAAATATAATAAAG
Found at i:22334152 original size:17 final size:17
Alignment explanation
Indices: 22334130--22334163 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22334120 CTCCAAAGTC
*
22334130 TCTATTTATAGGTATAA
1 TCTATTTATAGGCATAA
22334147 TCTATTTATAGGCATAA
1 TCTATTTATAGGCATAA
22334164 GAAGTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (17 bp):
TCTATTTATAGGCATAA
Found at i:22351991 original size:36 final size:34
Alignment explanation
Indices: 22351945--22352034 Score: 126
Period size: 36 Copynumber: 2.5 Consensus size: 34
22351935 TTATATATGC
* *
22351945 ATATGTGTATAAAAAATAGTTTAATATAAATTGTAT
1 ATATATGTATAAAAAATAGTTTAATACAAA-T-TAT
22351981 ATATATGTATAATAAAAATAGTTTAATACAAATTAT
1 ATATATGTAT-A-AAAAATAGTTTAATACAAATTAT
22352017 ATATATGTATAAAAAATA
1 ATATATGTATAAAAAATA
22352035 TTATGTAAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
34 7 0.14
35 1 0.02
36 22 0.44
37 2 0.04
38 18 0.36
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.39
Consensus pattern (34 bp):
ATATATGTATAAAAAATAGTTTAATACAAATTAT
Found at i:22354252 original size:87 final size:87
Alignment explanation
Indices: 22354077--22354252 Score: 210
Period size: 87 Copynumber: 2.0 Consensus size: 87
22354067 AGCTATTCCA
** * * **
22354077 AGTCTTAATGCTAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTACTCTGCTGCAATGCCAA
1 AGTCTTAACACTAGGGAGATAAGATTCCCTGCCCTCAGCTTTAATCTACTCCGCTGCAACACCAA
** * *
22354142 GTAAGTAAGACTAATTACTTTT
66 GTAAACAAGACTAACTACCTTT
*
22354164 AGTCTTAACACTAGGGAGATAAGATTCCCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACACC-A
1 AGTCTTAACACTAGGGAGATAAGATTCCCTGCCCTCAGCTTTAATCTACTCCGCTGCAACACCAA
* **
22354228 GTGAAACAAGATTCGCTACCTTT
66 GT-AAACAAGACTAACTACCTTT
22354251 AG
1 AG
22354253 CTTTAATCTG
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
86 3 0.04
87 71 0.96
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (87 bp):
AGTCTTAACACTAGGGAGATAAGATTCCCTGCCCTCAGCTTTAATCTACTCCGCTGCAACACCAA
GTAAACAAGACTAACTACCTTT
Found at i:22355816 original size:65 final size:65
Alignment explanation
Indices: 22355693--22355824 Score: 180
Period size: 65 Copynumber: 2.0 Consensus size: 65
22355683 CTCTCTATTT
* *
22355693 TCTTTTCTTTTCTTATTTTTTATTTTTTTTGGACTCAAAGAGCCCTTTGAGGGTTTTCACCTTGG
1 TCTTTTCTTTTCTTATTTTTTATTTTTTTTGGAATCAAAGAGCCCTTTGACGGTTTTCACCTTGG
* *
22355758 TCTTTT-TTTTGTT-TTTTTCTATCTTTTTTTAGGAATCAAAGCGCCCTTTG-CGGTTTTCACCT
1 TCTTTTCTTTTCTTATTTTT-TAT-TTTTTTT-GGAATCAAAGAGCCCTTTGACGGTTTTCACCT
22355820 TGG
63 TGG
22355823 TC
1 TC
22355825 CCTTCTCATT
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
63 5 0.08
64 9 0.15
65 29 0.48
66 17 0.28
ACGTcount: A:0.13, C:0.18, G:0.15, T:0.54
Consensus pattern (65 bp):
TCTTTTCTTTTCTTATTTTTTATTTTTTTTGGAATCAAAGAGCCCTTTGACGGTTTTCACCTTGG
Found at i:22356726 original size:30 final size:29
Alignment explanation
Indices: 22356673--22356779 Score: 87
Period size: 30 Copynumber: 3.7 Consensus size: 29
22356663 TGGCCTCTCC
*
22356673 TTTTCCTTTTC-TTTTTCTT-TTTTC-TTT
1 TTTTCATTTTCATTTTT-TTATTTTCATTT
22356700 TTTCATCATTTTCATTTTTTTATTTTCATTT
1 TTT--TCATTTTCATTTTTTTATTTTCATTT
* * *
22356731 TTTTGATTTTGATTTTTTTTATTTT-TTTAT
1 TTTTCATTTTCA-TTTTTTTATTTTCATT-T
* *
22356761 TTTTGATTTTGATTTTTTT
1 TTTTCATTTTCATTTTTTT
22356780 TGATTGAATC
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
27 3 0.04
29 25 0.36
30 35 0.51
31 6 0.09
ACGTcount: A:0.10, C:0.08, G:0.04, T:0.78
Consensus pattern (29 bp):
TTTTCATTTTCATTTTTTTATTTTCATTT
Found at i:22356732 original size:15 final size:15
Alignment explanation
Indices: 22356707--22356780 Score: 82
Period size: 15 Copynumber: 5.0 Consensus size: 15
22356697 TTTTTTCATC
22356707 ATTTTCA-TTTTTTT
1 ATTTTCATTTTTTTT
*
22356721 ATTTTCATTTTTTTG
1 ATTTTCATTTTTTTT
*
22356736 ATTTTGATTTTTTTT
1 ATTTTCATTTTTTTT
22356751 ATTTT--TTTATTTTT
1 ATTTTCATTT-TTTTT
*
22356765 GATTTTGATTTTTTTT
1 -ATTTTCATTTTTTTT
22356781 GATTGAATCT
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
13 3 0.06
14 12 0.23
15 29 0.56
16 5 0.10
17 3 0.06
ACGTcount: A:0.14, C:0.03, G:0.05, T:0.78
Consensus pattern (15 bp):
ATTTTCATTTTTTTT
Found at i:22356734 original size:23 final size:23
Alignment explanation
Indices: 22356684--22356779 Score: 74
Period size: 23 Copynumber: 4.2 Consensus size: 23
22356674 TTTCCTTTTC
* *
22356684 TTTTTC-TTTTTTCTTTTTTCATC
1 TTTTTCATTTTTT-TATTTTCATT
*
22356707 ATTTTCATTTTTTTATTTTCATT
1 TTTTTCATTTTTTTATTTTCATT
* *
22356730 TTTTTGATTTTGATTT-TTTTTATT
1 TTTTTCATTTT--TTTATTTTCATT
* *
22356754 TTTTT-A-TTTTTGATTTTGATT
1 TTTTTCATTTTTTTATTTTCATT
22356775 TTTTT
1 TTTTT
22356780 TGATTGAATC
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
20 2 0.03
21 12 0.20
22 3 0.05
23 23 0.38
24 18 0.30
25 3 0.05
ACGTcount: A:0.11, C:0.06, G:0.04, T:0.78
Consensus pattern (23 bp):
TTTTTCATTTTTTTATTTTCATT
Found at i:22356754 original size:24 final size:26
Alignment explanation
Indices: 22356717--22356776 Score: 81
Period size: 24 Copynumber: 2.3 Consensus size: 26
22356707 ATTTTCATTT
22356717 TTTTATTTTCATTTTTTTGA-TTTTGA
1 TTTTATTTTCATTTTTTT-ATTTTTGA
22356743 TTTT-TTTT-ATTTTTTTATTTTTGA
1 TTTTATTTTCATTTTTTTATTTTTGA
22356767 TTTTGATTTT
1 TTTT-ATTTT
22356777 TTTTGATTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
23 1 0.03
24 18 0.58
25 4 0.13
26 8 0.26
ACGTcount: A:0.13, C:0.02, G:0.07, T:0.78
Consensus pattern (26 bp):
TTTTATTTTCATTTTTTTATTTTTGA
Found at i:22356780 original size:30 final size:30
Alignment explanation
Indices: 22356714--22356780 Score: 109
Period size: 30 Copynumber: 2.2 Consensus size: 30
22356704 ATCATTTTCA
22356714 TTTTTTTATTTTCATTTTTTTGATTTTGAT
1 TTTTTTTATTTTCATTTTTTTGATTTTGAT
*
22356744 TTTTTTTATTTT-TTTATTTTTGATTTTGAT
1 TTTTTTTATTTTCATT-TTTTTGATTTTGAT
22356774 TTTTTTT
1 TTTTTTT
22356781 GATTGAATCT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 2 0.06
30 33 0.94
ACGTcount: A:0.12, C:0.01, G:0.06, T:0.81
Consensus pattern (30 bp):
TTTTTTTATTTTCATTTTTTTGATTTTGAT
Found at i:22361333 original size:36 final size:34
Alignment explanation
Indices: 22361287--22361376 Score: 126
Period size: 36 Copynumber: 2.5 Consensus size: 34
22361277 TTATATATGC
* *
22361287 ATATGTGTATAAAAAATAGTTTAATATAAATTGTAT
1 ATATATGTATAAAAAATAGTTTAATACAAA-T-TAT
22361323 ATATATGTATAATAAAAATAGTTTAATACAAATTAT
1 ATATATGTAT-A-AAAAATAGTTTAATACAAATTAT
22361359 ATATATGTATAAAAAATA
1 ATATATGTATAAAAAATA
22361377 TTATGTAAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
34 7 0.14
35 1 0.02
36 22 0.44
37 2 0.04
38 18 0.36
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.39
Consensus pattern (34 bp):
ATATATGTATAAAAAATAGTTTAATACAAATTAT
Found at i:22363078 original size:25 final size:25
Alignment explanation
Indices: 22363029--22363108 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
22363019 GTCATTAGGG
* * *
22363029 TTACCGATTCT-ATCTCTTATGAGC
1 TTACCGATACTCAGCTCGTATGAGC
22363053 TTACCGATACTCAGCTCGTATGAGC
1 TTACCGATACTCAGCTCGTATGAGC
* ** * *
22363078 TTACCGTTGTTCAGCTCGGAGGAGC
1 TTACCGATACTCAGCTCGTATGAGC
22363103 TTACCG
1 TTACCG
22363109 TTTATCTCTC
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
24 10 0.21
25 37 0.79
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (25 bp):
TTACCGATACTCAGCTCGTATGAGC
Found at i:22364289 original size:12 final size:12
Alignment explanation
Indices: 22364274--22364304 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
22364264 CTCCAGTTTT
22364274 CACACGGCCTAG
1 CACACGGCCTAG
22364286 CACACGGCCTAG
1 CACACGGCCTAG
22364298 CACACGG
1 CACACGG
22364305 GCGTGTGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.42, G:0.26, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:22364413 original size:12 final size:12
Alignment explanation
Indices: 22364392--22364426 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
22364382 TCACTAGTTG
*
22364392 GGACACGGGCTA
1 GGACACGGGCAA
*
22364404 GGAGACGGGCAA
1 GGACACGGGCAA
22364416 GGACACGGGCA
1 GGACACGGGCA
22364427 TGTGGTCCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.29, C:0.23, G:0.46, T:0.03
Consensus pattern (12 bp):
GGACACGGGCAA
Found at i:22370199 original size:35 final size:35
Alignment explanation
Indices: 22370160--22370346 Score: 94
Period size: 35 Copynumber: 5.2 Consensus size: 35
22370150 GCACTAGTCA
22370160 GATAAACTGACAGAAGTTGCGCCCAGCGCTAGTTG
1 GATAAACTGACAGAAGTTGCGCCCAGCGCTAGTTG
* * * * *
22370195 GATAAACCGACGAAATAAATAGTGAGCCCAGCTCTAGTTG
1 GATAAACTGAC---AGAAGT--TGCGCCCAGCGCTAGTTG
** * *
22370235 GATAAACCAACA-ATATTTGCGCCCAGCGCTACTTG
1 GATAAACTGACAGA-AGTTGCGCCCAGCGCTAGTTG
* * * * *
22370270 TATAAACTGAC-GAA-TGTGTGCCCAACAACTAGTTA
1 GATAAACTGACAGAAGT-TGCGCCCAGC-GCTAGTTG
* * ** *
22370305 GATAAATTGAC-GAAAGTTGCACCCAATGCTAGTCG
1 GATAAACTGACAG-AAGTTGCGCCCAGCGCTAGTTG
22370340 GATAAAC
1 GATAAAC
22370347 CGACGAAATA
Statistics
Matches: 114, Mismatches: 27, Indels: 22
0.70 0.17 0.13
Matches are distributed among these distances:
33 1 0.01
34 9 0.08
35 60 0.53
36 10 0.09
37 4 0.04
38 4 0.04
40 26 0.23
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (35 bp):
GATAAACTGACAGAAGTTGCGCCCAGCGCTAGTTG
Found at i:22370239 original size:75 final size:75
Alignment explanation
Indices: 22370160--22370386 Score: 236
Period size: 75 Copynumber: 3.1 Consensus size: 75
22370150 GCACTAGTCA
22370160 GATAAACTGACAGAAGTTGCGCCCAGCGCTAGTTGGATAAACCGACGAAATAAATAGTGAGCCCA
1 GATAAACTGACAGAAGTTGCGCCCAGCGCTAGTTGGATAAACCGACGAAATAAATAGTGAGCCCA
*
22370225 GCTCTAGTTG
66 ACTCTAGTTG
** * * * * *
22370235 GATAAACCAACA-ATATTTGCGCCCAGCGCTACTTGTATAAACTGACG-----AAT-GTGTGCCC
1 GATAAACTGACAGA-AGTTGCGCCCAGCGCTAGTTGGATAAACCGACGAAATAAATAGTGAGCCC
* *
22370293 AACAACTAGTTA
65 AAC-TCTAGTTG
* * ** *
22370305 GATAAATTGAC-GAAAGTTGCACCCAATGCTAGTCGGATAAACCGACGAAATAAATAGTGAGCCC
1 GATAAACTGACAG-AAGTTGCGCCCAGCGCTAGTTGGATAAACCGACGAAATAAATAGTGAGCCC
22370369 AACTCTAGTTG
65 AACTCTAGTTG
22370380 GATAAAC
1 GATAAAC
22370387 CAACGATATT
Statistics
Matches: 117, Mismatches: 25, Indels: 20
0.72 0.15 0.12
Matches are distributed among these distances:
69 9 0.08
70 42 0.36
71 1 0.01
74 1 0.01
75 54 0.46
76 10 0.09
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (75 bp):
GATAAACTGACAGAAGTTGCGCCCAGCGCTAGTTGGATAAACCGACGAAATAAATAGTGAGCCCA
ACTCTAGTTG
Found at i:22370343 original size:145 final size:144
Alignment explanation
Indices: 22370127--22370398 Score: 411
Period size: 145 Copynumber: 1.9 Consensus size: 144
22370117 TGCTAGTCAA
* * * * *
22370127 ATAAACCGATGAATGTGTGCTCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAGCGCTAG
1 ATAAACCGACGAATGTGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTGCACCCAACGCTAG
* *
22370192 TTGGATAAACCGACGAAATAAATAGTGAGCCCAGCTCTAGTTGGATAAACCAACAATATTTGCGC
66 TCGGATAAACCGACGAAATAAATAGTGAGCCCAACTCTAGTTGGATAAACCAACAATATTTGCGC
22370257 CCAGCGCTACTTGT
131 CCAGCGCTACTTGT
* * * *
22370271 ATAAACTGACGAATGTGTGCCCAACAACTAGTTAGATAAATTGAC-GAAAGTTGCACCCAATGCT
1 ATAAACCGACGAATGTGTGCCCAAC-ACTAGTCAGATAAACTGACAG-AAGTTGCACCCAACGCT
*
22370335 AGTCGGATAAACCGACGAAATAAATAGTGAGCCCAACTCTAGTTGGATAAACCAACGATATTTG
64 AGTCGGATAAACCGACGAAATAAATAGTGAGCCCAACTCTAGTTGGATAAACCAACAATATTTG
22370399 TAATTATTTA
Statistics
Matches: 114, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
144 22 0.19
145 92 0.81
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (144 bp):
ATAAACCGACGAATGTGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTGCACCCAACGCTAG
TCGGATAAACCGACGAAATAAATAGTGAGCCCAACTCTAGTTGGATAAACCAACAATATTTGCGC
CCAGCGCTACTTGT
Found at i:22373471 original size:53 final size:53
Alignment explanation
Indices: 22373391--22373497 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
22373381 CGTGGCGTGT
*
22373391 TATCAGTTGGATTAAATCTTATGAGCATTTGGCGTGTTATCGGGTGGATTAGC
1 TATCAGTTGGATTAAATCTTATAAGCATTTGGCGTGTTATCGGGTGGATTAGC
*
22373444 TATCAGTTGGATTAAATCTTATAAGCATTTGGCGTGTTATTGGGTGGATTAGC
1 TATCAGTTGGATTAAATCTTATAAGCATTTGGCGTGTTATCGGGTGGATTAGC
22373497 T
1 T
22373498 CTTGTGAGCG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.23, C:0.10, G:0.27, T:0.39
Consensus pattern (53 bp):
TATCAGTTGGATTAAATCTTATAAGCATTTGGCGTGTTATCGGGTGGATTAGC
Found at i:22376278 original size:41 final size:41
Alignment explanation
Indices: 22376232--22376315 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
22376222 TTTTAAATAT
22376232 TTTTAAATTTAAATTTTATTATTTGTTTTGGATTTTTTGAA
1 TTTTAAATTTAAATTTTATTATTTGTTTTGGATTTTTTGAA
22376273 TTTTAAATTTAAATTTTATTATTTGTTTTGGATTTTTTGAA
1 TTTTAAATTTAAATTTTATTATTTGTTTTGGATTTTTTGAA
22376314 TT
1 TT
22376316 ATGAATTGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (41 bp):
TTTTAAATTTAAATTTTATTATTTGTTTTGGATTTTTTGAA
Found at i:22376672 original size:27 final size:27
Alignment explanation
Indices: 22376609--22376679 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
22376599 GAAAATGGGA
* **
22376609 TGCCATAGGCGGCACCAAAGGTGCCTG
1 TGCCACAGGCGGCACCAAAGGTGCCAC
** * *
22376636 TGGTAGAGGCGGCACTAAAGGTGCCAC
1 TGCCACAGGCGGCACCAAAGGTGCCAC
22376663 TGCCACAGGCGGCACCA
1 TGCCACAGGCGGCACCA
22376680 CTCTATTATA
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.24, C:0.30, G:0.34, T:0.13
Consensus pattern (27 bp):
TGCCACAGGCGGCACCAAAGGTGCCAC
Found at i:22376713 original size:3 final size:3
Alignment explanation
Indices: 22376705--22376792 Score: 176
Period size: 3 Copynumber: 29.3 Consensus size: 3
22376695 GCTTCAATCC
22376705 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
22376753 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
22376793 TGAGGAGGAG
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 85 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:22377079 original size:41 final size:41
Alignment explanation
Indices: 22377028--22377245 Score: 120
Period size: 40 Copynumber: 5.4 Consensus size: 41
22377018 CTTATTAATA
22377028 ATTATTGTTAG-TATTATTATTAGTAAAAAACTAATATTATT
1 ATTA-TGTTAGTTATTATTATTAGTAAAAAACTAATATTATT
** *
22377069 ATTATGGTTAGTTATTAGGATTAGTAAAAACCCTAATTATTATT
1 ATTAT-GTTAGTTATTATTATTAGTAAAAA-ACTAA-TATTATT
* * **** *
22377113 -TTA-GTTAG-TATGATTGTTAGT-TTTTAC-ATTA-TATT
1 ATTATGTTAGTTATTATTATTAGTAAAAAACTAATATTATT
* *
22377148 A-T-TGTTAGTTATTATTTTTAGT-AAAACCTTAATTATTATT
1 ATTATGTTAGTTATTATTATTAGTAAAAAAC-TAA-TATTATT
* *
22377188 GTTA-GTTAG-TATTATT-TTGAGTAAAAAACTATTATTATTGTT
1 ATTATGTTAGTTATTATTATT-AGTAAAAAACTA--A-TATTATT
*
22377230 ATTGTGTTAGTTATTA
1 ATTATGTTAGTTATTA
22377246 GGATTAGTGG
Statistics
Matches: 132, Mismatches: 26, Indels: 35
0.68 0.13 0.18
Matches are distributed among these distances:
35 10 0.08
36 14 0.11
37 1 0.01
38 2 0.02
39 4 0.03
40 26 0.20
41 25 0.19
42 26 0.20
43 12 0.09
44 12 0.09
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (41 bp):
ATTATGTTAGTTATTATTATTAGTAAAAAACTAATATTATT
Found at i:22377212 original size:40 final size:36
Alignment explanation
Indices: 22377144--22377230 Score: 104
Period size: 39 Copynumber: 2.3 Consensus size: 36
22377134 TTTTACATTA
* *
22377144 TATTATTGTTAGTTATTATTTTTAGT-AAAACCTTAAT
1 TATTATTGTTAGTTATTATTTTGAGTAAAAAAC-T-AT
22377181 TATTATTGTTAGTTAGTATTATTTTGAGTAAAAAACTAT
1 TATTATTGTTAG-T--TATTATTTTGAGTAAAAAACTAT
22377220 TATTATTGTTA
1 TATTATTGTTA
22377231 TTGTGTTAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
37 12 0.27
38 1 0.02
39 13 0.30
40 13 0.30
41 5 0.11
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.53
Consensus pattern (36 bp):
TATTATTGTTAGTTATTATTTTGAGTAAAAAACTAT
Found at i:22377224 original size:76 final size:76
Alignment explanation
Indices: 22377034--22377230 Score: 193
Period size: 76 Copynumber: 2.5 Consensus size: 76
22377024 AATAATTATT
22377034 GTTAGTATTATTATTAGTAAAAAACTAATATTATTATTATGGTTAGTTATTAGGATTAGTAAAAA
1 GTTAGTATTATTATTAGTAAAAAAC---TATTATTA-T-T-GTTAGTTATTAGGATTAGTAAAAA
22377099 CCCTAATTATTATTTTA
60 CCCTAATTATTATTTTA
* * *** * * *** *
22377116 GTTAGTATGATTGTTAGTTTTTACATTA-TATTATTGTTAGTTATTATTTTTAGT-AAAACCTTA
1 GTTAGTATTATTATTAG-TAAAAAACTATTATTATTGTTAGTTATTAGGATTAGTAAAAACCCTA
22377179 ATTATTATTGTTA
65 ATTATTATT-TTA
22377192 GTTAGTATTATT-TTGAGTAAAAAACTATTATTATTGTTA
1 GTTAGTATTATTATT-AGTAAAAAACTATTATTATTGTTA
22377231 TTGTGTTAGT
Statistics
Matches: 94, Mismatches: 17, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
75 24 0.26
76 43 0.46
77 1 0.01
78 1 0.01
79 5 0.05
80 2 0.02
82 15 0.16
83 3 0.03
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.50
Consensus pattern (76 bp):
GTTAGTATTATTATTAGTAAAAAACTATTATTATTGTTAGTTATTAGGATTAGTAAAAACCCTAA
TTATTATTTTA
Found at i:22380711 original size:2 final size:2
Alignment explanation
Indices: 22380704--22380745 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
22380694 GTTTTAGAAA
22380704 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
22380745 A
1 A
22380746 TTTTGCTATG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22381462 original size:58 final size:58
Alignment explanation
Indices: 22381371--22381481 Score: 204
Period size: 58 Copynumber: 1.9 Consensus size: 58
22381361 TGATAGCCAC
*
22381371 ATTGAGTCTAATTAAATCTAGAGTCGAGCTGGATAGGCCCTAAACAGGAGCAAGCCCT
1 ATTGAGTCGAATTAAATCTAGAGTCGAGCTGGATAGGCCCTAAACAGGAGCAAGCCCT
*
22381429 ATTGAGTCGAATTAAATCTAGAGTCGAGTTGGATAGGCCCTAAACAGGAGCAA
1 ATTGAGTCGAATTAAATCTAGAGTCGAGCTGGATAGGCCCTAAACAGGAGCAA
22381482 ACTCTCATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (58 bp):
ATTGAGTCGAATTAAATCTAGAGTCGAGCTGGATAGGCCCTAAACAGGAGCAAGCCCT
Found at i:22381658 original size:17 final size:17
Alignment explanation
Indices: 22381636--22381670 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
22381626 GCTTTTACTC
22381636 AAAAAATGGGTAAATTA
1 AAAAAATGGGTAAATTA
*
22381653 AAAAAATGGGTAAGTTA
1 AAAAAATGGGTAAATTA
22381670 A
1 A
22381671 TCTCTGTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (17 bp):
AAAAAATGGGTAAATTA
Found at i:22393563 original size:32 final size:32
Alignment explanation
Indices: 22393512--22393701 Score: 180
Period size: 32 Copynumber: 6.2 Consensus size: 32
22393502 GAATGGCTAC
* * *
22393512 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* ***
22393543 AAGCCATCAGTAGTAGTAATATGATCAATACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
22393575 CAGCCATCAGTAATAGTAGTATGATCGGTACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
22393607 AAGCCCTCAATAGTAGTAATATGAT-----C-
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
*
22393633 AA-CCATCAGTAATGGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* *
22393664 CAGCCATCAGTAATGGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
22393696 AAGCCA
1 AAGCCA
22393702 ACAATAGCAT
Statistics
Matches: 128, Mismatches: 23, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
25 18 0.14
26 2 0.02
27 1 0.01
30 1 0.01
31 11 0.09
32 95 0.74
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (32 bp):
AAGCCATCAGTAATAGTAATATGATCGGCACA
Done.