Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 149 of 161
Found at i:46499976 original size:22 final size:22
Alignment explanation
Indices: 46499928--46499981 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
46499918 ATGTTAATCA
* * *
46499928 ATTATTCATTTTAAATATATAT
1 ATTATTTATGTTAAATACATAT
46499950 ATTATTTATGTTAAACTACATAT
1 ATTATTTATGTTAAA-TACATAT
46499973 -TTATATTAT
1 ATTAT-TTAT
46499982 TTATTTGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.54
Consensus pattern (22 bp):
ATTATTTATGTTAAATACATAT
Found at i:46503280 original size:62 final size:58
Alignment explanation
Indices: 46503195--46503312 Score: 150
Period size: 57 Copynumber: 2.0 Consensus size: 58
46503185 AATTGACAGT
*
46503195 AAAAAGGATCTATCCCAGATGGGTGATCCTATCTTGATATAGCCCTCCCGAAGAATATGTGTG
1 AAAAAGGATCTATCCCAGATGGGTG-----ATCTTGATATAGCCCTCCCGAAAAATATGTGTG
*
46503258 AAAAA-GATCTAGT-CCGGATGGGTGATCTTGATATAGCCCTCCCGAAAAATATGTG
1 AAAAAGGATCTA-TCCCAGATGGGTGATCTTGATATAGCCCTCCCGAAAAATATGTG
46503313 AAAAATAGAT
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
57 30 0.58
62 16 0.31
63 6 0.12
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (58 bp):
AAAAAGGATCTATCCCAGATGGGTGATCTTGATATAGCCCTCCCGAAAAATATGTGTG
Found at i:46503332 original size:57 final size:57
Alignment explanation
Indices: 46503225--46503337 Score: 165
Period size: 57 Copynumber: 2.0 Consensus size: 57
46503215 GGGTGATCCT
* * * *
46503225 ATCTTGATATAGCCCTCCCGAAGAATATGTGTGAAAAAGATCTAGTCCGGATGGGTG
1 ATCTTGATATAGCCCTCCCGAAAAATATGTGTAAAAAAGATCTAGCCCGGACGGGTG
*
46503282 ATCTTGATATAGCCCTCCCGAAAAATATGTG-AAAAATAGATTTAGCCCGGACGGGT
1 ATCTTGATATAGCCCTCCCGAAAAATATGTGTAAAAA-AGATCTAGCCCGGACGGGT
46503338 AATCCAAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
56 4 0.08
57 46 0.92
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (57 bp):
ATCTTGATATAGCCCTCCCGAAAAATATGTGTAAAAAAGATCTAGCCCGGACGGGTG
Found at i:46504934 original size:9 final size:9
Alignment explanation
Indices: 46504920--46505001 Score: 53
Period size: 9 Copynumber: 9.0 Consensus size: 9
46504910 TAAGTATAAT
46504920 TAAGTTATG
1 TAAGTTATG
46504929 TAAGTTATG
1 TAAGTTATG
* * *
46504938 ATATGATATA
1 -TAAGTTATG
*
46504948 T-ATTTATG
1 TAAGTTATG
46504956 T-A-TTATG
1 TAAGTTATG
46504963 TAAGTTATG
1 TAAGTTATG
* *
46504972 ATATGATATATA
1 -TAAG-T-TATG
46504984 TAAGTTATG
1 TAAGTTATG
46504993 TAAGTTATG
1 TAAGTTATG
46505002 ATATGATATA
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
7 6 0.11
8 6 0.11
9 27 0.48
10 10 0.18
11 4 0.07
12 3 0.05
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:46504962 original size:34 final size:31
Alignment explanation
Indices: 46504914--46505082 Score: 164
Period size: 30 Copynumber: 5.7 Consensus size: 31
46504904 TATTTATAAG
46504914 TATA-ATTAAGTTATGTAAGTTATGATATGA
1 TATATATTAAGTTATGTAAGTTATGATATGA
*
46504944 TATATATTTATGTATTATGTAAGTTATGATATGA
1 TATATA-TTAAG--TTATGTAAGTTATGATATGA
46504978 TATATA-TAAGTTATGTAAGTTATGATATGA
1 TATATATTAAGTTATGTAAGTTATGATATGA
* *
46505008 TATATA-T-A--TA--TAAGTTATTATGT-A
1 TATATATTAAGTTATGTAAGTTATGATATGA
* * * *
46505032 TGTATGT-GAGTTATGTAAATTATGATATGA
1 TATATATTAAGTTATGTAAGTTATGATATGA
46505062 TATATA-TAAGTTAT-TAAGTTA
1 TATATATTAAGTTATGTAAGTTA
46505083 AGATCCCAAG
Statistics
Matches: 114, Mismatches: 13, Indels: 25
0.75 0.09 0.16
Matches are distributed among these distances:
24 5 0.04
25 12 0.11
27 4 0.04
29 17 0.15
30 42 0.37
31 1 0.01
32 7 0.06
34 26 0.23
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (31 bp):
TATATATTAAGTTATGTAAGTTATGATATGA
Found at i:46505135 original size:9 final size:9
Alignment explanation
Indices: 46505111--46505199 Score: 72
Period size: 9 Copynumber: 9.9 Consensus size: 9
46505101 CAATTCTTTA
*
46505111 AAGTTAAGT
1 AAGTTATGT
*
46505120 AAATTATGT
1 AAGTTATGT
46505129 AAGTTATGT
1 AAGTTATGT
*
46505138 AAGTTTTGAT
1 AAGTTATG-T
* * *
46505148 ATGATATAT
1 AAGTTATGT
*
46505157 -ATTTATGT
1 AAGTTATGT
*
46505165 AAGTTATAT
1 AAGTTATGT
* *
46505174 AAATTATGC
1 AAGTTATGT
46505183 AAGTTATGT
1 AAGTTATGT
46505192 AAGTTATG
1 AAGTTATG
46505200 ATATATATTT
Statistics
Matches: 59, Mismatches: 19, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
8 4 0.07
9 50 0.85
10 5 0.08
ACGTcount: A:0.38, C:0.01, G:0.17, T:0.44
Consensus pattern (9 bp):
AAGTTATGT
Found at i:46505238 original size:51 final size:48
Alignment explanation
Indices: 46505147--46505260 Score: 133
Period size: 49 Copynumber: 2.3 Consensus size: 48
46505137 TAAGTTTTGA
* * *
46505147 TATGATATATATTTATGTAAGTTATATAAATTATGCAAGTTATGTAAGT
1 TATGATATATATTT-TATAAGTTATAAAAATTATGCAAGTTATGTAAAT
* *
46505196 TATGATATATATTTTATAAGTTTTAAAAACATTTATGTAAGTTATGTAAAT
1 TATGATATATATTTTATAAGTTAT-AAAA-A-TTATGCAAGTTATGTAAAT
46505247 TAT-ATA-ATATTTTA
1 TATGATATATATTTTA
46505261 AAATAGAAAC
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
48 8 0.14
49 25 0.44
50 4 0.07
51 20 0.35
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (48 bp):
TATGATATATATTTTATAAGTTATAAAAATTATGCAAGTTATGTAAAT
Found at i:46505878 original size:21 final size:21
Alignment explanation
Indices: 46505854--46505898 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
46505844 TGAAGTAATG
46505854 AATGATACAGAAGCAGAGACA
1 AATGATACAGAAGCAGAGACA
* *
46505875 AATGATGCAGAGGCAGAGACA
1 AATGATACAGAAGCAGAGACA
46505896 AAT
1 AAT
46505899 TTCATGATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.13, G:0.27, T:0.11
Consensus pattern (21 bp):
AATGATACAGAAGCAGAGACA
Found at i:46507031 original size:25 final size:25
Alignment explanation
Indices: 46506980--46507029 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
46506970 AATTATTATA
* * *
46506980 TAATTCATATCAATTTTTGAAATTT
1 TAATTAATATCAAATTTTAAAATTT
46507005 TAATTAATAT-AAATTTTAAAATTT
1 TAATTAATATCAAATTTTAAAATTT
46507029 T
1 T
46507030 TATATAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATTAATATCAAATTTTAAAATTT
Found at i:46507036 original size:20 final size:21
Alignment explanation
Indices: 46507011--46507049 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46507001 ATTTTAATTA
46507011 ATATAA-ATTTTAAAATTTTT
1 ATATAATATTTTAAAATTTTT
*
46507031 ATATAATTTTTTAAAATTT
1 ATATAATATTTTAAAATTT
46507050 AAACTATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATAATATTTTAAAATTTTT
Found at i:46507236 original size:14 final size:14
Alignment explanation
Indices: 46507217--46507246 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
46507207 AAATCCTAAA
*
46507217 CCCTAACCCTTAAC
1 CCCTAACACTTAAC
46507231 CCCTAACACTTAAC
1 CCCTAACACTTAAC
46507245 CC
1 CC
46507247 TTAAACCATA
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:0.30, C:0.50, G:0.00, T:0.20
Consensus pattern (14 bp):
CCCTAACACTTAAC
Found at i:46507476 original size:7 final size:7
Alignment explanation
Indices: 46507466--46507514 Score: 62
Period size: 7 Copynumber: 6.9 Consensus size: 7
46507456 AAACTCCAAC
46507466 CCATAAT
1 CCATAAT
46507473 CCATAAT
1 CCATAAT
46507480 CCATAAT
1 CCATAAT
46507487 CCATAAT
1 CCATAAT
* *
46507494 CCCTAAAC
1 CCAT-AAT
46507502 CCATAAT
1 CCATAAT
*
46507509 TCATAA
1 CCATAA
46507515 ACATTAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
7 31 0.86
8 5 0.14
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.27
Consensus pattern (7 bp):
CCATAAT
Found at i:46507515 original size:15 final size:15
Alignment explanation
Indices: 46507473--46507516 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
46507463 AACCCATAAT
*
46507473 CCATAATCCAT-AAT
1 CCATAATCCATAAAC
*
46507487 CCATAATCCCTAAAC
1 CCATAATCCATAAAC
*
46507502 CCATAATTCATAAAC
1 CCATAATCCATAAAC
46507517 ATTAAATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.25
Consensus pattern (15 bp):
CCATAATCCATAAAC
Found at i:46507563 original size:14 final size:14
Alignment explanation
Indices: 46507541--46507585 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
46507531 TCTTAAGCCT
46507541 TAAACCCTAAACTA
1 TAAACCCTAAACTA
* *
46507555 TATACCCTAAACCA
1 TAAACCCTAAACTA
*
46507569 TAAACTCTAAACTA
1 TAAACCCTAAACTA
46507583 TAA
1 TAA
46507586 TGATAATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:46507766 original size:14 final size:14
Alignment explanation
Indices: 46507747--46507776 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
46507737 AAATCCTAAA
*
46507747 CCCTAACCCTTAAC
1 CCCTAACACTTAAC
46507761 CCCTAACACTTAAC
1 CCCTAACACTTAAC
46507775 CC
1 CC
46507777 TTAAACCATA
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:0.30, C:0.50, G:0.00, T:0.20
Consensus pattern (14 bp):
CCCTAACACTTAAC
Found at i:46508006 original size:7 final size:7
Alignment explanation
Indices: 46507996--46508044 Score: 62
Period size: 7 Copynumber: 6.9 Consensus size: 7
46507986 AAACTCCAAC
46507996 CCATAAT
1 CCATAAT
46508003 CCATAAT
1 CCATAAT
46508010 CCATAAT
1 CCATAAT
46508017 CCATAAT
1 CCATAAT
* *
46508024 CCCTAAAC
1 CCAT-AAT
46508032 CCATAAT
1 CCATAAT
*
46508039 TCATAA
1 CCATAA
46508045 ACATTAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
7 31 0.86
8 5 0.14
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.27
Consensus pattern (7 bp):
CCATAAT
Found at i:46508045 original size:15 final size:15
Alignment explanation
Indices: 46508003--46508046 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
46507993 AACCCATAAT
*
46508003 CCATAATCCAT-AAT
1 CCATAATCCATAAAC
*
46508017 CCATAATCCCTAAAC
1 CCATAATCCATAAAC
*
46508032 CCATAATTCATAAAC
1 CCATAATCCATAAAC
46508047 ATTAAATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.25
Consensus pattern (15 bp):
CCATAATCCATAAAC
Found at i:46508076 original size:530 final size:530
Alignment explanation
Indices: 46507049--46508196 Score: 2212
Period size: 530 Copynumber: 2.2 Consensus size: 530
46507039 TTTTAAAATT
* * * * * * *
46507049 TAAACTATAATCATAATT--T-TAATATATTAAAATTAATATTATTTCATTTACAATTATATAAG
1 TAAACTATAATGATAATTAATACAATATTTTAAAATTAATACTATCTCTTTTACGATTATATAAG
46507111 AAATTATTTAATATATAAATTAAAAATACTAATTAATCTAAGCTCTAAATCCCTAACCCCTATCC
66 AAATTATTTAATATATAAATTAAAAATACTAATTAATCTAAGCTCTAAATCCCTAACCCCTATCC
46507176 CCTAAACCTTGAATCATAAAACATTAACTATAAATCCTAAACCCTAACCCTTAACCCCTAACACT
131 CCTAAACCTTGAATCATAAAACATTAACTATAAATCCTAAACCCTAACCCTTAACCCCTAACACT
46507241 TAACCCTTAAACCATAAACTATAAACCATAATCTCTAAATCTCTAACCCATATCCCCTAAACACT
196 TAACCCTTAAACCATAAACTATAAACCATAATCTCTAAATCTCTAACCCATATCCCCTAAACACT
46507306 GAATCATAAAATATAAACCCCTAACACCTAAATCTTAAATCTCAACCCTTAAACCACAAACCATA
261 GAATCATAAAATATAAACCCCTAACACCTAAATCTTAAATCTCAACCCTTAAACCACAAACCATA
46507371 ATCCCTAAACCCCTAATTTTTATCCTCTAAACCCTAAATCATAAAACATAAATCTTAAACCCTTA
326 ATCCCTAAACCCCTAATTTTTATCCTCTAAACCCTAAATCATAAAACATAAATCTTAAACCCTTA
46507436 ACCCCTAACACCTAAACCTTAAACTCCAACCCATAATCCATAATCCATAATCCATAATCCCTAAA
391 ACCCCTAACACCTAAACCTTAAACTCCAACCCATAATCCATAATCCATAATCCATAATCCCTAAA
46507501 CCCATAATTCATAAACATTAAATTAATAACTCTTAAGCCTTAAACCCTAAACTATATACCCTAAA
456 CCCATAATTCATAAACATTAAATTAATAACTCTTAAGCCTTAAACCCTAAACTATATACCCTAAA
46507566 CCATAAACTC
521 CCATAAACTC
46507576 TAAACTATAATGATAATTAATACAATATTTTAAAATTAATACTATCTCTTTTACGATTATATAAG
1 TAAACTATAATGATAATTAATACAATATTTTAAAATTAATACTATCTCTTTTACGATTATATAAG
46507641 AAATTATTTAATATATAAATTAAAAATACTAATTAATCTAAGCTCTAAATCCCTAACCCCTATCC
66 AAATTATTTAATATATAAATTAAAAATACTAATTAATCTAAGCTCTAAATCCCTAACCCCTATCC
46507706 CCTAAACCTTGAATCATAAAACATTAACTATAAATCCTAAACCCTAACCCTTAACCCCTAACACT
131 CCTAAACCTTGAATCATAAAACATTAACTATAAATCCTAAACCCTAACCCTTAACCCCTAACACT
46507771 TAACCCTTAAACCATAAACTATAAACCATAATCTCTAAATCTCTAACCCATATCCCCTAAACACT
196 TAACCCTTAAACCATAAACTATAAACCATAATCTCTAAATCTCTAACCCATATCCCCTAAACACT
46507836 GAATCATAAAATATAAACCCCTAACACCTAAATCTTAAATCTCAACCCTTAAACCACAAACCATA
261 GAATCATAAAATATAAACCCCTAACACCTAAATCTTAAATCTCAACCCTTAAACCACAAACCATA
46507901 ATCCCTAAACCCCTAATTTTTATCCTCTAAACCCTAAATCATAAAACATAAATCTTAAACCCTTA
326 ATCCCTAAACCCCTAATTTTTATCCTCTAAACCCTAAATCATAAAACATAAATCTTAAACCCTTA
46507966 ACCCCTAACACCTAAACCTTAAACTCCAACCCATAATCCATAATCCATAATCCATAATCCCTAAA
391 ACCCCTAACACCTAAACCTTAAACTCCAACCCATAATCCATAATCCATAATCCATAATCCCTAAA
46508031 CCCATAATTCATAAACATTAAATTAATAACTCTTAAGCCTTAAACCCTAAACTATATACCCTAAA
456 CCCATAATTCATAAACATTAAATTAATAACTCTTAAGCCTTAAACCCTAAACTATATACCCTAAA
46508096 CCATAAACTC
521 CCATAAACTC
46508106 TAAACTATAATGATAATTAATACAATATTTTAAAATTAATACTATCTCTTTTACGATTATATAAG
1 TAAACTATAATGATAATTAATACAATATTTTAAAATTAATACTATCTCTTTTACGATTATATAAG
46508171 AAATTATTTAATATATAAATTAAAAA
66 AAATTATTTAATATATAAATTAAAAA
46508197 ACAATCAGTC
Statistics
Matches: 611, Mismatches: 7, Indels: 3
0.98 0.01 0.00
Matches are distributed among these distances:
527 17 0.03
529 1 0.00
530 593 0.97
ACGTcount: A:0.44, C:0.25, G:0.01, T:0.30
Consensus pattern (530 bp):
TAAACTATAATGATAATTAATACAATATTTTAAAATTAATACTATCTCTTTTACGATTATATAAG
AAATTATTTAATATATAAATTAAAAATACTAATTAATCTAAGCTCTAAATCCCTAACCCCTATCC
CCTAAACCTTGAATCATAAAACATTAACTATAAATCCTAAACCCTAACCCTTAACCCCTAACACT
TAACCCTTAAACCATAAACTATAAACCATAATCTCTAAATCTCTAACCCATATCCCCTAAACACT
GAATCATAAAATATAAACCCCTAACACCTAAATCTTAAATCTCAACCCTTAAACCACAAACCATA
ATCCCTAAACCCCTAATTTTTATCCTCTAAACCCTAAATCATAAAACATAAATCTTAAACCCTTA
ACCCCTAACACCTAAACCTTAAACTCCAACCCATAATCCATAATCCATAATCCATAATCCCTAAA
CCCATAATTCATAAACATTAAATTAATAACTCTTAAGCCTTAAACCCTAAACTATATACCCTAAA
CCATAAACTC
Found at i:46508093 original size:14 final size:14
Alignment explanation
Indices: 46508071--46508115 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
46508061 TCTTAAGCCT
46508071 TAAACCCTAAACTA
1 TAAACCCTAAACTA
* *
46508085 TATACCCTAAACCA
1 TAAACCCTAAACTA
*
46508099 TAAACTCTAAACTA
1 TAAACCCTAAACTA
46508113 TAA
1 TAA
46508116 TGATAATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:46508560 original size:21 final size:21
Alignment explanation
Indices: 46508495--46508560 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
46508485 CGATTTTCAA
* * *
46508495 AAACCCTAAACCATAGACATT
1 AAACCCTAAACCCTAAACCTT
* ** *
46508516 AAACCTTAAATACTAACCCTT
1 AAACCCTAAACCCTAAACCTT
*
46508537 AAACCCTAAACCCTAAACCGT
1 AAACCCTAAACCCTAAACCTT
46508558 AAA
1 AAA
46508561 GCTTAAAATA
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.47, C:0.30, G:0.03, T:0.20
Consensus pattern (21 bp):
AAACCCTAAACCCTAAACCTT
Found at i:46508567 original size:14 final size:14
Alignment explanation
Indices: 46508495--46508567 Score: 56
Period size: 14 Copynumber: 5.2 Consensus size: 14
46508485 CGATTTTCAA
*
46508495 AAACCCTAAACCAT
1 AAACCCTAAACCTT
* **
46508509 AGACATTAAACCTT
1 AAACCCTAAACCTT
** *
46508523 AAATACTAACCCTT
1 AAACCCTAAACCTT
*
46508537 AAACCCTAAACCCT
1 AAACCCTAAACCTT
* *
46508551 AAACCGTAAAGCTT
1 AAACCCTAAACCTT
46508565 AAA
1 AAA
46508568 ATAAAATGAT
Statistics
Matches: 44, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
14 44 1.00
ACGTcount: A:0.47, C:0.29, G:0.04, T:0.21
Consensus pattern (14 bp):
AAACCCTAAACCTT
Found at i:46508866 original size:152 final size:155
Alignment explanation
Indices: 46508585--46508915 Score: 424
Period size: 152 Copynumber: 2.1 Consensus size: 155
46508575 GATTTTTTGC
* * * * *
46508585 TGTTAGAAAGCGCTGCTAATGCCACTAAAGCTCAAAAAGAAAACGATGTCGTTTTGCTTAACTTC
1 TGTTAAAAATCGCCGCTAATGCTACTAAAGCTC-AAAAGAAAACGACGTCGTTTTGCTTAACTTC
*** * *
46508650 TTTGCGGCGTTTTCCAAAAAGCGCCGTTAATGCTTGATCTATAGCAGTGTTTATCAAAAGGCGCC
65 TTTGCGGCGTTTTCCAAAAAGCGCAACTAATGCTTAACCTATAGCAGTGTTTATCAAAAGGCGCC
*
46508715 GCTAATT-CTCGATCTATTACGGCGTT
130 GCT-ATTGCTCAATCTATTACGGCGTT
* *
46508741 TGTTAAAAATCGCCGCTAATGCTGCTAAAGCTC-AAA-AAAA-GACGTCGTTTTGCTTAACTTTT
1 TGTTAAAAATCGCCGCTAATGCTACTAAAGCTCAAAAGAAAACGACGTCGTTTTGCTTAACTTCT
* *
46508803 TTGCGGCGTTTTTCAAAAAGCGCAACTAATGCTTAACCTATAGCGGCAT-TTTA-CAGAAA-GCG
66 TTGCGGCGTTTTCCAAAAAGCGCAACTAATGCTTAACCTATAGCAG--TGTTTATCA-AAAGGCG
*
46508865 CCGCTATTGCTCAATCTATTGCGGCGTT
128 CCGCTATTGCTCAATCTATTACGGCGTT
46508893 TGTTAAAAATCGCCGCTAATGCT
1 TGTTAAAAATCGCCGCTAATGCT
46508916 CGATCTATTG
Statistics
Matches: 155, Mismatches: 16, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
151 3 0.02
152 109 0.70
153 11 0.07
154 4 0.03
156 28 0.18
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (155 bp):
TGTTAAAAATCGCCGCTAATGCTACTAAAGCTCAAAAGAAAACGACGTCGTTTTGCTTAACTTCT
TTGCGGCGTTTTCCAAAAAGCGCAACTAATGCTTAACCTATAGCAGTGTTTATCAAAAGGCGCCG
CTATTGCTCAATCTATTACGGCGTT
Found at i:46508889 original size:40 final size:39
Alignment explanation
Indices: 46508803--46508927 Score: 108
Period size: 40 Copynumber: 3.1 Consensus size: 39
46508793 CTTAACTTTT
* * ** * *
46508803 TTGCGGCGTTTTTCAAAAAGCGCAACTAATGCTTAACCTA
1 TTGCGGCATTTTAC-AAAAGCGCCGCTAATGCTCAATCTA
* *
46508843 TAGCGGCATTTTACAGAAAGCGCCGCTATTGCTCAATCTA
1 TTGCGGCATTTTACA-AAAGCGCCGCTAATGCTCAATCTA
* * *
46508883 TTGCGGCGTTTGTTA-AAAATCGCCGCTAATGCTCGATCTA
1 TTGCGGC-ATT-TTACAAAAGCGCCGCTAATGCTCAATCTA
46508923 TTGCG
1 TTGCG
46508928 ATGTTTGTTA
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
39 1 0.01
40 62 0.90
41 3 0.04
42 3 0.04
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (39 bp):
TTGCGGCATTTTACAAAAGCGCCGCTAATGCTCAATCTA
Found at i:46508934 original size:40 final size:40
Alignment explanation
Indices: 46508863--46508942 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
46508853 TTACAGAAAG
* *
46508863 CGCCGCTATTGCTCAATCTATTGCGGCGTTTGTTAAAAAT
1 CGCCGCTAATGCTCAATCTATTGCGACGTTTGTTAAAAAT
* *
46508903 CGCCGCTAATGCTCGATCTATTGCGATGTTTGTTAAAAAT
1 CGCCGCTAATGCTCAATCTATTGCGACGTTTGTTAAAAAT
46508943 TTGTCGCTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (40 bp):
CGCCGCTAATGCTCAATCTATTGCGACGTTTGTTAAAAAT
Found at i:46509052 original size:195 final size:192
Alignment explanation
Indices: 46508705--46509109 Score: 528
Period size: 195 Copynumber: 2.1 Consensus size: 192
46508695 AGTGTTTATC
* * * *
46508705 AAAAGGCGCCGCTAATTCTCGATCTATTACGGCGTTTGTTAAAAATCGCCGCTAATGCTGCTAAA
1 AAAAAGCGCCGCTAATGCTCGATCTATTACGACGTTTGTTAAAAATCGCCGCTAATGCTGCCAAA
* *
46508770 GCTCAAAAAAAGACGTCGTTTTGCTTAACTTTTTTGCGGCGTTTTTCAAAAAGCGCAACTAATGC
66 GCTCAAAAAAAGAAGTCGTTTTGCTTAACTTTTTTGCGGCGTTTTCCAAAAAGCGCAACTAATGC
*
46508835 TTAACCTATAGCGGCATTTTACAGAAAGCGCCGCTATTGCTCAATCTATT-GCGGCGTTTGTT
131 TTAACCTATAGCGGCATTTTACAGAAAGCGCCGCTATTGCTCAATCT-TTAGCGGCGTTTCTT
* * * * *
46508897 AAAAATCGCCGCTAATGCTCGATCTATTGCGATGTTTGTTAAAAATTTGTCGCTAATGCCT-CCA
1 AAAAAGCGCCGCTAATGCTCGATCTATTACGACGTTTGTTAAAAA-TCGCCGCTAATG-CTGCCA
* * **
46508961 AAGCTCAACAAAAAACGAAGTTGTTTTGCTTAAC-TTTTTGCGGTGTTTTCCAAAAAGCGCCGCT
64 AAGCTC-A-AAAAAA-GAAGTCGTTTTGCTTAACTTTTTTGCGGCGTTTTCCAAAAAGCGCAACT
* * * * *
46509025 AATGCTTGACCTATAGTGGCGTTTTACAGAAAGCGCCGCTATTGCTCGATCTTTAGTGGCGTTTC
126 AATGCTTAACCTATAGCGGCATTTTACAGAAAGCGCCGCTATTGCTCAATCTTTAGCGGCGTTTC
46509090 TT
191 TT
* *
46509092 AATAAGCGCCGCCAATGC
1 AAAAAGCGCCGCTAATGC
46509110 CACTAAAGCT
Statistics
Matches: 183, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
192 39 0.21
193 18 0.10
194 5 0.03
195 105 0.57
196 16 0.09
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (192 bp):
AAAAAGCGCCGCTAATGCTCGATCTATTACGACGTTTGTTAAAAATCGCCGCTAATGCTGCCAAA
GCTCAAAAAAAGAAGTCGTTTTGCTTAACTTTTTTGCGGCGTTTTCCAAAAAGCGCAACTAATGC
TTAACCTATAGCGGCATTTTACAGAAAGCGCCGCTATTGCTCAATCTTTAGCGGCGTTTCTT
Found at i:46509062 original size:155 final size:156
Alignment explanation
Indices: 46508897--46509259 Score: 403
Period size: 156 Copynumber: 2.3 Consensus size: 156
46508887 GGCGTTTGTT
* * * * ** * * *
46508897 AAAAATCGCCGCTAATGCTCGATCTATT-GCGATGTTTGTTAAAAATTTGTCGCTAATGCCTCCA
1 AAAAAGCGCCGCTATTGCTCGATCT-TTAGCGACGTTTCTTAAAAA-GCGCCGCCAATGCCACCA
* * * *
46508961 AAGCTCAACAAA-A-AACGAAGTTGTTTTGCTTAAC-TTTTTGCGGTGTTTTCCAAAAAGCGCCG
64 AAGCTCAA-AAAGAGAACGAAGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCCA
* *
46509023 CTAATGCTTGACCTATAGTGGCGTTTTAC
128 CTAATGCTTGACATATAGCGGCGTTTTAC
* * * * *
46509052 AGAAAGCGCCGCTATTGCTCGATCTTTAGTGGCGTTTCTTAATAAGCGCCGCCAATGCCACTAAA
1 AAAAAGCGCCGCTATTGCTCGATCTTTAGCGACGTTTCTTAAAAAGCGCCGCCAATGCCACCAAA
* * *
46509117 GCTCAAAAAGAGGACGATGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCCACTC
66 GCTCAAAAAGAGAACGAAGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCCACTA
* *
46509182 ATGCTTGACATGTAGCGGTGTTTTAC
131 ATGCTTGACATATAGCGGCGTTTTAC
* * *
46509208 AAAAAGTGCCGCTATTGCTCAATCTTTAGCGGCGTTT-TTCAAAAAGCGCCGC
1 AAAAAGCGCCGCTATTGCTCGATCTTTAGCGACGTTTCTT-AAAAAGCGCCGC
46509260 TAATTCTCGA
Statistics
Matches: 173, Mismatches: 30, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
153 3 0.02
154 23 0.13
155 53 0.31
156 94 0.54
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (156 bp):
AAAAAGCGCCGCTATTGCTCGATCTTTAGCGACGTTTCTTAAAAAGCGCCGCCAATGCCACCAAA
GCTCAAAAAGAGAACGAAGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCCACTA
ATGCTTGACATATAGCGGCGTTTTAC
Found at i:46509103 original size:40 final size:40
Alignment explanation
Indices: 46509005--46509088 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
46508995 TTTTTGCGGT
* * *
46509005 GTTTTCCAAAAAGCGCCGCTAATGCTTGACCTATAGTGGC
1 GTTTTACAGAAAGCGCCGCTAATGCTCGACCTATAGTGGC
* * *
46509045 GTTTTACAGAAAGCGCCGCTATTGCTCGATCTTTAGTGGC
1 GTTTTACAGAAAGCGCCGCTAATGCTCGACCTATAGTGGC
46509085 GTTT
1 GTTT
46509089 CTTAATAAGC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (40 bp):
GTTTTACAGAAAGCGCCGCTAATGCTCGACCTATAGTGGC
Found at i:46509256 original size:196 final size:196
Alignment explanation
Indices: 46509000--46509479 Score: 540
Period size: 196 Copynumber: 2.5 Consensus size: 196
46508990 TTAACTTTTT
* ** * *
46509000 GCGGTGTTTTCCAAAAAGCGCCGCTAATGCTTGACCTATAGTGGCGTTTTACAGAAAGCGCCGCT
1 GCGGTGTTTTACAAAAAGCGCCGCTAATGCTCAACCTATAGCGGCGTTTTACAAAAAGCGCCGCT
* * *
46509065 -ATTGCTCGATCTT-TAGTGGCGTTTCTTAATAAGCGCCGCCAATGCCACTAAAGCTCAAAAAGA
66 AATT-CTCGAT-TTATAGCGGCGTTTCTTAAAAAGCGCAGCCAATGCCACTAAAGCTCAAAAAGA
** ** *
46509128 GGACGATGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCCACTCATGCTTGACAT
129 AAACGAAATCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCCACTAATGCTTGACAT
46509193 GTA
194 GTA
* * * * *
46509196 GCGGTGTTTTACAAAAAGTGCCGCTATTGCTCAATCTTTAGCGGCGTTTTTCAAAAAGCGCCGCT
1 GCGGTGTTTTACAAAAAGCGCCGCTAATGCTCAACCTATAGCGGCGTTTTACAAAAAGCGCCGCT
* * * * *
46509261 AATTCTCGATTTATTGCGGTGTTTGTTAAAAAGTGCAGCTAATGCCACTAAAGCTCAAAAAGAAA
66 AATTCTCGATTTATAGCGGCGTTTCTTAAAAAGCGCAGCCAATGCCACTAAAGCTCAAAAAGAAA
* *
46509326 ACGAAATCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCGAAAAGCGCCGCTAATGCTTGATCTAT
131 ACGAAATCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCCACTAATGCTTGA-C-AT
46509391 -T-
194 GTA
* * * * * * * * * * *
46509392 GCGGCGATTTAGAGAAAGCGCTGCTATTGCT-TACCTATTGTGGTGTTTGT-TAAAAAGCGCCGC
1 GCGGTGTTTTACAAAAAGCGCCGCTAATGCTCAACCTATAGCGGCGTTT-TACAAAAAGCGCCGC
*
46509455 TAATTCTCGATTTATTGCGGCGTTT
65 TAATTCTCGATTTATAGCGGCGTTT
46509480 TTTTGTTCAA
Statistics
Matches: 240, Mismatches: 39, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
195 49 0.20
196 184 0.77
197 5 0.02
198 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.31
Consensus pattern (196 bp):
GCGGTGTTTTACAAAAAGCGCCGCTAATGCTCAACCTATAGCGGCGTTTTACAAAAAGCGCCGCT
AATTCTCGATTTATAGCGGCGTTTCTTAAAAAGCGCAGCCAATGCCACTAAAGCTCAAAAAGAAA
ACGAAATCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCCACTAATGCTTGACATGT
A
Found at i:46509280 original size:80 final size:81
Alignment explanation
Indices: 46509141--46509301 Score: 182
Period size: 80 Copynumber: 2.0 Consensus size: 81
46509131 CGATGTCGTT
* * * * *
46509141 TTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCCACTCATGCTTGACATGTAGCGGTGTTT-
1 TTGCTCAACTCTTTAGCGGCGTTTTCCAAAAAGCGCCACTAATGCTCGACATATAGCGGTGTTTG
*
46509205 TACAAAAAGTGCCGCTA
66 T-CAAAAAGTGCAGCTA
* * * ** *
46509222 TTGCTCAA-TCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATTCTCGATTTATTGCGGTGTTTG
1 TTGCTCAACTCTTTAGCGGCGTTTTCCAAAAAGCGCCACTAATGCTCGACATATAGCGGTGTTTG
*
46509286 TTAAAAAGTGCAGCTA
66 TCAAAAAGTGCAGCTA
46509302 ATGCCACTAA
Statistics
Matches: 66, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
80 57 0.86
81 9 0.14
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (81 bp):
TTGCTCAACTCTTTAGCGGCGTTTTCCAAAAAGCGCCACTAATGCTCGACATATAGCGGTGTTTG
TCAAAAAGTGCAGCTA
Found at i:46509289 original size:351 final size:346
Alignment explanation
Indices: 46508585--46509454 Score: 1090
Period size: 351 Copynumber: 2.5 Consensus size: 346
46508575 GATTTTTTGC
* * * *
46508585 TGTTAGAAAGCGCTGCTAATGCCACTAAAGCTCAAAAAGAAAACGATGTCGTTTTGCTTAACTTC
1 TGTTAAAAAGTGCAGCTAATGCCACTAAAGCTCAAAAAGAAAACGAAGTCGTTTTGCTTAACTT-
* * *
46508650 TTTGCGGCGTTTTCCAAAAAGCGCCGTTAATGCTTGATCTATAGCAGTGTTTATCA-AAAGGCGC
65 TTTGCGGCGTTTTCCAAAAAGCGCCGCTAATGCTTGATCTATAGCGGCGTTTA-CAGAAA-GCGC
* * * **
46508714 CGCTAATT-CTCGATCTATTACGGCGTTTGTTAAAAATCGCCGCTAATGCTGCTAAAGCTCAAAA
128 CGCT-ATTGCTCGATCTATTACGGCGTTTCTTAAAAAGCGCCGCCAATGCCACTAAAGCTCAAAA
* * *
46508778 AAAGACGTCGTTTTGCTTAACTTTTTTGCGGCGTTTTTCAAAAAGCGCAACTAATGCTTAACCTA
192 AAAGACGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCAACTAATGCTTAACATA
* *
46508843 TAGCGGCATTTTACAGAAAGCGCCGCTATTGCTCAATCTATTGCGGCGTTTGTTAAAAATCGCCG
257 TAGCGGCATTTTACAAAAAGCGCCGCTATTGCTCAATCTATTGCGGCGTTTGTTAAAAAGCGCCG
46508908 CTAATGCTCGATCTATTGCGATGTT
322 CTAATGCTCGATCTATTGCGATGTT
* * * * *
46508933 TGTTAAAAATTTGTC-GCTAATGCCTCCAAAGCTCAACAA-AAAACGAAGTTGTTTTGCTTAACT
1 TGTTAAAAA-GTG-CAGCTAATGCCACTAAAGCTCAAAAAGAAAACGAAGTCGTTTTGCTTAACT
* * *
46508996 TTTTGCGGTGTTTTCCAAAAAGCGCCGCTAATGCTTGACCTATAGTGGCGTTTTACAGAAAGCGC
64 TTTTGCGGCGTTTTCCAAAAAGCGCCGCTAATGCTTGATCTATAGCGGCG-TTTACAGAAAGCGC
* *
46509061 CGCTATTGCTCGATCT-TTAGTGGCGTTTCTTAATAAGCGCCGCCAATGCCACTAAAGCTCAAAA
128 CGCTATTGCTCGATCTATTA-CGGCGTTTCTTAAAAAGCGCCGCCAATGCCACTAAAGCTCAAAA
* * * *
46509125 AGAGGACGATGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCCACTCATGCTTGA
192 A-A--A-GACGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCAACTAATGCTTAA
* ** *
46509190 CATGTAGCGGTGTTTTACAAAAAGTGCCGCTATTGCTCAATCT-TTAGCGGCGTTT-TTCAAAAA
253 CATATAGCGGCATTTTACAAAAAGCGCCGCTATTGCTCAATCTATT-GCGGCGTTTGTT-AAAAA
* * *
46509253 GCGCCGCTAATTCTCGATTTATTGCGGTGTT
316 GCGCCGCTAATGCTCGATCTATTGCGATGTT
* *
46509284 TGTTAAAAAGTGCAGCTAATGCCACTAAAGCTCAAAAAGAAAACGAAATCGTTTTGCTCAACTTT
1 TGTTAAAAAGTGCAGCTAATGCCACTAAAGCTCAAAAAGAAAACGAAGTCGTTTTGCTTAAC-TT
* * * *
46509349 TTTGCGGCGTTTTCCGAAAAGCGCCGCTAATGCTTGATCTATTGCGGCGATTTAGAGAAAGCGCT
65 TTTGCGGCGTTTTCCAAAAAGCGCCGCTAATGCTTGATCTATAGCGGCG-TTTACAGAAAGCGCC
* * ** * *
46509414 GCTATTGCT-TACCTATTGTGGTGTTTGTTAAAAAGCGCCGC
129 GCTATTGCTCGATCTATTACGGCGTTTCTTAAAAAGCGCCGC
46509455 TAATTCTCGA
Statistics
Matches: 448, Mismatches: 58, Indels: 29
0.84 0.11 0.05
Matches are distributed among these distances:
346 6 0.01
347 99 0.22
348 39 0.09
349 23 0.05
350 29 0.06
351 182 0.41
352 70 0.16
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (346 bp):
TGTTAAAAAGTGCAGCTAATGCCACTAAAGCTCAAAAAGAAAACGAAGTCGTTTTGCTTAACTTT
TTGCGGCGTTTTCCAAAAAGCGCCGCTAATGCTTGATCTATAGCGGCGTTTACAGAAAGCGCCGC
TATTGCTCGATCTATTACGGCGTTTCTTAAAAAGCGCCGCCAATGCCACTAAAGCTCAAAAAAAG
ACGTCGTTTTGCTCAACTTTTTTGCGGCGTTTTCCAAAAAGCGCAACTAATGCTTAACATATAGC
GGCATTTTACAAAAAGCGCCGCTATTGCTCAATCTATTGCGGCGTTTGTTAAAAAGCGCCGCTAA
TGCTCGATCTATTGCGATGTT
Found at i:46509394 original size:40 final size:39
Alignment explanation
Indices: 46509350--46509480 Score: 122
Period size: 40 Copynumber: 3.3 Consensus size: 39
46509340 CTCAACTTTT
*
46509350 TTGCGGCGTTTTCCGAAAAGCGCCGCTAATGCTTGATCTA
1 TTGCGGCGTTTT-AGAAAAGCGCCGCTAATGCTTGATCTA
* * * *
46509390 TTGCGGCGATTTAGAGAAAGCGCTGCTATTGCTT-ACCTA
1 TTGCGGCGTTTTAGA-AAAGCGCCGCTAATGCTTGATCTA
* * * * *
46509429 TTGTGGTGTTTGTTA-AAAAGCGCCGCTAATTCTCGATTTA
1 TTGCGGCG-TT-TTAGAAAAGCGCCGCTAATGCTTGATCTA
46509469 TTGCGGCGTTTT
1 TTGCGGCGTTTT
46509481 TTTGTTCAAA
Statistics
Matches: 71, Mismatches: 16, Indels: 10
0.73 0.16 0.10
Matches are distributed among these distances:
38 2 0.03
39 28 0.39
40 38 0.54
41 3 0.04
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (39 bp):
TTGCGGCGTTTTAGAAAAGCGCCGCTAATGCTTGATCTA
Found at i:46511765 original size:37 final size:37
Alignment explanation
Indices: 46511723--46511793 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
46511713 TGATTGTTTA
* * *
46511723 ATTATAAAATATATT-ATTATTGTTATTATTTTATTAT
1 ATTATAAAATAAATTGATTA-TATTATTATATTATTAT
*
46511760 ATTATAAATTAAATTGATTATATTATTATATTAT
1 ATTATAAAATAAATTGATTATATTATTATATTAT
46511794 GAAATAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 25 0.86
38 4 0.14
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (37 bp):
ATTATAAAATAAATTGATTATATTATTATATTATTAT
Found at i:46511770 original size:29 final size:29
Alignment explanation
Indices: 46511747--46511803 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
46511737 TATTATTGTT
*
46511747 ATTATTTTATTATATTAT-AAATTAAATTG
1 ATTATATTATTATATTATGAAATT-AATTG
*
46511776 ATTATATTATTATATTATGAAATAAATT
1 ATTATATTATTATATTATGAAATTAATT
46511804 AAGAAAAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (29 bp):
ATTATATTATTATATTATGAAATTAATTG
Found at i:46511902 original size:31 final size:32
Alignment explanation
Indices: 46511862--46511931 Score: 92
Period size: 31 Copynumber: 2.2 Consensus size: 32
46511852 AAATGAGTAC
46511862 ATTTGTATTATATA-TA-TAATTAGTAAAAAGAT
1 ATTT-TATTATATATTATTAATTAGT-AAAAGAT
*
46511894 ATTTTATTATTTATTATTAATTAGTAAAAGAT
1 ATTTTATTATATATTATTAATTAGTAAAAGAT
46511926 -TTTTAT
1 ATTTTAT
46511932 ATGATAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
31 14 0.40
32 13 0.37
33 8 0.23
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (32 bp):
ATTTTATTATATATTATTAATTAGTAAAAGAT
Found at i:46511916 original size:33 final size:33
Alignment explanation
Indices: 46511869--46511931 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
46511859 TACATTTGTA
46511869 TTATATATATAATTAGTAAAAAGATATTTTATTAT
1 TTATATATATAATTAGT-AAAAGAT-TTTTATTAT
46511904 TTAT-TAT-TAATTAGTAAAAGATTTTTAT
1 TTATATATATAATTAGTAAAAGATTTTTAT
46511932 ATGATAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 6 0.21
32 7 0.25
33 8 0.29
34 3 0.11
35 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (33 bp):
TTATATATATAATTAGTAAAAGATTTTTATTAT
Found at i:46512040 original size:18 final size:19
Alignment explanation
Indices: 46512017--46512052 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
46512007 TGTAATATTT
*
46512017 ATATTTGTTATTA-AATAG
1 ATATTTATTATTATAATAG
46512035 ATATTTATTATTATAATA
1 ATATTTATTATTATAATA
46512053 ATTATTATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (19 bp):
ATATTTATTATTATAATAG
Found at i:46515095 original size:29 final size:29
Alignment explanation
Indices: 46515054--46515111 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
46515044 TTTTTTAGTA
46515054 GGGTTCATGTTGAATA-AATGATTGAATTAG
1 GGGTTCATGTTG-ATAGAATGATTG-ATTAG
* *
46515084 GGGTTTAT-TTGATAGAATTATTGATTAG
1 GGGTTCATGTTGATAGAATGATTGATTAG
46515112 AATTGATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 8 0.32
29 10 0.40
30 7 0.28
ACGTcount: A:0.31, C:0.02, G:0.26, T:0.41
Consensus pattern (29 bp):
GGGTTCATGTTGATAGAATGATTGATTAG
Found at i:46515590 original size:18 final size:19
Alignment explanation
Indices: 46515554--46515590 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
46515544 AGTAACTTTA
*
46515554 TTGAATTGAATTTAGAAAT
1 TTGAATTGAATTGAGAAAT
46515573 TTGAATTGAA-TGAGAAAT
1 TTGAATTGAATTGAGAAAT
46515591 ATGTGTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (19 bp):
TTGAATTGAATTGAGAAAT
Found at i:46517714 original size:12 final size:12
Alignment explanation
Indices: 46517697--46517722 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46517687 CAAAACAGGC
46517697 TTTTAGCGGCGT
1 TTTTAGCGGCGT
46517709 TTTTAGCGGCGT
1 TTTTAGCGGCGT
46517721 TT
1 TT
46517723 GGACAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:46517937 original size:41 final size:41
Alignment explanation
Indices: 46517868--46518233 Score: 507
Period size: 41 Copynumber: 8.9 Consensus size: 41
46517858 TGAGTTTTTG
* * * *
46517868 GGGCATTTAGCGGCGTTTTAGAAAAAGCGCCGCTAATGCTA
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* *
46517909 GGGCCTTTAGCGGCATTTTTGAGGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* *
46517950 GGGCCTTTAGCGGCGTTTGTGAAGAAGCGCCGCTAATGCTG
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
*
46517991 GGGCCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* * * *
46518032 AGGCCTTTTAGCGGCGTTTCTGAGGAAGCGCCGCTAATTCTC
1 GGGCC-TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* * *
46518074 GGGCCTTTAGCGACGTTTTTGACGAAGCGCCACTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* *
46518115 TGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* * *
46518156 TGGTCTTTAGCAGCGTTTTTGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* * *
46518197 CGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAAT
46518234 AATAATAAAA
Statistics
Matches: 289, Mismatches: 35, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
41 253 0.88
42 36 0.12
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
Found at i:46518080 original size:165 final size:163
Alignment explanation
Indices: 46517873--46518233 Score: 524
Period size: 165 Copynumber: 2.2 Consensus size: 163
46517863 TTTTGGGGCA
* *
46517873 TTTAGCGGCGTTTTAGAAAAAGCGCCGCTAATGCTAGGGCCTTTAGCGGCATTTTTGAGGAAGCG
1 TTTAGCGGCGTTTT-GAAAAAGCGCCGCTAATGCTAGGGCCTTTAGCGACATTTTTGACGAAGCG
* * * *
46517938 CCGCTAATGCTCGGGCCTTTAGCGGCGTTTGTGAAGAAGCGCCGCTAATGCTGGGGCCTTTAGCG
65 CCACTAATGCTCGGGCCTTTAGCGGCGTTTGTGAAAAAGCGCCGCTAATGCTCGGGCCTTTAGCA
46518003 GCATTTTTGAAGAAGCGCCGCTAATGCTCAGGCC
130 GCATTTTTGAAGAAGCGCCGCTAATGCTCAGGCC
** * * *
46518037 TTTTAGCGGCGTTTCTGAGGAAGCGCCGCTAATTCTCGGGCCTTTAGCGACGTTTTTGACGAAGC
1 -TTTAGCGGCGTTT-TGAAAAAGCGCCGCTAATGCTAGGGCCTTTAGCGACATTTTTGACGAAGC
* * * *
46518102 GCCACTAATGCTCTGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGTCTTTAGC
64 GCCACTAATGCTCGGGCCTTTAGCGGCGTTTGTGAAAAAGCGCCGCTAATGCTCGGGCCTTTAGC
* * *
46518167 AGCGTTTTTGAAGAAGCGCCGCTAATGCTCCGGTC
129 AGCATTTTTGAAGAAGCGCCGCTAATGCTCAGGCC
46518202 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
1 TTTAGCGGCG-TTTTGAAAAAGCGCCGCTAAT
46518234 AATAATAAAA
Statistics
Matches: 174, Mismatches: 20, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
164 26 0.15
165 147 0.84
166 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.28
Consensus pattern (163 bp):
TTTAGCGGCGTTTTGAAAAAGCGCCGCTAATGCTAGGGCCTTTAGCGACATTTTTGACGAAGCGC
CACTAATGCTCGGGCCTTTAGCGGCGTTTGTGAAAAAGCGCCGCTAATGCTCGGGCCTTTAGCAG
CATTTTTGAAGAAGCGCCGCTAATGCTCAGGCC
Found at i:46518369 original size:21 final size:20
Alignment explanation
Indices: 46518345--46518395 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
46518335 ATTTCGTTGT
*
46518345 ATTTATTATATATGATAACAA
1 ATTTATT-TAAATGATAACAA
46518366 ATTTACATTTAAATGATAACAA
1 ATTT--ATTTAAATGATAACAA
46518388 ATTATATT
1 ATT-TATT
46518396 GTTTAATACA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 7 0.27
22 15 0.58
23 4 0.15
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (20 bp):
ATTTATTTAAATGATAACAA
Found at i:46518942 original size:7 final size:7
Alignment explanation
Indices: 46518869--46518973 Score: 90
Period size: 7 Copynumber: 15.0 Consensus size: 7
46518859 TATTAAATAA
46518869 GGTTTAG
1 GGTTTAG
*
46518876 GGGTTAG
1 GGTTTAG
46518883 AGG-TTAG
1 -GGTTTAG
46518890 GG-TT-G
1 GGTTTAG
*
46518895 GGGTTATG
1 GGTTTA-G
46518903 GGTTTAG
1 GGTTTAG
46518910 GGTTTAG
1 GGTTTAG
46518917 GGTTTAG
1 GGTTTAG
*
46518924 GGTCTAG
1 GGTTTAG
46518931 GGTTTAG
1 GGTTTAG
* *
46518938 AGTTTTAA
1 -GGTTTAG
*
46518946 GGTTTAA
1 GGTTTAG
*
46518953 GGTTAAG
1 GGTTTAG
*
46518960 GGTTCAG
1 GGTTTAG
46518967 GGTTTAG
1 GGTTTAG
46518974 AATTTAAGGG
Statistics
Matches: 82, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
5 3 0.04
6 6 0.07
7 60 0.73
8 13 0.16
ACGTcount: A:0.18, C:0.02, G:0.42, T:0.38
Consensus pattern (7 bp):
GGTTTAG
Found at i:46518962 original size:36 final size:35
Alignment explanation
Indices: 46518905--46518987 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 35
46518895 GGGTTATGGG
* * * *
46518905 TTTAGGGTTTAGGGTTTAGGG-TCTAGGGTTTAGAGT
1 TTTAAGGTTTAAGGTTAAGGGTTC-AGGGTTTAGA-A
46518941 TTTAAGGTTTAAGGTTAAGGGTTCAGGGTTTAGAA
1 TTTAAGGTTTAAGGTTAAGGGTTCAGGGTTTAGAA
*
46518976 TTTAAGGGTTAA
1 TTTAAGGTTTAA
46518988 TGGTCGGATT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
35 11 0.27
36 28 0.68
37 2 0.05
ACGTcount: A:0.24, C:0.02, G:0.34, T:0.40
Consensus pattern (35 bp):
TTTAAGGTTTAAGGTTAAGGGTTCAGGGTTTAGAA
Found at i:46519739 original size:29 final size:30
Alignment explanation
Indices: 46519668--46519739 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 30
46519658 GCCAATGCCC
* * *
46519668 AATTTAAGGTTTAGGGGTTAGGGGTTTAAG
1 AATTTAAAGTTTAGGGGTTAAGAGTTTAAG
* *
46519698 -AGTTAAA-TGTTAGGGGTTAAGAG-TTAGG
1 AATTTAAAGT-TTAGGGGTTAAGAGTTTAAG
46519726 AATTTAAAGTTTAG
1 AATTTAAAGTTTAG
46519740 AGATTTAGGG
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
28 5 0.15
29 27 0.82
30 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (30 bp):
AATTTAAAGTTTAGGGGTTAAGAGTTTAAG
Found at i:46524477 original size:86 final size:86
Alignment explanation
Indices: 46524332--46524547 Score: 215
Period size: 86 Copynumber: 2.5 Consensus size: 86
46524322 TGTTTTTAGT
* * * * * * *
46524332 GGCGTTT-TTGCAAGAAGCGTTGCTAAAGGT-TTGTTCTATAGCAGCGTTTGTGGGAAAAGCGCC
1 GGCGTTTGTTGGAA-AAGCGCTGCTAAAGGTCATGATCTATAGCGGCGTTTGTAGCAAAAGCGCC
*
46524395 ACT-AAAGATCCTGATCTATAGC
65 ACTAAAAG-TCATGATCTATAGC
* *
46524417 GGCGTTTGTTGGAAAAGCGCTGCTAAAGGTCATGATCTATAGCGGCGTTTGTAGCAAAAGCGTCG
1 GGCGTTTGTTGGAAAAGCGCTGCTAAAGGTCATGATCTATAGCGGCGTTTGTAGCAAAAGCGCCA
* *
46524482 CTAAAAGTCATGGTCTTTAGC
66 CTAAAAGTCATGATCTATAGC
* * * * * * *
46524503 TGCGTTTGTAGG-AAAGTGCCGCTAAAGCTCATGGTCTTTAGCGGC
1 GGCGTTTGTTGGAAAAGCGCTGCTAAAGGTCATGATCTATAGCGGC
46524548 ATTTATTGCT
Statistics
Matches: 109, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
85 50 0.46
86 55 0.50
87 4 0.04
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (86 bp):
GGCGTTTGTTGGAAAAGCGCTGCTAAAGGTCATGATCTATAGCGGCGTTTGTAGCAAAAGCGCCA
CTAAAAGTCATGATCTATAGC
Found at i:46524536 original size:42 final size:42
Alignment explanation
Indices: 46524366--46524574 Score: 195
Period size: 43 Copynumber: 4.9 Consensus size: 42
46524356 AAAGGTTTGT
* * * *
46524366 TCTATAGCAGCGTTTGTGGGAAAAGCGCCACTAAAGATCCTGA
1 TCTATAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAG-TCATGA
* *
46524409 TCTATAGCGGCGTTTGTTGGAAAAGCGCTGCTAAAGGTCATGA
1 TCTATAGCGGCGTTTGTAGGAAAAGCGCCGCTAAA-GTCATGA
* * *
46524452 TCTATAGCGGCGTTTGTAGCAAAAGCGTCGCTAAAAGTCATGG
1 TCTATAGCGGCGTTTGTAGGAAAAGCGCCGCT-AAAGTCATGA
* * * *
46524495 TCTTTAGCTGCGTTTGTAGG-AAAGTGCCGCTAAAGCTCATGG
1 TCTATAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAG-TCATGA
* * * * * *
46524537 TCTTTAGCGGCATTTATTGCTAAAAACGCCGCTAAAGT
1 TCTATAGCGGCGTTTGTAG-GAAAAGCGCCGCTAAAGT
46524575 TAGCGATGCT
Statistics
Matches: 139, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
41 4 0.03
42 30 0.22
43 88 0.63
44 17 0.12
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (42 bp):
TCTATAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGTCATGA
Found at i:46524673 original size:22 final size:22
Alignment explanation
Indices: 46524645--46524687 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
46524635 TAGTGGCGCT
*
46524645 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
*
46524667 AAAAAGCGCTGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
46524688 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.21, T:0.12
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:46535528 original size:43 final size:43
Alignment explanation
Indices: 46535481--46535665 Score: 244
Period size: 43 Copynumber: 4.3 Consensus size: 43
46535471 TTTATGTGAA
*
46535481 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTATCAC
* * *
46535524 AAACGCCGCTAAAGACCATAACCTTTTAACGGCGCTTTTGTCAC
1 AAACGCCGCTAAAGACCATGACC-TTTAGCGGCGCTTTTATCAC
* * *
46535568 AAACGCCGCTAAAGACCATGACCTTTAGCAGCGTTTTTGTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTATCAC
* * ** *
46535611 AAATGCCACTAAAGAATATGACCTTTAGCGGCACTTTTTATCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGC-TTTTATCAC
46535655 AAACGCCGCTA
1 AAACGCCGCTA
46535666 TAGAACAAAC
Statistics
Matches: 122, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
43 65 0.53
44 57 0.47
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTATCAC
Found at i:46535579 original size:87 final size:87
Alignment explanation
Indices: 46535460--46535665 Score: 254
Period size: 87 Copynumber: 2.4 Consensus size: 87
46535450 AGTGTCGTTA
* * * *
46535460 TTTTAACGGCG-TTTATGTGAAAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCAC
1 TTTTAACGGCGCTTT-TGTCACAAACGCCGCTAAAGACCATGACCTTTAGCAGCGCTTTTATCAC
* *
46535524 AAACGCCGCTAAAGACCATAACC
65 AAACGCCACTAAAGAACATAACC
* *
46535547 TTTTAACGGCGCTTTTGTCACAAACGCCGCTAAAGACCATGACCTTTAGCAGCGTTTTTGTCACA
1 TTTTAACGGCGCTTTTGTCACAAACGCCGCTAAAGACCATGACCTTTAGCAGCGCTTTTATCACA
* * *
46535612 AATGCCACTAAAGAATATGACC
66 AACGCCACTAAAGAACATAACC
* * *
46535634 -TTTAGCGGCACTTTTTATCACAAACGCCGCTA
1 TTTTAACGGCGC-TTTTGTCACAAACGCCGCTA
46535666 TAGAACAAAC
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
86 9 0.09
87 91 0.88
88 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (87 bp):
TTTTAACGGCGCTTTTGTCACAAACGCCGCTAAAGACCATGACCTTTAGCAGCGCTTTTATCACA
AACGCCACTAAAGAACATAACC
Found at i:46536137 original size:43 final size:42
Alignment explanation
Indices: 46536071--46536161 Score: 128
Period size: 43 Copynumber: 2.1 Consensus size: 42
46536061 CTCATTGCAA
* * *
46536071 TGTAATAAAAAATACAATGCATTTTCTTAATCAAGTAAATCT
1 TGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCT
* *
46536113 TGGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCT
1 T-GTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCT
46536156 TGTAAT
1 TGTAAT
46536162 GAACTCAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 6 0.14
43 37 0.86
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (42 bp):
TGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCT
Found at i:46536768 original size:148 final size:150
Alignment explanation
Indices: 46536498--46536795 Score: 519
Period size: 148 Copynumber: 2.0 Consensus size: 150
46536488 TCAAATCCCA
46536498 ACATCATAACCATTTTAATATATCTAATGTTATATAAAATGGGGTACAACAAAGGATGAGAAAAC
1 ACATCATAACCATTTTAATATATCTAATGTTATATAAAATGGGGTACAACAAAGGATGAGAAAAC
46536563 TTACTCGTTATTATTAACAAGCCCCATTCTCTTTACCGTTTATGGAATTGCCATAATGAAATGAT
66 TTACTCGTTATTATTAACAAGCCCCATTCTCTTTACCGTTTATGGAATTGCCATAATGAAATGAT
*
46536628 GAATCCAAGCATCCGGTAGC
131 GAATCCAAGCATCCGATAGC
*
46536648 ACATCATAACCATTTTAGTATATCTAATG-T-TATAAAATGGGGTACAACAAAGGATGAGAAAAC
1 ACATCATAACCATTTTAATATATCTAATGTTATATAAAATGGGGTACAACAAAGGATGAGAAAAC
** * * *
46536711 TTACTCGTTATTATTGGCAGGCCCCATTCTCTTTACCGTTTATGGAATTGTCATAATGACATGAT
66 TTACTCGTTATTATTAACAAGCCCCATTCTCTTTACCGTTTATGGAATTGCCATAATGAAATGAT
46536776 GAATCCAAGCATCCGATAGC
131 GAATCCAAGCATCCGATAGC
46536796 CTTTGCTTTT
Statistics
Matches: 141, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
148 112 0.79
149 1 0.01
150 28 0.20
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (150 bp):
ACATCATAACCATTTTAATATATCTAATGTTATATAAAATGGGGTACAACAAAGGATGAGAAAAC
TTACTCGTTATTATTAACAAGCCCCATTCTCTTTACCGTTTATGGAATTGCCATAATGAAATGAT
GAATCCAAGCATCCGATAGC
Found at i:46545149 original size:22 final size:22
Alignment explanation
Indices: 46545114--46545155 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
46545104 AGTCAGATAT
46545114 GAAACAAAGGAGGAAAGAAGTA
1 GAAACAAAGGAGGAAAGAAGTA
*
46545136 GAAA-AAAGGCAGGAGAGAAG
1 GAAACAAAGG-AGGAAAGAAG
46545156 AAGGGCACGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.57, C:0.05, G:0.36, T:0.02
Consensus pattern (22 bp):
GAAACAAAGGAGGAAAGAAGTA
Found at i:46550553 original size:44 final size:44
Alignment explanation
Indices: 46550504--46550925 Score: 220
Period size: 44 Copynumber: 9.2 Consensus size: 44
46550494 AGTGTAAGGA
* *
46550504 AGCAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTACAGCAG
1 AGCAGATTGAAGCTAGAAATCTTATCTCTCTGAGATTACAGTAG
* * * * *
46550548 AGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACTGTGG
1 AGCAGATTGAAGCTAGAAATCTTATCTCTCTGAGATTACAGTAG
* **
46550592 AGCGGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAATAG
1 AGCAGATTGAAGCTAGAA--ATCTTATCTCTCTGAGA-TTAC---AG--TAG
* *
46550641 ATCGCATCAGATTGAAGCCAGAAATCTTATCTCTTTGAGATTACAGT-G
1 A--G---CAGATTGAAGCTAGAAATCTTATCTCTCTGAGATTACAGTAG
* * * *
46550689 AAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
1 -AGCAGATTGAAGCTAGAAATCTTATCTCTCTGAGATTACAGTAG
* **
46550734 AGTAGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAG
1 AGCAGATTGAAGCTAGAA--ATCTTATCTCTCTGAGA-TTAC-----AGTAG
* *
46550783 ATCGCATCAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTACAG-CG
1 A--G---CAGATTGAAGCTAGAAATCTTATCTCTCTGAGATTACAGTAG
** * * *
46550831 AAGCAGATTGAAGCTAGTGATCCTATCTCCCTGAGATTACAGTGG
1 -AGCAGATTGAAGCTAGAAATCTTATCTCTCTGAGATTACAGTAG
* * *
46550876 AGCGGATT-AAG--AGACCGATCTTATCTCTCTGA-AGTTGCAGTAG
1 AGCAGATTGAAGCTAGA--AATCTTATCTCTCTGAGA-TTACAGTAG
46550919 AGCAGAT
1 AGCAGAT
46550926 CGCATCAAGT
Statistics
Matches: 289, Mismatches: 50, Indels: 79
0.69 0.12 0.19
Matches are distributed among these distances:
41 2 0.01
42 3 0.01
43 40 0.14
44 161 0.56
45 2 0.01
47 3 0.01
48 2 0.01
49 13 0.04
51 4 0.01
54 47 0.16
55 8 0.03
56 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
AGCAGATTGAAGCTAGAAATCTTATCTCTCTGAGATTACAGTAG
Found at i:46550762 original size:142 final size:141
Alignment explanation
Indices: 46550506--46550932 Score: 703
Period size: 142 Copynumber: 3.0 Consensus size: 141
46550496 TGTAAGGAAG
*
46550506 CAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTACAGGA-AGCAGATTGAAGCTAGTAATCCT
*
46550571 ATCTCCCTGAGATTACTGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
65 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
*
46550636 AATAGATCGCAT
130 AGTAGATCGCAT
*
46550648 CAGATTGAAGCCAGAAATCTTATCTCTTTGAGATTACAGTGAAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTACAG-GAAGCAGATTGAAGCTAGTAATCCT
**
46550713 ATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
65 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
46550778 AGTAGATCGCAT
130 AGTAGATCGCAT
*
46550790 CAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTACAGCGAAGCAGATTGAAGCTAGTGATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTACAG-GAAGCAGATTGAAGCTAGTAATCCT
* * ** *
46550855 ATCTCCCTGAGATTACAGTGGAGCGGATTAAGA-GACCGATCTTATCTCTCTGAAGTTGCAGTAG
65 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
*
46550919 AGCAGATCGCAT
130 AGTAGATCGCAT
46550931 CA
1 CA
46550933 AGTCTTGCCA
Statistics
Matches: 267, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
141 40 0.15
142 226 0.85
143 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (141 bp):
CAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTACAGGAAGCAGATTGAAGCTAGTAATCCTA
TCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGA
GTAGATCGCAT
Found at i:46550871 original size:98 final size:97
Alignment explanation
Indices: 46550692--46550873 Score: 215
Period size: 98 Copynumber: 1.9 Consensus size: 97
46550682 TACAGTGAAG
* * * * * *
46550692 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAGGATCTT
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGAAGCAGATTAAAAT-AAGGATCCT
*
46550757 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
65 ATCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
* * **
46550790 CAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTACAGCGAAGCAGATTGAAGCT-AGTGATCC
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGAAGCAGATT-AAAATAAG-GATCC
46550854 TATCTCCCTG-AGATTACAGT
64 TATCTCCCTGAAG-TTACAGT
46550874 GGAGCGGATT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
97 4 0.06
98 63 0.90
99 3 0.04
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (97 bp):
CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGAAGCAGATTAAAATAAGGATCCTA
TCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:46557060 original size:14 final size:14
Alignment explanation
Indices: 46557029--46557076 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
46557019 TCCCAACTCT
* *
46557029 TAAACAATAAACCA
1 TAAACCATAATCCA
* *
46557043 TAAACCGTAATCCC
1 TAAACCATAATCCA
46557057 TAAACCCATAATCCA
1 TAAA-CCATAATCCA
46557072 TAAAC
1 TAAAC
46557077 TTTAAAATAG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.50, C:0.29, G:0.02, T:0.19
Consensus pattern (14 bp):
TAAACCATAATCCA
Found at i:46557130 original size:14 final size:14
Alignment explanation
Indices: 46557101--46557145 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
46557091 TCTTAAACTT
*
46557101 TAAACCCTACACCA
1 TAAACCCTAAACCA
* *
46557115 TATACCTTAAACCA
1 TAAACCCTAAACCA
*
46557129 TAAACCCTAAACTA
1 TAAACCCTAAACCA
46557143 TAA
1 TAA
46557146 TCATAATTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:46557826 original size:41 final size:41
Alignment explanation
Indices: 46557781--46558014 Score: 299
Period size: 41 Copynumber: 5.7 Consensus size: 41
46557771 CATTAACAGT
* *
46557781 GCTTTTTTAGAAATGCCGCTAAAGCCCCTAGCATTAGCGAC
1 GCTTTTTCAAAAATGCCGCTAAAGCCCCTAGCATTAGCGAC
* **
46557822 GCTTTTACAAAAATGCCGCTAAAGCCCCTATAATTAGCGAC
1 GCTTTTTCAAAAATGCCGCTAAAGCCCCTAGCATTAGCGAC
* * * *
46557863 GCTTTTTCAAAAACGCTGCTAAAGCCCCTAGCATTAGTGGC
1 GCTTTTTCAAAAATGCCGCTAAAGCCCCTAGCATTAGCGAC
* * *
46557904 GCTCTTTCAAAAATGCCGCTAAAGCCCCTATCATTAGCGGC
1 GCTTTTTCAAAAATGCCGCTAAAGCCCCTAGCATTAGCGAC
*
46557945 GCTTTTTCAAAAATGCCGCCAAAAG-CCCTGAGCATTAGCGAC
1 GCTTTTTCAAAAATGCCG-CTAAAGCCCCT-AGCATTAGCGAC
* * *
46557987 GCTTTTTTAAAAACGCCGATAAAGCCCC
1 GCTTTTTCAAAAATGCCGCTAAAGCCCC
46558015 GAAATGTCAG
Statistics
Matches: 165, Mismatches: 25, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
41 131 0.79
42 34 0.21
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (41 bp):
GCTTTTTCAAAAATGCCGCTAAAGCCCCTAGCATTAGCGAC
Found at i:46557958 original size:123 final size:124
Alignment explanation
Indices: 46557791--46558014 Score: 344
Period size: 123 Copynumber: 1.8 Consensus size: 124
46557781 GCTTTTTTAG
* *
46557791 AAATGCCGCTAAAGCCCCTAGCATTAGCGACGCTTTTACAAAAATGCCG-CTAAAGCCCCT-ATA
1 AAATGCCGCTAAAGCCCCTAGCATTAGCGACGCTTTTACAAAAATGCCGCCAAAAG-CCCTGAGA
* *
46557854 ATTAGCGACGCTTTTTCAAAAACGCTGCTAAAGCCCCTAGCATTAGTGGCGCTCTTTCAA
65 ATTAGCGACGCTTTTTCAAAAACGCCGATAAAGCCCCTAGCATTAGTGGCGCTCTTTCAA
* * * *
46557914 AAATGCCGCTAAAGCCCCTATCATTAGCGGCGCTTTTTCAAAAATGCCGCCAAAAGCCCTGAGCA
1 AAATGCCGCTAAAGCCCCTAGCATTAGCGACGCTTTTACAAAAATGCCGCCAAAAGCCCTGAGAA
*
46557979 TTAGCGACGCTTTTTTAAAAACGCCGATAAAGCCCC
66 TTAGCGACGCTTTTTCAAAAACGCCGATAAAGCCCC
46558015 GAAATGTCAG
Statistics
Matches: 90, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
123 50 0.56
124 40 0.44
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (124 bp):
AAATGCCGCTAAAGCCCCTAGCATTAGCGACGCTTTTACAAAAATGCCGCCAAAAGCCCTGAGAA
TTAGCGACGCTTTTTCAAAAACGCCGATAAAGCCCCTAGCATTAGTGGCGCTCTTTCAA
Found at i:46567747 original size:20 final size:20
Alignment explanation
Indices: 46567718--46567783 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
46567708 AGAAAAAGCT
* *
46567718 TTTACTAATATTTCTAACGA
1 TTTACCAATATTTCTAAGGA
*
46567738 TTTACCAATA--T-T--GGC
1 TTTACCAATATTTCTAAGGA
46567753 TTTACCAATATTTCTAAGGA
1 TTTACCAATATTTCTAAGGA
46567773 TTTACCAATAT
1 TTTACCAATAT
46567784 CGTAAGATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
15 11 0.30
17 2 0.05
18 2 0.05
20 22 0.59
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (20 bp):
TTTACCAATATTTCTAAGGA
Found at i:46573869 original size:25 final size:25
Alignment explanation
Indices: 46573837--46573891 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
46573827 TAATTTAATC
*
46573837 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
46573861 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
46573886 ATATAT
1 ATATAT
46573892 AACTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:46574073 original size:47 final size:46
Alignment explanation
Indices: 46574007--46574174 Score: 143
Period size: 47 Copynumber: 3.7 Consensus size: 46
46573997 TTAATTAAAA
*
46574007 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTATCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTATCT
* *
46574054 TATATGAATTTGTATAATTTAAAATAATTAT--TATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-ATCT
* * * * *
46574099 TA-AT-AATAATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTATCT
*
46574145 TATATGAATTTATACAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
46574175 ATATTAAATA
Statistics
Matches: 96, Mismatches: 13, Indels: 25
0.72 0.10 0.19
Matches are distributed among these distances:
43 3 0.03
44 22 0.23
45 9 0.09
46 9 0.09
47 46 0.48
48 7 0.07
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTATCT
Found at i:46574116 original size:44 final size:43
Alignment explanation
Indices: 46574066--46574209 Score: 132
Period size: 44 Copynumber: 3.2 Consensus size: 43
46574056 TATGAATTTG
46574066 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
* * * *
46574110 TATAATTTCATAA-AATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-AT--TAAATATAAT-TTA-AT-AATATA
* *
46574157 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
46574201 TATAATTTA
1 TATAATTTA
46574210 TACATTTAAC
Statistics
Matches: 78, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
43 3 0.04
44 31 0.40
45 10 0.13
46 10 0.13
47 21 0.27
48 3 0.04
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTATTATTAAATATAATTTAATAATATA
Found at i:46574137 original size:91 final size:91
Alignment explanation
Indices: 46574041--46574208 Score: 291
Period size: 91 Copynumber: 1.8 Consensus size: 91
46574031 TAATTATAAC
* * *
46574041 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAAT
1 TAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
46574106 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTGA
*
46574132 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
46574197 GATATATAATTT
66 AATATATAATTT
46574209 ATACATTTAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 72 1.00
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTGA
Found at i:46575354 original size:45 final size:45
Alignment explanation
Indices: 46575290--46575379 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
46575280 CAAGTGGCCC
*
46575290 AGGTTTCCCTTCATCTCCTAATCGTCCATCCTCATCACATTTAAA
1 AGGTTTCCCTACATCTCCTAATCGTCCATCCTCATCACATTTAAA
*
46575335 AGGTTTCCCTACATCTCCTAATCGTCCATCCTTATCACATTTAAA
1 AGGTTTCCCTACATCTCCTAATCGTCCATCCTCATCACATTTAAA
46575380 TCTGTGGTGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.26, C:0.32, G:0.07, T:0.36
Consensus pattern (45 bp):
AGGTTTCCCTACATCTCCTAATCGTCCATCCTCATCACATTTAAA
Found at i:46580702 original size:22 final size:19
Alignment explanation
Indices: 46580664--46580703 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 19
46580654 AATTGTAACA
46580664 TATAATTTAAAATTTTAAT
1 TATAATTTAAAATTTTAAT
46580683 TATAATATTAACATATTTTAA
1 TATAAT-TTAA-A-ATTTTAA
46580704 CTTTAAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 4 0.22
21 1 0.06
22 7 0.39
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
TATAATTTAAAATTTTAAT
Found at i:46580913 original size:16 final size:16
Alignment explanation
Indices: 46580892--46580922 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
46580882 ATACTTTAAT
46580892 TTCAGTGGTTAAGTGG
1 TTCAGTGGTTAAGTGG
46580908 TTCAGTGGTTAAGTG
1 TTCAGTGGTTAAGTG
46580923 TCTGGTTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.06, G:0.35, T:0.39
Consensus pattern (16 bp):
TTCAGTGGTTAAGTGG
Found at i:46582687 original size:34 final size:34
Alignment explanation
Indices: 46582644--46582712 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
46582634 ACTTTGATTC
*
46582644 AGATTCTCATAAATAAACTGGGTTTCAAAGGTTT
1 AGATTCTCATAAACAAACTGGGTTTCAAAGGTTT
46582678 AGATTCTCATAAACAAACTGGGTTTCAAAGGTTT
1 AGATTCTCATAAACAAACTGGGTTTCAAAGGTTT
46582712 A
1 A
46582713 TTTTGATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.33
Consensus pattern (34 bp):
AGATTCTCATAAACAAACTGGGTTTCAAAGGTTT
Found at i:46583884 original size:5 final size:5
Alignment explanation
Indices: 46583874--46583901 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
46583864 AAAAATATTT
46583874 AAAAG AAAAG AAAAG AAAAG AAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAA
46583902 GAGATGATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:46595319 original size:42 final size:43
Alignment explanation
Indices: 46595209--46595326 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 43
46595199 AGCTCGTACA
*
46595209 ACGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATAACG
1 ACGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATAACG
* * * * *
46595252 ATGCCACTGTCCTAAACA-GAGTCTTACATGTAATCATAT-ACG
1 ACGCCAATGTCCCAGACATG-GTCTTACATGTAATCAAATAACG
*
46595294 ACGCCAATGTCCCAGACATGGTCTTACACGTAA
1 ACGCCAATGTCCCAGACATGGTCTTACATGTAA
46595327 ATCTCAAATC
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
42 30 0.48
43 32 0.52
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
ACGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATAACG
Found at i:46597184 original size:21 final size:21
Alignment explanation
Indices: 46597158--46597211 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
46597148 TGATTAGTTA
46597158 TAATATATATATTTAATTTTT
1 TAATATATATATTTAATTTTT
* * *
46597179 TAATATAAATTTTTACTTTTT
1 TAATATATATATTTAATTTTT
46597200 TAATATATATAT
1 TAATATATATAT
46597212 ATTTACAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTTAATTTTT
Found at i:46597364 original size:12 final size:12
Alignment explanation
Indices: 46597313--46597395 Score: 55
Period size: 12 Copynumber: 6.8 Consensus size: 12
46597303 TATTTTTTAA
* *
46597313 AATTTTAAATAG
1 AATTTTAAAAAT
46597325 AATTTTAAAAA-
1 AATTTTAAAAAT
*
46597336 AAGTTT--AAAT
1 AATTTTAAAAAT
**
46597346 ACCTTTAAAAAT
1 AATTTTAAAAAT
46597358 AATTTTAAAAATCAT
1 AATTTT-AAAA--AT
46597373 AATTTTAAAAAT
1 AATTTTAAAAAT
*
46597385 TATATTTAAAA
1 AAT-TTTAAAA
46597396 TTAAATAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
9 3 0.05
10 4 0.07
11 5 0.09
12 22 0.39
13 11 0.19
14 4 0.07
15 8 0.14
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (12 bp):
AATTTTAAAAAT
Found at i:46597376 original size:15 final size:15
Alignment explanation
Indices: 46597356--46597384 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
46597346 ACCTTTAAAA
46597356 ATAATTTTAAAAATC
1 ATAATTTTAAAAATC
46597371 ATAATTTTAAAAAT
1 ATAATTTTAAAAAT
46597385 TATATTTAAA
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:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATTTTAAAAATC
Found at i:46597413 original size:22 final size:21
Alignment explanation
Indices: 46597379--46597440 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
46597369 TCATAATTTT
46597379 AAAAAT-TATATTTAAAATTA
1 AAAAATATATATTTAAAATTA
*
46597399 AATAAATATATATTTAAAAATTT
1 AA-AAATATATATTT-AAAATTA
* *
46597422 TAAAATATACATTTAAAAT
1 AAAAATATATATTTAAAAT
46597441 ATTATAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 2 0.06
21 9 0.25
22 18 0.50
23 7 0.19
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAATATATATTTAAAATTA
Found at i:46597597 original size:38 final size:37
Alignment explanation
Indices: 46597524--46597611 Score: 103
Period size: 39 Copynumber: 2.4 Consensus size: 37
46597514 AAAAGTATAT
*
46597524 TTAA-AATTTTAAAAATAATGTTTAAATTTTAAAAAA
1 TTAATAATTTTAAAAATAATGTTAAAATTTTAAAAAA
46597560 TTAATAATTTTAAGAAAATATAT-TTAAAATTTTAAAAAA
1 TTAATAATTTT-A-AAAATA-ATGTTAAAATTTTAAAAAA
*
46597599 -TAAT-ATTATAAAA
1 TTAATAATTTTAAAA
46597612 CATTTCATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
35 3 0.07
36 5 0.11
37 10 0.22
38 5 0.11
39 21 0.46
40 2 0.04
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (37 bp):
TTAATAATTTTAAAAATAATGTTAAAATTTTAAAAAA
Found at i:46597604 original size:22 final size:21
Alignment explanation
Indices: 46597511--46597611 Score: 97
Period size: 20 Copynumber: 4.9 Consensus size: 21
46597501 TTTTATATTA
*
46597511 TTAAAAAGTATATTTAAAATT
1 TTAAAAAATATATTTAAAATT
*
46597532 TT-AAAAATA-ATGTTTAAATT
1 TTAAAAAATATAT-TTAAAATT
*
46597552 TTAAAAAAT-TA---ATAATT
1 TTAAAAAATATATTTAAAATT
46597569 TTAAGAAAATATATTTAAAATT
1 TTAA-AAAATATATTTAAAATT
46597591 TTAAAAAATAATATTATAAAA
1 TTAAAAAAT-ATATT-TAAAA
46597612 CATTTCATAA
Statistics
Matches: 65, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
17 8 0.12
18 5 0.08
19 4 0.06
20 15 0.23
21 14 0.22
22 14 0.22
23 5 0.08
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (21 bp):
TTAAAAAATATATTTAAAATT
Found at i:46597653 original size:24 final size:24
Alignment explanation
Indices: 46597626--46597697 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 24
46597616 TCATAAAACC
46597626 AATAATAAACAAATAAATAAAA-TA
1 AATAATAAACAAATAAA-AAAACTA
*
46597650 AATAA-AGGACAAATAAAAAAACTTA
1 AATAATA-AACAAATAAAAAAAC-TA
*
46597675 AA-AAGTAAATAAATAAAAAAACT
1 AATAA-TAAACAAATAAAAAAACT
46597698 TTAAAAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
23 5 0.12
24 17 0.43
25 17 0.43
26 1 0.03
ACGTcount: A:0.72, C:0.06, G:0.04, T:0.18
Consensus pattern (24 bp):
AATAATAAACAAATAAAAAAACTA
Found at i:46597720 original size:9 final size:8
Alignment explanation
Indices: 46597640--46597720 Score: 54
Period size: 8 Copynumber: 9.1 Consensus size: 8
46597630 ATAAACAAAT
46597640 AAATAAAA
1 AAATAAAA
46597648 TAAATAAAGGA
1 -AAATAAA--A
46597659 CAAATAAAA
1 -AAATAAAA
*
46597668 AAACTTAAA
1 AAA-TAAAA
* *
46597677 AAGTAAAT
1 AAATAAAA
46597685 AAATAAAA
1 AAATAAAA
46597693 AAACTTTAAAA
1 AAA---TAAAA
46597704 AAATAAAA
1 AAATAAAA
*
46597712 AAATGAAA
1 AAATAAAA
46597720 A
1 A
46597721 CGGACAAACA
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
8 28 0.48
9 14 0.24
11 16 0.28
ACGTcount: A:0.74, C:0.04, G:0.05, T:0.17
Consensus pattern (8 bp):
AAATAAAA
Found at i:46597720 original size:25 final size:24
Alignment explanation
Indices: 46597664--46597714 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
46597654 AAGGACAAAT
*
46597664 AAAAAAACTTAAAAAGTAAATAAAT
1 AAAAAAACTTAAAAAG-AAATAAAA
*
46597689 AAAAAAACTTTAAAA-AAATAAAA
1 AAAAAAACTTAAAAAGAAATAAAA
46597712 AAA
1 AAA
46597715 TGAAAACGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 10 0.42
25 14 0.58
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (24 bp):
AAAAAAACTTAAAAAGAAATAAAA
Found at i:46598259 original size:72 final size:72
Alignment explanation
Indices: 46598142--46598288 Score: 276
Period size: 72 Copynumber: 2.0 Consensus size: 72
46598132 CAATAGCTAA
46598142 AAAAAACAAACTCAGATCTGCAACCTTCAAAGTGAAGAAGTCTCTGCAAAGATCGATGATGGATA
1 AAAAAACAAACTCAGATCTGCAACCTTCAAAGTGAAGAAGTCTCTGCAAAGATCGATGATGGATA
46598207 TCACAAT
66 TCACAAT
* *
46598214 AAAAAAGAAACTCAGATCTGCAACCTTCAACGTGAAGAAGTCTCTGCAAAGATCGATGATGGATA
1 AAAAAACAAACTCAGATCTGCAACCTTCAAAGTGAAGAAGTCTCTGCAAAGATCGATGATGGATA
46598279 TCACAAT
66 TCACAAT
46598286 AAA
1 AAA
46598289 GGAAAAAGGT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (72 bp):
AAAAAACAAACTCAGATCTGCAACCTTCAAAGTGAAGAAGTCTCTGCAAAGATCGATGATGGATA
TCACAAT
Found at i:46598857 original size:153 final size:153
Alignment explanation
Indices: 46598579--46598884 Score: 603
Period size: 153 Copynumber: 2.0 Consensus size: 153
46598569 TTCCGTTGAG
46598579 GCAAACTGGGACACAAATCCAAAGCTGGAATCTAAGGAGAAAGATGTAACTGATGATGATGGAGA
1 GCAAACTGGGACACAAATCCAAAGCTGGAATCTAAGGAGAAAGATGTAACTGATGATGATGGAGA
46598644 TTTATGTTATAGTACCAGCTCTTCTGCCTCTCCTTGCATCTTTAAAACTCCTTTTCCTGGCCTGC
66 TTTATGTTATAGTACCAGCTCTTCTGCCTCTCCTTGCATCTTTAAAACTCCTTTTCCTGGCCTGC
46598709 AATTCCAGGAGCCTCAGTTGGCT
131 AATTCCAGGAGCCTCAGTTGGCT
46598732 GCAAACTGGGACACAAATCCAAAGCTGGAATCTAAGGAGAAAGATGTAACTGATGATGATGGAGA
1 GCAAACTGGGACACAAATCCAAAGCTGGAATCTAAGGAGAAAGATGTAACTGATGATGATGGAGA
*
46598797 TTTATGTTATAGTACCAGCTCTTCTGTCTCTCCTTGCATCTTTAAAACTCCTTTTCCTGGCCTGC
66 TTTATGTTATAGTACCAGCTCTTCTGCCTCTCCTTGCATCTTTAAAACTCCTTTTCCTGGCCTGC
46598862 AATTCCAGGAGCCTCAGTTGGCT
131 AATTCCAGGAGCCTCAGTTGGCT
46598885 TCAATTGGCC
Statistics
Matches: 152, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
153 152 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (153 bp):
GCAAACTGGGACACAAATCCAAAGCTGGAATCTAAGGAGAAAGATGTAACTGATGATGATGGAGA
TTTATGTTATAGTACCAGCTCTTCTGCCTCTCCTTGCATCTTTAAAACTCCTTTTCCTGGCCTGC
AATTCCAGGAGCCTCAGTTGGCT
Found at i:46603656 original size:21 final size:20
Alignment explanation
Indices: 46603631--46603688 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 20
46603621 TAAATTTATG
46603631 TTAATTAAGCTTATTATTAA
1 TTAATTAAGCTTATTATTAA
* * *
46603651 TTTAATTTAGGTTTAGT-TTAA
1 -TTAA-TTAAGCTTATTATTAA
46603672 TTAATTAAGGCTTATTA
1 TTAATTAA-GCTTATTA
46603689 ATTTTAAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
19 3 0.11
20 9 0.32
21 8 0.29
22 8 0.29
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.52
Consensus pattern (20 bp):
TTAATTAAGCTTATTATTAA
Found at i:46611009 original size:18 final size:18
Alignment explanation
Indices: 46610988--46611067 Score: 51
Period size: 18 Copynumber: 4.3 Consensus size: 18
46610978 ACAAATTCAT
46610988 ATAATTAAATTATATTTA
1 ATAATTAAATTATATTTA
46611006 ATAA-TAATGATTAT-TTTAA
1 ATAATTAA--ATTATATTT-A
*
46611025 ATTTTATTAAATCATATATTT-
1 A--TAATTAAAT--TATATTTA
*
46611046 -TAATTAAAATATATTTA
1 ATAATTAAATTATATTTA
46611063 ATAAT
1 ATAAT
46611068 AATTATTTCA
Statistics
Matches: 48, Mismatches: 3, Indels: 22
0.66 0.04 0.30
Matches are distributed among these distances:
16 7 0.15
17 3 0.06
18 18 0.38
19 7 0.15
20 2 0.04
21 2 0.04
22 6 0.12
23 3 0.06
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (18 bp):
ATAATTAAATTATATTTA
Found at i:46611025 original size:29 final size:27
Alignment explanation
Indices: 46610992--46611207 Score: 100
Period size: 28 Copynumber: 7.5 Consensus size: 27
46610982 ATTCATATAA
46610992 TTAAATTATATTTAATAATAATGATTATT
1 TTAAATTATATTTAATAAT-AT-ATTATT
* * *
46611021 TTAAATTTTATTAAATCATATATT-TT
1 TTAAATTATATTTAATAATATATTATT
*
46611047 AATTAAAATATATTTAATAATA-ATTATT
1 --TTAAATTATATTTAATAATATATTATT
*
46611075 TCAAATTATATTTTATACTATCATATATTATGAT
1 TTAAATTATA-TTTA-A-TA--ATATATTAT--T
* * * *
46611109 TTTAA-GAAATTCATATAATAATATTGATT
1 TTAAATTATATTTA-ATAAT-ATATT-ATT
* * *
46611138 ATTAAGAATTTTATTAAATCATATATT-TT
1 -TT-A-AATTATATTTAATAATATATTATT
* *
46611167 AATTAAAATATATTTAATAATA-ATTATC
1 --TTAAATTATATTTAATAATATATTATT
46611195 TTAAATTATATTT
1 TTAAATTATATTT
46611208 TATAGTATCA
Statistics
Matches: 142, Mismatches: 26, Indels: 41
0.68 0.12 0.20
Matches are distributed among these distances:
26 22 0.15
27 13 0.09
28 35 0.25
29 24 0.17
30 10 0.07
31 12 0.08
32 16 0.11
33 6 0.04
34 4 0.03
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.50
Consensus pattern (27 bp):
TTAAATTATATTTAATAATATATTATT
Found at i:46611159 original size:61 final size:60
Alignment explanation
Indices: 46611094--46611284 Score: 167
Period size: 61 Copynumber: 3.2 Consensus size: 60
46611084 ATTTTATACT
46611094 ATCATATATTATGATTTTAAGAAATTCATATAATAATATTGATTATTAAGAATTTTATTAA
1 ATCATATATTATGATTTTAAGAAATTCATATAATAATATTGATTATTAA-AATTTTATTAA
* * ** * * * * * * *
46611155 ATCATATATTTTAATTAAAATATATTTA-ATAATAATTATCTTA-AATT-ATATTTTA-TAGT
1 ATCATATATTATGATTTTAAGAAATTCATATAATAA-TAT-TGATTATTAAAATTTTATTA-A
* *
46611214 ATCATATATTATGA-TTTGAGTAAATTCATATAACAATATTGATTATTAATAATTTTATTAA
1 ATCATATATTATGATTTTAAG-AAATTCATATAATAATATTGATTATTAA-AATTTTATTAA
*
46611275 ATTATATATT
1 ATCATATATT
46611285 TTAATTAAAA
Statistics
Matches: 96, Mismatches: 25, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
58 6 0.06
59 29 0.30
60 15 0.16
61 42 0.44
62 4 0.04
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (60 bp):
ATCATATATTATGATTTTAAGAAATTCATATAATAATATTGATTATTAAAATTTTATTAA
Found at i:46611159 original size:120 final size:119
Alignment explanation
Indices: 46611004--46611319 Score: 510
Period size: 120 Copynumber: 2.6 Consensus size: 119
46610994 AAATTATATT
* *
46611004 TAATAATAATGATTATTTTAAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATA
1 TAATAATATTGATTA-TTAAAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATA
46611069 ATTAT-TTCAAATTATATTTTATACTATCATATATTATGATTTTAAG-AAATTCATA
65 ATTATCTT-AAATTATATTTTATACTATCATATATTATGA-TTTAAGTAAATTCATA
46611124 TAATAATATTGATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATA
1 TAATAATATTGATTATTAA-AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATA
* *
46611189 ATTATCTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATA
65 ATTATCTTAAATTATATTTTATACTATCATATATTATGATTTAAGTAAATTCATA
* *
46611244 TAACAATATTGATTATTAATAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
1 TAATAATATTGATTATTAA-AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATA
*
46611309 ATTATGTTAAA
65 ATTATCTTAAA
46611320 ATATGATTAA
Statistics
Matches: 185, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
119 8 0.04
120 175 0.95
121 2 0.01
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (119 bp):
TAATAATATTGATTATTAAAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAA
TTATCTTAAATTATATTTTATACTATCATATATTATGATTTAAGTAAATTCATA
Found at i:46611293 original size:18 final size:17
Alignment explanation
Indices: 46611265--46611299 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46611255 ATTATTAATA
*
46611265 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
46611282 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
46611300 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:46611512 original size:44 final size:45
Alignment explanation
Indices: 46611456--46611553 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 45
46611446 CTATTACATC
*
46611456 TCCATTCCATTCAACCAAACACA-AGA-ATACTATTACGCATCTAT
1 TCCATTACATTCAACCAAACA-ATAGATATACTATTACGCATCTAT
* * *
46611500 TCCATTACATTCAACCAAACAATTGATTTGCTATTACGCATCTAT
1 TCCATTACATTCAACCAAACAATAGATATACTATTACGCATCTAT
46611545 TCCATTACA
1 TCCATTACA
46611554 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
43 1 0.02
44 22 0.46
45 25 0.52
ACGTcount: A:0.36, C:0.28, G:0.05, T:0.32
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATATACTATTACGCATCTAT
Found at i:46616476 original size:53 final size:52
Alignment explanation
Indices: 46616396--46616500 Score: 183
Period size: 53 Copynumber: 2.0 Consensus size: 52
46616386 TCTTTTTGCA
*
46616396 AAGATTTGGAGCTGTTAATGTGTCGGTATTGGTAGGGAAAGTCAGCCTCAAG
1 AAGATTTGGAGCTGTTAATGTGTCGGTATTGGTAGGCAAAGTCAGCCTCAAG
*
46616448 NAAGATTTGGAGGTGTTAATGTGTCGGTATTGGTAGGCAAAGTCAGCCTCAAG
1 -AAGATTTGGAGCTGTTAATGTGTCGGTATTGGTAGGCAAAGTCAGCCTCAAG
46616501 GAACGGGATT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.27, C:0.11, G:0.32, T:0.29
Consensus pattern (52 bp):
AAGATTTGGAGCTGTTAATGTGTCGGTATTGGTAGGCAAAGTCAGCCTCAAG
Found at i:46618879 original size:15 final size:16
Alignment explanation
Indices: 46618861--46618891 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
46618851 TATATTCAAA
46618861 ATATAT-ATTTTTATT
1 ATATATAATTTTTATT
46618876 ATATATAATTTTTATT
1 ATATATAATTTTTATT
46618892 GATTTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATATATAATTTTTATT
Found at i:46624985 original size:26 final size:26
Alignment explanation
Indices: 46624956--46625010 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
46624946 TACAAGCCTA
46624956 TAAATAGACATAGTCTACTCCTCTTG
1 TAAATAGACATAGTCTACTCCTCTTG
46624982 TAAATAGACATAGTCTACTCCTCTTG
1 TAAATAGACATAGTCTACTCCTCTTG
46625008 TAA
1 TAA
46625011 TTAATTCGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.35
Consensus pattern (26 bp):
TAAATAGACATAGTCTACTCCTCTTG
Found at i:46633342 original size:15 final size:16
Alignment explanation
Indices: 46633314--46633347 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
46633304 CTCTAGATTT
*
46633314 ATTTTAATTATAGTTA
1 ATTTAAATTATAGTTA
46633330 ATTTAAATT-TAGTTA
1 ATTTAAATTATAGTTA
46633345 ATT
1 ATT
46633348 ATTAAGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
ATTTAAATTATAGTTA
Found at i:46634172 original size:15 final size:15
Alignment explanation
Indices: 46634154--46634185 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
46634144 ATTAAATTTG
46634154 ATTAAAATAAAAATA
1 ATTAAAATAAAAATA
*
46634169 ATTAAAATCAAAATA
1 ATTAAAATAAAAATA
46634184 AT
1 AT
46634186 AGTAAAGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
ATTAAAATAAAAATA
Found at i:46652780 original size:25 final size:26
Alignment explanation
Indices: 46652745--46652805 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
46652735 ATATTATTTA
* *
46652745 ATAACGTTGTT-TGACTTGTGCTACT
1 ATAACGATGTTATGAATTGTGCTACT
*
46652770 ATAACGATGTTATTAATTGTGCTACT
1 ATAACGATGTTATGAATTGTGCTACT
46652796 ATAACGATGT
1 ATAACGATGT
46652806 CATTCTCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 10 0.31
26 22 0.69
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (26 bp):
ATAACGATGTTATGAATTGTGCTACT
Found at i:46656766 original size:21 final size:20
Alignment explanation
Indices: 46656742--46656795 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 20
46656732 CTTTAATCTC
*
46656742 CAATTTCTAATTTTATATTTT
1 CAATTTCAAATTTTA-ATTTT
46656763 CAATCTTCAAATTTTAATTTT
1 CAAT-TTCAAATTTTAATTTT
46656784 CAATTCTCAAAT
1 CAATT-TCAAAT
46656796 ATTTTTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 1 0.03
21 19 0.63
22 10 0.33
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (20 bp):
CAATTTCAAATTTTAATTTT
Found at i:46656860 original size:20 final size:19
Alignment explanation
Indices: 46656825--46656863 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
46656815 TTCTTCGAAT
*
46656825 TTTTTTCTTATCAATTTTA
1 TTTTTTCTTATAAATTTTA
46656844 TTTTTTCTTATAAAATTTTA
1 TTTTTTCTTAT-AAATTTTA
46656864 CATACAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTTTCTTATAAATTTTA
Found at i:46658398 original size:9 final size:9
Alignment explanation
Indices: 46658374--46658411 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
46658364 TAAAATTTAC
*
46658374 AATTCAAAT
1 AATTCGAAT
*
46658383 AACTCGAAT
1 AATTCGAAT
46658392 AATTCGAAT
1 AATTCGAAT
46658401 AATTCGAAT
1 AATTCGAAT
46658410 AA
1 AA
46658412 CATGTTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (9 bp):
AATTCGAAT
Found at i:46662830 original size:13 final size:14
Alignment explanation
Indices: 46662807--46662840 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
46662797 GAGGATGAGG
*
46662807 ATGATCACTTCAAA
1 ATGATCTCTTCAAA
46662821 A-GATCTCTTCAAA
1 ATGATCTCTTCAAA
46662834 ATGATCT
1 ATGATCT
46662841 TTACCTATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (14 bp):
ATGATCTCTTCAAA
Found at i:46663662 original size:16 final size:15
Alignment explanation
Indices: 46663637--46663666 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
46663627 TGATCAAAAC
46663637 ATTTATCAAATAATA
1 ATTTATCAAATAATA
46663652 ATTTCATCAAATAAT
1 ATTT-ATCAAATAAT
46663667 TAAAATAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTTATCAAATAATA
Found at i:46666372 original size:15 final size:15
Alignment explanation
Indices: 46666326--46666383 Score: 52
Period size: 15 Copynumber: 4.0 Consensus size: 15
46666316 ATACCACTAT
46666326 AATAATAAAATAT--
1 AATAATAAAATATAA
* *
46666339 AATAATAGTAATA-AC
1 AATAATA-AAATATAA
46666354 AATAATAAAATATAA
1 AATAATAAAATATAA
46666369 AATAA-AACAATATAA
1 AATAATAA-AATATAA
46666384 CTTATTCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
13 7 0.19
14 10 0.27
15 20 0.54
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (15 bp):
AATAATAAAATATAA
Found at i:46667824 original size:9 final size:9
Alignment explanation
Indices: 46667810--46667847 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
46667800 AAACATTTTT
*
46667810 AATGAATAC
1 AATGAAAAC
46667819 AATGAAAAC
1 AATGAAAAC
46667828 AATGAAAAC
1 AATGAAAAC
46667837 AATGAAAAC
1 AATGAAAAC
46667846 AA
1 AA
46667848 CTTTTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.66, C:0.11, G:0.11, T:0.13
Consensus pattern (9 bp):
AATGAAAAC
Found at i:46671544 original size:22 final size:22
Alignment explanation
Indices: 46671514--46671556 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
46671504 ACAGCAGAAC
* *
46671514 AGGTTTTTAGCGGCGTTTTTTT
1 AGGTCTTTAGCGGCGCTTTTTT
46671536 AGGTCTTTAGCGGCGCTTTTT
1 AGGTCTTTAGCGGCGCTTTTT
46671557 AACGCCACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.14, G:0.28, T:0.49
Consensus pattern (22 bp):
AGGTCTTTAGCGGCGCTTTTTT
Found at i:46671702 original size:42 final size:42
Alignment explanation
Indices: 46671628--46671897 Score: 287
Period size: 42 Copynumber: 6.4 Consensus size: 42
46671618 ACGTCGCTAC
* * *
46671628 CTTTTGCGGCGCTTACATAAAAAAATGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGAAAAAAACGCCGCTAAAGATCATGTT
*
46671672 CTTTAACGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
*
46671714 CTTTAGCGGCGCTTAGAAAAAAATGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* * * *
46671756 CTTTAGCGGCGTTTAGGAAAAAATGCCGCTAAAGATCACGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* * ** *
46671798 CTTTAGCGGCGCTTTGGAAGAAAACGCTTCTAAA-AGCAATGTT
1 CTTTAGCGGCGC-TTAGAAAAAAACGCCGCTAAAGATC-ATGTT
* * **
46671841 CTATAGTGGCGCTT-GTTCAAAAACGCCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGA-TCA-TGTT
46671883 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
46671898 TTTCACAAAC
Statistics
Matches: 192, Mismatches: 28, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
41 2 0.01
42 149 0.78
43 29 0.15
44 12 0.06
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
Found at i:46671863 original size:127 final size:126
Alignment explanation
Indices: 46671647--46671893 Score: 313
Period size: 127 Copynumber: 2.0 Consensus size: 126
46671637 CGCTTACATA
* *
46671647 AAAAAATGCCGCTAAAGATCATGTTCTTTAACGGCGCTTAGAAAAAAACGCCGCTAAAGATCATG
1 AAAAAATGCCGCTAAAGATCACGTTCTTTAACGGCGCTTAGAAAAAAACGCCGCTAAAGAGCATG
* *
46671712 TTCTTTAGCGGCGCTTAGAAAAAAATGCCGCT-AAAGATCA-TGTTCTTTAGCGGCGTTTAGG
66 TTCTATAGCGGCGCTTAGAAAAAAACGCCGCTAAAAG-T-AGTGTTCTTTAGCGGCGTTTAGG
* * * **
46671773 AAAAAATGCCGCTAAAGATCACGTTCTTTAGCGGCGCTTTGGAAGAAAACGCTTCTAAA-AGCAA
1 AAAAAATGCCGCTAAAGATCACGTTCTTTAACGGCGC-TTAGAAAAAAACGCCGCTAAAGAGC-A
* **
46671837 TGTTCTATAGTGGCGCTT-GTTCAAAAACGCCGCTAAAAGTAGTGTTCTTTAGCGGCG
64 TGTTCTATAGCGGCGCTTAG-AAAAAAACGCCGCTAAAAGTAGTGTTCTTTAGCGGCG
46671894 CTTATTTCAC
Statistics
Matches: 104, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
126 39 0.38
127 61 0.59
128 4 0.04
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (126 bp):
AAAAAATGCCGCTAAAGATCACGTTCTTTAACGGCGCTTAGAAAAAAACGCCGCTAAAGAGCATG
TTCTATAGCGGCGCTTAGAAAAAAACGCCGCTAAAAGTAGTGTTCTTTAGCGGCGTTTAGG
Found at i:46672333 original size:12 final size:12
Alignment explanation
Indices: 46672316--46672355 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
46672306 TTTTGAACCT
*
46672316 CTGCTTCTATCG
1 CTGCTTCTCTCG
*
46672328 CTGCTTCTCTTG
1 CTGCTTCTCTCG
*
46672340 CTGTTTCTCTCG
1 CTGCTTCTCTCG
46672352 CTGC
1 CTGC
46672356 GGCATCTGCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.03, C:0.35, G:0.17, T:0.45
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:46672374 original size:21 final size:21
Alignment explanation
Indices: 46672348--46672387 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46672338 TGCTGTTTCT
*
46672348 CTCGCTGCGGCATCTGCTTCC
1 CTCGCTGCCGCATCTGCTTCC
*
46672369 CTCGCTGCCGCCTCTGCTT
1 CTCGCTGCCGCATCTGCTT
46672388 TAAGTTGCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.03, C:0.45, G:0.23, T:0.30
Consensus pattern (21 bp):
CTCGCTGCCGCATCTGCTTCC
Found at i:46677899 original size:7 final size:7
Alignment explanation
Indices: 46677889--46677935 Score: 58
Period size: 7 Copynumber: 6.1 Consensus size: 7
46677879 TGATATATTT
46677889 TTATGTA
1 TTATGTA
46677896 TTATGTAA
1 TTATGT-A
46677904 GTTATGTAA
1 -TTATGT-A
46677913 GTTATGTA
1 -TTATGTA
46677921 TTATGTA
1 TTATGTA
46677928 TTATGTA
1 TTATGTA
46677935 T
1 T
46677936 GCCCCATGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 21 0.55
8 2 0.05
9 15 0.39
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (7 bp):
TTATGTA
Found at i:46677910 original size:9 final size:9
Alignment explanation
Indices: 46677896--46678261 Score: 231
Period size: 9 Copynumber: 41.4 Consensus size: 9
46677886 TTTTTATGTA
46677896 TTATGTAAG
1 TTATGTAAG
46677905 TTATGTAAG
1 TTATGTAAG
46677914 TTATGT-A-
1 TTATGTAAG
46677921 TTATGT-A-
1 TTATGTAAG
*
46677928 TTATGTATG
1 TTATGTAAG
**
46677937 CCCCATGTAAG
1 --TTATGTAAG
*
46677948 TAATGTAAG
1 TTATGTAAG
*
46677957 CTATGTAAG
1 TTATGTAAG
* *
46677966 TAATAT-A-
1 TTATGTAAG
46677973 TTATGTAAG
1 TTATGTAAG
*
46677982 TTGTGT-A-
1 TTATGTAAG
* ** *
46677989 CTACATCA-
1 TTATGTAAG
*
46677997 TTATGTGAG
1 TTATGTAAG
*
46678006 TTGTGTAAG
1 TTATGTAAG
* *
46678015 TTATTTAAT
1 TTATGTAAG
*
46678024 TTACT-TAAT
1 TTA-TGTAAG
*
46678033 TTATGTAAA
1 TTATGTAAG
46678042 TTATGTAAG
1 TTATGTAAG
* * *
46678051 ATATTTAAT
1 TTATGTAAG
46678060 TTATGTAAG
1 TTATGTAAG
*
46678069 TTATATAAG
1 TTATGTAAG
46678078 TTATGTAAG
1 TTATGTAAG
* *
46678087 TTATTTAAT
1 TTATGTAAG
*
46678096 TTACT-TAAT
1 TTA-TGTAAG
46678105 TTATGTAAG
1 TTATGTAAG
46678114 TTATGTAAG
1 TTATGTAAG
* *
46678123 ATT-TTTAAT
1 -TTATGTAAG
46678132 TTATGTAAG
1 TTATGTAAG
46678141 TTATGTAAG
1 TTATGTAAG
* *
46678150 TTATTTAAT
1 TTATGTAAG
*
46678159 TTACT-TAAT
1 TTA-TGTAAG
46678168 TTATGTAAG
1 TTATGTAAG
*
46678177 TTATGCAAG
1 TTATGTAAG
* * *
46678186 ATATTTAAT
1 TTATGTAAG
46678195 TTATGTAAG
1 TTATGTAAG
46678204 TTATGTAAG
1 TTATGTAAG
*
46678213 TTATGTAAT
1 TTATGTAAG
*
46678222 TTACT-TAAT
1 TTA-TGTAAG
46678231 TTATGTAAG
1 TTATGTAAG
46678240 TTATGTAA-
1 TTATGTAAG
46678248 TTAATGTAAG
1 TT-ATGTAAG
46678258 TTAT
1 TTAT
46678262 TTAATTTGTG
Statistics
Matches: 280, Mismatches: 57, Indels: 40
0.74 0.15 0.11
Matches are distributed among these distances:
7 19 0.07
8 17 0.06
9 230 0.82
10 8 0.03
11 6 0.02
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:46678049 original size:36 final size:35
Alignment explanation
Indices: 46677997--46678268 Score: 310
Period size: 36 Copynumber: 7.8 Consensus size: 35
46677987 TACTACATCA
* *
46677997 TTATGTGAGTTGTGTAAGTTATTTAATTTACTTAAT
1 TTATGTAAGTTATGTAAGTTATTTAATTTA-TTAAT
* * *
46678033 TTATGTAAATTATGTAAGATATTTAATTTATGTAAG
1 TTATGTAAGTTATGTAAGTTATTTAATTTAT-TAAT
*
46678069 TTATATAAGTTATGTAAGTTATTTAATTTACTTAAT
1 TTATGTAAGTTATGTAAGTTATTTAATTTA-TTAAT
46678105 TTATGTAAGTTATGTAAG-------ATTT-TTAAT
1 TTATGTAAGTTATGTAAGTTATTTAATTTATTAAT
46678132 TTATGTAAGTTATGTAAGTTATTTAATTTACTTAAT
1 TTATGTAAGTTATGTAAGTTATTTAATTTA-TTAAT
* * *
46678168 TTATGTAAGTTATGCAAGATATTTAATTTATGTAAG
1 TTATGTAAGTTATGTAAGTTATTTAATTTAT-TAAT
* * *
46678204 TTATGTAAGTTATGTAATTTACTTAATTTATGTAAG
1 TTATGTAAGTTATGTAAGTTATTTAATTTAT-TAAT
46678240 TTATGTAA-TTAATGTAAGTTATTTAATTT
1 TTATGTAAGTT-ATGTAAGTTATTTAATTT
46678269 GTGATACCTA
Statistics
Matches: 204, Mismatches: 19, Indels: 26
0.82 0.08 0.10
Matches are distributed among these distances:
27 23 0.11
29 4 0.02
34 4 0.02
35 4 0.02
36 168 0.82
37 1 0.00
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.51
Consensus pattern (35 bp):
TTATGTAAGTTATGTAAGTTATTTAATTTATTAAT
Found at i:46678080 original size:63 final size:63
Alignment explanation
Indices: 46677997--46678247 Score: 367
Period size: 63 Copynumber: 3.8 Consensus size: 63
46677987 TACTACATCA
* * *
46677997 TTATGTGAGTTGTGTAAGTTATTTAATTTACTTAATTTATGTAAATTATGTAAGATATTTAAT
1 TTATGTAAGTTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATGTAAGATATTTAAT
46678060 TTATGTAAGTTATATAAGTTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATGTAAGAT
1 TTA--T--G-----TAAGTTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATGTAAGAT
*
46678125 TTTTAAT
57 ATTTAAT
*
46678132 TTATGTAAGTTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATGCAAGATATTTAAT
1 TTATGTAAGTTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATGTAAGATATTTAAT
*
46678195 TTATGTAAGTTATGTAAGTTATGTAATTTACTTAATTTATGTAAGTTATGTAA
1 TTATGTAAGTTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATGTAA
46678248 TTAATGTAAG
Statistics
Matches: 171, Mismatches: 8, Indels: 18
0.87 0.04 0.09
Matches are distributed among these distances:
63 110 0.64
65 1 0.01
67 1 0.01
68 1 0.01
70 1 0.01
72 57 0.33
ACGTcount: A:0.34, C:0.02, G:0.14, T:0.50
Consensus pattern (63 bp):
TTATGTAAGTTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATGTAAGATATTTAAT
Found at i:46681307 original size:14 final size:15
Alignment explanation
Indices: 46681276--46681310 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
46681266 TCTGACCCCA
*
46681276 AAATCCCTAAACCTT
1 AAATCCCTAAACCCT
46681291 AAATCCC-AAACCCT
1 AAATCCCTAAACCCT
46681305 AAATCC
1 AAATCC
46681311 ATACAAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (15 bp):
AAATCCCTAAACCCT
Found at i:46682172 original size:21 final size:20
Alignment explanation
Indices: 46682144--46682182 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
46682134 CTTAACACAT
*
46682144 AACCTTAAACCTTAAACCCC
1 AACCTTAAACCATAAACCCC
46682164 AACCTTTAAACCATAAACC
1 AACC-TTAAACCATAAACC
46682183 ATAGACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.21
Consensus pattern (20 bp):
AACCTTAAACCATAAACCCC
Found at i:46682453 original size:115 final size:114
Alignment explanation
Indices: 46682242--46682779 Score: 321
Period size: 115 Copynumber: 4.7 Consensus size: 114
46682232 ATGCATGGTT
* * * * * * * *
46682242 AAGACCAAAACTCTGCGTTTTGGTTAAGACATTTTCCGACGCTTATCAAA-AAGCGCAGCTGATA
1 AAGACTAAAACGCTGCGTTTTGGTTAATATATTTTGCGGCGCTTAT-AAAGAAGCGCCGCTAATA
** * * **
46682306 CCATGCTTTAGCGGCGAT-TTCT-CGTGGACGCCACTAATTCCAGTATACATC
65 ATATACTTTAGCGGCG-TCTCCTAC-AAG-CGCCACTAATTCCAGTATACATC
* * *
46682357 AAGACTTAAACGCTGCGTTTTTGTTAATATCTTTTGCGGCGCTTATAAAGAAGCGCCGCTAATAA
1 AAGACTAAAACGCTGCGTTTTGGTTAATATATTTTGCGGCGCTTATAAAGAAGCGCCGCTAATAA
* * *
46682422 TATACTTTAGCGGCGATCTCCTACAAGCGCCACTAATTCTAATATACCTC
66 TATACTTTAGCGGCG-TCTCCTACAAGCGCCACTAATTCCAGTATACATC
* * * * ** **** *
46682472 ATG--TAAAAACTCAGCGTTTTGGTGAGCATATTTTGCGGCGCGTT-TGCCCAAGCGCCACTAAT
1 AAGACT-AAAACGCTGCGTTTTGGTTAATATATTTTGCGGCGC-TTATAAAGAAGCGCCGCTAAT
* * * ** *
46682534 ACTATGA-TTTAGCGGCGTTTCTTA-ATATGCGCCACTAATAACTGTATACATC
64 AATAT-ACTTTAGCGGCGTCTCCTACA-A-GCGCCACTAATTCCAGTATACATC
* * * * **
46682586 AAGACAAAAACGTTGCGTTTTTGTT-ATCAAATTTTGCGGCGCTTATACGGAAGCGCCGCTAATA
1 AAGACTAAAACGCTGCGTTTTGGTTAAT-ATATTTTGCGGCGCTTATAAAGAAGCGCCGCTAATA
* * * * * * *
46682650 GTATGCATTAGCGGCGTGTGCCCT-C-TGCGCCACTAATTCTAGTATACCTC
65 ATATACTTTAGCGGCGTCT--CCTACAAGCGCCACTAATTCCAGTATACATC
* * * * * *
46682700 AAGAC-CAAACTCTGCGTTTTGGTTAAGATGTTTTGCGGCGCTTACCACAA-CA-CGCCGCTAAT
1 AAGACTAAAACGCTGCGTTTTGGTTAATATATTTTGCGGCGCTTA-TA-AAGAAGCGCCGCTAAT
* *
46682762 ATTATACTTTACCGGCGT
64 AATATACTTTAGCGGCGT
46682780 TTTATATTAA
Statistics
Matches: 321, Mismatches: 83, Indels: 40
0.72 0.19 0.09
Matches are distributed among these distances:
112 1 0.00
113 61 0.19
114 107 0.33
115 145 0.45
116 4 0.01
117 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (114 bp):
AAGACTAAAACGCTGCGTTTTGGTTAATATATTTTGCGGCGCTTATAAAGAAGCGCCGCTAATAA
TATACTTTAGCGGCGTCTCCTACAAGCGCCACTAATTCCAGTATACATC
Found at i:46682850 original size:228 final size:226
Alignment explanation
Indices: 46682388--46682854 Score: 475
Period size: 228 Copynumber: 2.0 Consensus size: 226
46682378 TGTTAATATC
*
46682388 TTTTGCGGCGCTTATAAAGAAGCGCCGCTAATAATATACTTTAGCGGCGATCTCCTACAAGCGCC
1 TTTTGCGGCGCTTATAAAGAAGCGCCGCTAATAATATACATTAGCGGCGATCTCCTACAAGCGCC
* * *
46682453 ACTAATTCTAATATACCTCATGTAAAAACTCAGCGTTTTGGTGAGCATATTTTGCGGCGCGTTTG
66 ACTAATTCTAATATACCTCAAGTAAAAACTCAGCGTTTTGGTAAGCATATTTTGCGGCGCG-TTA
* * **
46682518 CCCAAGCGCCACTAATACTATGATTTAGCGGCGTTTCTTAATATGCGCCACTAATAACTGTATAC
130 CCCAAACGCCACTAATACTATGATTTACCGGCGTTTCTTAATAAACGCCACTAATAAC--TATAC
* * ** * *
46682583 ATCAAGACAAAAACGTTGCGTTTTTGTTATCAAA
193 ACCAAGACAAAAACGGTGCACTTTGGTTAGCAAA
** * * * *
46682617 TTTTGCGGCGCTTATACGGAAGCGCCGCTAATAGTATGCATTAGCGGCG-TGTGCCCT-C-TGCG
1 TTTTGCGGCGCTTATAAAGAAGCGCCGCTAATAATATACATTAGCGGCGATCT--CCTACAAGCG
* * * *
46682679 CCACTAATTCTAGTATACCTCAAG-ACCAAACTCTGCGTTTTGGTTAAG-ATGTTTTGCGGCGC-
64 CCACTAATTCTAATATACCTCAAGTA-AAAACTCAGCGTTTTGG-TAAGCATATTTTGCGGCGCG
* * *
46682741 TTACCACAACACGCCGCTAATATTAT-ACTTTACCGGCGTTT-TATATTAAACGCCACTAAGTGT
127 TTACC-CAA-ACGCCACTAATACTATGA-TTTACCGGCGTTTCT-TAATAAACGCCACTAA---T
* * *
46682804 AAC-ATACACCAAGACCAAAACGGTGCACTTTGGTTAGGATA
185 AACTATACACCAAGACAAAAACGGTGCACTTTGGTTAGCAAA
46682845 TTTTGCGGCG
1 TTTTGCGGCG
46682855 TTTTTCCATA
Statistics
Matches: 197, Mismatches: 30, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
226 4 0.02
227 6 0.03
228 132 0.67
229 48 0.24
230 3 0.02
231 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (226 bp):
TTTTGCGGCGCTTATAAAGAAGCGCCGCTAATAATATACATTAGCGGCGATCTCCTACAAGCGCC
ACTAATTCTAATATACCTCAAGTAAAAACTCAGCGTTTTGGTAAGCATATTTTGCGGCGCGTTAC
CCAAACGCCACTAATACTATGATTTACCGGCGTTTCTTAATAAACGCCACTAATAACTATACACC
AAGACAAAAACGGTGCACTTTGGTTAGCAAA
Found at i:46683021 original size:113 final size:112
Alignment explanation
Indices: 46682902--46683138 Score: 257
Period size: 113 Copynumber: 2.1 Consensus size: 112
46682892 GGCCAAACTC
* *
46682902 TGCGTTTTGGTTAACATATATTGCGGCGCTT-T-TAGTAAGCGCCGCTAATACTTGCTTTAGCGG
1 TGCGTTTTGGTTAACAT-TATTGCGGCGCTTATCCA-TAA-CGCCGCTAATAATTGCTTTAGCGG
** * *
46682965 CG-TGTTTTTTTAAAGCGCCACTAACGCTAATATACAACGAGA-CAAAACGA
63 CGAT-TTACTATAAA-CGCCACTAACGCTAATATACAACAAGACCAAAACGA
* * * * *
46683015 TGCGTTTTCGTTTAGATTTTTGCGGCGCTTCATCCATTACGCCGCTAATAATTGCTTTAGCGGCG
1 TGCGTTTTGGTTAACATTATTGCGGCGCTT-ATCCATAACGCCGCTAATAATTGCTTTAGCGGCG
** * *
46683080 ATTTACTATAAACGCCACTAATTCTAGTATACATCAAGACCAAAACGA
65 ATTTACTATAAACGCCACTAACGCTAATATACAACAAGACCAAAACGA
46683128 TGCGTTTTGGT
1 TGCGTTTTGGT
46683139 CTTCAGATCT
Statistics
Matches: 103, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
112 34 0.33
113 64 0.62
114 4 0.04
115 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (112 bp):
TGCGTTTTGGTTAACATTATTGCGGCGCTTATCCATAACGCCGCTAATAATTGCTTTAGCGGCGA
TTTACTATAAACGCCACTAACGCTAATATACAACAAGACCAAAACGA
Found at i:46685106 original size:41 final size:41
Alignment explanation
Indices: 46685050--46685175 Score: 130
Period size: 41 Copynumber: 3.1 Consensus size: 41
46685040 TGATTCGATA
* * *
46685050 CACCGGCTTTTAGCCTGCTAGACTTATTGTCCG-A-AATGTAT
1 CACCGGCATTAAGCCTGCTAGACTTATAGTCCGAATAAT-T-T
*
46685091 CACCGGCATTAAGCCTGCTAGACTTATAGTCTGAATAATTT
1 CACCGGCATTAAGCCTGCTAGACTTATAGTCCGAATAATTT
* * * * * *
46685132 CACCAGCATCAAGCCTGCTAGACATAAAGTCTGAATTATTT
1 CACCGGCATTAAGCCTGCTAGACTTATAGTCCGAATAATTT
46685173 CAC
1 CAC
46685176 TAACAATAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 69 0.93
42 2 0.03
43 3 0.04
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACTTATAGTCCGAATAATTT
Found at i:46691667 original size:14 final size:14
Alignment explanation
Indices: 46691648--46691676 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
46691638 CTACTGGTTC
46691648 TGTATACAGATACA
1 TGTATACAGATACA
46691662 TGTATACAGATACA
1 TGTATACAGATACA
46691676 T
1 T
46691677 CATATGCATA
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:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (14 bp):
TGTATACAGATACA
Found at i:46691874 original size:34 final size:31
Alignment explanation
Indices: 46691809--46691898 Score: 94
Period size: 34 Copynumber: 2.8 Consensus size: 31
46691799 TTGCTTAGCA
* * *
46691809 AATGCATATACCTATTGCATATATATTTAAT
1 AATGCATATACCGAATGCATATATATCTAAT
46691840 ATATGCATATACCGAATGCACATATATATCTAAT
1 A-ATGCATATACCGAATG--CATATATATCTAAT
*
46691874 AATTGCATAGACCGAAT--ATATATAT
1 AA-TGCATATACCGAATGCATATATAT
46691899 GCTCATCAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
30 8 0.16
31 1 0.02
32 14 0.27
33 1 0.02
34 27 0.53
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (31 bp):
AATGCATATACCGAATGCATATATATCTAAT
Found at i:46692159 original size:41 final size:41
Alignment explanation
Indices: 46692103--46692228 Score: 139
Period size: 41 Copynumber: 3.1 Consensus size: 41
46692093 TAATTCAGTA
* * *
46692103 CACCGGCTTTTAGCCTGCTAGACTTATTGTC-GAA-AATATAT
1 CACCGGCATTAAGCCTGCTAGACTTATAGTCTGAATAAT-T-T
*
46692144 CACCGGCATTAAGCCTGCTGGACTTATAGTCTGAATAATTT
1 CACCGGCATTAAGCCTGCTAGACTTATAGTCTGAATAATTT
* * * * *
46692185 CACCGGCATCAAGTCTGCTAGACATAAAGTCTGAATTATTT
1 CACCGGCATTAAGCCTGCTAGACTTATAGTCTGAATAATTT
46692226 CAC
1 CAC
46692229 TGACAATAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 66 0.90
42 4 0.05
43 3 0.04
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACTTATAGTCTGAATAATTT
Done.