Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr6
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: 26303135
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 1968672 characters in sequence are not A, C, G, or T
File 30 of 66
Found at i:10357077 original size:26 final size:27
Alignment explanation
Indices: 10357030--10357114 Score: 109
Period size: 27 Copynumber: 3.1 Consensus size: 27
10357020 TTCCAAAATT
*
10357030 TTTTAAAAATTTTATTTATTATATATA
1 TTTTAAAATTTTTATTTATTATATATA
* * *
10357057 TTTTGAAGTTTTTATTT-TTATTTATA
1 TTTTAAAATTTTTATTTATTATATATA
10357083 TTTTTAAAATTATTTATTTATTATATATA
1 -TTTTAAAATT-TTTATTTATTATATATA
10357112 TTT
1 TTT
10357115 CAAATGATCC
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
26 8 0.17
27 22 0.46
28 10 0.21
29 8 0.17
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTTAAAATTTTTATTTATTATATATA
Found at i:10357531 original size:15 final size:14
Alignment explanation
Indices: 10357508--10357546 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
10357498 ATTTAATTTT
10357508 TTATATTTTATACA
1 TTATATTTTATACA
10357522 TTATAGTTTTATAC-
1 TTATA-TTTTATACA
10357536 TTAGTATTTTA
1 TTA-TATTTTA
10357547 AGTTTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (14 bp):
TTATATTTTATACA
Found at i:10359048 original size:13 final size:13
Alignment explanation
Indices: 10359030--10359054 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10359020 TTTCAGAAAA
10359030 TTTATAAAATCAT
1 TTTATAAAATCAT
10359043 TTTATAAAATCA
1 TTTATAAAATCA
10359055 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:10364502 original size:19 final size:19
Alignment explanation
Indices: 10364478--10364518 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
10364468 GAAACGTGGA
10364478 TCAAGGAAATGTATGTTTT
1 TCAAGGAAATGTATGTTTT
10364497 TCAAGGAAATGTATGTTTT
1 TCAAGGAAATGTATGTTTT
10364516 TCA
1 TCA
10364519 TTCTTTATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (19 bp):
TCAAGGAAATGTATGTTTT
Found at i:10365624 original size:2 final size:2
Alignment explanation
Indices: 10365617--10365666 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
10365607 TAATGATGAC
10365617 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10365659 AT AT AT AT
1 AT AT AT AT
10365667 GTAAGTGATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10376731 original size:15 final size:15
Alignment explanation
Indices: 10376711--10376749 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
10376701 TATATTTTAG
10376711 AATATAAATTTTAAA
1 AATATAAATTTTAAA
**
10376726 AATAT-AATTTTTGA
1 AATATAAATTTTAAA
10376740 AATATAAATT
1 AATATAAATT
10376750 ATTTAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
AATATAAATTTTAAA
Found at i:10376757 original size:15 final size:14
Alignment explanation
Indices: 10376705--10376757 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
10376695 TTTTAATATA
10376705 TTTTAGAATATAAA-
1 TTTTA-AATATAAAT
*
10376719 TTTTAAAAATATAAT
1 TTTTAAATATA-AAT
10376734 TTTTGAAATATAAAT
1 TTTT-AAATATAAAT
10376749 TATTTAAAT
1 T-TTTAAAT
10376758 TTTATTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
13 5 0.15
14 7 0.21
15 12 0.36
16 9 0.27
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (14 bp):
TTTTAAATATAAAT
Found at i:10377486 original size:14 final size:14
Alignment explanation
Indices: 10377457--10377488 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
10377447 TAAATTAAAA
10377457 TTTAGAGTTTAAGG
1 TTTAGAGTTTAAGG
*
10377471 TTTAGAGTTTAGGG
1 TTTAGAGTTTAAGG
10377485 TTTA
1 TTTA
10377489 AGGTACATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (14 bp):
TTTAGAGTTTAAGG
Found at i:10378030 original size:35 final size:35
Alignment explanation
Indices: 10377964--10378031 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
10377954 TTAATCAAGA
* * *
10377964 TATAAATTAATCGATAAATTAATAATTTATTAATT
1 TATAAATTAATCAATAAATAAATAATATATTAATT
*
10377999 TATACATTAATCAATAAA-AAATTAATATATTAA
1 TATAAATTAATCAATAAATAAA-TAATATATTAA
10378032 GATATTCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 2 0.07
35 26 0.93
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (35 bp):
TATAAATTAATCAATAAATAAATAATATATTAATT
Found at i:10384190 original size:29 final size:29
Alignment explanation
Indices: 10384157--10384222 Score: 132
Period size: 29 Copynumber: 2.3 Consensus size: 29
10384147 AAATTGTGAG
10384157 AAATGACCTTCGTAGTAAGGTCACTTTAA
1 AAATGACCTTCGTAGTAAGGTCACTTTAA
10384186 AAATGACCTTCGTAGTAAGGTCACTTTAA
1 AAATGACCTTCGTAGTAAGGTCACTTTAA
10384215 AAATGACC
1 AAATGACC
10384223 GTCTCTATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (29 bp):
AAATGACCTTCGTAGTAAGGTCACTTTAA
Found at i:10384770 original size:26 final size:26
Alignment explanation
Indices: 10384741--10384820 Score: 89
Period size: 26 Copynumber: 3.2 Consensus size: 26
10384731 TGAAAATTAT
10384741 GTGACTGAATATTTGATGAGCATTGC
1 GTGACTGAATATTTGATGAGCATTGC
* *
10384767 GTGACT---TGTTT-AT-AGGCATTAC
1 GTGACTGAATATTTGATGA-GCATTGC
*
10384789 GTGACTGAATATTTGTTGAGCATTGC
1 GTGACTGAATATTTGATGAGCATTGC
10384815 GTGACT
1 GTGACT
10384821 TGTTTATAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
21 1 0.02
22 14 0.33
23 4 0.09
25 4 0.09
26 19 0.44
27 1 0.02
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (26 bp):
GTGACTGAATATTTGATGAGCATTGC
Found at i:10384791 original size:22 final size:22
Alignment explanation
Indices: 10384760--10384842 Score: 85
Period size: 22 Copynumber: 3.6 Consensus size: 22
10384750 TATTTGATGA
*
10384760 GCATTGCGTGACTTGTTTATAG
1 GCATTACGTGACTTGTTTATAG
* * *
10384782 GCATTACGTGACTGAATATTTGTTG
1 GCATTACGTGACT---TGTTTATAG
*
10384807 AGCATTGCGTGACTTGTTTATAG
1 -GCATTACGTGACTTGTTTATAG
10384830 GCATTACGTGACT
1 GCATTACGTGACT
10384843 GAATATTACG
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
22 24 0.50
23 6 0.12
25 6 0.12
26 12 0.25
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.39
Consensus pattern (22 bp):
GCATTACGTGACTTGTTTATAG
Found at i:10384812 original size:48 final size:48
Alignment explanation
Indices: 10384736--10384849 Score: 210
Period size: 48 Copynumber: 2.4 Consensus size: 48
10384726 GTGCTTGAAA
*
10384736 ATTATGTGACTGAATATTTGATGAGCATTGCGTGACTTGTTTATAGGC
1 ATTACGTGACTGAATATTTGATGAGCATTGCGTGACTTGTTTATAGGC
*
10384784 ATTACGTGACTGAATATTTGTTGAGCATTGCGTGACTTGTTTATAGGC
1 ATTACGTGACTGAATATTTGATGAGCATTGCGTGACTTGTTTATAGGC
10384832 ATTACGTGACTGAATATT
1 ATTACGTGACTGAATATT
10384850 ACGTGATTGA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 64 1.00
ACGTcount: A:0.25, C:0.11, G:0.24, T:0.39
Consensus pattern (48 bp):
ATTACGTGACTGAATATTTGATGAGCATTGCGTGACTTGTTTATAGGC
Found at i:10384852 original size:15 final size:15
Alignment explanation
Indices: 10384832--10384864 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
10384822 GTTTATAGGC
10384832 ATTACGTGACTGAAT
1 ATTACGTGACTGAAT
*
10384847 ATTACGTGATTGAAT
1 ATTACGTGACTGAAT
10384862 ATT
1 ATT
10384865 TCTTGAGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (15 bp):
ATTACGTGACTGAAT
Found at i:10386500 original size:119 final size:119
Alignment explanation
Indices: 10386289--10386584 Score: 382
Period size: 119 Copynumber: 2.5 Consensus size: 119
10386279 GGTGCGTGAC
** *
10386289 TGACTTGTGCAATTCATGTGTTGTTTTGAGACTTTTGTTCAGTAGTTTTTTAGGCATTGTGTGAC
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGACTTTTGTTCAGTAAATTTTTAGGCATTGCGTGAC
* * *
10386354 TAGTTTTTATATATTACATTACCTGTTGTTATGTATTGCGAGAGTGGTAGCGCG
66 TAGTTTTGATATATTACATGACCTGTTGTTATGTATTACGAGAGTGGTAGCGCG
* *
10386408 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAAATTTTTAGGTATTGCGTGAC
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGACTTTTGTTCAGTAAATTTTTAGGCATTGCGTGAC
* *** * *
10386473 TGGTTTTGATATATTGTGTGACCTGTTGTTATGTATTATGAGAGTGGTGGCGCG
66 TAGTTTTGATATATTACATGACCTGTTGTTATGTATTACGAGAGTGGTAGCGCG
* * * * *
10386527 TGACTTGTGCAATT--TGCCTTTTGTTTTGGGTCGTTTGTTCAGT-AGTTTTTAGGCATTG
1 TGACTTGTGCAATTCATG--TGTTGTTTTGAGACTTTTGTTCAGTAAATTTTTAGGCATTG
10386585 AATGAATGTG
Statistics
Matches: 155, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
117 2 0.01
118 13 0.08
119 140 0.90
ACGTcount: A:0.17, C:0.10, G:0.26, T:0.46
Consensus pattern (119 bp):
TGACTTGTGCAATTCATGTGTTGTTTTGAGACTTTTGTTCAGTAAATTTTTAGGCATTGCGTGAC
TAGTTTTGATATATTACATGACCTGTTGTTATGTATTACGAGAGTGGTAGCGCG
Found at i:10392833 original size:78 final size:78
Alignment explanation
Indices: 10392699--10392999 Score: 417
Period size: 78 Copynumber: 3.9 Consensus size: 78
10392689 GATGATACTC
* * *
10392699 TGACTAGTACAACGAAA--AAAACTGAGTGGTGTGATTAGGGGAGAAGCAAATCTAAAACACAAG
1 TGACTAATACAAC-AAAGCAAAA-TGAGTGGGGTGATTAGGGGAAAAGCAAATCTAAAACACAAG
10392762 ATGTTGCAGCAGCTG
64 ATGTTGCAGCAGCTG
* * ** * *
10392777 TGACCAGTACAATGAAGCAAAATGAGTGGTGTGATTAGGGGATAAGCAAATCTAAAACACAAGAT
1 TGACTAATACAACAAAGCAAAATGAGTGGGGTGATTAGGGGAAAAGCAAATCTAAAACACAAGAT
* *
10392842 GTTACAGTAGCTG
66 GTTGCAGCAGCTG
* * *
10392855 TGACTAATATAACAAAGCAAATTGAGTGGGGTGATTGGGGGAAAAGCAAATCTAAAACACAAGAT
1 TGACTAATACAACAAAGCAAAATGAGTGGGGTGATTAGGGGAAAAGCAAATCTAAAACACAAGAT
10392920 GTTGCAGCAGCTG
66 GTTGCAGCAGCTG
* * *
10392933 TGACTAATATAACAAAGCAAACTGAGTGGGGTGATTGGGGGAAAAGCAAATCTAAAACACAAGAT
1 TGACTAATACAACAAAGCAAAATGAGTGGGGTGATTAGGGGAAAAGCAAATCTAAAACACAAGAT
10392998 GT
66 GT
10393000 CTATTTGCAA
Statistics
Matches: 203, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
77 2 0.01
78 197 0.97
79 4 0.02
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.20
Consensus pattern (78 bp):
TGACTAATACAACAAAGCAAAATGAGTGGGGTGATTAGGGGAAAAGCAAATCTAAAACACAAGAT
GTTGCAGCAGCTG
Found at i:10395829 original size:61 final size:62
Alignment explanation
Indices: 10395687--10395886 Score: 237
Period size: 61 Copynumber: 3.2 Consensus size: 62
10395677 GGTCTATGAG
* * *
10395687 CGAAATATCTATCGATAG-ATTATAAATCTATCGATAGATACCGTTTC-TTTCATTTTCCAAGCA
1 CGAAATATCTATCGATAGCATTATAAATATATCGATAG----C-TGTCGTTTCATTTTCCAAACA
10395750 TT
61 TT
* *
10395752 CGCAATATCTATCGATAGCA-TATAAATATATCGATAGCTGTCGTTTCATTTTCCAAACAAT
1 CGAAATATCTATCGATAGCATTATAAATATATCGATAGCTGTCGTTTCATTTTCCAAACATT
** * * *
10395813 CGAAATATCTATCGATA-CATTATAAATATATTAATAGCTGTCGTTCCATCTTCCAACCATT
1 CGAAATATCTATCGATAGCATTATAAATATATCGATAGCTGTCGTTTCATTTTCCAAACATT
10395874 CGAAATATCTATC
1 CGAAATATCTATC
10395887 ACATCCAACT
Statistics
Matches: 120, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
60 5 0.04
61 81 0.68
65 33 0.28
66 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (62 bp):
CGAAATATCTATCGATAGCATTATAAATATATCGATAGCTGTCGTTTCATTTTCCAAACATT
Found at i:10398204 original size:23 final size:23
Alignment explanation
Indices: 10398178--10398223 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10398168 ACGATTTTAG
* *
10398178 AATAAATACTCATGCCATTCCAT
1 AATAAATACTAATGCCACTCCAT
* *
10398201 AATAACTAGTAATGCCACTCCAT
1 AATAAATACTAATGCCACTCCAT
10398224 TTATATTACT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.26, G:0.07, T:0.28
Consensus pattern (23 bp):
AATAAATACTAATGCCACTCCAT
Found at i:10398237 original size:46 final size:46
Alignment explanation
Indices: 10398184--10398307 Score: 160
Period size: 46 Copynumber: 2.7 Consensus size: 46
10398174 TTAGAATAAA
* * * *
10398184 TACTCATGCCATTCCATAAT-AACTAGTAATGCCACTCCATTTATAT
1 TACTCATGCCAGTCAAT-ATCAACTAGTAACGCCACTCCATATATAT
*
10398230 TACTCATGCGAGTCAATATCAACTAGTAACGCCACTCCATATATAT
1 TACTCATGCCAGTCAATATCAACTAGTAACGCCACTCCATATATAT
* * *
10398276 TACTCACGCGAGTCAATATCAACTAGTCACGC
1 TACTCATGCCAGTCAATATCAACTAGTAACGC
10398308 GATTCCACAA
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
45 2 0.03
46 68 0.97
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.29
Consensus pattern (46 bp):
TACTCATGCCAGTCAATATCAACTAGTAACGCCACTCCATATATAT
Found at i:10398284 original size:23 final size:23
Alignment explanation
Indices: 10398214--10398284 Score: 54
Period size: 23 Copynumber: 3.1 Consensus size: 23
10398204 AACTAGTAAT
* *
10398214 GCCACTCCATTTATATTACTCAT
1 GCCACTCCATATATATTACTCAC
* * * * * *
10398237 GCGAGTCAATATCA-ACTAGTAAC
1 GCCACTCCATAT-ATATTACTCAC
10398260 GCCACTCCATATATATTACTCAC
1 GCCACTCCATATATATTACTCAC
10398283 GC
1 GC
10398285 GAGTCAATAT
Statistics
Matches: 32, Mismatches: 14, Indels: 4
0.64 0.28 0.08
Matches are distributed among these distances:
22 1 0.03
23 30 0.94
24 1 0.03
ACGTcount: A:0.31, C:0.30, G:0.10, T:0.30
Consensus pattern (23 bp):
GCCACTCCATATATATTACTCAC
Found at i:10398294 original size:23 final size:23
Alignment explanation
Indices: 10398225--10398294 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
10398215 CCACTCCATT
*
10398225 TATATTACTCATGCGAGTCAATA
1 TATATTACTCACGCGAGTCAATA
* * * * * *
10398248 TCA-ACTAGTAACGCCACTCCATA
1 T-ATATTACTCACGCGAGTCAATA
10398271 TATATTACTCACGCGAGTCAATA
1 TATATTACTCACGCGAGTCAATA
10398294 T
1 T
10398295 CAACTAGTCA
Statistics
Matches: 32, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
22 1 0.03
23 30 0.94
24 1 0.03
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.30
Consensus pattern (23 bp):
TATATTACTCACGCGAGTCAATA
Found at i:10398305 original size:23 final size:23
Alignment explanation
Indices: 10398237--10398309 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
10398227 TATTACTCAT
*
10398237 GCGAGTCAATATCAACTAGTAAC
1 GCGAGTCAATATCAACTAGTCAC
* * * * *
10398260 GCCACTCCATAT-ATATTACTCAC
1 GCGAGTCAATATCA-ACTAGTCAC
10398283 GCGAGTCAATATCAACTAGTCAC
1 GCGAGTCAATATCAACTAGTCAC
10398306 GCGA
1 GCGA
10398310 TTCCACAAAA
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
22 1 0.03
23 35 0.95
24 1 0.03
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.23
Consensus pattern (23 bp):
GCGAGTCAATATCAACTAGTCAC
Found at i:10398353 original size:23 final size:23
Alignment explanation
Indices: 10398296--10398353 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
10398286 AGTCAATATC
*
10398296 AACTAGTCACGCGATTCCACAAA
1 AACTAGTCATGCGATTCCACAAA
* * *
10398319 AACTAGTCATGCGCTTCCATAAT
1 AACTAGTCATGCGATTCCACAAA
*
10398342 AACTAGTAATGC
1 AACTAGTCATGC
10398354 CACTCCATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (23 bp):
AACTAGTCATGCGATTCCACAAA
Found at i:10398827 original size:26 final size:26
Alignment explanation
Indices: 10398798--10398847 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
10398788 ATGAGTGAAT
*
10398798 ACAAAGAATAATATGTAAATGATATA
1 ACAAAGAATAATATGGAAATGATATA
10398824 ACAAAGAATAATATGGAAATGATA
1 ACAAAGAATAATATGGAAATGATA
10398848 CAGCATAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.58, C:0.04, G:0.14, T:0.24
Consensus pattern (26 bp):
ACAAAGAATAATATGGAAATGATATA
Found at i:10400725 original size:24 final size:25
Alignment explanation
Indices: 10400680--10400739 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
10400670 GCAGGAAAAG
*
10400680 GAGC-AGCAAGAGTAACAACATGAT
1 GAGCTAGCAAGAGTAACAACATGAA
*
10400704 GAG-TAGCAAGAG-AAGCACCATGAA
1 GAGCTAGCAAGAGTAA-CAACATGAA
10400728 GAGCT-GCAAGAG
1 GAGCTAGCAAGAG
10400740 GAGAATCAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 2 0.06
24 28 0.90
25 1 0.03
ACGTcount: A:0.43, C:0.17, G:0.30, T:0.10
Consensus pattern (25 bp):
GAGCTAGCAAGAGTAACAACATGAA
Found at i:10410265 original size:21 final size:21
Alignment explanation
Indices: 10410223--10410265 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
10410213 CTTGTACCGG
*
10410223 TGGTGGAACTAAAGGAGTAAC
1 TGGTGGAACTAAAGGAGGAAC
* * *
10410244 TGGTGGTACTATAGGTGGAAC
1 TGGTGGAACTAAAGGAGGAAC
10410265 T
1 T
10410266 TGACCAGTCG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (21 bp):
TGGTGGAACTAAAGGAGGAAC
Found at i:10414715 original size:2 final size:2
Alignment explanation
Indices: 10414708--10414745 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
10414698 TTCACAAACC
10414708 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10414746 GCTTTAAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10415315 original size:20 final size:20
Alignment explanation
Indices: 10415290--10415352 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 20
10415280 CCAGATTTGG
*
10415290 TGCTCCCTT-GGAGAGCTCGA
1 TGCTCCCTTAGGAG-CCTCGA
10415310 TGCTCCCTTAAGGAGCCTCGA
1 TGCTCCCTT-AGGAGCCTCGA
10415331 TGCTCCCTTAAGGAGCCTCGA
1 TGCTCCCTT-AGGAGCCTCGA
10415352 T
1 T
10415353 TGGGCTCCCT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
20 9 0.22
21 27 0.68
22 4 0.10
ACGTcount: A:0.17, C:0.32, G:0.25, T:0.25
Consensus pattern (20 bp):
TGCTCCCTTAGGAGCCTCGA
Found at i:10415331 original size:21 final size:21
Alignment explanation
Indices: 10415305--10415352 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
10415295 CCTTGGAGAG
10415305 CTCGATGCTCCCTTAAGGAGC
1 CTCGATGCTCCCTTAAGGAGC
10415326 CTCGATGCTCCCTTAAGGAGC
1 CTCGATGCTCCCTTAAGGAGC
10415347 CTCGAT
1 CTCGAT
10415353 TGGGCTCCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.19, C:0.33, G:0.23, T:0.25
Consensus pattern (21 bp):
CTCGATGCTCCCTTAAGGAGC
Found at i:10416918 original size:20 final size:20
Alignment explanation
Indices: 10416893--10416938 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
10416883 TTTTGATCCC
10416893 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
10416913 ATTTGACTTATTGGAGTATT
1 ATTTGACTTATTGGAGTATA
10416933 ATTTGA
1 ATTTGA
10416939 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.20, T:0.48
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:10417013 original size:27 final size:27
Alignment explanation
Indices: 10416983--10417040 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
10416973 TTGGAGAAAA
*
10416983 AGGGTAAAATGGTAATTTTGCCACC-TC
1 AGGGCAAAATGGTAATTTT-CCACCATC
*
10417010 AGGGGCAAAATTGTAATTTTCCACCATC
1 A-GGGCAAAATGGTAATTTTCCACCATC
10417038 AGG
1 AGG
10417041 ACATTTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (27 bp):
AGGGCAAAATGGTAATTTTCCACCATC
Found at i:10437408 original size:33 final size:33
Alignment explanation
Indices: 10437362--10437451 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 33
10437352 TGTTGGTGGA
*
10437362 TTTCGCTTTATCCTATGAAAAAGCTTGTAAGGG
1 TTTCGCTTGATCCTATGAAAAAGCTTGTAAGGG
* * *
10437395 TTTTGCTTGATCCTGT-AAAAAGCATTGTGAGGG
1 TTTCGCTTGATCCTATGAAAAAGC-TTGTAAGGG
10437428 TTTCGCTTGAT-CTA-GTAAAAAGCT
1 TTTCGCTTGATCCTATG-AAAAAGCT
10437452 CGTTTCTTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
32 10 0.21
33 38 0.79
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (33 bp):
TTTCGCTTGATCCTATGAAAAAGCTTGTAAGGG
Found at i:10437615 original size:18 final size:18
Alignment explanation
Indices: 10437592--10437651 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
10437582 AGCTTAGGTA
10437592 TATTTTACCTTGATTCAT
1 TATTTTACCTTGATTCAT
** *
10437610 TATTTTTGCTTAGGA-T-AA
1 TATTTTACCTT--GATTCAT
*
10437628 TATTTTATCTTGATTCAT
1 TATTTTACCTTGATTCAT
10437646 TATTTT
1 TATTTT
10437652 TTGTGTGCAC
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 2 0.06
17 1 0.03
18 26 0.81
19 1 0.03
20 2 0.06
ACGTcount: A:0.23, C:0.10, G:0.08, T:0.58
Consensus pattern (18 bp):
TATTTTACCTTGATTCAT
Found at i:10437633 original size:36 final size:34
Alignment explanation
Indices: 10437583--10437652 Score: 113
Period size: 36 Copynumber: 2.0 Consensus size: 34
10437573 CTTGCATTTA
10437583 GCTTAGGTATATTTTACCTTGATTCATTATTTTT
1 GCTTAGGTATATTTTACCTTGATTCATTATTTTT
*
10437617 GCTTAGGATAATATTTTATCTTGATTCATTATTTTT
1 GCTTAGG-T-ATATTTTACCTTGATTCATTATTTTT
10437653 TGTGTGCACT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
34 7 0.21
35 1 0.03
36 25 0.76
ACGTcount: A:0.23, C:0.10, G:0.11, T:0.56
Consensus pattern (34 bp):
GCTTAGGTATATTTTACCTTGATTCATTATTTTT
Found at i:10441165 original size:20 final size:20
Alignment explanation
Indices: 10441142--10441182 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
10441132 AATGGTGTGA
10441142 ATGTGGTTTGAATGGGAATG
1 ATGTGGTTTGAATGGGAATG
*
10441162 ATGTGGTTTGGATGGGAATG
1 ATGTGGTTTGAATGGGAATG
10441182 A
1 A
10441183 AGAAAAGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.34
Consensus pattern (20 bp):
ATGTGGTTTGAATGGGAATG
Found at i:10441681 original size:33 final size:33
Alignment explanation
Indices: 10441639--10441783 Score: 146
Period size: 34 Copynumber: 4.3 Consensus size: 33
10441629 GGCTGCTAAA
10441639 AAAATTGGAGCTGTTTGCTGCCAATTTGTGAAG
1 AAAATTGGAGCTGTTTGCTGCCAATTTGTGAAG
* * *
10441672 AAAATTGGAGCTGTTTGTTGCCAATTTATGTAG
1 AAAATTGGAGCTGTTTGCTGCCAATTTGTGAAG
* * * *
10441705 AAAAATTGGAGTTGTTTACTGCCAATTTTGTACAAA
1 -AAAATTGGAGCTGTTTGCTGCCAA-TTTGT-GAAG
* ** * *
10441741 AAAACTGGAGCTGTTTGCTGGTAGTTTGTGCAGG
1 AAAATTGGAGCTGTTTGCTGCCAATTTGTG-AAG
10441775 AAAATTGGA
1 AAAATTGGA
10441784 CAGCTTTGTA
Statistics
Matches: 88, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
33 30 0.34
34 35 0.40
35 22 0.25
36 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (33 bp):
AAAATTGGAGCTGTTTGCTGCCAATTTGTGAAG
Found at i:10441715 original size:34 final size:33
Alignment explanation
Indices: 10441638--10441760 Score: 149
Period size: 33 Copynumber: 3.6 Consensus size: 33
10441628 TGGCTGCTAA
*
10441638 AAAAATTGGAGCTGTTTGCTGCCAATTTGTGAAG
1 AAAAATTGGAGCTGTTTGCTGCCAATTT-TGTAG
*
10441672 -AAAATTGGAGCTGTTTGTTGCCAATTTATGTAG
1 AAAAATTGGAGCTGTTTGCTGCCAATTT-TGTAG
* * *
10441705 AAAAATTGGAGTTGTTTACTGCCAATTTTGTACAA
1 AAAAATTGGAGCTGTTTGCTGCCAATTTTGT--AG
*
10441740 AAAAACTGGAGCTGTTTGCTG
1 AAAAATTGGAGCTGTTTGCTG
10441761 GTAGTTTGTG
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
33 33 0.43
34 24 0.32
35 19 0.25
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (33 bp):
AAAAATTGGAGCTGTTTGCTGCCAATTTTGTAG
Found at i:10441782 original size:69 final size:67
Alignment explanation
Indices: 10441638--10441800 Score: 166
Period size: 69 Copynumber: 2.4 Consensus size: 67
10441628 TGGCTGCTAA
* * * * * *
10441638 AAAAATTGGAGCTGTTTGCTGCCAATTTGTGAAGAAAATTGGAGCTGTTTGTTGCCAATTTATGT
1 AAAAATTGGAGCTGTTTACTGCCAATTTGTCAAAAAAACTGGAGCTGTTTGCTGCCAATTTATGC
10441703 AG
66 AG
* ** * *
10441705 AAAAATTGGAGTTGTTTACTGCCAATTTTGTACAAAAAAACTGGAGCTGTTTGCTGGTAGTTTGT
1 AAAAATTGGAGCTGTTTACTGCCAA-TTTGT-CAAAAAAACTGGAGCTGTTTGCTGCCAATTTAT
10441770 GCAG
64 GCAG
*
10441774 GAAAATTGGACAGCT-TTGTACTGCCAA
1 AAAAATTGG--AGCTGTT-TACTGCCAA
10441801 AATTGAGGAG
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
67 23 0.29
68 5 0.06
69 36 0.46
70 2 0.03
71 12 0.15
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (67 bp):
AAAAATTGGAGCTGTTTACTGCCAATTTGTCAAAAAAACTGGAGCTGTTTGCTGCCAATTTATGC
AG
Found at i:10442011 original size:16 final size:17
Alignment explanation
Indices: 10441990--10442027 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
10441980 CATGGAAGAG
10441990 AGAAAAAG-AAAGAAAA
1 AGAAAAAGAAAAGAAAA
*
10442006 AG-AAAAGAAAAGAAAT
1 AGAAAAAGAAAAGAAAA
10442022 AGAAAA
1 AGAAAA
10442028 TAAATGGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 5 0.26
16 11 0.58
17 3 0.16
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AGAAAAAGAAAAGAAAA
Found at i:10442109 original size:25 final size:26
Alignment explanation
Indices: 10442022--10442106 Score: 109
Period size: 25 Copynumber: 3.2 Consensus size: 26
10442012 GAAAAGAAAT
* *
10442022 AGAAAATAAATGGGCATGACCCACCCAAA
1 AGAAAATAAGTGGGCATGACCCA---ATA
10442051 AGAAAATAAGTGGGCATGACCCAAT-
1 AGAAAATAAGTGGGCATGACCCAATA
*
10442076 AGAAAATAAGTGGGCATGGCCCAATA
1 AGAAAATAAGTGGGCATGACCCAATA
10442102 AGAAA
1 AGAAA
10442107 TAAAAATAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
25 24 0.46
26 6 0.12
29 22 0.42
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (26 bp):
AGAAAATAAGTGGGCATGACCCAATA
Found at i:10450961 original size:20 final size:20
Alignment explanation
Indices: 10450936--10450981 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
10450926 TTTTGGCCCC
10450936 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
10450956 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
10450976 ATTTGA
1 ATTTGA
10450982 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:10458996 original size:20 final size:20
Alignment explanation
Indices: 10458971--10459016 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
10458961 TTTTGACCCC
10458971 ATTTGACTTATT-AGAGTATA
1 ATTTGACTTATTGA-AGTATA
*
10458991 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
10459011 ATTTGA
1 ATTTGA
10459017 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:10459092 original size:28 final size:27
Alignment explanation
Indices: 10459061--10459113 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
10459051 TTTGGAGTAT
*
10459061 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTT-CCACCTC
*
10459089 AGGGGCAAAATTGTAATTTTCCACC
1 AGGGGCAAAATGGTAATTTTCCACC
10459114 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGCAAAATGGTAATTTTCCACCTC
Found at i:10459119 original size:28 final size:28
Alignment explanation
Indices: 10459061--10459119 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
10459051 TTTGGAGTAT
* *
10459061 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
10459089 AGGGGCAAAATTGTAATTTT-CCACCACC
1 AGGGGCAAAATGGTAATTTTGCCACC-CC
10459117 AGG
1 AGG
10459120 ATATTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Found at i:10461863 original size:20 final size:20
Alignment explanation
Indices: 10461840--10461880 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
10461830 AATGGTGTGA
10461840 ATGTGGTTTGAATGGGAATG
1 ATGTGGTTTGAATGGGAATG
*
10461860 ATGTGGTTTGGATGGGAATG
1 ATGTGGTTTGAATGGGAATG
10461880 A
1 A
10461881 AGAAAAGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.34
Consensus pattern (20 bp):
ATGTGGTTTGAATGGGAATG
Found at i:10462085 original size:14 final size:15
Alignment explanation
Indices: 10462066--10462118 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
10462056 GTCGGTTAGT
10462066 GAAG-AAGAAAAAGA
1 GAAGAAAGAAAAAGA
* *
10462080 GAAGAAAAAAAAAGG
1 GAAGAAAGAAAAAGA
10462095 GAAGAAAGAAATGAAGA
1 GAAGAAAGAAA--AAGA
10462112 GAA-AAAG
1 GAAGAAAG
10462119 GGAGAGAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 4 0.12
15 18 0.56
16 4 0.12
17 6 0.19
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (15 bp):
GAAGAAAGAAAAAGA
Found at i:10462397 original size:23 final size:24
Alignment explanation
Indices: 10462367--10462421 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
10462357 TTGGAGGTTT
10462367 TGCTGCCATTG-AGGACAGCAAAG
1 TGCTGCCATTGAAGGACAGCAAAG
10462390 TGCTGCCATTGAAGGACAGCAAAG
1 TGCTGCCATTGAAGGACAGCAAAG
10462414 TGCTGCCA
1 TGCTGCCA
10462422 ATTTGTGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 11 0.35
24 20 0.65
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.18
Consensus pattern (24 bp):
TGCTGCCATTGAAGGACAGCAAAG
Found at i:10462450 original size:23 final size:23
Alignment explanation
Indices: 10462423--10462495 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
10462413 GTGCTGCCAA
*
10462423 TTTGTGCAAAAAAATTAGAGCTG
1 TTTGTGCAGAAAAATTAGAGCTG
*
10462446 TTTGTGTAGAAAAATTAGAGCTG
1 TTTGTGCAGAAAAATTAGAGCTG
*
10462469 TTTATGCAGAAAAATTAGAGCTG
1 TTTGTGCAGAAAAATTAGAGCTG
10462492 TTTG
1 TTTG
10462496 CTGCCAATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.34
Consensus pattern (23 bp):
TTTGTGCAGAAAAATTAGAGCTG
Found at i:10462528 original size:34 final size:32
Alignment explanation
Indices: 10462473--10462555 Score: 112
Period size: 34 Copynumber: 2.5 Consensus size: 32
10462463 GAGCTGTTTA
* *
10462473 TGCAGAAAAATTAGAGCTGTTTGCTGCCAATTTG
1 TGCAG-AAAATTGGA-CTGTTTGCTACCAATTTG
10462507 TGCAGAAAAGTTGGACTTGTTTGCTACCAATTTG
1 TGCAGAAAA-TTGGAC-TGTTTGCTACCAATTTG
10462541 TGCAGAAAATTGGAC
1 TGCAGAAAATTGGAC
10462556 AGCTTTGTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
33 11 0.24
34 34 0.76
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (32 bp):
TGCAGAAAATTGGACTGTTTGCTACCAATTTG
Found at i:10462731 original size:22 final size:22
Alignment explanation
Indices: 10462666--10462743 Score: 90
Period size: 22 Copynumber: 3.7 Consensus size: 22
10462656 GATCGATTTT
*
10462666 GAGAGAAAGCCACGGTGGTGAA
1 GAGAGGAAGCCACGGTGGTGAA
* * **
10462688 GAAAGGAAGCCATGGTAATGAA
1 GAGAGGAAGCCACGGTGGTGAA
10462710 GAGAGGAAGCCACGGTGGTG-A
1 GAGAGGAAGCCACGGTGGTGAA
10462731 -AG-GGAAGCCACGG
1 GAGAGGAAGCCACGG
10462744 GCTGGAAATA
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
19 11 0.23
20 2 0.04
21 1 0.02
22 33 0.70
ACGTcount: A:0.36, C:0.14, G:0.41, T:0.09
Consensus pattern (22 bp):
GAGAGGAAGCCACGGTGGTGAA
Found at i:10462855 original size:24 final size:25
Alignment explanation
Indices: 10462803--10462864 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
10462793 AGAAAAAAGA
10462803 AATAGAAAATAAATGGGCATGACCC
1 AATAGAAAATAAATGGGCATGACCC
* * *
10462828 AATAGAAAATAAGT-GGCATGGCCT
1 AATAGAAAATAAATGGGCATGACCC
10462852 AATATG-AAATAAA
1 AATA-GAAAATAAA
10462865 AATAAATGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.50, C:0.11, G:0.19, T:0.19
Consensus pattern (25 bp):
AATAGAAAATAAATGGGCATGACCC
Found at i:10468158 original size:19 final size:19
Alignment explanation
Indices: 10468134--10468171 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
10468124 ACTTTTTAAT
10468134 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
10468153 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
10468172 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:10472526 original size:24 final size:26
Alignment explanation
Indices: 10472473--10472526 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
10472463 TAAGAAAACC
**
10472473 AAATTTTTTTATGTTTTGAATTTTCT
1 AAATTTTTTTATGTTTTGAATTTTAA
*
10472499 AAATTTTTTTAT-TTTT-TATTTTAA
1 AAATTTTTTTATGTTTTGAATTTTAA
10472523 AAAT
1 AAAT
10472527 AAAAATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 9 0.36
25 4 0.16
26 12 0.48
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (26 bp):
AAATTTTTTTATGTTTTGAATTTTAA
Found at i:10489388 original size:22 final size:24
Alignment explanation
Indices: 10489363--10489409 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
10489353 TACCTTTTGT
10489363 CACTTGTTTC-CTTG-AATT-TTCA
1 CACTT-TTTCTCTTGAAATTCTTCA
10489385 CACTTTTTCTCTTGAAATTCTTCA
1 CACTTTTTCTCTTGAAATTCTTCA
10489409 C
1 C
10489410 CTAGGGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.18
22 9 0.41
23 4 0.18
24 5 0.23
ACGTcount: A:0.19, C:0.26, G:0.06, T:0.49
Consensus pattern (24 bp):
CACTTTTTCTCTTGAAATTCTTCA
Found at i:10491109 original size:20 final size:21
Alignment explanation
Indices: 10491084--10491126 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
10491074 GGAAGAAAAA
10491084 GAAGAAACTACTGGAGAA-AT
1 GAAGAAACTACTGGAGAAGAT
* *
10491104 GAAGAAGCTGCTGGAGAAGAT
1 GAAGAAACTACTGGAGAAGAT
10491125 GA
1 GA
10491127 TATTTATAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.44, C:0.09, G:0.33, T:0.14
Consensus pattern (21 bp):
GAAGAAACTACTGGAGAAGAT
Found at i:10492826 original size:22 final size:23
Alignment explanation
Indices: 10492801--10492848 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
10492791 CAAACCCTAG
**
10492801 GTGTGGAATTTCAA-GAAAAAAA
1 GTGTGGAAAATCAAGGAAAAAAA
*
10492823 GTGTGGAAAATCAAGGAAAACAA
1 GTGTGGAAAATCAAGGAAAAAAA
10492846 GTG
1 GTG
10492849 AAAAAGGTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.48, C:0.06, G:0.27, T:0.19
Consensus pattern (23 bp):
GTGTGGAAAATCAAGGAAAAAAA
Found at i:10495474 original size:31 final size:32
Alignment explanation
Indices: 10495431--10495497 Score: 118
Period size: 31 Copynumber: 2.1 Consensus size: 32
10495421 CAAAATTACT
*
10495431 TTATTAAATTTGAGTAACTACCAGACCTAAGA
1 TTATTAAATTTGAGTAACTACCAAACCTAAGA
10495463 TTATT-AATTTGAGTAACTACCAAACCTAAGA
1 TTATTAAATTTGAGTAACTACCAAACCTAAGA
10495494 TTAT
1 TTAT
10495498 AATGTCCTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 29 0.85
32 5 0.15
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.34
Consensus pattern (32 bp):
TTATTAAATTTGAGTAACTACCAAACCTAAGA
Found at i:10496343 original size:19 final size:19
Alignment explanation
Indices: 10496316--10496362 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
10496306 AACCAAAGAG
*
10496316 ATAAGATAAAATTTT-TAAA
1 ATAAAATAAAATTTTAT-AA
* *
10496335 ATAAAATAATATTTTATTA
1 ATAAAATAAAATTTTATAA
10496354 ATAAAATAA
1 ATAAAATAA
10496363 TATTCAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 23 0.96
20 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
ATAAAATAAAATTTTATAA
Found at i:10501655 original size:21 final size:20
Alignment explanation
Indices: 10501605--10501647 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
10501595 TAAGTCATGT
*
10501605 GTTGCTCAAACTAGTGCTTAA
1 GTTGCTC-AACTAGTGCTCAA
10501626 GTTGCTCAACTAGGTGCTCAA
1 GTTGCTCAACTA-GTGCTCAA
10501647 G
1 G
10501648 GTTCTCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (20 bp):
GTTGCTCAACTAGTGCTCAA
Found at i:10509400 original size:2 final size:2
Alignment explanation
Indices: 10509393--10509435 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
10509383 CTAAATATTT
10509393 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
10509435 T
1 T
10509436 NNNNNNNNNN
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:10512220 original size:13 final size:13
Alignment explanation
Indices: 10512202--10512226 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10512192 AGAGAAATTG
10512202 TGATTTTATAAAA
1 TGATTTTATAAAA
10512215 TGATTTTATAAA
1 TGATTTTATAAA
10512227 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:10514218 original size:16 final size:17
Alignment explanation
Indices: 10514189--10514230 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
10514179 CAAAATTTAA
*
10514189 ATTTTGATTCTTTTG-G
1 ATTTTTATTCTTTTGAG
* *
10514205 ATTTTTATTTTTTTGAT
1 ATTTTTATTCTTTTGAG
10514222 ATTTTTATT
1 ATTTTTATT
10514231 GAATCCAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.17, C:0.02, G:0.10, T:0.71
Consensus pattern (17 bp):
ATTTTTATTCTTTTGAG
Found at i:10514308 original size:27 final size:27
Alignment explanation
Indices: 10514278--10514333 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
10514268 ATATCTTAAG
10514278 TAAATGGAAAGTAAAAAGTAAAGAGGA
1 TAAATGGAAAGTAAAAAGTAAAGAGGA
10514305 TAAATGGAAAGTAAAAAGTAAAGAGGA
1 TAAATGGAAAGTAAAAAGTAAAGAGGA
10514332 TA
1 TA
10514334 TTTACTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.59, C:0.00, G:0.25, T:0.16
Consensus pattern (27 bp):
TAAATGGAAAGTAAAAAGTAAAGAGGA
Found at i:10514888 original size:16 final size:17
Alignment explanation
Indices: 10514867--10514898 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10514857 TGAATTTGAT
10514867 AAGGATTT-TAAAGGTA
1 AAGGATTTCTAAAGGTA
10514883 AAGGATTTCTAAAGGT
1 AAGGATTTCTAAAGGT
10514899 TTATATAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.03, G:0.25, T:0.31
Consensus pattern (17 bp):
AAGGATTTCTAAAGGTA
Found at i:10516804 original size:45 final size:45
Alignment explanation
Indices: 10516748--10516918 Score: 148
Period size: 45 Copynumber: 3.8 Consensus size: 45
10516738 ATCTTAGTCT
* *
10516748 TCACCTAGAGTAATCTCCCGACAAGTGGTATCACAAGCATAATCA
1 TCACCTGGAGTAATCTCCCAACAAGTGGTATCACAAGCATAATCA
** * * * * *
10516793 TCATTTGGAGTAATCTCTCAATGAA-TAGTATCACAATCATAGTCA
1 TCACCTGGAGTAATCTCCCAA-CAAGTGGTATCACAAGCATAATCA
* ** **
10516838 TCACCTGGAGTAATCTCCTGAA-GGGTGGCGTCACAAGCATAATCA
1 TCACCTGGAGTAATCTCC-CAACAAGTGGTATCACAAGCATAATCA
* * * *
10516883 TCACCTAGAGTAATGTCTCAACAGGTGGTATCACAA
1 TCACCTGGAGTAATCTCCCAACAAGTGGTATCACAA
10516919 CACTGCAGGT
Statistics
Matches: 95, Mismatches: 27, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
44 2 0.02
45 89 0.94
46 4 0.04
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (45 bp):
TCACCTGGAGTAATCTCCCAACAAGTGGTATCACAAGCATAATCA
Found at i:10516872 original size:90 final size:90
Alignment explanation
Indices: 10516709--10516903 Score: 230
Period size: 90 Copynumber: 2.2 Consensus size: 90
10516699 TCGCTCATCC
* * * * * *
10516709 GGAGTAATCTCCCAATGGATGGCATTACAATCTTAGTCTTCACCTAGAGTAATCTCCCGACAAGT
1 GGAGTAATCTCTCAATGAATAGCATCACAATCATAGTCATCACCTAGAGTAATCTCCCGACAAGT
* **
10516774 GGTATCACAAGCATAATCATCATTT
66 GGCATCACAAGCATAATCATCACCT
* * * *
10516799 GGAGTAATCTCTCAATGAATAGTATCACAATCATAGTCATCACCTGGAGTAATCTCCTGA-AGGG
1 GGAGTAATCTCTCAATGAATAGCATCACAATCATAGTCATCACCTAGAGTAATCTCCCGACA-AG
*
10516863 TGGCGTCACAAGCATAATCATCACCT
65 TGGCATCACAAGCATAATCATCACCT
* *
10516889 AGAGTAATGTCTCAA
1 GGAGTAATCTCTCAA
10516904 CAGGTGGTAT
Statistics
Matches: 88, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
89 1 0.01
90 87 0.99
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (90 bp):
GGAGTAATCTCTCAATGAATAGCATCACAATCATAGTCATCACCTAGAGTAATCTCCCGACAAGT
GGCATCACAAGCATAATCATCACCT
Found at i:10525277 original size:2 final size:2
Alignment explanation
Indices: 10525270--10525298 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10525260 NNNNNNNNNN
10525270 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10525299 TAACTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10526928 original size:16 final size:16
Alignment explanation
Indices: 10526909--10526943 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10526899 GTATAAATCT
*
10526909 CATTTTTATTAAAAAA
1 CATTTTAATTAAAAAA
*
10526925 CATTTTAATTGAAAAA
1 CATTTTAATTAAAAAA
10526941 CAT
1 CAT
10526944 AATATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.40
Consensus pattern (16 bp):
CATTTTAATTAAAAAA
Found at i:10527804 original size:19 final size:19
Alignment explanation
Indices: 10527780--10527817 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10527770 CCATTTAACT
*
10527780 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
10527799 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
10527818 GGTTTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:10531087 original size:19 final size:19
Alignment explanation
Indices: 10531063--10531100 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10531053 ACTTCTAGTC
10531063 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
*
10531082 CTCAAATCATACTTCAATA
1 CTCAAATCATACTCCAATA
10531101 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:10534994 original size:20 final size:20
Alignment explanation
Indices: 10534969--10535007 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10534959 CTTCTAAACC
*
10534969 TCAAATCATACTCCCATAAG
1 TCAAATCATACTCCAATAAG
*
10534989 TCAAATTATACTCCAATAA
1 TCAAATCATACTCCAATAA
10535008 CCAAATGAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.26, G:0.03, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:10543164 original size:36 final size:36
Alignment explanation
Indices: 10543115--10543188 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
10543105 AACACTCTTT
10543115 GGGTCTTAGGAGTAATAGAGTAAGGGATAGAAATTG
1 GGGTCTTAGGAGTAATAGAGTAAGGGATAGAAATTG
* *
10543151 GGGTCTTATGAGTAATAGAGTAAGGGATAGCAATTG
1 GGGTCTTAGGAGTAATAGAGTAAGGGATAGAAATTG
10543187 GG
1 GG
10543189 TTTTAATTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.34, C:0.04, G:0.36, T:0.26
Consensus pattern (36 bp):
GGGTCTTAGGAGTAATAGAGTAAGGGATAGAAATTG
Found at i:10543971 original size:36 final size:36
Alignment explanation
Indices: 10543926--10543997 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
10543916 CTACAGTTGA
* * *
10543926 TTGACATGTGGGTTGGTTGAGTTTGGATGCTTCTAG
1 TTGACATGTGGATTGCTTGAGTTTGGAGGCTTCTAG
10543962 TTGACATGTGGATTGCTTGAGTTTGGAGGCTTCTAG
1 TTGACATGTGGATTGCTTGAGTTTGGAGGCTTCTAG
10543998 GCATGGGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.15, C:0.10, G:0.35, T:0.40
Consensus pattern (36 bp):
TTGACATGTGGATTGCTTGAGTTTGGAGGCTTCTAG
Found at i:10544523 original size:19 final size:19
Alignment explanation
Indices: 10544501--10544540 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
10544491 CAATTAAGTT
10544501 GTTTGGATCC-GATTAATGG
1 GTTTGGATCCAG-TTAATGG
10544520 GTTTGGATCCAGTTAATGG
1 GTTTGGATCCAGTTAATGG
10544539 GT
1 GT
10544541 GTTTATAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.20, C:0.10, G:0.33, T:0.38
Consensus pattern (19 bp):
GTTTGGATCCAGTTAATGG
Found at i:10544781 original size:77 final size:77
Alignment explanation
Indices: 10544687--10544841 Score: 265
Period size: 77 Copynumber: 2.0 Consensus size: 77
10544677 AAGGCATCGA
* * *
10544687 AAACCTATACTTATAAATATGTATTCATTAAATGACGATCATTGAAATATTTTTTATTATAATTA
1 AAACCTATACTTATAAATATATATTCATCAAATGAAGATCATTGAAATATTTTTTATTATAATTA
*
10544752 TTTGTAAGATTT
66 TTAGTAAGATTT
*
10544764 AAACCTATACTTATAAATGTATATTCATCAAATGAAGATCATTGAAATATTTTTTATTATAATTA
1 AAACCTATACTTATAAATATATATTCATCAAATGAAGATCATTGAAATATTTTTTATTATAATTA
10544829 TTAGTAAGATTT
66 TTAGTAAGATTT
10544841 A
1 A
10544842 TTTAATTTAT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.44
Consensus pattern (77 bp):
AAACCTATACTTATAAATATATATTCATCAAATGAAGATCATTGAAATATTTTTTATTATAATTA
TTAGTAAGATTT
Found at i:10548574 original size:238 final size:238
Alignment explanation
Indices: 10548156--10548633 Score: 866
Period size: 238 Copynumber: 2.0 Consensus size: 238
10548146 TTTCCACCAC
*
10548156 TTTGCTATTTGATTGAGATTATAACCTTCTTCCATATGCCTGACATTTGTTAACTCTTTTTCCAA
1 TTTGCTATTCGATTGAGATTATAACCTTCTTCCATATGCCTGACATTTGTTAACTCTTTTTCCAA
* * *
10548221 CTCCTCTAACTTTTTATTCCATTTTTCAATTGATGCAAATTTTTATGGCCAAACTTCATTACCTA
66 CTCCTCTAACTTTCTATACCATTTTTCAATTGATGCAAATTTTTATAGCCAAACTTCATTACCTA
* *
10548286 TTTCCATGTTAGTTGTTGAGCTTTGTTTTACACAAATTTTATTGCAACTTGCAAGTTTCTTCCTT
131 TTTCCATGTTAGTTATTGAGCTTAGTTTTACACAAATTTTATTGCAACTTGCAAGTTTCTTCCTT
10548351 TAATTTTTATTTTCCACAAAAGAAAGTTTTCACTTTAATCAAT
196 TAATTTTTATTTTCCACAAAAGAAAGTTTTCACTTTAATCAAT
*
10548394 TTTGCTATTCGATTGAGATTATAACCTTCTTTCATATGCCTGACATTTGTTAACTCTTTTTCCAA
1 TTTGCTATTCGATTGAGATTATAACCTTCTTCCATATGCCTGACATTTGTTAACTCTTTTTCCAA
*
10548459 CTCCTCTAACTTTCTATACCATTTTTCAATTGATGCAAATTTTTATAGCCAAACTTCATTACTTA
66 CTCCTCTAACTTTCTATACCATTTTTCAATTGATGCAAATTTTTATAGCCAAACTTCATTACCTA
*
10548524 TTTCCATGTTAGTTATTGAGCTTAGTTTTACACAAATTTTATTGCAACTTGCAAGTTTCTTCTTT
131 TTTCCATGTTAGTTATTGAGCTTAGTTTTACACAAATTTTATTGCAACTTGCAAGTTTCTTCCTT
*
10548589 TAATTTTTATTTTCCACGAAAGAAAGTTTTCACTTTAATCAAT
196 TAATTTTTATTTTCCACAAAAGAAAGTTTTCACTTTAATCAAT
10548632 TT
1 TT
10548634 CGGTATCCCA
Statistics
Matches: 230, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
238 230 1.00
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.46
Consensus pattern (238 bp):
TTTGCTATTCGATTGAGATTATAACCTTCTTCCATATGCCTGACATTTGTTAACTCTTTTTCCAA
CTCCTCTAACTTTCTATACCATTTTTCAATTGATGCAAATTTTTATAGCCAAACTTCATTACCTA
TTTCCATGTTAGTTATTGAGCTTAGTTTTACACAAATTTTATTGCAACTTGCAAGTTTCTTCCTT
TAATTTTTATTTTCCACAAAAGAAAGTTTTCACTTTAATCAAT
Found at i:10550825 original size:5 final size:5
Alignment explanation
Indices: 10550817--10550845 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
10550807 ATTTTATTCT
10550817 TTATA TTATA TTATA TTATA TTATA TTAT
1 TTATA TTATA TTATA TTATA TTATA TTAT
10550846 TTAAATAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:10552838 original size:15 final size:16
Alignment explanation
Indices: 10552820--10552859 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
10552810 TCATCTTGTT
10552820 TTTTGTTTTTATTC-C
1 TTTTGTTTTTATTCTC
10552835 TTTTG-TTTTATTCTC
1 TTTTGTTTTTATTCTC
*
10552850 ATTTGTTTTT
1 TTTTGTTTTT
10552860 CACATGGTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.36
15 10 0.45
16 4 0.18
ACGTcount: A:0.07, C:0.10, G:0.07, T:0.75
Consensus pattern (16 bp):
TTTTGTTTTTATTCTC
Found at i:10561666 original size:26 final size:26
Alignment explanation
Indices: 10561637--10561688 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
10561627 AGTAAGGTTG
*
10561637 TCATTTTTGACCTTATTGTAAAGTCA
1 TCATTTTTGACCTTACTGTAAAGTCA
*
10561663 TCATTTTTGACCTTACTGTAAGGTCA
1 TCATTTTTGACCTTACTGTAAAGTCA
10561689 ATTAATAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.44
Consensus pattern (26 bp):
TCATTTTTGACCTTACTGTAAAGTCA
Found at i:10562433 original size:246 final size:250
Alignment explanation
Indices: 10562015--10562694 Score: 885
Period size: 252 Copynumber: 2.7 Consensus size: 250
10562005 CGTAAAGCAA
* * * *
10562015 TAAGAATTGACATAAAAAC-TCATATAGGT-AGAGTAATTAAATTTAAAATCTTAACGTAAATGT
1 TAAGAATTGACGTAAAAACAT-ATAAAGGTGA-AATAATTAAATTTTAAATCTTAACGTAAATGT
* * * * *
10562078 ATAAAAGTTAACGTAACAACTCAATTAA--AGAAAAAAATTTAATTTTAATGAAAAATAAATATT
64 GTGAAAGTTAACGTAACAAATCAATTAAGTA-AAAAAAATCTAATTTTAGTGAAAAATAAATATT
* * *
10562141 TAAATTTATACTCTCGAATTAAAATTGTTTAATGATATATAAATTTTAATTTTTAAAT-A-AATA
128 TAAATTTATATTCTCG-ATTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAACAATA
* * *
10562204 AT-AA-A-AAAAATAATTATAGTTCAAAATTGACATAGATAAG-TCTTGACGTAAAACTG
192 ATAAAGATAAAAATAATTATAATTCAAAATTGACATAAAAAAGCT-TTGACGTAAAACTG
* * * * *
10562260 TAATAATTTACGTAAAAACTTATAAAGGTGAAATAATTAAATTTTAAATCTTAACTTAAATATGT
1 TAAGAATTGACGTAAAAACATATAAAGGTGAAATAATTAAATTTTAAATCTTAACGTAAATGTGT
* * * *
10562325 GAAAGTTAACATAACAAGTCAATTAAGTAAAAAAAATCTAATTTTAGTGAAAAATAAACATTTAT
66 GAAAGTTAACGTAACAAATCAATTAAGTAAAAAAAATCTAATTTTAGTGAAAAATAAATATTTAA
* *
10562390 ATTTATATTCTCAGATTAAAAGTGTTTAACAATATACAAATTTTAATTTTTAAATAAACAATAAT
131 ATTTATATTCTC-GATTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAAT-AACAATAAT
* * * *
10562455 AAAGATAAAAATCATTATAATTCAAAATTGATATAAAAAAGCTTTGACGTTAAATTG
194 AAAGATAAAAATAATTATAATTCAAAATTGACATAAAAAAGCTTTGACGTAAAACTG
* * * * *
10562512 TGAGAATTGACGTAAAAACATATAAATGTGAAATAATTAAATTTTTAATCTCAACGTAAACGTGT
1 TAAGAATTGACGTAAAAACATATAAAGGTGAAATAATTAAATTTTAAATCTTAACGTAAATGTGT
*
10562577 GAAAGTTAACGTAATAAATCAATTAAGTAAAAAAAATCTAATTTTAGTGAAAAATAAATATTTAA
66 GAAAGTTAACGTAACAAATCAATTAAGTAAAAAAAATCTAATTTTAGTGAAAAATAAATATTTAA
*
10562642 ATTTATATTTTCGGATTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAA
131 ATTTATATTCTC-GATTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAA
10562695 GTTTTGATGT
Statistics
Matches: 376, Mismatches: 47, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
245 75 0.20
246 82 0.22
247 2 0.01
248 1 0.00
249 6 0.02
250 2 0.01
251 1 0.00
252 206 0.55
253 1 0.00
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (250 bp):
TAAGAATTGACGTAAAAACATATAAAGGTGAAATAATTAAATTTTAAATCTTAACGTAAATGTGT
GAAAGTTAACGTAACAAATCAATTAAGTAAAAAAAATCTAATTTTAGTGAAAAATAAATATTTAA
ATTTATATTCTCGATTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAACAATAATAA
AGATAAAAATAATTATAATTCAAAATTGACATAAAAAAGCTTTGACGTAAAACTG
Found at i:10563052 original size:445 final size:450
Alignment explanation
Indices: 10562240--10563108 Score: 1167
Period size: 445 Copynumber: 1.9 Consensus size: 450
10562230 TTGACATAGA
* * * *
10562240 TAAGTCTTGACGTAAAACTGTAATAATTTACGTAAAAACTTATAAAGGTGAAATAATTAAATTTT
1 TAAGTCTTGACGTAAAACTGTAACAATTGACGTAAAAACTTATAAAGATGAAATAACTAAATTTT
* *
10562305 AAATCTTAACTTAAATATGTGAAAGTTAACATAACAAGTCAATTAAGTAAAAAAAATCTAATTTT
66 AAATCTTAACGTAAATATGTGAAAGCTAACATAACAAGTCAATTAAGTAAAAAAAATCTAATTTT
* * * * *
10562370 AGTGAAAAATAAACATTTATATTTATATTCTCAGATTAAAAGTGTTTAACAATATACAAATTTTA
131 AGTGAAAAATAAACATTTAAATTTATATTCTCAGACTAAAAATGGTTAACAATATACAAATTATA
* * * * *
10562435 ATTTTTAAATAAACAATAATAAAGATAAAAATCATTATAATTCAAAATTGATATAAAAAAGCTTT
196 ATTTTAAAATAAAAAATAATAAAGATAAAAA-CATTATAATTCAAAATTAACATAAAAAAGCCTT
* * ** * * * *
10562500 GACGTTAAATTGTGAGAATTGACGTAAAAACATATAAATGTGAAATAATTAAATTTTTAATCTCA
260 GACGTAAAACTGCAAGAATTAACGTAAAAACATATAAAGGTGAAATAACTAAATTTTAAATCTCA
* * * *
10562565 ACGTAAACGTGTGAAAGTTAACGTAATAAATCAATTAAGTAAAAAAAATCTAATTTTAGTGAAAA
325 ACGTAAACATGTGAAAGTTAACATAATAAATCAATTAAGTAAAAAAAAT-TAATTTTAATAAAAA
* * *
10562630 ATAAATATTTAAATTTATATTTTCGGATTAAAAGTGTTTAACGATATATAAATTTTAATTTT
389 ATAAACATTTAAATTTATATTATCGGACTAAAAGTGTTTAACGATATATAAATTTTAATTTT
* *
10562692 TAAGTTTTGATGTAAAACTGTAACAATTGACGTAAAAACTTATAAAGATGAAATAACTAAATTTT
1 TAAGTCTTGACGTAAAACTGTAACAATTGACGTAAAAACTTATAAAGATGAAATAACTAAATTTT
* * * *
10562757 AAATTTTAACGTAAATGTGTGAGAGCTAACGTAACAAGTCAATTAAGTAAAAAAAAT-TAATTTT
66 AAATCTTAACGTAAATATGTGAAAGCTAACATAACAAGTCAATTAAGTAAAAAAAATCTAATTTT
* * * ** *
10562821 AGTG-AAAA-AAA-ATTTAAATTTATATTTTTAGGCTAAAAATGGTTAATGATATATAAATTATA
131 AGTGAAAAATAAACATTTAAATTTATATTCTCAGACTAAAAATGGTTAACAATATACAAATTATA
* *
10562883 ATTTTAAAATAAAAAATAATAATGA-AAAAA-ATTATAATTCAAAATTAACATAAATAAGCCTTG
196 ATTTTAAAATAAAAAATAATAAAGATAAAAACATTATAATTCAAAATTAACATAAAAAAGCCTTG
* * * *
10562946 ACGTAAAACTGCAAGAATTAACGTAAAAGCTTATAAAGGT-AGATTAACTAAATTTTAAATCTTA
261 ACGTAAAACTGCAAGAATTAACGTAAAAACATATAAAGGTGA-AATAACTAAATTTTAAATCTCA
* * * *
10563010 ACGTAAATATTTGAAAGTTAACATAATAAGTTAATTAAGTAAAAAAAATTAATTTTAATAAAAAA
325 ACGTAAACATGTGAAAGTTAACATAATAAATCAATTAAGTAAAAAAAATTAATTTTAATAAAAAA
* *
10563075 TAAGCATTTATATTTATATTATCGGACTAAAAGT
390 TAAACATTTAAATTTATATTATCGGACTAAAAGT
10563109 ATGTAATGAT
Statistics
Matches: 361, Mismatches: 55, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
444 44 0.12
445 122 0.34
447 5 0.01
448 62 0.17
449 3 0.01
450 4 0.01
451 11 0.03
452 110 0.30
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.35
Consensus pattern (450 bp):
TAAGTCTTGACGTAAAACTGTAACAATTGACGTAAAAACTTATAAAGATGAAATAACTAAATTTT
AAATCTTAACGTAAATATGTGAAAGCTAACATAACAAGTCAATTAAGTAAAAAAAATCTAATTTT
AGTGAAAAATAAACATTTAAATTTATATTCTCAGACTAAAAATGGTTAACAATATACAAATTATA
ATTTTAAAATAAAAAATAATAAAGATAAAAACATTATAATTCAAAATTAACATAAAAAAGCCTTG
ACGTAAAACTGCAAGAATTAACGTAAAAACATATAAAGGTGAAATAACTAAATTTTAAATCTCAA
CGTAAACATGTGAAAGTTAACATAATAAATCAATTAAGTAAAAAAAATTAATTTTAATAAAAAAT
AAACATTTAAATTTATATTATCGGACTAAAAGTGTTTAACGATATATAAATTTTAATTTT
Found at i:10563840 original size:29 final size:30
Alignment explanation
Indices: 10563807--10563867 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
10563797 AAGCAAAAAA
* *
10563807 AAATTAATTTTATTGAAAAAT-AAA-TATTT
1 AAATTAATATT-TTCAAAAATAAAAGTATTT
*
10563836 AAATTTATATTTTCAAAAATAAAAGTATTT
1 AAATTAATATTTTCAAAAATAAAAGTATTT
10563866 AA
1 AA
10563868 TGATATACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 8 0.30
29 12 0.44
30 7 0.26
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (30 bp):
AAATTAATATTTTCAAAAATAAAAGTATTT
Found at i:10564235 original size:250 final size:248
Alignment explanation
Indices: 10562698--10565543 Score: 2767
Period size: 250 Copynumber: 11.4 Consensus size: 248
10562688 TTTTTAAGTT
* * *
10562698 TTGATGTAAAACTGTAACAATTGACGTAAAAACTTAT-AAAGATGAAATAACTAAATTTTAAATT
1 TTGACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAAG-TGAAATAACTAAATTTTAAATC
* *
10562762 TTAACGTAAATGTGTGAGAGCTAACGTAACAAGTCAATTAAGTAAAAAAAATTAATTTTAGTGAA
65 TTAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGT-AAAAAAATTAATTTTAATGAA
* * * ** * * *
10562827 AAA-AA-ATTTAAATTTATATTTTTAGGCTAAAAATGGTTAATGATATAT-AAATTATAATTTTA
129 AAATAATATTTAAATTTATATTATCAGGCTAAAAGTATTTAACGATAT-TCAAATTTTAATTTTT
* * * * *
10562889 AAATAAAAAATAATAATG--AAAAA-AATTATAATTCAAAATTAACATA-AATAAGCC
193 AAATAAAGAATAATAAAGATAAAAATAATTATAGTT-AAAATTGACATAGAAAAAG-C
* * * * *
10562943 TTGACGTAAAACTGCAAGAATTAACGTAAAAGCTTATAAAGGT-AGATTAACTAAATTTTAAATC
1 TTGACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAAGTGA-AATAACTAAATTTTAAATC
* * * * * * *
10563007 TTAACGTAAATATTTGAAAGTTAACATAATAAGTTAATTAAGTAAAAAAAATTAATTTTAATAAA
65 TTAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGT-AAAAAAATTAATTTTAATGAA
* * * * * *
10563072 AAATAAGCATTTATATTTATATTATC-GGACTAAAAGTATGTAATGATATTCAAGGTTTT-ACTT
129 AAATAA-TATTTAAATTTATATTATCAGG-CTAAAAGTATTTAACGATATTCAA-ATTTTAATTT
*
10563135 TTAAATAAAGAATAATAAGGATAAAAATAATTATAGTTCAAAATTGACATA-AAAAAGTC
191 TTAAATAAAGAATAATAAAGATAAAAATAATTATAGTT-AAAATTGACATAGAAAAAG-C
* * *
10563194 TTGACGTAAAACTGTAACAATTGACGTAAAAAATTATAAAAGTGAAATAATTAAATTTTAAATCT
1 TTGACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAAGTGAAATAACTAAATTTTAAATCT
* * * * **
10563259 TAACGTAAATGTGTGAGAGTTAACATAATAAGTTAATTAAATAAAAAGGTCTAATTTTAATGAAA
66 TAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAAT-TAATTTTAATGAAA
* * * * * *
10563324 AATAAGTATTTATATTTATATTATCGGGTTAAAAGTCTGTAACGATATACAAATTTTAATTTTTA
130 AATAA-TATTTAAATTTATATTATCAGGCTAAAAGTATTTAACGATATTCAAATTTTAATTTTTA
* * *
10563389 AATAAA-AATAATAAAGACAAAAATAATTATAGTTTAAAATTGAGATAG---ATGTC
194 AATAAAGAATAATAAAGATAAAAATAATTATAG-TTAAAATTGACATAGAAAAAG-C
* * ** * *
10563442 TTAACGTAAAATTGTAAGAATTGATATAAAAATTTATAAAAGT-AGAATAATTAAATTTTAAATC
1 TTGACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAAGTGA-AATAACTAAATTTTAAATC
* * * *
10563506 TTAATGTAAATCTGTGAGAGTTAACGTAACAAATCAATTAAGTAAAAAAAAATTAATTTTAGTGA
65 TTAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGT--AAAAAAATTAATTTTAATGA
* * * * *
10563571 AAAATATATATTTAAATTTATATTTTTAGACTAAAAGTGTTTAACGATATACAAATTTTAATTTT
128 AAAATA-ATATTTAAATTTATATTATCAGGCTAAAAGTATTTAACGATATTCAAATTTTAATTTT
* * **
10563636 TAAATAAAGAATAAT-AAGAATAAAAATAATTATAGTTCAAAATGGGCATAGAAAAATA
192 TAAATAAAGAATAATAAAG-ATAAAAATAATTATAGTT-AAAATTGACATAGAAAAAGC
* *
10563694 TTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAAGTGAAATAATTAAATTTTAAATCT
1 TTGACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAAGTGAAATAACTAAATTTTAAATCT
** * * * * * *
10563759 TAAAATAAATGTATGAGACTTAACATAATAAGTCAATTAAGCAAAAAAAAATTAATTTTATTGAA
66 TAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAG--TAAAAAAATTAATTTTAATGAA
* *** * *
10563824 AAATAAATATTTAAATTTATATTTTCAAAAATAAAAGTATTTAATGATATACAAATTTTAATTTT
129 AAAT-AATATTTAAATTTATATTATC-AGGCTAAAAGTATTTAACGATATTCAAATTTTAATTTT
* * *
10563889 TAAATAAA-AATAATAAGGATAAAAATAATTATAGTTTAAAATTGACATAGATAAATC
192 TAAATAAAGAATAATAAAGATAAAAATAATTATAG-TTAAAATTGACATAGAAAAAGC
* *
10563946 TTAACGTAAAACTGTAAGAATTGACATAAAAACTTATAAAAGTGAAATAACTAAATTTTAAATCT
1 TTGACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAAGTGAAATAACTAAATTTTAAATCT
* * ** * * * * * *
10564011 TAACGTCAATTTGCAAAAGCTAACGTAATAAGTTAATTAAGTAAAAAAGTCTAATTTTAATAAAA
66 TAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAAT-TAATTTTAATGAAA
* * ** *
10564076 AATAAGCATTTATATTTATATTATCAGGCTAAAAGTATGCAACGATATTCAAATTTTTA-TTTTA
130 AATAA-TATTTAAATTTATATTATCAGGCTAAAAGTATTTAACGATATTCAAATTTTAATTTTTA
* * * *
10564140 AATAAAGAATGATAAAGATAAAGATAATTATAGTTAAAAGTT-ACTATTGAAAAAGG
194 AATAAAGAATAATAAAGATAAAAATAATTATAGTTAAAA-TTGAC-ATAGAAAAAGC
* * * ** * * * *
10564196 TTAACGTAAAATTGTAAGAATTAACGTAAAATTTTATAAAAATGAAATAAGTAAATTTAAAATTT
1 TTGACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAAGTGAAATAACTAAATTTTAAATCT
* * * *
10564261 TAACATAAATATGTGAGAGTTAACGTAACAAGTTAATTAAGTAAAAGAATTTAATTTTAAT-AAA
66 TAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAAAA-AAATTAATTTTAATGAAA
* * * * * *
10564325 AACAAACATTTAAATATATATTCTC-GGACTAAAAGTGTTTAATGATATAT-AAATTTTAATTTT
130 AA-TAATATTTAAATTTATATTATCAGG-CTAAAAGTATTTAACGATAT-TCAAATTTTAA-TTT
* * * * *
10564388 TTAAATAAAAAATAAT-AGGATAAAAATAATTATAGTTCAAATTTGATATAGAAAAACC
191 TTAAATAAAGAATAATAAAGATAAAAATAATTATAGTT-AAAATTGACATAGAAAAAGC
* * * * * *
10564446 TTGATGTAAAACTGTAAGAATTGACGTTAAAACTTATAAAGGTGGAATAATTAAATTTTAAATTT
1 TTGACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAAGTGAAATAACTAAATTTTAAATCT
* * *
10564511 TAACGTAAATGTGTGAGAGTTAACTTAACAAGTCGATTAAGTAAAAAAATCTAATTTTAGTG-AA
66 TAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAAT-TAATTTTAATGAAA
* *** * *
10564575 AA-AATATTTAAATTTATATTCTCAAATTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAA
130 AATAATATTTAAATTTATATTATCAGGCTAAAAGTATTTAACGATATTCAAATTTTAATTTTTAA
* * * * *
10564639 ATAAAAAATAAT-GAGAATAAAAATAATTATAATTTAAAATTAACATAGATAAA-C
195 ATAAAGAATAATAAAG-ATAAAAATAATTAT-AGTTAAAATTGACATAGAAAAAGC
* * * * * *
10564693 TTTAATGTAAAACTGTAATAATTGACGTAAATACTTATAAAAGTGAAACAATTAAATTTTAAATC
1 -TTGACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAAGTGAAATAACTAAATTTTAAATC
* * * *
10564758 TTAACATAAATATGTGAGAGTTAACGTAACAAGTCAATTAAATAAAAAAAATTAATTTTAGTGAA
65 TTAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGT-AAAAAAATTAATTTTAATGAA
** *
10564823 AAATAAATATTTAAATTTATATT-TTTGAGC-CAAAGTATTTAACGATATAT-AAATTTTAATTT
129 AAAT-AATATTTAAATTTATATTATCAG-GCTAAAAGTATTTAACGATAT-TCAAATTTTAATTT
* * * * *
10564885 TTAAATAGAGAATAATATCA-AT-AAAATAATTATAGTTCAAAATTGATATAGATAAATC
191 TTAAATAAAGAATAATA-AAGATAAAAATAATTATAGTT-AAAATTGACATAGAAAAAGC
* * *
10564943 TTGATGTAAAACTGT-AGCAATTGACTGT-AAAACTTATAAATGTGGAATAACTAAATTTTAAAT
1 TTGACGTAAAACTGTAAG-AATTGAC-GTAAAAACTTATAAAAGTGAAATAACTAAATTTTAAAT
* *
10565006 CTTAACGTAAATGTGTAAGAGTTAACGTAACAAGTCAATTAAATAAACAAAATAGTCTAATTTTA
64 CTTAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGT-AA-AAAA-A-T-TAATTTTA
* ** * * ** * *
10565071 GTGAAAAATAAATATTTAAAAATATATTCTCTGATTAGAAGTGTTTAACGATATAT-AAATTTTA
124 ATGAAAAAT-AATATTTAAATTTATATTATCAGGCTAAAAGTATTTAACGATAT-TCAAATTTTA
* * * *
10565135 AGTTTTAAATAAAGAATAATAATA-ATAAAAATAATTATAGTTAAAATT-AGTATAGATAAATC
187 ATTTTTAAATAAAGAATAATAA-AGATAAAAATAATTATAGTTAAAATTGA-CATAGAAAAAGC
* * * * * *
10565197 TTGACATAAAACTATAACAATTGACATAAAAACTTATAAAGGTGAAATAACTAAATTTTAAATTT
1 TTGACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAAGTGAAATAACTAAATTTTAAATCT
* * * *
10565262 TAACGTAAATGTGTGAGAGTTAACATAATAAGTTAATTAAGTAAAAAAGTATAATTTTAATGAAA
66 TAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAAT-TAATTTTAATGAAA
* * * *
10565327 AATAAGCATTTATATTTATATTATC-GAGCTTAAAGTATGTAATC-ATATTCAAAATTTT-A-TT
130 AATAA-TATTTAAATTTATATTATCAG-GCTAAAAGTATTTAA-CGATATTC-AAATTTTAATTT
* * * *
10565388 TTAAATAAAGAATAATAAAGATAAAGATAATTATAGTTAAAAGTTG-CTATTG-AAAGGT
191 TTAAATAAAGAATAATAAAGATAAAAATAATTATAGTTAAAA-TTGAC-ATAGAAAAAGC
* * * * ** * * ** *
10565446 TTGGCGTAAAATTGTAAAAATTAATATAAAATCTTATAAAAGTGGAATAAGAAAATTTAAAATCT
1 TTGACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAAGTGAAATAACTAAATTTTAAATCT
* *
10565511 TAACGTAAATGTGTGAGAGTTAATGTAATAAGT
66 TAACGTAAATGTGTGAGAGTTAACGTAACAAGT
10565544 GATAATAATA
Statistics
Matches: 2195, Mismatches: 320, Indels: 168
0.82 0.12 0.06
Matches are distributed among these distances:
244 1 0.00
245 109 0.05
246 5 0.00
247 25 0.01
248 335 0.15
249 415 0.19
250 500 0.23
251 272 0.12
252 272 0.12
253 87 0.04
254 158 0.07
255 16 0.01
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (248 bp):
TTGACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAAGTGAAATAACTAAATTTTAAATCT
TAACGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAATTAATTTTAATGAAAA
ATAATATTTAAATTTATATTATCAGGCTAAAAGTATTTAACGATATTCAAATTTTAATTTTTAAA
TAAAGAATAATAAAGATAAAAATAATTATAGTTAAAATTGACATAGAAAAAGC
Found at i:10564357 original size:752 final size:748
Alignment explanation
Indices: 10562703--10565543 Score: 3193
Period size: 752 Copynumber: 3.8 Consensus size: 748
10562693 AAGTTTTGAT
* * *
10562703 GTAAAACTGTAACAATTGACGTAAAAACTTATAAAGATGAAATAACTAAATTTTAAATTTTAACG
1 GTAAAACTGTAAGAATTGACGTAAAAACTTATAAAAATGAAATAACTAAATTTTAAATCTTAACG
*
10562768 TAAATGTGTGAGAGCTAACGTAACAAGTCAATTAAGTAAAAAAAATTAATTTTAGTG-AAAA-AA
66 TAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAAATTAATTTTAGTGAAAAATAA
* * * * * * * *
10562831 A-ATTTAAATTTATATTTTTAGG-CTAAAAATGGTTAATGATATATAAATTATAATTTTAAAAT-
131 ATATTTAAATATATA-TTCTCGGACTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATA
* * *
10562893 AA-AA-AATAATAATGAAAAA-AATTATAATTCAAAATTAACATA-AATAAGCCTTGACGTAAAA
195 AAGAATAATAAGAAT-AAAAATAATTATAGTTCAAAATTAACATAGAA-AAACCTTGACGTAAAA
* * * *
10562954 CTGCAAGAATTAACGTAAAAGCTTATAAAGGT-AGATTAACTAAATTTTAAATCTTAACGTAAAT
258 CTGTAAGAATTGACGTAAAAACTTATAAAGGTGA-AATAACTAAATTTTAAATCTTAACGTAAAT
* * * * * * *
10563018 ATTTGAAAGTTAACATAATAAGTTAATTAAGTAAAAAAAATTAATTTTAATAAAAAATAAGCATT
322 GTGTGAGAGTTAACATAATAAGTCAATTAAGAAAAAAAAATTAATTTTAATGAAAAATAAACATT
* ** * * *
10563083 TATATTTATATTATCGGACTAAAAGTATGTAATGATATTCAAGGTTTTACTTTTAAATAAAGAAT
387 TAAATTTATATTATCAAACTAAAAGTATGTAATGATATACAA-ATTTTATTTTTAAATAAAGAAT
* * * *
10563148 AATAAGGATAAAAATAATTATAGTTCAAAATTGACATA-AAAAAGTCTTGACGTAAAACTGTAAC
451 AATAAGGATAAAAATAATTATAGTTTAAAATTGACATAGATAAA-TCTTAACGTAAAACTGTAAA
* * *
10563212 AATTGACGTAAAAAATTATAAAAGTGAAATAATTAAATTTTAAATCTTAACGTAAATGTGTGAGA
515 AATTGACATAAAAACTTATAAAAGTGAAATAATTAAATTTTAAATCTTAACGTAAATATGTGAGA
* *
10563277 GTTAACATAATAAGTTAATTAAATAAAAAGGTCTAATTTTAATGAAAAATAAGTATTTATATTTA
580 GTTAACGTAATAAGTTAATTAAATAAAAAAGTCTAATTTTAATGAAAAATAAGTATTTATATTTA
* * * *
10563342 TATTATCGGGTTAAAAGTCTGTAACGATATACAAATTTTAATTTTTAAATAAA-AATAATAAAGA
645 TATTATCAGGCTAAAAGTATGTAACGATATTCAAATTTTAATTTTTAAATAAAGAATAATAAAGA
* * * *
10563406 CAAAAATAATTATAGTTTAAAATT-GA-GATAGATGTCTTAAC
710 -TAAAATAATTATAG-TTAAAATTATATGA-AAAAG-CTTAAC
* ** * * * *
10563447 GTAAAATTGTAAGAATTGATATAAAAATTTATAAAAGT-AGAATAATTAAATTTTAAATCTTAAT
1 GTAAAACTGTAAGAATTGACGTAAAAACTTATAAAAATGA-AATAACTAAATTTTAAATCTTAAC
* *
10563511 GTAAATCTGTGAGAGTTAACGTAACAAATCAATTAAGTAAAAAAAAATTAATTTTAGTGAAAAAT
65 GTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGT-AAAAAAAATTAATTTTAGTGAAAAAT
* * * ** *
10563576 ATATATTTAAATTTATATTTTTAGACTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAAT
129 AAATATTTAAATATATATTCTCGGACTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAAT
*** **
10563641 AAAGAATAATAAGAATAAAAATAATTATAGTTCAAAATGGGCATAGAAAAATATTGACGTAAAAC
194 AAAGAATAATAAGAATAAAAATAATTATAGTTCAAAATTAACATAGAAAAACCTTGACGTAAAAC
* * * **
10563706 TGTAAGAATTGACGTAAAAATTTATAAAAGTGAAATAATTAAATTTTAAATCTTAAAATAAATGT
259 TGTAAGAATTGACGTAAAAACTTATAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATGT
* * * *
10563771 ATGAGACTTAACATAATAAGTCAATTAAGCAAAAAAAAATTAATTTTATTGAAAAATAAATATTT
324 GTGAGAGTTAACATAATAAGTCAATTAAG-AAAAAAAAATTAATTTTAATGAAAAATAAACATTT
* * *
10563836 AAATTTATATTTTCAAAAATAAAAGTATTTAATGATATACAAATTTTAATTTTTAAATAAA-AAT
388 AAATTTATATTATC-AAACTAAAAGTATGTAATGATATACAAATTTT-ATTTTTAAATAAAGAAT
*
10563900 AATAAGGATAAAAATAATTATAGTTTAAAATTGACATAGATAAATCTTAACGTAAAACTGTAAGA
451 AATAAGGATAAAAATAATTATAGTTTAAAATTGACATAGATAAATCTTAACGTAAAACTGTAAAA
* * * ** *
10563965 ATTGACATAAAAACTTATAAAAGTGAAATAACTAAATTTTAAATCTTAACGTCAATTTGCAAAAG
516 ATTGACATAAAAACTTATAAAAGTGAAATAATTAAATTTTAAATCTTAACGTAAATATGTGAGAG
* * * *
10564030 CTAACGTAATAAGTTAATTAAGTAAAAAAGTCTAATTTTAATAAAAAATAAGCATTTATATTTAT
581 TTAACGTAATAAGTTAATTAAATAAAAAAGTCTAATTTTAATGAAAAATAAGTATTTATATTTAT
* * *
10564095 ATTATCAGGCTAAAAGTATGCAACGATATTCAAATTTTTA-TTTTAAATAAAGAATGATAAAGAT
646 ATTATCAGGCTAAAAGTATGTAACGATATTCAAATTTTAATTTTTAAATAAAGAATAATAAAGAT
*
10564159 AAAGATAATTATAGTTAAAAGTTACTATTGAAAAAGGTTAAC
711 AAA-ATAATTATAGTTAAAA-TTA-TA-TGAAAAAGCTTAAC
* * ** * * * *
10564201 GTAAAATTGTAAGAATTAACGTAAAATTTTATAAAAATGAAATAAGTAAATTTAAAATTTTAACA
1 GTAAAACTGTAAGAATTGACGTAAAAACTTATAAAAATGAAATAACTAAATTTTAAATCTTAACG
* * * * * *
10564266 TAAATATGTGAGAGTTAACGTAACAAGTTAATTAAGTAAAAGAATTTAATTTTAAT-AAAAACAA
66 TAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAAATTAATTTTAGTGAAAAATAA
* *
10564330 ACATTTAAATATATATTCTCGGACTAAAAGTGTTTAATGATATATAAATTTTAATTTTTTAAATA
131 ATATTTAAATATATATTCTCGGACTAAAAGTGTTTAACGATATATAAATTTTAA-TTTTTAAATA
* * * * * *
10564395 AAAAATAAT-AGGATAAAAATAATTATAGTTCAAATTTGATATAGAAAAACCTTGATGTAAAACT
195 AAGAATAATAAGAATAAAAATAATTATAGTTCAAAATTAACATAGAAAAACCTTGACGTAAAACT
* * * *
10564459 GTAAGAATTGACGTTAAAACTTATAAAGGTGGAATAATTAAATTTTAAATTTTAACGTAAATGTG
260 GTAAGAATTGACGTAAAAACTTATAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTG
* * * * * *
10564524 TGAGAGTTAACTTAACAAGTCGATTAAG-TAAAAAAATCTAATTTTAGTG--AAA-AAATATTTA
325 TGAGAGTTAACATAATAAGTCAATTAAGAAAAAAAAAT-TAATTTTAATGAAAAATAAACATTTA
* * * * * *
10564585 AATTTATATTCTCAAATTAAAAGTGTTTAACGATATACAAATTTTAATTTTTAAATAAAAAATAA
389 AATTTATATTATCAAACTAAAAGTATGTAATGATATACAAATTTT-ATTTTTAAATAAAGAATAA
* * * * * *
10564650 TGAGAATAAAAATAATTATAATTTAAAATTAACATAGATAAA-CTTTAATGTAAAACTGTAATAA
453 TAAGGATAAAAATAATTATAGTTTAAAATTGACATAGATAAATC-TTAACGTAAAACTGTAAAAA
* * * *
10564714 TTGACGTAAATACTTATAAAAGTGAAACAATTAAATTTTAAATCTTAACATAAATATGTGAGAGT
517 TTGACATAAAAACTTATAAAAGTGAAATAATTAAATTTTAAATCTTAACGTAAATATGTGAGAGT
* * * * * *
10564779 TAACGTAACAAGTCAATTAAATAAAAAAAAT-TAATTTTAGTGAAAAATAAATATTTAAATTTAT
582 TAACGTAATAAGTTAATTAAAT-AAAAAAGTCTAATTTTAATGAAAAATAAGTATTTATATTTAT
** * * * *
10564843 ATT-TTTGAGC-CAAAGTATTTAACGATATAT-AAATTTTAATTTTTAAATAGAGAATAATATCA
646 ATTATCAG-GCTAAAAGTATGTAACGATAT-TCAAATTTTAATTTTTAAATAAAGAATAATA-AA
* * * *
10564905 -ATAAAATAATTATAGTTCAAAATTGATATAGATAAATCTTGAT
708 GATAAAATAATTATAGTT-AAAATT-ATAT-GAAAAAGCTTAAC
** *
10564948 GTAAAACTGT-AGCAATTGACTGT-AAAACTTATAAATGTGGAATAACTAAATTTTAAATCTTAA
1 GTAAAACTGTAAG-AATTGAC-GTAAAAACTTATAAAAATGAAATAACTAAATTTTAAATCTTAA
* *
10565011 CGTAAATGTGTAAGAGTTAACGTAACAAGTCAATTAAATAAACAAAATAGTCTAATTTTAGTGAA
64 CGTAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAAA-AAAA-A-T-TAATTTTAGTGAA
* * * * *
10565076 AAATAAATATTTAAAAATATATTCTCTGATTAGAAGTGTTTAACGATATATAAATTTTAAGTTTT
125 AAATAAATATTTAAATATATATTCTCGGACTAAAAGTGTTTAACGATATATAAATTTTAATTTTT
* ** * * *
10565141 AAATAAAGAATAATAATAATAAAAATAATTATAGTT-AAAATTAGTATAGATAAATCTTGACATA
190 AAATAAAGAATAATAAGAATAAAAATAATTATAGTTCAAAATTAACATAGAAAAACCTTGACGTA
* * * *
10565205 AAACTATAACAATTGACATAAAAACTTATAAAGGTGAAATAACTAAATTTTAAATTTTAACGTAA
255 AAACTGTAAGAATTGACGTAAAAACTTATAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAA
* * * *
10565270 ATGTGTGAGAGTTAACATAATAAGTTAATTAAG-TAAAAAAGTATAATTTTAATGAAAAATAAGC
320 ATGTGTGAGAGTTAACATAATAAGTCAATTAAGAAAAAAAAAT-TAATTTTAATGAAAAATAAAC
* * * * * *
10565334 ATTTATATTTATATTATCGAGCTTAAAGTATGTAATCATATTCAAAATTTTA-TTTTAAATAAAG
384 ATTTAAATTTATATTATCAAACTAAAAGTATGTAATGATATAC-AAATTTTATTTTTAAATAAAG
* * * * ** *
10565398 AATAATAAAGATAAAGATAATTATAG-TTAAAAGTTG-CTATTGA-AAGGT-TTGGCGTAAAATT
448 AATAATAAGGATAAAAATAATTATAGTTTAAAA-TTGAC-ATAGATAA-ATCTTAACGTAAAACT
* * * * ** * *
10565459 GTAAAAATTAATATAAAATCTTATAAAAGTGGAATAAGAAAATTTAAAATCTTAACGTAAATGTG
510 GTAAAAATTGACATAAAAACTTATAAAAGTGAAATAATTAAATTTTAAATCTTAACGTAAATATG
*
10565524 TGAGAGTTAATGTAATAAGT
575 TGAGAGTTAACGTAATAAGT
10565544 GATAATAATA
Statistics
Matches: 1775, Mismatches: 270, Indels: 96
0.83 0.13 0.04
Matches are distributed among these distances:
743 1 0.00
744 87 0.05
745 20 0.01
746 7 0.00
747 184 0.10
748 268 0.15
749 13 0.01
750 16 0.01
751 302 0.17
752 623 0.35
753 113 0.06
754 128 0.07
755 11 0.01
756 2 0.00
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (748 bp):
GTAAAACTGTAAGAATTGACGTAAAAACTTATAAAAATGAAATAACTAAATTTTAAATCTTAACG
TAAATGTGTGAGAGTTAACGTAACAAGTCAATTAAGTAAAAAAAATTAATTTTAGTGAAAAATAA
ATATTTAAATATATATTCTCGGACTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAA
AGAATAATAAGAATAAAAATAATTATAGTTCAAAATTAACATAGAAAAACCTTGACGTAAAACTG
TAAGAATTGACGTAAAAACTTATAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGT
GAGAGTTAACATAATAAGTCAATTAAGAAAAAAAAATTAATTTTAATGAAAAATAAACATTTAAA
TTTATATTATCAAACTAAAAGTATGTAATGATATACAAATTTTATTTTTAAATAAAGAATAATAA
GGATAAAAATAATTATAGTTTAAAATTGACATAGATAAATCTTAACGTAAAACTGTAAAAATTGA
CATAAAAACTTATAAAAGTGAAATAATTAAATTTTAAATCTTAACGTAAATATGTGAGAGTTAAC
GTAATAAGTTAATTAAATAAAAAAGTCTAATTTTAATGAAAAATAAGTATTTATATTTATATTAT
CAGGCTAAAAGTATGTAACGATATTCAAATTTTAATTTTTAAATAAAGAATAATAAAGATAAAAT
AATTATAGTTAAAATTATATGAAAAAGCTTAAC
Found at i:10572025 original size:43 final size:42
Alignment explanation
Indices: 10571945--10572025 Score: 117
Period size: 43 Copynumber: 1.9 Consensus size: 42
10571935 CCACCTACAT
**
10571945 TGCTTTGATGCCATTCATTGAGATTACTCCGAATGATGACTC
1 TGCTTTGATGCCACCCATTGAGATTACTCCGAATGATGACTC
* *
10571987 TGCTTTGATGCCACCCATTTGAGATTACTTCGAGTGATG
1 TGCTTTGATGCCACCCA-TTGAGATTACTCCGAATGATG
10572026 TCATCCGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 15 0.44
43 19 0.56
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (42 bp):
TGCTTTGATGCCACCCATTGAGATTACTCCGAATGATGACTC
Found at i:10572435 original size:2 final size:2
Alignment explanation
Indices: 10572428--10572455 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10572418 AGTGCATTAA
10572428 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10572456 TAGTCTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10586594 original size:19 final size:19
Alignment explanation
Indices: 10586550--10586601 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
10586540 TTACTATATT
*
10586550 ATATATATACTAATACTTTTA
1 ATATATATA-T-ATACTTTAA
*
10586571 GTATATATATATACTTTAA
1 ATATATATATATACTTTAA
*
10586590 ATATAAATATAT
1 ATATATATATAT
10586602 TTATTTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 18 0.67
20 1 0.04
21 8 0.30
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (19 bp):
ATATATATATATACTTTAA
Found at i:10586650 original size:15 final size:17
Alignment explanation
Indices: 10586620--10586652 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
10586610 TATTTTGTGT
10586620 TAACATTATAAAAATTA
1 TAACATTATAAAAATTA
10586637 TAAC-TTAT-AAAATTA
1 TAACATTATAAAAATTA
10586652 T
1 T
10586653 TAATTGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 4 0.25
17 4 0.25
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
TAACATTATAAAAATTA
Found at i:10589741 original size:22 final size:22
Alignment explanation
Indices: 10589715--10589756 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10589705 AACTAAGGAC
10589715 AAATTCAT-ATAATTAATTAATA
1 AAATT-ATGATAATTAATTAATA
*
10589737 AAATTATGATTATTAATTAA
1 AAATTATGATAATTAATTAA
10589757 ATTGTAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
AAATTATGATAATTAATTAATA
Found at i:10590384 original size:15 final size:16
Alignment explanation
Indices: 10590361--10590390 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10590351 TATATTAACA
10590361 TTATAAAAATTATAAT
1 TTATAAAAATTATAAT
10590377 TTAT-AAAATTATAA
1 TTATAAAAATTATAA
10590391 AATTCATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTATAAAAATTATAAT
Found at i:10590601 original size:37 final size:40
Alignment explanation
Indices: 10590558--10590637 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 40
10590548 GCTTCTTCAG
*
10590558 TTCTTTT-T-CTT-CCACAGCCACGCCCCGCGCTCATTCT
1 TTCTTTTCTCCTTACCACAGCCACGCCCCACGCTCATTCT
* * *
10590595 TTCTTTTCTCCTTAGCCATAGCCATGCCCCACGCTCTTTCT
1 TTCTTTTCTCCTTA-CCACAGCCACGCCCCACGCTCATTCT
10590636 TT
1 TT
10590638 TTTCTTTTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
37 7 0.20
38 1 0.03
39 3 0.09
41 24 0.69
ACGTcount: A:0.11, C:0.40, G:0.10, T:0.39
Consensus pattern (40 bp):
TTCTTTTCTCCTTACCACAGCCACGCCCCACGCTCATTCT
Found at i:10594071 original size:40 final size:40
Alignment explanation
Indices: 10593926--10594126 Score: 233
Period size: 40 Copynumber: 5.0 Consensus size: 40
10593916 TTTAACTAGG
*
10593926 TGTTTGGATATTTAT-TTTAGTTATTTAAGTTTATGTTGTTGT
1 TGTTTGGATATTTGTGTTTAGTTATTTAAGTTTA---TGTTGT
* * * *
10593968 TGTTTGGATATATGTGTTTGGTTATTTAAGTTTTTGTTATT
1 TGTTTGGATATTTGTGTTTAGTTATTTAAGTTTATGTT-GT
*
10594009 TGTTTGGATCTTTGTGTTTAGTTATTTAAGTTTATGTTGT
1 TGTTTGGATATTTGTGTTTAGTTATTTAAGTTTATGTTGT
* * * * **
10594049 TATTTGGATATTTATGTATAGTTATTTAAGTTTATATCAT
1 TGTTTGGATATTTGTGTTTAGTTATTTAAGTTTATGTTGT
* *
10594089 TGTATGGATATTTGTTTTTAGTTATTTAAGTTTATGTT
1 TGTTTGGATATTTGTGTTTAGTTATTTAAGTTTATGTT
10594127 TAAGATCTTT
Statistics
Matches: 133, Mismatches: 24, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
40 69 0.52
41 35 0.26
42 13 0.10
43 16 0.12
ACGTcount: A:0.20, C:0.01, G:0.19, T:0.60
Consensus pattern (40 bp):
TGTTTGGATATTTGTGTTTAGTTATTTAAGTTTATGTTGT
Found at i:10594123 original size:80 final size:81
Alignment explanation
Indices: 10593930--10594126 Score: 245
Period size: 81 Copynumber: 2.4 Consensus size: 81
10593920 ACTAGGTGTT
* * * * *
10593930 TGGATATTT-ATTTTAGTTATTTAAGTTTATGTTGTTGTTGTTTGGATATATGTGTTTGGTTATT
1 TGGATATTTGTTTTTAGTTATTTAAGTTTA---TGTTGTTATTTGGATATATATGTATAGTTATT
* * * *
10593994 TAAGTTTTTGTTATTTGTT
63 TAAGTTTATATCATTTGTA
* * *
10594013 TGGATCTTTGTGTTTAGTTATTTAAGTTTATGTTGTTATTTGGATATTTATGTATAGTTATTTAA
1 TGGATATTTGTTTTTAGTTATTTAAGTTTATGTTGTTATTTGGATATATATGTATAGTTATTTAA
10594078 GTTTATATCA-TTGTA
66 GTTTATATCATTTGTA
10594093 TGGATATTTGTTTTTAGTTATTTAAGTTTATGTT
1 TGGATATTTGTTTTTAGTTATTTAAGTTTATGTT
10594127 TAAGATCTTT
Statistics
Matches: 99, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
80 36 0.36
81 37 0.37
83 8 0.08
84 18 0.18
ACGTcount: A:0.21, C:0.01, G:0.19, T:0.59
Consensus pattern (81 bp):
TGGATATTTGTTTTTAGTTATTTAAGTTTATGTTGTTATTTGGATATATATGTATAGTTATTTAA
GTTTATATCATTTGTA
Found at i:10594850 original size:28 final size:28
Alignment explanation
Indices: 10594822--10594979 Score: 149
Period size: 29 Copynumber: 5.4 Consensus size: 28
10594812 CAGTTTCATG
* *
10594822 TTTGTCTTAATTTAGATAAGAAAACATG
1 TTTGTCTTAATTTAGACAAGAAAACATA
* * *
10594850 TTTGGTTTTGATTTAGACAAGAAAATATA
1 TTT-GTCTTAATTTAGACAAGAAAACATA
* *
10594879 TTTGCCTTAAGTTAAGACAAGAAAA-ATA
1 TTTGTCTTAA-TTTAGACAAGAAAACATA
*
10594907 TTTTCTGTCTTAATCTAGACAAGAAAACATA
1 --TT-TGTCTTAATTTAGACAAGAAAACATA
*
10594938 TTTGTCTCAATTTAGACAAGATAAA-ATA
1 TTTGTCTTAATTTAGACAAGA-AAACATA
10594966 TTTTTGTCTTAATT
1 --TTTGTCTTAATT
10594980 AAATATAAGA
Statistics
Matches: 106, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
28 30 0.28
29 41 0.39
30 25 0.24
31 10 0.09
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (28 bp):
TTTGTCTTAATTTAGACAAGAAAACATA
Found at i:10594928 original size:59 final size:58
Alignment explanation
Indices: 10594863--10594978 Score: 171
Period size: 59 Copynumber: 2.0 Consensus size: 58
10594853 GGTTTTGATT
* *
10594863 TAGACAAGAAAATATATTTGCCTTAAGTTAAGACAAGA-AAAATATTTTCTGTCTTAATC
1 TAGACAAGAAAACATATTTGCCTCAA-TTAAGACAAGATAAAATATTTT-TGTCTTAATC
* *
10594922 TAGACAAGAAAACATATTTGTCTCAATTTAGACAAGATAAAATATTTTTGTCTTAAT
1 TAGACAAGAAAACATATTTGCCTCAATTAAGACAAGATAAAATATTTTTGTCTTAAT
10594979 TAAATATAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 19 0.37
59 33 0.63
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.35
Consensus pattern (58 bp):
TAGACAAGAAAACATATTTGCCTCAATTAAGACAAGATAAAATATTTTTGTCTTAATC
Found at i:10597085 original size:41 final size:38
Alignment explanation
Indices: 10596955--10597132 Score: 119
Period size: 41 Copynumber: 4.5 Consensus size: 38
10596945 ACCCAGCTCA
* *
10596955 TGTGCATCCTCCCACATCATGCACATAGCCGGAGTCATT-G
1 TGTGCATCCCCCCACATCATGCACA-AG-C-GAATCATTCG
** * * *
10596995 TGTGCATCCCCCCACATTGTGCACAACCAATATCATTGCTT
1 TGTGCATCCCCCCACATCATGCACAAGCGA-ATCATT-C-G
* *
10597036 TATACATCCCCCCACATCATGCACAAGCGATATCATCATCG
1 TGTGCATCCCCCCACATCATGCACAAGCGA-ATCAT--TCG
* * * *
10597077 TGTGCATCCCCTCACATCGTGCAC-AGCTAATGCCA-TCA
1 TGTGCATCCCCCCACATCATGCACAAGCGAAT--CATTCG
10597115 TGTGCATCCCCCCACATC
1 TGTGCATCCCCCCACATC
10597133 GTCCACACGG
Statistics
Matches: 109, Mismatches: 21, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
37 1 0.01
38 25 0.23
39 3 0.03
40 26 0.24
41 52 0.48
42 1 0.01
43 1 0.01
ACGTcount: A:0.25, C:0.37, G:0.14, T:0.25
Consensus pattern (38 bp):
TGTGCATCCCCCCACATCATGCACAAGCGAATCATTCG
Found at i:10597131 original size:38 final size:39
Alignment explanation
Indices: 10597040--10597139 Score: 114
Period size: 38 Copynumber: 2.5 Consensus size: 39
10597030 TTGCTTTATA
* *
10597040 CATCCCCCCACATCATGCACAAGCGATATCATCATCGTGTG
1 CATCCCCCCACATCGTGCAC-AGCGATATCA-CATCATGTG
* *
10597081 CATCCCCTCACATCGTGCACAGCTA-ATGC-CATCATGTG
1 CATCCCCCCACATCGTGCACAGCGATAT-CACATCATGTG
*
10597119 CATCCCCCCACATCGTCCACA
1 CATCCCCCCACATCGTGCACA
10597140 CGGGCAATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
38 27 0.52
39 2 0.04
40 5 0.10
41 18 0.35
ACGTcount: A:0.25, C:0.41, G:0.13, T:0.21
Consensus pattern (39 bp):
CATCCCCCCACATCGTGCACAGCGATATCACATCATGTG
Found at i:10597871 original size:22 final size:22
Alignment explanation
Indices: 10597846--10597889 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
10597836 ACTTCCATCA
10597846 AACACT-TTCTAAGTTTACATGT
1 AACACTATTCTAA-TTTACATGT
*
10597868 AACACTATTCTCATTTACATGT
1 AACACTATTCTAATTTACATGT
10597890 TGCCATCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (22 bp):
AACACTATTCTAATTTACATGT
Found at i:10598731 original size:28 final size:29
Alignment explanation
Indices: 10598690--10598749 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
10598680 GTCTATGGGC
*
10598690 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
10598718 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
10598748 AA
1 AA
10598750 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:10603213 original size:52 final size:52
Alignment explanation
Indices: 10603151--10603253 Score: 206
Period size: 52 Copynumber: 2.0 Consensus size: 52
10603141 GCACATGATG
10603151 GTGATAGTGGTGTGCTGTGTGAGTGCACACATTGATGATATATGCCATGTGC
1 GTGATAGTGGTGTGCTGTGTGAGTGCACACATTGATGATATATGCCATGTGC
10603203 GTGATAGTGGTGTGCTGTGTGAGTGCACACATTGATGATATATGCCATGTG
1 GTGATAGTGGTGTGCTGTGTGAGTGCACACATTGATGATATATGCCATGTG
10603254 TGAGGGGGGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.21, C:0.13, G:0.33, T:0.33
Consensus pattern (52 bp):
GTGATAGTGGTGTGCTGTGTGAGTGCACACATTGATGATATATGCCATGTGC
Found at i:10603266 original size:39 final size:37
Alignment explanation
Indices: 10603218--10603305 Score: 94
Period size: 35 Copynumber: 2.4 Consensus size: 37
10603208 AGTGGTGTGC
*
10603218 TGTGTGAGTGCACACATTGATGATATATGCCATGTGTGAGG
1 TGTGGGAGTGCACACA-TGATGATAT-TGCC-T-TGTGAGG
*
10603259 -G-GGGAGTG--CACATGATGATATTGCCTTGTGCGG
1 TGTGGGAGTGCACACATGATGATATTGCCTTGTGAGG
10603292 TGTGGGAGTGCACA
1 TGTGGGAGTGCACA
10603306 GGATGATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
33 6 0.15
34 2 0.05
35 11 0.27
36 9 0.22
37 6 0.15
39 6 0.15
40 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.36, T:0.28
Consensus pattern (37 bp):
TGTGGGAGTGCACACATGATGATATTGCCTTGTGAGG
Found at i:10603303 original size:35 final size:35
Alignment explanation
Indices: 10603230--10603344 Score: 108
Period size: 36 Copynumber: 3.2 Consensus size: 35
10603220 TGTGAGTGCA
*
10603230 CACATTGATGATATATGCCATGTGTGAGG-G-GGGAGTG
1 CACA-TGATGATAT-TGCC-T-TGTGCGGTGTGGGAGTG
10603267 CACATGATGATATTGCCTTGTGCGGTGTGGGAGTG
1 CACATGATGATATTGCCTTGTGCGGTGTGGGAGTG
* * * * **
10603302 CACAGGATGATTTTAGCTTTGTGCAGTGTGAAAGTG
1 CACATGATGATATT-GCCTTGTGCGGTGTGGGAGTG
10603338 CACATGA
1 CACATGA
10603345 GCTGGTGAGA
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
33 6 0.09
34 2 0.03
35 23 0.34
36 32 0.48
37 4 0.06
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (35 bp):
CACATGATGATATTGCCTTGTGCGGTGTGGGAGTG
Found at i:10607275 original size:16 final size:17
Alignment explanation
Indices: 10607244--10607277 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
10607234 CTATTTTATG
10607244 TTATTTAAGTTTAGTTA
1 TTATTTAAGTTTAGTTA
10607261 TTATTTAAG-TTAGTTA
1 TTATTTAAGTTTAGTTA
10607277 T
1 T
10607278 GTTTTTGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (17 bp):
TTATTTAAGTTTAGTTA
Found at i:10614435 original size:2 final size:2
Alignment explanation
Indices: 10614430--10614458 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10614420 CTATATAAGC
10614430 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10614459 AAACTTAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10616277 original size:13 final size:13
Alignment explanation
Indices: 10616259--10616283 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10616249 TTTCAGAAAA
10616259 TTTATAAAATCAT
1 TTTATAAAATCAT
10616272 TTTATAAAATCA
1 TTTATAAAATCA
10616284 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:10621833 original size:5 final size:5
Alignment explanation
Indices: 10621826--10621865 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
10621816 CTATTCAATC
* *
10621826 TAACC TAACT TAACT TAACT TAACT TATCT TAACT TAACT
1 TAACT TAACT TAACT TAACT TAACT TAACT TAACT TAACT
10621866 GGACTTGGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (5 bp):
TAACT
Found at i:10621931 original size:15 final size:15
Alignment explanation
Indices: 10621911--10621952 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
10621901 TAAAACAACC
10621911 TTAAAATCAAAAACT
1 TTAAAATCAAAAACT
* *
10621926 TTAAAATCCAAAGCT
1 TTAAAATCAAAAACT
10621941 TTAAAATCAAAA
1 TTAAAATCAAAA
10621953 TATCTGATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.26
Consensus pattern (15 bp):
TTAAAATCAAAAACT
Found at i:10623361 original size:13 final size:13
Alignment explanation
Indices: 10623343--10623367 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10623333 TTCCAGAAAA
10623343 TTTATAAAATCAT
1 TTTATAAAATCAT
10623356 TTTATAAAATCA
1 TTTATAAAATCA
10623368 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:10628507 original size:169 final size:169
Alignment explanation
Indices: 10628194--10628634 Score: 550
Period size: 169 Copynumber: 2.6 Consensus size: 169
10628184 TTTTAGGAAT
* * * * * * * *
10628194 TTAATTCTAATAAAATTAATCCTAACAGCCAACTCATGGACCAATTCCAAAAT-ATCTTTTCAGA
1 TTAATTCTAATAAAATTTATCCTAATAGCTAACTCATGGAACAATTTCAGAATAATATTTTCAGG
* * * *
10628258 ATTTTAGGAGGTGATTAGACTATTCAAAAAATTTAAGAACCGTAAACCATATCTACATGTGGCAG
66 ATTTTAGGAGGTGATTTGACTATTCAAAAAATTTAAAAACCGTAAACCATATCTACAGGTGGCAA
10628323 AATCGGTTCTTAAATTCTTTGGTGGCCTAAAATTACGAA
131 AATCGGTTCTTAAATTCTTTGGTGGCCTAAAATTACGAA
*
10628362 TTAACTTCTAATGAAATTTATCCTAATAGCTAACTCATGGAACAATTTCAGAATAAT-TTTTCAG
1 TTAA-TTCTAATAAAATTTATCCTAATAGCTAACTCATGGAACAATTTCAGAATAATATTTTCAG
* * * * **
10628426 GATTTAAGGAGGTGATTTGACTAATCAAAAAATTTAAAAACCGTAACCCGTATCTGTAGGTGGCA
65 GATTTTAGGAGGTGATTTGACTATTCAAAAAATTTAAAAACCGTAAACCATATCTACAGGTGGCA
* *
10628491 AAATCGGCTT-TTAAATTTTTTGGTGGCCTAAAATTAGGAA
130 AAATCGG-TTCTTAAATTCTTTGGTGGCCTAAAATTACGAA
* * *
10628531 TTAAATTCCAGTAAAATTTATCCTAATAGCTAACTCATGGAACCA-TTCTAGAATAATATTTT-A
1 TT-AATTCTAATAAAATTTATCCTAATAGCTAACTCATGGAACAATTTC-AGAATAATATTTTCA
* * * * *
10628594 GGATTTTATGATGTGAGTTAACTATTCAAAAAATTGAAAAA
64 GGATTTTAGGAGGTGATTTGACTATTCAAAAAATTTAAAAA
10628635 TTGGGACCTA
Statistics
Matches: 236, Mismatches: 31, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
168 7 0.03
169 219 0.93
170 10 0.04
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (169 bp):
TTAATTCTAATAAAATTTATCCTAATAGCTAACTCATGGAACAATTTCAGAATAATATTTTCAGG
ATTTTAGGAGGTGATTTGACTATTCAAAAAATTTAAAAACCGTAAACCATATCTACAGGTGGCAA
AATCGGTTCTTAAATTCTTTGGTGGCCTAAAATTACGAA
Found at i:10631627 original size:26 final size:26
Alignment explanation
Indices: 10631567--10631628 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
10631557 ACCATATACC
*
10631567 CATCATCAACATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
*
10631593 CATTATCATCATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
10631619 CATCATCATC
1 CATCATCATC
10631629 TCATATGCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.32, C:0.40, G:0.03, T:0.24
Consensus pattern (26 bp):
CATCATCATCATGCACACCATCCCAT
Found at i:10631712 original size:42 final size:42
Alignment explanation
Indices: 10631648--10631789 Score: 221
Period size: 42 Copynumber: 3.4 Consensus size: 42
10631638 ACGGCTTATG
* *
10631648 CGCATATAGCCGGGTCAGCAACGGCTTATGTGCACTCCCACT
1 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCTACT
* * * *
10631690 CACACATAGCCAGGTCAGCAACGGCTTATGTGCACACTTACT
1 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCTACT
*
10631732 CGCACATAGCCGGGTCAGCAACGACTTATGTGCACTCCTACT
1 CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCTACT
10631774 CGCACATAGCCGGGTC
1 CGCACATAGCCGGGTC
10631790 CAAATCAACA
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 89 1.00
ACGTcount: A:0.24, C:0.33, G:0.23, T:0.20
Consensus pattern (42 bp):
CGCACATAGCCGGGTCAGCAACGGCTTATGTGCACTCCTACT
Found at i:10643339 original size:43 final size:43
Alignment explanation
Indices: 10643267--10643353 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 43
10643257 TTGTGTGATA
*
10643267 ATGATGACCCAGCTATGTGCGGTATGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATATGCGGTATGGGAGTGCACATGAGCTG
10643310 ATGATGACCCAGCTATATGCGAGTA-GGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATATGCG-GTATGGGAGTGCACATGAGCTG
10643353 A
1 A
10643354 GTGTGGAGGG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
43 39 0.93
44 3 0.07
ACGTcount: A:0.26, C:0.18, G:0.33, T:0.22
Consensus pattern (43 bp):
ATGATGACCCAGCTATATGCGGTATGGGAGTGCACATGAGCTG
Found at i:10644568 original size:41 final size:41
Alignment explanation
Indices: 10644523--10644613 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 41
10644513 GGGATGTGAT
* *
10644523 AGTTATAAATCACCTAAGAGCATCAAAACATGAATTATACA
1 AGTTAAAAATCACCTAAGAACATCAAAACATGAATTATACA
* * * * * *
10644564 AGTTAAAAATCACTTTAGAATATTAGAATATGAATTATACA
1 AGTTAAAAATCACCTAAGAACATCAAAACATGAATTATACA
10644605 AGTTAAAAA
1 AGTTAAAAA
10644614 CTTAGTATCA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.51, C:0.11, G:0.10, T:0.29
Consensus pattern (41 bp):
AGTTAAAAATCACCTAAGAACATCAAAACATGAATTATACA
Found at i:10644726 original size:52 final size:52
Alignment explanation
Indices: 10644670--10644770 Score: 184
Period size: 52 Copynumber: 1.9 Consensus size: 52
10644660 GATAAGATAT
10644670 TTTTGTAGCGTTTGGTATAACATGGGAAATTGATGATTACAGAGAATGTTAA
1 TTTTGTAGCGTTTGGTATAACATGGGAAATTGATGATTACAGAGAATGTTAA
* *
10644722 TTTTGTAGCGTTTGGTATAACATGGGAAATTGATGATTATAGGGAATGT
1 TTTTGTAGCGTTTGGTATAACATGGGAAATTGATGATTACAGAGAATGT
10644771 GATCGCATTG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.38
Consensus pattern (52 bp):
TTTTGTAGCGTTTGGTATAACATGGGAAATTGATGATTACAGAGAATGTTAA
Found at i:10646972 original size:2 final size:2
Alignment explanation
Indices: 10646965--10647093 Score: 104
Period size: 2 Copynumber: 61.5 Consensus size: 2
10646955 AATTGACAAC
*
10646965 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
10647007 ACT A- ACT AT AT AGT AGT AGT ACT AT AGT A- ACT AC CT A- ACT A-
1 A-T AT A-T AT AT A-T A-T A-T A-T AT A-T AT A-T AT AT AT A-T AT
*
10647048 ANC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10647091 AT A
1 AT A
10647094 CTAACATAAT
Statistics
Matches: 108, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
1 4 0.04
2 86 0.80
3 18 0.17
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (2 bp):
AT
Found at i:10651611 original size:9 final size:9
Alignment explanation
Indices: 10651597--10651647 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
10651587 AGGTCGAGAC
10651597 TCCTCCACA
1 TCCTCCACA
*
10651606 TCCTCCATA
1 TCCTCCACA
*
10651615 TCCTCAACA
1 TCCTCCACA
*
10651624 TTCTCCACA
1 TCCTCCACA
* *
10651633 TTCTTCACA
1 TCCTCCACA
10651642 TCCTCC
1 TCCTCC
10651648 GCCACCTACT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.22, C:0.47, G:0.00, T:0.31
Consensus pattern (9 bp):
TCCTCCACA
Found at i:10657125 original size:23 final size:22
Alignment explanation
Indices: 10657083--10657126 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10657073 ACCCTAGGTG
*
10657083 GAAAAATTCAAAGAAAAAGTGT
1 GAAAAATTCAAAAAAAAAGTGT
10657105 GAAAAA-TCAAGAAAAACAAGTG
1 GAAAAATTCAA-AAAAA-AAGTG
10657127 AAAAAGGTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 10 0.53
23 5 0.26
ACGTcount: A:0.61, C:0.07, G:0.18, T:0.14
Consensus pattern (22 bp):
GAAAAATTCAAAAAAAAAGTGT
Found at i:10661676 original size:55 final size:55
Alignment explanation
Indices: 10661583--10661743 Score: 225
Period size: 55 Copynumber: 2.9 Consensus size: 55
10661573 ATGTATAGAA
* * * * *
10661583 CCACCGGTCATCAGCTCATGTGCACTTCCACACCGCACATAGCTGGAATCATCAT
1 CCACCAGTCATCAGCTCATATGCACTCCCACACCGCACATAGCTAGAATCATCAC
* * *
10661638 CCTCC-GATCATCAGCTCATATGCACTCCCACACTGCACAGAGCTAGAATCATCAC
1 CCACCAG-TCATCAGCTCATATGCACTCCCACACCGCACATAGCTAGAATCATCAC
*
10661693 CCACCAGTTATCAGCTCATATGCACTCCCACACCGCACATAGCTAGAATCA
1 CCACCAGTCATCAGCTCATATGCACTCCCACACCGCACATAGCTAGAATCA
10661744 CCCGTCATCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
54 1 0.01
55 91 0.98
56 1 0.01
ACGTcount: A:0.29, C:0.37, G:0.14, T:0.20
Consensus pattern (55 bp):
CCACCAGTCATCAGCTCATATGCACTCCCACACCGCACATAGCTAGAATCATCAC
Found at i:10668188 original size:16 final size:15
Alignment explanation
Indices: 10668167--10668197 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
10668157 CGAGAAAGAG
10668167 AGATAAAAGATAAAAA
1 AGATAAAA-ATAAAAA
10668183 AGATAAAAATAAAAA
1 AGATAAAAATAAAAA
10668198 CGAAAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (15 bp):
AGATAAAAATAAAAA
Found at i:10668438 original size:61 final size:61
Alignment explanation
Indices: 10668368--10668490 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
10668358 TTAGTCCAAC
*
10668368 TCATTGGGTTGAATGTGTGATATAATGACATAAAATAAGTTGAATTATTTGGTATAAATGT
1 TCATTGGGTTGAATGTGTGATAAAATGACATAAAATAAGTTGAATTATTTGGTATAAATGT
10668429 TCATTGGGTTGAATGTGTGATAAAATGACATAAAATAAGTTGAATTATTTGGTATAAATGT
1 TCATTGGGTTGAATGTGTGATAAAATGACATAAAATAAGTTGAATTATTTGGTATAAATGT
10668490 T
1 T
10668491 TTAGAATTGT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.37, C:0.03, G:0.21, T:0.39
Consensus pattern (61 bp):
TCATTGGGTTGAATGTGTGATAAAATGACATAAAATAAGTTGAATTATTTGGTATAAATGT
Done.