Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 281 of 427
Found at i:81053243 original size:20 final size:20
Alignment explanation
Indices: 81053220--81053266 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
81053210 ATAACTTGAT
*
81053220 TTGATTTTATTCCAATCAAA
1 TTGATTTGATTCCAATCAAA
** *
81053240 TTGATTTGATTTTATTCAAA
1 TTGATTTGATTCCAATCAAA
81053260 TTGATTT
1 TTGATTT
81053267 AAAGGCTCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.53
Consensus pattern (20 bp):
TTGATTTGATTCCAATCAAA
Found at i:81062309 original size:47 final size:47
Alignment explanation
Indices: 81062255--81062406 Score: 146
Period size: 49 Copynumber: 3.1 Consensus size: 47
81062245 TTCCAAACAT
* *
81062255 GGTCTTACACTGGCTCTTACATCTAAGTC-ATTGCCATGTCCCAGATA
1 GGTCTTACACTGGCTCATACATCGAAGTCGA-TGCCATGTCCCAGATA
* *
81062302 GGTCTTACACTGACTTCCATACATCGAGGTCGATGCCATGTCCCAGATA
1 GGTCTTACACTGGC-T-CATACATCGAAGTCGATGCCATGTCCCAGATA
* * ** * *
81062351 GGGCTTACACTAGCTCCCAT-CTATCGGTGCCGATGCCATGTCCCAGACA
1 GGTCTTACACTGGCT--CATAC-ATCGAAGTCGATGCCATGTCCCAGATA
81062400 GGTCTTA
1 GGTCTTA
81062407 TACGAGCACA
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
47 13 0.15
48 3 0.03
49 71 0.81
50 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (47 bp):
GGTCTTACACTGGCTCATACATCGAAGTCGATGCCATGTCCCAGATA
Found at i:81062340 original size:49 final size:49
Alignment explanation
Indices: 81062286--81062406 Score: 158
Period size: 49 Copynumber: 2.5 Consensus size: 49
81062276 TCTAAGTCAT
* *
81062286 TGCCATGTCCCAGATAGGTCTTACACT-GACTTCCATAC-ATCGAG-GTCGA
1 TGCCATGTCCCAGATAGGTCTTACACTAG-CTCCCAT-CTATCG-GTGCCGA
*
81062335 TGCCATGTCCCAGATAGGGCTTACACTAGCTCCCATCTATCGGTGCCGA
1 TGCCATGTCCCAGATAGGTCTTACACTAGCTCCCATCTATCGGTGCCGA
*
81062384 TGCCATGTCCCAGACAGGTCTTA
1 TGCCATGTCCCAGATAGGTCTTA
81062407 TACGAGCACA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
48 2 0.03
49 61 0.95
50 1 0.02
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (49 bp):
TGCCATGTCCCAGATAGGTCTTACACTAGCTCCCATCTATCGGTGCCGA
Found at i:81064816 original size:21 final size:21
Alignment explanation
Indices: 81064786--81064829 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
81064776 ACTACTGATC
81064786 TGCAAGGGTTTAAAAAGGGAG
1 TGCAAGGGTTTAAAAAGGGAG
*
81064807 TGCAATGGTTTAAAAAGGGAG
1 TGCAAGGGTTTAAAAAGGGAG
81064828 TG
1 TG
81064830 GGTGAGCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.36, T:0.23
Consensus pattern (21 bp):
TGCAAGGGTTTAAAAAGGGAG
Found at i:81065099 original size:39 final size:39
Alignment explanation
Indices: 81065003--81065101 Score: 117
Period size: 39 Copynumber: 2.5 Consensus size: 39
81064993 ATTCACTTTT
* * * * *
81065003 AAACATATATTACATTACACATATATTCACATAACATTT
1 AAACATATATAACAATACTCATATAATCACATAACATTC
* * *
81065042 AAGCATATATAACAATACTCATATAATCGCTTAACATTC
1 AAACATATATAACAATACTCATATAATCACATAACATTC
*
81065081 AAACATATATCACAATACTCA
1 AAACATATATAACAATACTCA
81065102 AAAACATGTT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.31
Consensus pattern (39 bp):
AAACATATATAACAATACTCATATAATCACATAACATTC
Found at i:81066232 original size:12 final size:12
Alignment explanation
Indices: 81066215--81066239 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
81066205 AAGTAAGTTT
81066215 AGAATGAAAAAG
1 AGAATGAAAAAG
81066227 AGAATGAAAAAG
1 AGAATGAAAAAG
81066239 A
1 A
81066240 TGACACCTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (12 bp):
AGAATGAAAAAG
Found at i:81070327 original size:57 final size:57
Alignment explanation
Indices: 81070252--81070536 Score: 444
Period size: 57 Copynumber: 5.0 Consensus size: 57
81070242 CTTAGTGGCC
* * * * * *
81070252 CAACAACCGATCTTGCACACATAGTGCTTGGTTACAGAACTCGCAAACATAGTGCCT
1 CAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCGCACACACAGTGCCT
* *
81070309 CAACAACCGATCTCGCACACACAGTGCTCGATTATGGAACTCGCACACACAGTGCCT
1 CAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCGCACACACAGTGCCT
* *
81070366 CAACAACCGATCTCGCACACACAGTGCTTGGTTATGGAACTCGCACACACAGTGCCT
1 CAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCGCACACACAGTGCCT
* *
81070423 CAACAATCGATCTCGCACACACATTGCTCGGTTACGGAACTCGCACACACAGTGCCT
1 CAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCGCACACACAGTGCCT
* *
81070480 TAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCACACACACAGTGCCT
1 CAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCGCACACACAGTGCCT
81070537 ATGTTCACTT
Statistics
Matches: 210, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 210 1.00
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.19
Consensus pattern (57 bp):
CAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCGCACACACAGTGCCT
Found at i:81070334 original size:29 final size:29
Alignment explanation
Indices: 81070291--81070506 Score: 186
Period size: 29 Copynumber: 7.6 Consensus size: 29
81070281 GGTTACAGAA
* *
81070291 CTCGCAAACATAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
* ** ** *
81070320 CTCGCACACACAGTG-CTCGATTATGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
81070348 CTCGCACACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
***** ** *
81070377 CTCGCACACACAGTG-CTTGGTTATGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
*
81070405 CTCGCACACACAGTGCCTCAACAATCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
* **** * *
81070434 CTCGCACACACATTG-CTCGGTTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
*
81070462 CTCGCACACACAGTGCCTTAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
81070491 CTCGCACACACAGTGC
1 CTCGCACACACAGTGC
81070507 TCGGTTACGG
Statistics
Matches: 139, Mismatches: 45, Indels: 6
0.73 0.24 0.03
Matches are distributed among these distances:
28 62 0.45
29 77 0.55
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.19
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCAACAACCGAT
Found at i:81070354 original size:28 final size:28
Alignment explanation
Indices: 81070266--81070534 Score: 180
Period size: 28 Copynumber: 9.5 Consensus size: 28
81070256 AACCGATCTT
* * * *
81070266 GCACACATAGTGCTTGGTTACAGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
* * * ** * *
81070294 GCAAACATAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGATTACGGAACTC
*
81070323 GCACACACAGTGCTCGATTATGGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
* ** * *
81070351 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGATTACGGAACTC
* * *
81070380 GCACACACAGTGCTTGGTTATGGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
* ** *
81070408 GCACACACAGTGCCTCAACAATC-GATCTC
1 GCACACACAGTG-CTCGATTA-CGGAACTC
* *
81070437 GCACACACATTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
** ** * *
81070465 GCACACACAGTGCCTTAACAACCGATCTC
1 GCACACACAGTG-CTCGATTACGGAACTC
*
81070494 GCACACACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
*
81070522 ACACACACAGTGC
1 GCACACACAGTGC
81070535 CTATGTTCAC
Statistics
Matches: 176, Mismatches: 59, Indels: 12
0.71 0.24 0.05
Matches are distributed among these distances:
27 1 0.01
28 94 0.53
29 81 0.46
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.19
Consensus pattern (28 bp):
GCACACACAGTGCTCGATTACGGAACTC
Found at i:81072523 original size:28 final size:28
Alignment explanation
Indices: 81072490--81072561 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
81072480 TCGATATTTT
*
81072490 GCACACTAAGTGTCATTCTCAATAGCTC
1 GCACACTAAGTGCCATTCTCAATAGCTC
**
81072518 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATAGCTC
* *
81072546 GTACACTAAGTACCAT
1 GCACACTAAGTGCCAT
81072562 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATAGCTC
Found at i:81074161 original size:16 final size:15
Alignment explanation
Indices: 81074133--81074170 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
81074123 TAATAACAAC
81074133 AATAATATATAAAAT
1 AATAATATATAAAAT
*
81074148 AATAATATGGTAAAAT
1 AATAATAT-ATAAAAT
81074164 AATAATA
1 AATAATA
81074171 ATGCATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (15 bp):
AATAATATATAAAAT
Found at i:81074189 original size:19 final size:18
Alignment explanation
Indices: 81074141--81074193 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 18
81074131 ACAATAATAT
*
81074141 ATAAAATAATAAT-ATG-
1 ATAAAATAAGAATAATGC
* *
81074157 GTAAAATAATAATAATGC
1 ATAAAATAAGAATAATGC
81074175 ATAAAATATAGAATAATGC
1 ATAAAATA-AGAATAATGC
81074194 GTACAAGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 12 0.39
17 3 0.10
18 7 0.23
19 9 0.29
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.28
Consensus pattern (18 bp):
ATAAAATAAGAATAATGC
Found at i:81079041 original size:14 final size:14
Alignment explanation
Indices: 81079022--81079056 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
81079012 AGTTGATTTT
81079022 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
*
81079036 TTGAAAAGCAGGAA
1 TTGAAAAGCAGAAA
81079050 TTGAAAA
1 TTGAAAA
81079057 TTCCTCAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.54, C:0.06, G:0.23, T:0.17
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:81079095 original size:88 final size:90
Alignment explanation
Indices: 81078870--81079128 Score: 296
Period size: 91 Copynumber: 2.9 Consensus size: 90
81078860 AAGCAAATTT
* * *
81078870 TAAAAATACCTCGACATGTGACCCGAGACTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTGA
1 TAAAAATACCTC-AGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA
* * *
81078934 AAAATATAAATTGAAAAAAATAGAAAC
65 AAAACAGAAATTG-AAAAAACAGAAAC
*
81078961 TAAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA
1 TAAAAATACCTCAG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA
* * * *
81079026 AAAGCAGAAATTG-AAAAGCAGGAAT
65 AAAACAGAAATTGAAAAAACAGAAAC
* * *
81079051 TGAAAATTCCTCAG-TGTG-CCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTGA
1 TAAAAATACCTCAGATGTGACCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA
*
81079113 CAAACA-AAATTTGAAA
65 AAAACAGAAA-TTGAAA
81079129 TTACCTCAGC
Statistics
Matches: 146, Mismatches: 17, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
86 3 0.02
87 16 0.11
88 38 0.26
90 21 0.14
91 51 0.35
92 17 0.12
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (90 bp):
TAAAAATACCTCAGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
AAACAGAAATTGAAAAAACAGAAAC
Found at i:81079169 original size:73 final size:71
Alignment explanation
Indices: 81079048--81079271 Score: 261
Period size: 78 Copynumber: 3.0 Consensus size: 71
81079038 GAAAAGCAGG
*
81079048 AATTGAAAATT-CCTCAGTGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AATTG-AAATTACCTCAGTGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
81079112 ACAAACAA
65 A-AAACAA
* * *
81079120 AATTTGAAATTACCTCAGCGTGTCCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AA-TTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-----T
81079185 TTTTGAAAGACAGA
60 TTTTGAAA-ACA-A
* * * * * *
81079199 AATTGAAAGTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAATTTTGA
1 AATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
81079264 AAACAA
66 AAACAA
81079270 AA
1 AA
81079272 ATAAAAACAT
Statistics
Matches: 130, Mismatches: 13, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
71 3 0.02
72 10 0.08
73 54 0.42
77 2 0.02
78 58 0.45
79 3 0.02
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (71 bp):
AATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
AAACAA
Found at i:81080138 original size:40 final size:39
Alignment explanation
Indices: 81080091--81080166 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 39
81080081 TGTGTTAATC
81080091 AAGATGCCCTTTTCGGGTTTTCACCTTGATTGTTTTTTTA
1 AAGATGCCCTTTTCGGGTTTTCACCTTGATT-TTTTTTTA
*
81080131 AAGATGCCCTTTTCGGGTTTTCATCTTGATTTTTTT
1 AAGATGCCCTTTTCGGGTTTTCACCTTGATTTTTTT
81080167 AAGCATAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 5 0.14
40 30 0.86
ACGTcount: A:0.14, C:0.17, G:0.17, T:0.51
Consensus pattern (39 bp):
AAGATGCCCTTTTCGGGTTTTCACCTTGATTTTTTTTTA
Found at i:81083862 original size:55 final size:56
Alignment explanation
Indices: 81083797--81083911 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
81083787 AGCATGGCTG
* * *
81083797 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
81083853 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
81083908 CCAG
1 CCAG
81083912 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:81083908 original size:28 final size:27
Alignment explanation
Indices: 81083822--81083911 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
81083812 GTGACAGAGT
*
81083822 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
81083851 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
81083878 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
81083906 CACCAG
1 CACCAG
81083912 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:81094381 original size:19 final size:20
Alignment explanation
Indices: 81094343--81094381 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
81094333 ATAATATTTG
*
81094343 AAATATACATAAAGTAGTAA
1 AAATATACATAAACTAGTAA
*
81094363 AAATATATAT-AACTAGTAA
1 AAATATACATAAACTAGTAA
81094382 TGTTAAAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (20 bp):
AAATATACATAAACTAGTAA
Found at i:81094772 original size:22 final size:23
Alignment explanation
Indices: 81094724--81094782 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
81094714 AATAATAAGG
81094724 ATAATATAAAAATATATACATGAA
1 ATAATATAAAAATATATACAT-AA
*
81094748 ATAGTATAAAAATATATA-ACT-A
1 ATAATATAAAAATATATACA-TAA
81094770 ATAATATTAAAAA
1 ATAATA-TAAAAA
81094783 AATAAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 6 0.19
23 7 0.23
24 18 0.58
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (23 bp):
ATAATATAAAAATATATACATAA
Found at i:81094997 original size:15 final size:16
Alignment explanation
Indices: 81094977--81095014 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
81094967 TAATAACAAC
81094977 AATAATAT-ATAAAAT
1 AATAATATGATAAAAT
*
81094992 AATAATATGGTAAAAT
1 AATAATATGATAAAAT
*
81095008 ACTAATA
1 AATAATA
81095015 ATGCACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (16 bp):
AATAATATGATAAAAT
Found at i:81095897 original size:26 final size:27
Alignment explanation
Indices: 81095854--81095915 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
81095844 ATATCTTTTC
*
81095854 TTTTTTA-AATATATGT-AAT-TATTA
1 TTTTTTATAATATAAGTAAATATATTA
81095878 TTTTCTTATAATATAAGTAAATATATTA
1 TTTT-TTATAATATAAGTAAATATATTA
*
81095906 TATTATTATA
1 T-TTTTTATA
81095916 TTATTATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
24 4 0.13
25 3 0.10
26 8 0.26
27 3 0.10
28 11 0.35
29 2 0.06
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (27 bp):
TTTTTTATAATATAAGTAAATATATTA
Found at i:81096185 original size:18 final size:18
Alignment explanation
Indices: 81096140--81096199 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
81096130 TTTATGTAAT
81096140 ATATATTAAGTAATATAATA
1 ATAT-TTAAGTAATAT-ATA
*
81096160 ATAATTAAGTAATACT-TA
1 ATATTTAAGTAATA-TATA
81096178 ATATTTAAGTAATATAT-
1 ATATTTAAGTAATATATA
81096195 ATATT
1 ATATT
81096200 ATGTTATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
17 6 0.17
18 16 0.44
19 10 0.28
20 4 0.11
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (18 bp):
ATATTTAAGTAATATATA
Found at i:81096306 original size:4 final size:4
Alignment explanation
Indices: 81096289--81096324 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
81096279 GAAAACCGAG
*
81096289 AAGA AAGA AGGA AAGA AAGAA AAGA AAGA AAGA AAG
1 AAGA AAGA AAGA AAGA AAG-A AAGA AAGA AAGA AAG
81096325 GGAAATTAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:81096312 original size:17 final size:17
Alignment explanation
Indices: 81096239--81096324 Score: 61
Period size: 17 Copynumber: 5.0 Consensus size: 17
81096229 ACAAAATAAT
81096239 AAAAGAAATGAAAGAATAG
1 AAAAGAAA-GAAAGAA-AG
* *
81096258 AAAAGAAACAAA-AAGTG
1 AAAAGAAAGAAAGAA-AG
* **
81096275 AAACGAAA-ACCGAGAAG
1 AAAAGAAAGAAAGA-AAG
*
81096292 -AAAGAAGGAAAGAAAG
1 AAAAGAAAGAAAGAAAG
81096308 AAAAGAAAGAAAGAAAG
1 AAAAGAAAGAAAGAAAG
81096325 GGAAATTAGG
Statistics
Matches: 51, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
16 9 0.18
17 30 0.59
18 4 0.08
19 8 0.16
ACGTcount: A:0.69, C:0.05, G:0.23, T:0.03
Consensus pattern (17 bp):
AAAAGAAAGAAAGAAAG
Found at i:81109251 original size:20 final size:20
Alignment explanation
Indices: 81109228--81109276 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
81109218 TTAAATTTCA
*
81109228 AAAGATAAATACAAATAAAT
1 AAAGATAAATAAAAATAAAT
*
81109248 AAAGATAATTAAAAATAAAT
1 AAAGATAAATAAAAATAAAT
81109268 AAAGATAAA
1 AAAGATAAA
81109277 AGCTAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.20
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:81109321 original size:12 final size:12
Alignment explanation
Indices: 81109289--81109322 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
81109279 CTAAAATTAA
*
81109289 ATCTAAATAATT
1 ATCTTAATAATT
81109301 ATCCTTAATAATT
1 AT-CTTAATAATT
81109314 ATCTTAATA
1 ATCTTAATA
81109323 TAATTGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (12 bp):
ATCTTAATAATT
Found at i:81110944 original size:20 final size:20
Alignment explanation
Indices: 81110919--81110958 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
81110909 TCCAAAGCAA
81110919 ATACAATAGCTAAGAGTTCT
1 ATACAATAGCTAAGAGTTCT
81110939 ATACAATAGCTAAGAGTTCT
1 ATACAATAGCTAAGAGTTCT
81110959 TTTTCTATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (20 bp):
ATACAATAGCTAAGAGTTCT
Found at i:81112784 original size:40 final size:40
Alignment explanation
Indices: 81112725--81112932 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
81112715 CAATTGAATG
* * * *
81112725 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
81112765 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
81112805 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
81112845 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
81112885 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
81112925 ATATCCGG
1 ATATCCGG
81112933 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:81112863 original size:80 final size:80
Alignment explanation
Indices: 81112727--81112932 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
81112717 ATTGAATGAT
* * ** * * *
81112727 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
81112791 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
81112807 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
81112872 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
81112887 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
81112933 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:81120823 original size:40 final size:40
Alignment explanation
Indices: 81120764--81120971 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
81120754 CAATTGAATG
* * * *
81120764 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
81120804 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
81120844 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
81120884 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
81120924 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
81120964 ATATCCGG
1 ATATCCGG
81120972 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:81120902 original size:80 final size:80
Alignment explanation
Indices: 81120766--81120971 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
81120756 ATTGAATGAT
* * ** * * *
81120766 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
81120830 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
81120846 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
81120911 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
81120926 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
81120972 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:81122267 original size:289 final size:289
Alignment explanation
Indices: 81121717--81122294 Score: 1122
Period size: 290 Copynumber: 2.0 Consensus size: 289
81121707 TGTGGTTTTG
81121717 AAAAATCACCAAAATTTTAGGAATGGTATTAAATAGTGAATAAGTTATGTAAATGAACCTTGATG
1 AAAAATCACCAAAATTTTAGGAATGGTATTAAATAGTGAATAAGTTATGTAAATGAACCTTGATG
81121782 AGTCTACTTTCATATGGAAGAAACGAAACGGTCATAGGAGTTACTTGTTAAGAGATATTAAAGTT
66 AGTCTACTTTCATATGGAAGAAACGAAACGGTCATAGGAGTTACTTGTTAAGAGATATTAAAGTT
81121847 ATTGTGAGACAGGGCCAGAACGGTTTCTGGGTCCCCTGTCGCGACTTTAAAAATTTTCTATAAAT
131 ATTGTGAGACAGGGCCAGAACGGTTTCTGGGTCCCCTGTCGCGACTTTAAAAATTTTCTATAAAT
* *
81121912 TATCCAGAAAGAATTAGAAGTCATGCCTTATATTTTCAGATTCCATTTTGAGTCTAGTTTCATTA
196 TATCCAGAAAGAATTAGAAGTCATGCCTTATATGTGCAGATTCCATTTTGAGTCTAGTTTCATTA
81121977 GAAACAAACGGCACCAGTATTAAAGCCCT
261 GAAACAAACGGCACCAGTATTAAAGCCCT
81122006 AAAAATCACCAAAATTTGTAGGAATGGTATTAAATAGTGAATAAGTTATGTAAATGAACCTTGAT
1 AAAAATCACCAAAATTT-TAGGAATGGTATTAAATAGTGAATAAGTTATGTAAATGAACCTTGAT
81122071 GAGTCTACTTTCATATGGAAGAAACGAAACGGTCATAGGAGTTACTTGTTAAGAGATATTAAAGT
65 GAGTCTACTTTCATATGGAAGAAACGAAACGGTCATAGGAGTTACTTGTTAAGAGATATTAAAGT
81122136 TATTGTGAGACAGGGCCAGAACGGTTTCTGGGTCCCCTGTCGCGACTTTAAAAA-TTTCTATAAA
130 TATTGTGAGACAGGGCCAGAACGGTTTCTGGGTCCCCTGTCGCGACTTTAAAAATTTTCTATAAA
81122200 TTATCCAGAAAGAATTAGAAGTCATGCCTTATATGTGCAGATTCCATTTTGAGTCTAGTTTCATT
195 TTATCCAGAAAGAATTAGAAGTCATGCCTTATATGTGCAGATTCCATTTTGAGTCTAGTTTCATT
81122265 AGAAACAAACGGCACCAGTATTAAAGCCCT
260 AGAAACAAACGGCACCAGTATTAAAGCCCT
81122295 GTACAGAGAG
Statistics
Matches: 286, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
289 120 0.42
290 166 0.58
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (289 bp):
AAAAATCACCAAAATTTTAGGAATGGTATTAAATAGTGAATAAGTTATGTAAATGAACCTTGATG
AGTCTACTTTCATATGGAAGAAACGAAACGGTCATAGGAGTTACTTGTTAAGAGATATTAAAGTT
ATTGTGAGACAGGGCCAGAACGGTTTCTGGGTCCCCTGTCGCGACTTTAAAAATTTTCTATAAAT
TATCCAGAAAGAATTAGAAGTCATGCCTTATATGTGCAGATTCCATTTTGAGTCTAGTTTCATTA
GAAACAAACGGCACCAGTATTAAAGCCCT
Found at i:81124260 original size:291 final size:290
Alignment explanation
Indices: 81123704--81124288 Score: 1116
Period size: 291 Copynumber: 2.0 Consensus size: 290
81123694 CATTTTTGAT
81123704 GATTTGATTTAGTGTTATAAATGTGAATTTCACTAGAAAGGGCCTAGTAGTAAACTTTGAAAGTA
1 GATTTGATTTAGTGTTATAAATGTGAATTTCACTAGAAAGGGCCTAGTAGTAAACTTTGAAAGTA
81123769 TGATGGGAAGATGTGGGATGACTAATTGATCATGCATGCAAAAATAAGGGATTTGCATGTCAAAT
66 TGATGGGAAGATGTGGGATGACTAATTGATCATGCATGCAAAAATAAGGGATTTGCATGTCAAAT
81123834 TTCCCCAAAAGAAGCATAGTGGCCGGCCAAGGTAGGTGTTGATGGGCAAGGGAAACATGTTTCCA
131 TTCCCCAAAAGAAGCATAGTGGCCGGCCAAGGTAGGTGTTGATGGGCAAGGGAAACATGTTTCCA
81123899 ACATGTTTGGTTAGTGAGTTATGTATGAAGAAATAAATAAGAATTAGCATTAAAGAAATGAACAA
196 ACATGTTTGGTTAGTGAGTTATGTATGAAGAAATAAATAAGAATTAGCATTAAAGAAATGAACAA
81123964 AAAAAAGATGAGCATGGATGCCCCCCCATTG
261 AAAAAAGATGAGCATGGATG-CCCCCCATTG
81123995 GATTTGATTTAGTGTTATAAATGTGAATTTCACTAGAAAGGGCCTAGTAGTAAACTTTGAAAGTA
1 GATTTGATTTAGTGTTATAAATGTGAATTTCACTAGAAAGGGCCTAGTAGTAAACTTTGAAAGTA
*
81124060 TGATGGGAAGATGTGGGATGACTAGTTGATCATGCATGCAAAAATAAGGGATTTGCATGTCAAAT
66 TGATGGGAAGATGTGGGATGACTAATTGATCATGCATGCAAAAATAAGGGATTTGCATGTCAAAT
81124125 TTCCCCAAAAGAAGCATAGTGGCCGGCCAAGGTAGGTGTTGATGGGCAAGGGAAACATGTTTCCA
131 TTCCCCAAAAGAAGCATAGTGGCCGGCCAAGGTAGGTGTTGATGGGCAAGGGAAACATGTTTCCA
81124190 ACATGTTTGGTTAGTGAGTTATGTATGAAGAAATAAAATAAGAATTAGCATTAAAGAAATGAACA
196 ACATGTTTGGTTAGTGAGTTATGTATGAAGAAAT-AAATAAGAATTAGCATTAAAGAAATGAAC-
81124255 AAAAAAAAAAGATGAGCATGGATGCCCCCCATTG
259 --AAAAAAAAGATGAGCATGGATGCCCCCCATTG
81124289 CCGTGCAACT
Statistics
Matches: 289, Mismatches: 1, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
291 228 0.79
292 29 0.10
294 10 0.03
295 22 0.08
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.27
Consensus pattern (290 bp):
GATTTGATTTAGTGTTATAAATGTGAATTTCACTAGAAAGGGCCTAGTAGTAAACTTTGAAAGTA
TGATGGGAAGATGTGGGATGACTAATTGATCATGCATGCAAAAATAAGGGATTTGCATGTCAAAT
TTCCCCAAAAGAAGCATAGTGGCCGGCCAAGGTAGGTGTTGATGGGCAAGGGAAACATGTTTCCA
ACATGTTTGGTTAGTGAGTTATGTATGAAGAAATAAATAAGAATTAGCATTAAAGAAATGAACAA
AAAAAAGATGAGCATGGATGCCCCCCATTG
Found at i:81125599 original size:40 final size:40
Alignment explanation
Indices: 81125540--81125747 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
81125530 CAATTGAATG
* * * *
81125540 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
81125580 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
81125620 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
81125660 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
81125700 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
81125740 ATATCCGG
1 ATATCCGG
81125748 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:81125678 original size:80 final size:80
Alignment explanation
Indices: 81125542--81125747 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
81125532 ATTGAATGAT
* * ** * * *
81125542 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
81125606 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
81125622 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
81125687 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
81125702 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
81125748 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:81133647 original size:40 final size:40
Alignment explanation
Indices: 81133588--81133795 Score: 168
Period size: 40 Copynumber: 5.2 Consensus size: 40
81133578 CAATTGAATG
* * *
81133588 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGACATTTGTGCAAGTAATT
* * * * **
81133628 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAA-GACATTTGTGCAAGTAATT
* * * **
81133668 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGACATTTGTGCAAGTAATT
* * **
81133708 AAATCCGGGCTAATACCCGAAGGA-ATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAA-GACATTTGTGCAAGTAATT
* * * * **
81133748 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGACATTTGTGCAAGTAATT
81133788 ATATCCGG
1 ATATCCGG
81133796 TTGTATTCCA
Statistics
Matches: 135, Mismatches: 29, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
39 4 0.03
40 127 0.94
41 4 0.03
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACATTTGTGCAAGTAATT
Found at i:81133726 original size:80 final size:80
Alignment explanation
Indices: 81133590--81133795 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
81133580 ATTGAATGAT
* * ** * * * *
81133590 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-AAT
*
81133654 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
81133670 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGAATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGAATT
** *
81133735 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
81133750 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
81133796 TTGTATTCCA
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.01
80 103 0.97
81 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGAATT
TGTGCAAGTCGACCC
Found at i:81139959 original size:21 final size:20
Alignment explanation
Indices: 81139913--81139969 Score: 73
Period size: 19 Copynumber: 2.9 Consensus size: 20
81139903 CAATTTAACT
*
81139913 TTAAATTCACGTTTTTTCCC
1 TTAAATTCACCTTTTTTCCC
81139933 TT-AATTCACACTTTTTTCCC
1 TTAAATTCAC-CTTTTTTCCC
*
81139953 TTAAATT-TCCTTTTTTC
1 TTAAATTCACCTTTTTTC
81139970 TTCAATTTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 15 0.45
20 14 0.42
21 4 0.12
ACGTcount: A:0.19, C:0.25, G:0.02, T:0.54
Consensus pattern (20 bp):
TTAAATTCACCTTTTTTCCC
Found at i:81142094 original size:26 final size:29
Alignment explanation
Indices: 81142048--81142103 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 29
81142038 CCAAGGAGAC
*
81142048 AAAGAGAAAGAGAGAATAATC-TCAGCAA
1 AAAGAGAAAGAGAGAATAATCAGCAGCAA
81142076 AAAGATGAAAGA-A-AA-AATCAGCAGCAA
1 AAAGA-GAAAGAGAGAATAATCAGCAGCAA
81142103 A
1 A
81142104 GGAGAATGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 4 0.16
27 9 0.36
28 6 0.24
29 6 0.24
ACGTcount: A:0.61, C:0.11, G:0.20, T:0.09
Consensus pattern (29 bp):
AAAGAGAAAGAGAGAATAATCAGCAGCAA
Found at i:81149954 original size:40 final size:40
Alignment explanation
Indices: 81149880--81149955 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
81149870 CCAACACACC
* *
81149880 ATATGGGGATAAAATCGACCCACCCATCCCTACACATCTA
1 ATATGGGGATAAAATCGACACACCCAACCCTACACATCTA
* * * *
81149920 ATATGGGGATAAAATTGACATATCCAACCTTACACA
1 ATATGGGGATAAAATCGACACACCCAACCCTACACA
81149956 CCATAAAGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.22
Consensus pattern (40 bp):
ATATGGGGATAAAATCGACACACCCAACCCTACACATCTA
Found at i:81150424 original size:30 final size:30
Alignment explanation
Indices: 81150388--81150450 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
81150378 CATACACCCA
*
81150388 TGTGGTTCACTTGTGTGGCCCACACGCCTG
1 TGTGGTTCACTTGTGTGGCCCACACGCCCG
*
81150418 TGTGGTTCACTTGTGTGGTCCACACGCCCG
1 TGTGGTTCACTTGTGTGGCCCACACGCCCG
81150448 TGT
1 TGT
81150451 AGCCCATACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.10, C:0.29, G:0.30, T:0.32
Consensus pattern (30 bp):
TGTGGTTCACTTGTGTGGCCCACACGCCCG
Found at i:81154050 original size:118 final size:118
Alignment explanation
Indices: 81153842--81154059 Score: 310
Period size: 118 Copynumber: 1.8 Consensus size: 118
81153832 TACAGCTAAA
* * * * * ** *
81153842 ATTGTTGAAGAGTGAGAATGTTAAAAAATGTAATAGCAGTAGGATGTGAGAGGAAGACCTTATAT
1 ATTGTTGAAGAGTAAGAATGCTAAAAAATGTAAGAACAGTAGGATGTGAGAGGAAAACCCGACAT
* * * *
81153907 GGGGGTCACATATAGTTGAAACATTAGTATACTATATAACTCTATATGTTACG
66 GGGGATCACATATAATAGAAACATTAGTAAACTATATAACTCTATATGTTACG
* *
81153960 ATTGTTGAAGAGTAAGAATGCTAAAAGATGTAAGAACAGTAGGATGTGAGAGGAAAACCCGGCAT
1 ATTGTTGAAGAGTAAGAATGCTAAAAAATGTAAGAACAGTAGGATGTGAGAGGAAAACCCGACAT
81154025 GGGGATCACATATAATAGAAACATTAGTAAACTAT
66 GGGGATCACATATAATAGAAACATTAGTAAACTAT
81154060 CTATAATGGG
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
118 86 1.00
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (118 bp):
ATTGTTGAAGAGTAAGAATGCTAAAAAATGTAAGAACAGTAGGATGTGAGAGGAAAACCCGACAT
GGGGATCACATATAATAGAAACATTAGTAAACTATATAACTCTATATGTTACG
Found at i:81154875 original size:25 final size:26
Alignment explanation
Indices: 81154830--81154901 Score: 78
Period size: 25 Copynumber: 2.8 Consensus size: 26
81154820 TAACATGAGG
* *
81154830 AAAGCCTTTGTAGC-TAGTTATTTGA
1 AAAGCCTATGTGGCATAGTTATTTGA
*
81154855 AAAGCCTATGTGGCATA-TTATTTGG
1 AAAGCCTATGTGGCATAGTTATTTGA
*
81154880 AAAGCC-ATAGTGGCAAAGTTAT
1 AAAGCCTAT-GTGGCATAGTTAT
81154902 CTAGAAACCT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 2 0.05
25 32 0.80
26 6 0.15
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.33
Consensus pattern (26 bp):
AAAGCCTATGTGGCATAGTTATTTGA
Found at i:81159425 original size:49 final size:50
Alignment explanation
Indices: 81159319--81159448 Score: 147
Period size: 49 Copynumber: 2.6 Consensus size: 50
81159309 TGGGTTAAGA
* * * *
81159319 TGTCGACGCCATGTCCCAGACATGGTCTTACATTGGCTTTCATATAGCGAG
1 TGTCGATGCCATGTCCCAGA-AAGGTCTTACACTGGCTCTCATATAGCGAG
* * * *
81159370 -GCCGATGCCATGTCCCAGAAAGGTCTTACACTGTCTCTCATCTATCG-G
1 TGTCGATGCCATGTCCCAGAAAGGTCTTACACTGGCTCTCATATAGCGAG
* *
81159418 TGTCGATGCCATGTCCCATACAGGTCTTACA
1 TGTCGATGCCATGTCCCAGAAAGGTCTTACA
81159449 TTGACACACC
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
48 1 0.01
49 49 0.73
50 17 0.25
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
TGTCGATGCCATGTCCCAGAAAGGTCTTACACTGGCTCTCATATAGCGAG
Found at i:81159579 original size:46 final size:45
Alignment explanation
Indices: 81159516--81159637 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 45
81159506 CGTAAGGCCA
*
81159516 ATGCATGTCCCAGACATGTCTTACACTAGCTTTCGTAT-CAAT-CTCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTC--ATGCAATGCT-G
* **
81159562 ATGCATGTCCCAGACATGTCTTATACT-GACTCTCATGCTGTGGCTG
1 ATGCATGTCCCAGACATGTCTTACACTAG-CTCTCATGCAAT-GCTG
81159608 ATGCATGTCCCAGACATGTCTTACACTAGC
1 ATGCATGTCCCAGACATGTCTTACACTAGC
81159638 ACACATATCA
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
44 2 0.03
45 3 0.05
46 58 0.88
47 3 0.05
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATGCAATGCTG
Found at i:81178032 original size:27 final size:27
Alignment explanation
Indices: 81177984--81178142 Score: 157
Period size: 27 Copynumber: 5.9 Consensus size: 27
81177974 GCGAGGCTGC
* *
81177984 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
81178011 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
81178037 CAGATATATGTAGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
81178064 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
81178091 CAGATATATGTGGCAGAGCCACCAAAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
81178118 TAGATAATTATGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
81178143 GACGCTTCCT
Statistics
Matches: 111, Mismatches: 13, Indels: 16
0.79 0.09 0.11
Matches are distributed among these distances:
26 10 0.09
27 96 0.86
28 5 0.05
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:81178074 original size:54 final size:54
Alignment explanation
Indices: 81178002--81178142 Score: 212
Period size: 54 Copynumber: 2.6 Consensus size: 54
81177992 GTGACGAAGT
*
81178002 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTAGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTAGCAGAGC
* *
81178056 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTAGCAGAGC
* * *
81178110 CACCAAATTAGATAATTATGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
81178143 GACGCTTCCT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 75 0.94
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTAGCAGAGC
Found at i:81179752 original size:26 final size:26
Alignment explanation
Indices: 81179721--81179828 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
81179711 TGAAATGCCC
*
81179721 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
81179747 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
81179773 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
81179799 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
81179825 ATCA
1 ATCA
81179829 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:81182227 original size:48 final size:48
Alignment explanation
Indices: 81182161--81182329 Score: 189
Period size: 48 Copynumber: 3.6 Consensus size: 48
81182151 AAGCTGACGC
* * * * * *
81182161 CATGTCCGAGATAGGTCTTACACTAGCTTGTATATCGCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATATATCTCAAGGCCGATG
* * ** * *
81182209 CATGTCCCAGATATGTCTTACACTAGC-TCT-CGTCTCAATGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATATATCTCAAGGCCGATG
* *
81182255 CATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATATATCTCAAGGCCGATG
*
81182303 CATGTCCCAAACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
81182330 ACACATATCA
Statistics
Matches: 100, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
46 35 0.35
47 3 0.03
48 62 0.62
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTATATATCTCAAGGCCGATG
Found at i:81184358 original size:15 final size:15
Alignment explanation
Indices: 81184334--81184363 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
81184324 CTCCAACTCT
81184334 CTGGTCTTAAGAATG
1 CTGGTCTTAAGAATG
*
81184349 CTGGTTTTAAGAATG
1 CTGGTCTTAAGAATG
81184364 AGTGGTCGCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.37
Consensus pattern (15 bp):
CTGGTCTTAAGAATG
Found at i:81189296 original size:40 final size:40
Alignment explanation
Indices: 81189249--81189492 Score: 334
Period size: 40 Copynumber: 6.1 Consensus size: 40
81189239 CGGGCTTTAA
* *
81189249 CCGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
* *
81189289 CCGGATATAGT-AGTTCGCACAAATGTCTT-GGGACTTAGC
1 CCGGATATAGTCA-CTCGCACAAATGCCTTCGGGACTTAGC
* *
81189328 CCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
*
81189368 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
* * *
81189408 CCAGA-ATTAGTCACTAGCACAAATGCCTTTGGGACTTAGC
1 CCGGATA-TAGTCACTCGCACAAATGCCTTCGGGACTTAGC
*
81189448 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTCACTCGCACAAATGCCTTCGGGACTTAGC
81189488 CCGGA
1 CCGGA
81189493 ATTATCATCC
Statistics
Matches: 186, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 36 0.19
40 150 0.81
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:81198140 original size:40 final size:40
Alignment explanation
Indices: 81198090--81198195 Score: 167
Period size: 40 Copynumber: 2.6 Consensus size: 40
81198080 TATAACCACA
*
81198090 TGCACGAATGCCTTCGGGTCTTAGCCCGAATAGAACGACT
1 TGCACGAATGCCTTCGGGTCTTAGCCCGAATAGAACAACT
* * **
81198130 TGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACT
1 TGCACGAATGCCTTCGGGTCTTAGCCCGAATAGAACAACT
81198170 TGCACGAATGCCTTCGGGTCTTAGCC
1 TGCACGAATGCCTTCGGGTCTTAGCC
81198196 TGGATGTAGT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
TGCACGAATGCCTTCGGGTCTTAGCCCGAATAGAACAACT
Found at i:81198222 original size:40 final size:39
Alignment explanation
Indices: 81198091--81198280 Score: 159
Period size: 40 Copynumber: 4.7 Consensus size: 39
81198081 ATAACCACAT
* * *
81198091 GCACGAATGCCTTCGGGTCTTAGCCCGAATAG-AACGACTT
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GTAACAACTA
* *
81198131 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGTAACAACTA
* * *
81198171 GCACGAATGCCTTCGGGTCTTAGCCTGGATGTAGTC-GCTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGTA-ACAACTA
* ** **
81198211 GCACAATTGCCTTCGGGTCTTAACCCGGAAATAATTACTA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATGTAACAACTA
* * *
81198251 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCA-CAATGCCTTCGGGTCTTAGCCCGGAT
81198281 ATCATTCAAT
Statistics
Matches: 123, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
39 2 0.02
40 118 0.96
41 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGTAACAACTA
Found at i:81198223 original size:80 final size:80
Alignment explanation
Indices: 81198090--81198239 Score: 214
Period size: 80 Copynumber: 1.9 Consensus size: 80
81198080 TATAACCACA
* *
81198090 TGCACGAATGCCTTCGGGTCTTAGCCCGAATAGAACGACTTGCACAAATGCCTTCGGGTCTTAGC
1 TGCACGAATGCCTTCGGGTCTTAGCCCGAATAGAACGACTAGCACAAATGCCTTCGGGTCTTAAC
81198155 CCGGATTTAACAACT
66 CCGGATTTAACAACT
* * * *
81198170 TGCACGAATGCCTTCGGGTCTTAGCCTGGAT-GTAGTCG-CTAGCACAATTGCCTTCGGGTCTTA
1 TGCACGAATGCCTTCGGGTCTTAGCCCGAATAG-A-ACGACTAGCACAAATGCCTTCGGGTCTTA
81198233 ACCCGGA
64 ACCCGGA
81198240 AATAATTACT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
79 1 0.02
80 59 0.95
81 2 0.03
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
TGCACGAATGCCTTCGGGTCTTAGCCCGAATAGAACGACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATTTAACAACT
Found at i:81198265 original size:80 final size:80
Alignment explanation
Indices: 81198091--81198280 Score: 195
Period size: 80 Copynumber: 2.4 Consensus size: 80
81198081 ATAACCACAT
* * * * * *
81198091 GCACGAATGCCTTCGGGTCTTAGCCC-GA-ATAGAACGACTTGCACAAATGCCTTCGGGTCTTAG
1 GCACAAATGCCTTCGGGACTTAGCCCGGATGTAG-TCG-CTAGCACAAATGCCTTCGGGTCTTAA
** *
81198154 CCCGGATTTAACAACTT
64 CCCGGAAATAACAACTA
* * * *
81198171 GCACGAATGCCTTCGGGTCTTAGCCTGGATGTAGTCGCTAGCACAATTGCCTTCGGGTCTTAACC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATGTAGTCGCTAGCACAAATGCCTTCGGGTCTTAACC
**
81198236 CGGAAATAATTACTA
66 CGGAAATAACAACTA
* *
81198251 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGACTTAGCCCGGAT
81198281 ATCATTCAAT
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 85 0.92
81 4 0.04
82 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATGTAGTCGCTAGCACAAATGCCTTCGGGTCTTAACC
CGGAAATAACAACTA
Found at i:81204927 original size:13 final size:13
Alignment explanation
Indices: 81204909--81204941 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
81204899 ATAATTCAAT
81204909 ACGGGCGAGGGAC
1 ACGGGCGAGGGAC
81204922 ACGGGCGAGGGAC
1 ACGGGCGAGGGAC
81204935 ACGGGCG
1 ACGGGCG
81204942 TGTCCCTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.21, C:0.24, G:0.55, T:0.00
Consensus pattern (13 bp):
ACGGGCGAGGGAC
Found at i:81207435 original size:45 final size:41
Alignment explanation
Indices: 81207359--81207500 Score: 115
Period size: 45 Copynumber: 3.3 Consensus size: 41
81207349 ATATGTGTTC
* **
81207359 TCGTGTAGGACCATGTTTGGGACGTTGGCATCGATATATGTGAT
1 TCGTGTAAGACCATGTTTGGGACACTGGCATCG-TAT-T-TGAT
81207403 TACGTGTAAGACCATGTTTGGGACAACT-GCATCGTATTTGAT
1 T-CGTGTAAGACCATGTTTGGGAC-ACTGGCATCGTATTTGAT
* * ** * *
81207445 TCGTGCAAGACCCTGCCTGGGACAGTGGCATCGATATGTGACT
1 TCGTGTAAGACCATGTTTGGGACACTGGCATCG-TATTTGA-T
* *
81207488 CCATGTAAGACCA
1 TCGTGTAAGACCA
81207501 CATCTGGGAC
Statistics
Matches: 80, Mismatches: 13, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
40 2 0.03
41 24 0.30
42 11 0.14
43 11 0.14
44 4 0.05
45 27 0.34
46 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (41 bp):
TCGTGTAAGACCATGTTTGGGACACTGGCATCGTATTTGAT
Found at i:81209148 original size:2 final size:2
Alignment explanation
Indices: 81209141--81209179 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
81209131 AATGTGCATT
81209141 TA TA TA TA TA 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 TA TA TA TA TA T
81209180 TGCATTAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:81209959 original size:20 final size:20
Alignment explanation
Indices: 81209922--81209960 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
81209912 GTATTGTATC
*
81209922 TGTGTGATGTGTTGTCTGTA
1 TGTGTGATGTGGTGTCTGTA
81209942 TGTGTGCATGTGGT-TCTGT
1 TGTGTG-ATGTGGTGTCTGT
81209961 GAAGCAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.08, C:0.08, G:0.36, T:0.49
Consensus pattern (20 bp):
TGTGTGATGTGGTGTCTGTA
Found at i:81210487 original size:23 final size:23
Alignment explanation
Indices: 81210461--81210534 Score: 87
Period size: 23 Copynumber: 3.2 Consensus size: 23
81210451 CTTTTTATTG
81210461 TATTCCAGAATGCCTTTGTGGCA
1 TATTCCAGAATGCCTTTGTGGCA
* * *
81210484 TATTCCGGAATACTTTTGTGGCA
1 TATTCCAGAATGCCTTTGTGGCA
* *
81210507 TATT-CTGTAATGCCTTTATGGCA
1 TATTCCAG-AATGCCTTTGTGGCA
81210530 TATTC
1 TATTC
81210535 TGTAATGTCT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
22 2 0.05
23 40 0.95
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (23 bp):
TATTCCAGAATGCCTTTGTGGCA
Found at i:81210561 original size:23 final size:23
Alignment explanation
Indices: 81210469--81210550 Score: 101
Period size: 23 Copynumber: 3.6 Consensus size: 23
81210459 TGTATTCCAG
* * *
81210469 AATGCCTTTGTGGCATATTCCGG
1 AATGCCTTTATGGCATATTCTGT
* * *
81210492 AATACTTTTGTGGCATATTCTGT
1 AATGCCTTTATGGCATATTCTGT
81210515 AATGCCTTTATGGCATATTCTGT
1 AATGCCTTTATGGCATATTCTGT
*
81210538 AATGTCTTTATGG
1 AATGCCTTTATGG
81210551 TAAGTTTTGT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.43
Consensus pattern (23 bp):
AATGCCTTTATGGCATATTCTGT
Found at i:81210816 original size:96 final size:95
Alignment explanation
Indices: 81210659--81210848 Score: 240
Period size: 96 Copynumber: 2.0 Consensus size: 95
81210649 ATATAATTGA
* * *
81210659 TATATGAATCCGCTATGGTTTAGCTAGAATCGATAATTCGAAGTGCTCGAAGTTATGGGTAGTGA
1 TATATGAATCCGCTATGGTTTAGCCAGAATAGAGAATTCGAAGTGCTCGAAGTTATGGGTAGTGA
*
81210724 AAGTCTTCGCCAAACTAGAGTATATCCATGT
66 AAGTCTTCACCAAACTAGAG-ATATCCATGT
* * * * *
81210755 TATATGAATTCGCTATGGTTCT-GCCATAATAGAGAATTCGATGTGCTTGAAGATT-TTGGTAGT
1 TATATGAATCCGCTATGGTT-TAGCCAGAATAGAGAATTCGAAGTGCTCGAAG-TTATGGGTAGT
* *
81210818 GAAAGTTTTCACCAAACTAGAGATTTCCATG
64 GAAAGTCTTCACCAAACTAGAGATATCCATG
81210849 CTAAGTATAG
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
95 8 0.10
96 70 0.86
97 3 0.04
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (95 bp):
TATATGAATCCGCTATGGTTTAGCCAGAATAGAGAATTCGAAGTGCTCGAAGTTATGGGTAGTGA
AAGTCTTCACCAAACTAGAGATATCCATGT
Found at i:81214123 original size:46 final size:46
Alignment explanation
Indices: 81214056--81214183 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
81214046 TTTGGGTCAC
81214056 TTGTGTGAGCTAGTGTAAGACATGTTAGGGACATGCATAGGCCACA
1 TTGTGTGAGCTAGTGTAAGACATGTTAGGGACATGCATAGGCCACA
81214102 TTGTGTGAGCTAGTGTAAGACATGTTAGGGACATGCATAGGCCACA
1 TTGTGTGAGCTAGTGTAAGACATGTTAGGGACATGCATAGGCCACA
*
81214148 TTGTGAGAGCTAGTGTAAGACCATGTCT-GGGACATG
1 TTGTGTGAGCTAGTGTAAGA-CATGT-TAGGGACATG
81214184 GCATTGGTAT
Statistics
Matches: 79, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
46 65 0.82
47 13 0.16
48 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (46 bp):
TTGTGTGAGCTAGTGTAAGACATGTTAGGGACATGCATAGGCCACA
Found at i:81214258 original size:46 final size:46
Alignment explanation
Indices: 81214155--81214326 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
81214145 ACATTGTGAG
* * * *
81214155 AGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGTATTGAGACG-A
1 AGCTAGTATAAGACCATGTCTGGGACAT-GCATCGG-CTCGAGACGTA
*
81214202 GTGCTAGTATAAGA-CATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 -AGCTAGTATAAGACCATGTCTGGGACATGCATCGG-CTCGAGACGTA
* * *
81214249 AGCTAGTATAAGA-CATGTCTGAGACATGCATCAGCTACGAGATGT-
1 AGCTAGTATAAGACCATGTCTGGGACATGCATCGGCT-CGAGACGTA
* *
81214294 ATC-AGTGTAAGACCATGTCTGGGACATGACATC
1 AGCTAGTATAAGACCATGTCTGGGACATG-CATC
81214327 AGCACAGATA
Statistics
Matches: 107, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
44 8 0.07
45 18 0.17
46 55 0.51
47 15 0.14
48 11 0.10
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
AGCTAGTATAAGACCATGTCTGGGACATGCATCGGCTCGAGACGTA
Found at i:81221529 original size:46 final size:45
Alignment explanation
Indices: 81221470--81221592 Score: 151
Period size: 46 Copynumber: 2.7 Consensus size: 45
81221460 TGAGACGAGT
*
81221470 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CAATACGTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGACGT-A
* * *
81221516 GCTAGTGTAAGACATGTCTTGGACATGCATCGGCTACGAGATGTA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGACGTA
*
81221561 TC-AGTGTAAGACCATGTCTGGGACATAGCATC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
81221593 AGCACAGATA
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
44 9 0.13
45 17 0.25
46 42 0.62
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGACGTA
Found at i:81229878 original size:19 final size:19
Alignment explanation
Indices: 81229854--81229892 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
81229844 CGGTTCAACC
81229854 TTTGGTAGGCACCCAAATG
1 TTTGGTAGGCACCCAAATG
81229873 TTTGGTAGGCACCCAAATG
1 TTTGGTAGGCACCCAAATG
81229892 T
1 T
81229893 ATGTAAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (19 bp):
TTTGGTAGGCACCCAAATG
Found at i:81230860 original size:15 final size:15
Alignment explanation
Indices: 81230840--81230871 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
81230830 CTCCCATATT
81230840 AGACCTTGAATTAGA
1 AGACCTTGAATTAGA
81230855 AGACCTTGAATTAGA
1 AGACCTTGAATTAGA
81230870 AG
1 AG
81230872 TTAGACGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (15 bp):
AGACCTTGAATTAGA
Found at i:81231447 original size:19 final size:19
Alignment explanation
Indices: 81231423--81231460 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
81231413 CACCTTTCCC
81231423 TAATATATTAGCTTCACTG
1 TAATATATTAGCTTCACTG
81231442 TAATATATTAGCTTCACTG
1 TAATATATTAGCTTCACTG
81231461 AAATTATCAA
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:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (19 bp):
TAATATATTAGCTTCACTG
Found at i:81235251 original size:39 final size:39
Alignment explanation
Indices: 81235138--81235330 Score: 226
Period size: 39 Copynumber: 4.9 Consensus size: 39
81235128 TGTTCAAACA
* * * * *
81235138 CCTTCGGGACATAGCCCGGTTATGATAACCCGCACAA-ATG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATA-G
*
81235178 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATAG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATAG
* * * * * *
81235218 CCTTCGGGCTTAGCCTGAATATCATAGCTCGCACCATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATAG
*
81235257 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATAG
*
81235296 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
81235331 TTCATACACA
Statistics
Matches: 133, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 92 0.69
40 40 0.30
41 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATAG
Found at i:81243110 original size:39 final size:39
Alignment explanation
Indices: 81243029--81243191 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
81243019 TATGGTAACC
* *
81243029 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
81243069 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
81243108 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
81243147 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
81243186 CGCACA
1 CGCACA
81243192 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:81245594 original size:32 final size:32
Alignment explanation
Indices: 81245548--81245707 Score: 239
Period size: 32 Copynumber: 5.0 Consensus size: 32
81245538 TATAACTATG
*
81245548 CTACTTTTTTATATGGAAAACTAATGTATGAT
1 CTACTTTTTTATATGCAAAACTAATGTATGAT
* * *
81245580 CTACTTTTTCATATGCTAAACTAATGTATGAC
1 CTACTTTTTTATATGCAAAACTAATGTATGAT
** *
81245612 CTACTTTTTTATATGTGAACCTAATGTATGAT
1 CTACTTTTTTATATGCAAAACTAATGTATGAT
81245644 CTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGCAAAACTAATGTATGAT
* *
81245676 CTACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGCAAAACTAATGTATGAT
81245708 ATTTTTTATG
Statistics
Matches: 114, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 114 1.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (32 bp):
CTACTTTTTTATATGCAAAACTAATGTATGAT
Found at i:81247329 original size:2 final size:2
Alignment explanation
Indices: 81247322--81247362 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
81247312 CTTATGTTAC
81247322 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
81247363 TATTAAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:81247757 original size:21 final size:21
Alignment explanation
Indices: 81247731--81247799 Score: 120
Period size: 21 Copynumber: 3.3 Consensus size: 21
81247721 ACACACACTC
81247731 CACCGCTACAGTATCCAATCT
1 CACCGCTACAGTATCCAATCT
81247752 CACCGCTACAGTATCCAATCT
1 CACCGCTACAGTATCCAATCT
* *
81247773 CACCGCTACAGTAACTAATCT
1 CACCGCTACAGTATCCAATCT
81247794 CACCGC
1 CACCGC
81247800 CACCACTGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.29, C:0.39, G:0.10, T:0.22
Consensus pattern (21 bp):
CACCGCTACAGTATCCAATCT
Found at i:81248939 original size:17 final size:17
Alignment explanation
Indices: 81248914--81248948 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
81248904 GATTGATACC
81248914 AAAAAA-TTTAATTTTA
1 AAAAAATTTTAATTTTA
81248930 AAAAATATTTTAATTTTA
1 AAAAA-ATTTTAATTTTA
81248948 A
1 A
81248949 TTTTTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 1 0.06
18 11 0.65
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAAAAATTTTAATTTTA
Found at i:81251701 original size:3 final size:3
Alignment explanation
Indices: 81251695--81251720 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
81251685 TAAAAGTATG
81251695 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
81251721 TCTACAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:81252601 original size:36 final size:37
Alignment explanation
Indices: 81252534--81252615 Score: 132
Period size: 36 Copynumber: 2.2 Consensus size: 37
81252524 TTTTGGGGGG
81252534 TAGGTTTTTCTTTTTTCTTCTTTTTTGTTTTTT-GGT
1 TAGGTTTTTCTTTTTTCTTCTTTTTTGTTTTTTGGGT
81252570 TAGGTTTTTCTTTTTTCTTCTTTTTAT-TTTTTTGGGT
1 TAGGTTTTTCTTTTTTCTTCTTTTT-TGTTTTTTGGGT
*
81252607 TAGTTTTTT
1 TAGGTTTTT
81252616 TTGGGGGGCT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
36 31 0.72
37 12 0.28
ACGTcount: A:0.05, C:0.07, G:0.13, T:0.74
Consensus pattern (37 bp):
TAGGTTTTTCTTTTTTCTTCTTTTTTGTTTTTTGGGT
Found at i:81252602 original size:37 final size:36
Alignment explanation
Indices: 81252516--81252615 Score: 130
Period size: 36 Copynumber: 2.8 Consensus size: 36
81252506 TTTTTTTAGT
** *
81252516 TTCTTTTTT-TTTGGGGGGTAGGTTTTTCTTTTTTC
1 TTCTTTTTTGTTTTTGGGTTAGGTTTTTCTTTTTTC
*
81252551 TTCTTTTTTGTTTTTTGGTTAGGTTTTTCTTTTTTC
1 TTCTTTTTTGTTTTTGGGTTAGGTTTTTCTTTTTTC
* *
81252587 TTCTTTTTATTTTTTTGGGTTAGTTTTTT
1 TTCTTTTT-TGTTTTTGGGTTAGGTTTTT
81252616 TTGGGGGGCT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
35 9 0.16
36 30 0.54
37 17 0.30
ACGTcount: A:0.04, C:0.07, G:0.17, T:0.72
Consensus pattern (36 bp):
TTCTTTTTTGTTTTTGGGTTAGGTTTTTCTTTTTTC
Found at i:81259456 original size:28 final size:26
Alignment explanation
Indices: 81259401--81259513 Score: 145
Period size: 27 Copynumber: 4.2 Consensus size: 26
81259391 AGCATGGCTG
* *
81259401 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
81259427 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
81259455 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
81259482 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
81259510 CCAG
1 CCAG
81259514 GACACTTCCT
Statistics
Matches: 78, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
26 6 0.08
27 39 0.50
28 33 0.42
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:81259484 original size:55 final size:54
Alignment explanation
Indices: 81259401--81259513 Score: 165
Period size: 55 Copynumber: 2.1 Consensus size: 54
81259391 AGCATGGCTG
*
81259401 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAGCCA
* * *
81259455 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
81259510 CCAG
1 CCAG
81259514 GACACTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
54 19 0.36
55 34 0.64
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
Found at i:81262066 original size:14 final size:14
Alignment explanation
Indices: 81262047--81262073 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
81262037 TCAAAAATCA
81262047 AAATCACATATAAG
1 AAATCACATATAAG
81262061 AAATCACATATAA
1 AAATCACATATAA
81262074 CTCATATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.15, G:0.04, T:0.22
Consensus pattern (14 bp):
AAATCACATATAAG
Found at i:81262911 original size:26 final size:26
Alignment explanation
Indices: 81262875--81262934 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
81262865 AATTTTCTCG
81262875 AAATTTTATCGAGGG-TAAAACCATCA
1 AAATTTTATCG-GGGATAAAACCATCA
***
81262901 AAATTTTATCGGGGATAAAATTGTCA
1 AAATTTTATCGGGGATAAAACCATCA
81262927 AAATTTTA
1 AAATTTTA
81262935 CAATTGTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 3 0.10
26 27 0.90
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (26 bp):
AAATTTTATCGGGGATAAAACCATCA
Found at i:81264073 original size:22 final size:22
Alignment explanation
Indices: 81264048--81264116 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 22
81264038 AAAAGTACAT
81264048 TTTAAAATTGTTGGCTTATCAA
1 TTTAAAATTGTTGGCTTATCAA
*** *
81264070 TTTAAAA----TAAATTA-CAT
1 TTTAAAATTGTTGGCTTATCAA
81264087 TTTAAAATTGTTGGCTTATCAA
1 TTTAAAATTGTTGGCTTATCAA
81264109 TTTAAAAT
1 TTTAAAAT
81264117 AAATGAGATA
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
17 9 0.26
18 4 0.12
21 4 0.12
22 17 0.50
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (22 bp):
TTTAAAATTGTTGGCTTATCAA
Found at i:81264090 original size:39 final size:39
Alignment explanation
Indices: 81264043--81264120 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
81264033 TTTTTAAAAG
81264043 TACATTTTAAAATTGTTGGCTTATCAATTTAAAATAAAT
1 TACATTTTAAAATTGTTGGCTTATCAATTTAAAATAAAT
81264082 TACATTTTAAAATTGTTGGCTTATCAATTTAAAATAAAT
1 TACATTTTAAAATTGTTGGCTTATCAATTTAAAATAAAT
81264121 GAGATAAATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.44
Consensus pattern (39 bp):
TACATTTTAAAATTGTTGGCTTATCAATTTAAAATAAAT
Found at i:81264860 original size:19 final size:20
Alignment explanation
Indices: 81264836--81264874 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
81264826 ATGATCATGT
*
81264836 CAATGCTCATTTTGT-AAAA
1 CAATGCACATTTTGTGAAAA
*
81264855 CAATGCAGATTTTGTGAAAA
1 CAATGCACATTTTGTGAAAA
81264875 TAGTCCTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
CAATGCACATTTTGTGAAAA
Found at i:81266152 original size:18 final size:17
Alignment explanation
Indices: 81266129--81266164 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
81266119 AAAGGAGGAG
*
81266129 AAATGAGAAGAGAAAAGA
1 AAATGAGAA-AAAAAAGA
81266147 AAATGAGAAAAAAAAGA
1 AAATGAGAAAAAAAAGA
81266164 A
1 A
81266165 GAAGTTGGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (17 bp):
AAATGAGAAAAAAAAGA
Found at i:81272637 original size:26 final size:26
Alignment explanation
Indices: 81272601--81272664 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
81272591 ATTGTTGGTT
* *
81272601 ACAAAAGCTGTGAAACGGGTCTGCTC
1 ACAAGAGCTGTGAAACGAGTCTGCTC
*
81272627 ACAAGAGCTGTGAAATGAGTCTGCTC
1 ACAAGAGCTGTGAAACGAGTCTGCTC
81272653 AC-AGAAGCTGTG
1 ACAAG-AGCTGTG
81272665 GGTCAGAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 2 0.06
26 32 0.94
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.20
Consensus pattern (26 bp):
ACAAGAGCTGTGAAACGAGTCTGCTC
Found at i:81275275 original size:13 final size:12
Alignment explanation
Indices: 81275240--81275273 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
81275230 CTAAATCGTG
*
81275240 AGTCAGATTGGTT
1 AGTCA-ATTTGTT
81275253 AGTCAATTTGTT
1 AGTCAATTTGTT
81275265 AGTCAATTT
1 AGTCAATTT
81275274 TGGTAGGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.44
Consensus pattern (12 bp):
AGTCAATTTGTT
Found at i:81287734 original size:30 final size:30
Alignment explanation
Indices: 81287668--81287750 Score: 84
Period size: 30 Copynumber: 2.8 Consensus size: 30
81287658 TGTTATTTTC
*
81287668 TATT-TTATTATTACTTTT-ATTACCTTTGT
1 TATTATTATTATTA-TTTTCATTACCTTCGT
81287697 T-TCTATTATTATTATTTTCATTA-CTTCCGT
1 TAT-TATTATTATTATTTTCATTACCTT-CGT
*
81287727 TATTATTATCATTATTTTCTATTA
1 TATTATTATTATTATTTTC-ATTA
81287751 TCATTAATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
28 1 0.02
29 9 0.20
30 31 0.67
31 5 0.11
ACGTcount: A:0.23, C:0.12, G:0.02, T:0.63
Consensus pattern (30 bp):
TATTATTATTATTATTTTCATTACCTTCGT
Found at i:81287822 original size:25 final size:26
Alignment explanation
Indices: 81287794--81287858 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 26
81287784 TATTATCATC
*
81287794 ATTA-TATTTACTTTTTTTAAA-TATT
1 ATTACTATTTA-TTTTTTAAAATTATT
*
81287819 ATTACCA-TTATTTTTTAAAATTATT
1 ATTACTATTTATTTTTTAAAATTATT
81287844 ATTACTA-TTATTTTT
1 ATTACTATTTATTTTT
81287859 ATTATCCGTC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.26
25 25 0.71
26 1 0.03
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (26 bp):
ATTACTATTTATTTTTTAAAATTATT
Found at i:81287832 original size:22 final size:24
Alignment explanation
Indices: 81287806--81287858 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
81287796 TATATTTACT
81287806 TTTTTTAAA-TATTATTACCATTA
1 TTTTTTAAATTATTATTACCATTA
*
81287829 TTTTTTAAAATTATTATTACTATTA
1 TTTTTT-AAATTATTATTACCATTA
81287854 TTTTT
1 TTTTT
81287859 ATTATCCGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 6 0.22
24 3 0.11
25 18 0.67
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTTTAAATTATTATTACCATTA
Found at i:81289960 original size:19 final size:19
Alignment explanation
Indices: 81289946--81290005 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 19
81289936 ATATTTAATT
81289946 AATTTTTAAAAATTTAAAA
1 AATTTTTAAAAATTTAAAA
*
81289965 AATTTTAAAAAATTATAGAAA
1 AATTTTTAAAAATT-TA-AAA
*
81289986 CTATTTTTAAAAATTATAAA
1 -AATTTTTAAAAATT-TAAA
81290006 TTAGTAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 13 0.37
20 2 0.06
21 5 0.14
22 15 0.43
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
AATTTTTAAAAATTTAAAA
Found at i:81289977 original size:10 final size:10
Alignment explanation
Indices: 81289946--81289978 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
81289936 ATATTTAATT
*
81289946 AATTTTTAAA
1 AATTTTAAAA
81289956 AA-TTTAAAA
1 AATTTTAAAA
81289965 AATTTTAAAA
1 AATTTTAAAA
81289975 AATT
1 AATT
81289979 ATAGAAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
AATTTTAAAA
Found at i:81290032 original size:19 final size:19
Alignment explanation
Indices: 81290010--81290168 Score: 108
Period size: 19 Copynumber: 8.7 Consensus size: 19
81290000 TATAAATTAG
81290010 TAAAATTATTTAAAATTTA
1 TAAAATTATTTAAAATTTA
* * ** *
81290029 TAAAA-AATATTGATTTTTT
1 TAAAATTAT-TTAAAATTTA
81290048 TAAAATTA--T-AAA-TTA
1 TAAAATTATTTAAAATTTA
*
81290063 GTAAAATTATTTAAAAATTA
1 -TAAAATTATTTAAAATTTA
* *
81290083 T-AAATTA-GTAAAATTATT
1 TAAAATTATTTAAAATT-TA
81290101 TAAAATTA--T-AAA-TTA
1 TAAAATTATTTAAAATTTA
81290116 GTAAAATTATTTAAAATTTA
1 -TAAAATTATTTAAAATTTA
81290136 TAAAATTATTTAAAATTTA
1 TAAAATTATTTAAAATTTA
*
81290155 -AAATATTAATTAAA
1 TAAA-ATTATTTAAA
81290169 TGTTGATATG
Statistics
Matches: 111, Mismatches: 14, Indels: 30
0.72 0.09 0.19
Matches are distributed among these distances:
15 3 0.03
16 18 0.16
17 10 0.09
18 16 0.14
19 57 0.51
20 7 0.06
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
TAAAATTATTTAAAATTTA
Found at i:81290060 original size:54 final size:55
Alignment explanation
Indices: 81289988--81290140 Score: 222
Period size: 53 Copynumber: 2.8 Consensus size: 55
81289978 TATAGAAACT
* **
81289988 ATTTTTAAAAATTATAAATTAGTAAAATTATTTAAAATTTATAAAAAATA-TTGA
1 ATTTTTTAAAATTATAAATTAGTAAAATTATTTAAAATTTATAAAAAATAGTAAA
* * *
81290042 TTTTTTTAAAATTATAAATTAGTAAAATTATTTAAAAATTAT--AAATTAGTAAA
1 ATTTTTTAAAATTATAAATTAGTAAAATTATTTAAAATTTATAAAAAATAGTAAA
*
81290095 ATTATTTAAAATTATAAATTAGTAAAATTATTTAAAATTTATAAAA
1 ATTTTTTAAAATTATAAATTAGTAAAATTATTTAAAATTTATAAAA
81290141 TTATTTAAAA
Statistics
Matches: 87, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
52 5 0.06
53 41 0.47
54 39 0.45
55 2 0.02
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (55 bp):
ATTTTTTAAAATTATAAATTAGTAAAATTATTTAAAATTTATAAAAAATAGTAAA
Found at i:81290112 original size:26 final size:26
Alignment explanation
Indices: 81289995--81290139 Score: 193
Period size: 26 Copynumber: 5.4 Consensus size: 26
81289985 ACTATTTTTA
81289995 AAAATTATAAATTAGTAAAATTATTT
1 AAAATTATAAATTAGTAAAATTATTT
* ** * *
81290021 AAAATTTATAAAAAATA-TTGATTTTTTT
1 AAAA-TTAT--AAATTAGTAAAATTATTT
81290049 AAAATTATAAATTAGTAAAATTATTT
1 AAAATTATAAATTAGTAAAATTATTT
81290075 AAAAATTATAAATTAGTAAAATTATTT
1 -AAAATTATAAATTAGTAAAATTATTT
81290102 AAAATTATAAATTAGTAAAATTATTT
1 AAAATTATAAATTAGTAAAATTATTT
81290128 AAAATTTATAAA
1 AAAA-TTATAAA
81290140 ATTATTTAAA
Statistics
Matches: 103, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
25 5 0.05
26 41 0.40
27 41 0.40
28 11 0.11
29 5 0.05
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (26 bp):
AAAATTATAAATTAGTAAAATTATTT
Found at i:81290142 original size:81 final size:81
Alignment explanation
Indices: 81289991--81290152 Score: 213
Period size: 81 Copynumber: 2.0 Consensus size: 81
81289981 AGAAACTATT
** * *
81289991 TTTAAAAATTATAAATTAGTAAAATTATTTAAAATTTATAAAAAATATTGATTTTTTTAAAATTA
1 TTTAAAAATTATAAATTAGTAAAATTATTTAAAATTTAT-AAAAATATAAAATTATTTAAAATTA
81290056 TAAATTA-GTAAAATTA
65 TAAATTATGTAAAATTA
*
81290072 TTTAAAAATTATAAATTAGTAAAATTATTTAAAA-TTAT-AAATTAGTAAAATTATTTAAAATTT
1 TTTAAAAATTATAAATTAGTAAAATTATTTAAAATTTATAAAAATA-TAAAATTATTTAAAA-TT
*
81290135 ATAAAATTATTTAAAATT
64 AT-AAATTATGTAAAATT
81290153 TAAAATATTA
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
78 5 0.07
79 11 0.15
80 8 0.11
81 40 0.56
82 7 0.10
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (81 bp):
TTTAAAAATTATAAATTAGTAAAATTATTTAAAATTTATAAAAATATAAAATTATTTAAAATTAT
AAATTATGTAAAATTA
Found at i:81290155 original size:26 final size:25
Alignment explanation
Indices: 81289995--81290166 Score: 159
Period size: 26 Copynumber: 6.6 Consensus size: 25
81289985 ACTATTTTTA
81289995 AAAATTATAAATTAGTAAAATTATTT
1 AAAATTATAAATTAGTAAAA-TATTT
* * * ** *
81290021 AAAATTTATAAAAAATATTGATTTTTTT
1 AAAA-TTAT--AAATTAGTAAAATATTT
81290049 AAAATTATAAATTAGTAAAATTATTT
1 AAAATTATAAATTAGTAAAA-TATTT
81290075 AAAAATTATAAATTAGTAAAATTATTT
1 -AAAATTATAAATTAGTAAAA-TATTT
81290102 AAAATTATAAATTAGTAAAATTATTT
1 AAAATTATAAATTAGTAAAA-TATTT
* *
81290128 AAAATTTATAAAATTATTTAAA-ATTT
1 AAAA-TTAT-AAATTAGTAAAATATTT
*
81290154 AAAA-TATTAATTA
1 AAAATTATAAATTA
81290167 AATGTTGATA
Statistics
Matches: 124, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
23 5 0.04
24 3 0.02
25 7 0.06
26 46 0.37
27 38 0.31
28 18 0.15
29 7 0.06
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (25 bp):
AAAATTATAAATTAGTAAAATATTT
Found at i:81299433 original size:25 final size:24
Alignment explanation
Indices: 81299377--81299452 Score: 80
Period size: 25 Copynumber: 2.9 Consensus size: 24
81299367 AAATTGAAAT
*
81299377 AAAAATTATAAATAATTAATATATAATT
1 AAAAA-TAT-AAT-ATTAATAT-TAATG
81299405 AAAAATATCAATATTAATATTAATG
1 AAAAATAT-AATATTAATATTAATG
*
81299430 AAAAATAATTATATTAATATTAA
1 AAAAAT-ATAATATTAATATTAA
81299453 AAAAAATTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
25 23 0.52
26 10 0.23
27 6 0.14
28 5 0.11
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (24 bp):
AAAAATATAATATTAATATTAATG
Found at i:81300095 original size:24 final size:24
Alignment explanation
Indices: 81300068--81300120 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
81300058 ATTTTTTTTA
**
81300068 AATATTAATATAATTGTTTTAATT
1 AATATTAATATAATAATTTTAATT
81300092 AATATTAATATAATAATTTTAATT
1 AATATTAATATAATAATTTTAATT
81300116 -ATATT
1 AATATT
81300121 GATTATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
AATATTAATATAATAATTTTAATT
Found at i:81300672 original size:2 final size:2
Alignment explanation
Indices: 81300665--81300706 Score: 75
Period size: 2 Copynumber: 20.5 Consensus size: 2
81300655 TAATCTCCAC
81300665 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A
81300707 CTACTTGTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:81308994 original size:19 final size:19
Alignment explanation
Indices: 81308962--81309001 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
81308952 GTTGAGAATG
* *
81308962 ATTTTCTTTTAGAAGCAAA
1 ATTTTATTTAAGAAGCAAA
81308981 ATTTTATTTAAGAAGCAAA
1 ATTTTATTTAAGAAGCAAA
81309000 AT
1 AT
81309002 GAAAAATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.40
Consensus pattern (19 bp):
ATTTTATTTAAGAAGCAAA
Found at i:81320241 original size:15 final size:16
Alignment explanation
Indices: 81320221--81320253 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
81320211 ATATATTTTT
81320221 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
81320236 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
81320253 T
1 T
81320254 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:81320339 original size:22 final size:22
Alignment explanation
Indices: 81320300--81320358 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
81320290 GTTTTAAGAA
*
81320300 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
81320321 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
81320343 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
81320359 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:81320378 original size:26 final size:24
Alignment explanation
Indices: 81320329--81320388 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
81320319 ATTTGTTTTA
* *
81320329 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTAAAAT
81320353 ATATTTGATTTATTATATTTTAAAAT
1 ATATTT-ATTT-TTATATTTTAAAAT
* *
81320379 TTTTTTATTT
1 ATATTTATTT
81320389 AATGAAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 6 0.20
25 8 0.27
26 16 0.53
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTAAAAT
Found at i:81320388 original size:25 final size:26
Alignment explanation
Indices: 81320332--81320389 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
81320322 TGTTTTAATA
* *
81320332 TTTATTT-TTATGTTTTTAAATATAT
1 TTTATTTATTATATTTTAAAATATAT
* *
81320357 TTGATTTATTATATTTTAAAAT-TTT
1 TTTATTTATTATATTTTAAAATATAT
81320382 TTTATTTA
1 TTTATTTA
81320390 ATGAAATAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 15 0.56
26 12 0.44
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.67
Consensus pattern (26 bp):
TTTATTTATTATATTTTAAAATATAT
Found at i:81324947 original size:28 final size:28
Alignment explanation
Indices: 81324915--81324979 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
81324905 ATTTACTAGA
*
81324915 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
81324943 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
81324971 ATACCCCTA
1 ATACCCCTA
81324980 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:81325115 original size:28 final size:29
Alignment explanation
Indices: 81325074--81325136 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
81325064 AGGAAGCGTC
*
81325074 CTGGTGGCTATGCCACAAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTAT
81325102 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGTAT
81325131 CTGGTG
1 CTGGTG
81325137 ACTCTGTCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.75
29 7 0.22
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (29 bp):
CTGGTGGCTATGCCACAAAATATCTGTAT
Found at i:81325147 original size:29 final size:28
Alignment explanation
Indices: 81325084--81325147 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
81325074 CTGGTGGCTA
* *
81325084 TGCCACAAATTATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
81325112 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
81325141 TGTCACA
1 TGCCACA
81325148 TTTTCTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:81325623 original size:19 final size:19
Alignment explanation
Indices: 81325599--81325637 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
81325589 TTTTAATTAT
* *
81325599 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
81325618 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
81325637 T
1 T
81325638 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:81334086 original size:13 final size:13
Alignment explanation
Indices: 81334070--81334094 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81334060 TATTTTGAAT
81334070 GGCACACGGGCTA
1 GGCACACGGGCTA
81334083 GGCACACGGGCT
1 GGCACACGGGCT
81334095 TATGATTGGT
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:0.20, C:0.32, G:0.40, T:0.08
Consensus pattern (13 bp):
GGCACACGGGCTA
Found at i:81339460 original size:53 final size:53
Alignment explanation
Indices: 81339380--81339483 Score: 208
Period size: 53 Copynumber: 2.0 Consensus size: 53
81339370 TTTACAATTA
81339380 AACAAAGGTTCTACTTTCTCTTCTTATAAATAGATGGCACCGGTAGGGCATTC
1 AACAAAGGTTCTACTTTCTCTTCTTATAAATAGATGGCACCGGTAGGGCATTC
81339433 AACAAAGGTTCTACTTTCTCTTCTTATAAATAGATGGCACCGGTAGGGCAT
1 AACAAAGGTTCTACTTTCTCTTCTTATAAATAGATGGCACCGGTAGGGCAT
81339484 AACACATAAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (53 bp):
AACAAAGGTTCTACTTTCTCTTCTTATAAATAGATGGCACCGGTAGGGCATTC
Found at i:81348778 original size:45 final size:44
Alignment explanation
Indices: 81348729--81348857 Score: 125
Period size: 45 Copynumber: 2.9 Consensus size: 44
81348719 GCTATACACC
* *
81348729 TAAAATGAGTGAGACCATAA-TAGAAAGACGCTATAACATCATGAT
1 TAAAATGAGTAAGACCATAACT-GAAAGACGCTATAACATCAT-AA
* * * * *
81348774 TAAAATGAGTAAGACTATAACTGAAATATGCTATGACATCGTAA
1 TAAAATGAGTAAGACCATAACTGAAAGACGCTATAACATCATAA
** * *
81348818 TATAAATGAGTAAGACCATGGCTAAAAGACGCTATGACAT
1 TA-AAATGAGTAAGACCATAACTGAAAGACGCTATAACAT
81348858 TATGTGAAAG
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
44 3 0.04
45 65 0.94
46 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (44 bp):
TAAAATGAGTAAGACCATAACTGAAAGACGCTATAACATCATAA
Found at i:81349074 original size:27 final size:27
Alignment explanation
Indices: 81349044--81349132 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
81349034 TCAATGGGAT
* *
81349044 GTTAAAGACGGGATAGTCCAACGAGAC
1 GTTAAACACGGGATAGTCCAACGAGAA
* *
81349071 GTTAAACACGAGATAGTCCGA-GAAGAA
1 GTTAAACACGGGATAGTCCAACG-AGAA
* * *
81349098 GTTAAACACGGGATAGCCCAACGGGAT
1 GTTAAACACGGGATAGTCCAACGAGAA
81349125 GTTAAACA
1 GTTAAACA
81349133 TGGGGATCCT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.02
27 49 0.96
28 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.27, T:0.16
Consensus pattern (27 bp):
GTTAAACACGGGATAGTCCAACGAGAA
Found at i:81351641 original size:26 final size:27
Alignment explanation
Indices: 81351612--81351680 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 27
81351602 TTAGTTTACC
* *
81351612 AAATTACTAAAATACCCCCAG-TTGTA
1 AAATTACCAAAATACCCCCAGTTTATA
* * *
81351638 AAATTACCAAAGTACTCCCGGTTTATA
1 AAATTACCAAAATACCCCCAGTTTATA
*
81351665 AAATTACCGAAATACC
1 AAATTACCAAAATACC
81351681 GTCGATTGTA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
26 17 0.50
27 17 0.50
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (27 bp):
AAATTACCAAAATACCCCCAGTTTATA
Found at i:81351702 original size:26 final size:27
Alignment explanation
Indices: 81351633--81351976 Score: 129
Period size: 27 Copynumber: 12.9 Consensus size: 27
81351623 ATACCCCCAG
*
81351633 TTGTAAAATTACC-AAAGTACTCC-CGGT
1 TTGTAAAATTACCGAAA-TAC-CCTCGAT
* *
81351660 TTATAAAATTACCGAAATACCGTCGA-
1 TTGTAAAATTACCGAAATACCCTCGAT
** *
81351686 TTGTAAAATTATTGAAATGCCCTCGAT
1 TTGTAAAATTACCGAAATACCCTCGAT
* ** *
81351713 TTGTAGAATTACC-ATTTTAGCCTCGAT
1 TTGTAAAATTACCGA-AATACCCTCGAT
* * **
81351740 TTATAGAATTACCG-TTTCACCCTCGAT
1 TTGTAAAATTACCGAAAT-ACCCTCGAT
** ***
81351767 TTACAAAATTACCGTTTTACCCTCGAT
1 TTGTAAAATTACCGAAATACCCTCGAT
* * ** *
81351794 TTATAGAATTACC-ATTTTACCTTCGAT
1 TTGTAAAATTACCGA-AATACCCTCGAT
* **
81351821 TT-AAAAATTACC-ATTTTACCCTC-AGT
1 TTGTAAAATTACCGA-AATACCCTCGA-T
** * ***
81351847 TTACAAAATTATCGTTTTACCCTCGA-
1 TTGTAAAATTACCGAAATACCCTCGAT
* * *
81351873 TTGTGAAATTACTGAAATACCC-CTAT
1 TTGTAAAATTACCGAAATACCCTCGAT
** * *
81351899 AGGATAGAATTACCAAAATACCC-CTGAT
1 TTG-TAAAATTACCGAAATACCCTC-GAT
*
81351927 TTGTAAAATTACCAAAATACGCCTC-AT
1 TTGTAAAATTACCGAAATAC-CCTCGAT
*
81351954 TTGTGAAATTACCGAAATACCCT
1 TTGTAAAATTACCGAAATACCCT
81351977 TGTAGGGTAG
Statistics
Matches: 250, Mismatches: 50, Indels: 35
0.75 0.15 0.10
Matches are distributed among these distances:
25 3 0.01
26 65 0.26
27 169 0.68
28 12 0.05
29 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (27 bp):
TTGTAAAATTACCGAAATACCCTCGAT
Found at i:81351736 original size:27 final size:27
Alignment explanation
Indices: 81351705--81351874 Score: 200
Period size: 27 Copynumber: 6.3 Consensus size: 27
81351695 TATTGAAATG
*
81351705 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
81351732 GCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
81351759 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
81351786 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
81351813 CCTTCGATTTA-AAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
81351839 CCCTC-AGTTTACAAAATTATCGTTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
81351866 CCCTCGATT
1 CCCTCGATT
81351875 GTGAAATTAC
Statistics
Matches: 124, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
25 1 0.01
26 22 0.18
27 100 0.81
28 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:81351867 original size:80 final size:81
Alignment explanation
Indices: 81351705--81351874 Score: 256
Period size: 80 Copynumber: 2.1 Consensus size: 81
81351695 TATTGAAATG
* * *
81351705 CCCTCGATTTGTAGAATTACCATTTTAGCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTAGCCTCGATTTATAAAATTACCATTTCACCCTCGATTTA
81351770 CAAAATTACCGTTTTA
66 CAAAATTACCGTTTTA
*
81351786 CCCTCGATTTATAGAATTACCATTTTA-CCTTCGATTTA-AAAATTACCATTTTACCCTC-AGTT
1 CCCTCGATTTATAGAATTACCATTTTAGCC-TCGATTTATAAAATTACCATTTCACCCTCGA-TT
*
81351848 TACAAAATTATCGTTTTA
64 TACAAAATTACCGTTTTA
81351866 CCCTCGATT
1 CCCTCGATT
81351875 GTGAAATTAC
Statistics
Matches: 82, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
79 1 0.01
80 47 0.57
81 34 0.41
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTAGCCTCGATTTATAAAATTACCATTTCACCCTCGATTTA
CAAAATTACCGTTTTA
Found at i:81351990 original size:27 final size:27
Alignment explanation
Indices: 81351879--81352217 Score: 321
Period size: 27 Copynumber: 12.6 Consensus size: 27
81351869 TCGATTGTGA
* * *
81351879 AATTACTGAAATACCCCTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** *
81351906 AATTACCAAAATACCCCTG-ATTTGTAA
1 AATTACCGAAATACCCCTGTA-GGGTAG
* * *
81351933 AATTACCAAAATACGCCTCAT-TTGTG-A-
1 AATTACCGAAATAC-CC-C-TGTAGGGTAG
*
81351960 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
81351987 AATTACTGAAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
81352014 AATTATCGGAATAGCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
81352041 AATTATCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
81352068 AATTACC-AGAATACCCCTGTAGGGTTA-
1 AATTACCGA-AATACCCCTGTAGGG-TAG
* *
81352095 AATTACCGGAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
81352122 AATTATCGCATTACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
81352149 AATTACCGAAATACCCCTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
81352176 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
81352203 AATTACCGAGATACC
1 AATTACCGAAATACC
81352218 TTGTGAGGTA
Statistics
Matches: 257, Mismatches: 43, Indels: 24
0.79 0.13 0.07
Matches are distributed among these distances:
24 1 0.00
25 3 0.01
26 6 0.02
27 238 0.93
28 5 0.02
29 3 0.01
30 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:81352619 original size:22 final size:22
Alignment explanation
Indices: 81352567--81352631 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
81352557 TTAAAGCCTT
* *
81352567 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
81352589 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
81352611 CTGATTATGGCTCTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
81352632 ATGTATTTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 35 0.95
23 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Done.