Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 21 of 444
Found at i:5750521 original size:229 final size:227
Alignment explanation
Indices: 5750212--5750632 Score: 575
Period size: 229 Copynumber: 1.8 Consensus size: 227
5750202 GGTTTCGACA
* * *
5750212 ATTATTATTTATTATACTGGTTAAAATATGCTCTAAGTACTTATACTTTTATTACATTTGAAAAT
1 ATTATTATTTATTATACTAGTTAAAATATGATCTAAGCACTTATACTTTTATTACATTTGAAAAT
* * *
5750277 TATCTCTCCTACTATATTATATAATG-T-TC-TATCATATCATATATTAATAGTTTATATATATA
66 TAGCCCTCCTACTATATTATATAATGATATCATATCATATAATATATTAATAGTTTAT-T-TATA
*
5750339 CGCAT-ATATGATTAAACGTTATAATATCATGTAATACTATATCTTTTATTATAATCTATATTTT
129 CGCATCA-ATGATTAAACATTATAATATCATGTAATACTATATCTTTTATTATAATCTATATTTT
5750403 AATTATAGTAGTATATTGTATATTACTTATTATAT
193 AATTATAGTAGTATATTGTATATTACTTATTATAT
* *
5750438 ATTATTATTTATTACTATACTAGTTGAAATATGATCTAAGCCCTTATACTTTTCA-TACATTT-A
1 ATTATTATTTA-T--TATACTAGTTAAAATATGATCTAAGCACTTATACTTTT-ATTACATTTGA
** *
5750501 AAAGTTAGCCCTTTTACTATATTATATAATGCTATATCATATCATATAATATGTTAATAGTTTAT
62 AAA-TTAGCCCTCCTACTATATTATATAATG--ATATCATATCATATAATATATTAATAGTTTAT
* * *
5750566 TTATATGCATCAATGATTAAACATTATAATATCATGTAATATTATATTTTTTATTATAATCTATA
124 TTATACGCATCAATGATTAAACATTATAATATCATGTAATACTATATCTTTTATTATAATCTATA
5750631 TT
189 TT
5750633 AGAGTAATAG
Statistics
Matches: 169, Mismatches: 15, Indels: 16
0.85 0.08 0.08
Matches are distributed among these distances:
226 11 0.07
227 1 0.01
228 4 0.02
229 63 0.37
230 1 0.01
232 61 0.36
233 4 0.02
234 24 0.14
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (227 bp):
ATTATTATTTATTATACTAGTTAAAATATGATCTAAGCACTTATACTTTTATTACATTTGAAAAT
TAGCCCTCCTACTATATTATATAATGATATCATATCATATAATATATTAATAGTTTATTTATACG
CATCAATGATTAAACATTATAATATCATGTAATACTATATCTTTTATTATAATCTATATTTTAAT
TATAGTAGTATATTGTATATTACTTATTATAT
Found at i:5752165 original size:2 final size:2
Alignment explanation
Indices: 5752160--5752200 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
5752150 ACATACACGG
5752160 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
5752201 TAGAAATGAT
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:5753415 original size:25 final size:25
Alignment explanation
Indices: 5753381--5753487 Score: 171
Period size: 25 Copynumber: 4.2 Consensus size: 25
5753371 TGATACAAAT
*
5753381 TGATAATAGGTTAGGTAAATGTTTA
1 TGATAATAGGTTAGGTAAATGTTCA
5753406 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
5753432 TGATAAT-GGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
*
5753456 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
5753482 TGATAA
1 TGATAA
5753488 GAATTTCATG
Statistics
Matches: 78, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
24 9 0.12
25 51 0.65
26 18 0.23
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:5754995 original size:26 final size:26
Alignment explanation
Indices: 5754966--5755018 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
5754956 TTTACAGTTT
5754966 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
5754992 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
5755018 T
1 T
5755019 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:5755512 original size:137 final size:137
Alignment explanation
Indices: 5755266--5755552 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
5755256 GAGTAGTCTC
5755266 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
5755331 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
5755396 ACTGTTA
131 ACTGTTA
5755403 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
5755468 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
5755533 ACTGTTA
131 ACTGTTA
**
5755540 CCTGAATGGGCTT
1 CCCAAATGGGCTT
5755553 AGGCCCAATG
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:5758107 original size:26 final size:26
Alignment explanation
Indices: 5758078--5758159 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
5758068 TGAAATTCCA
*
5758078 ATCATAAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
5758104 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
5758130 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
5758156 ATCA
1 ATCA
5758160 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.39, C:0.27, G:0.04, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:5758534 original size:15 final size:15
Alignment explanation
Indices: 5758503--5758549 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
5758493 ATATATAGAA
5758503 ATATA-ATAC-TAACC
1 ATATATATACATAA-C
5758517 ATATATATACATAAC
1 ATATATATACATAAC
5758532 ATATATA-ACAT-AC
1 ATATATATACATAAC
5758545 ATATA
1 ATATA
5758550 AAGTATATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.23
14 9 0.29
15 12 0.39
16 3 0.10
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (15 bp):
ATATATATACATAAC
Found at i:5758718 original size:21 final size:20
Alignment explanation
Indices: 5758670--5758730 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
5758660 ACTAATATGA
* *
5758670 ATATTATTAATA-TAAAACT
1 ATATTAATAATATTAAAAAT
5758689 -TATTAATAATATTATATAAAT
1 ATATTAATAATATTA-A-AAAT
5758710 ATATT-ATAATATTAAAAAT
1 ATATTAATAATATTAAAAAT
5758729 AT
1 AT
5758731 GTACGTCATA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
18 10 0.28
19 8 0.22
20 2 0.06
21 12 0.33
22 4 0.11
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
ATATTAATAATATTAAAAAT
Found at i:5758849 original size:19 final size:20
Alignment explanation
Indices: 5758797--5758849 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
5758787 TACATTGATA
* *
5758797 ATAAATAATAAGAGGAATAAT
1 ATAAA-AATAACAGTAATAAT
5758818 -TAAAAA-AACAGTAATAAT
1 ATAAAAATAACAGTAATAAT
5758836 ATAAAAATAA-AGTA
1 ATAAAAATAACAGTA
5758850 GAAAAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 10 0.36
19 12 0.43
20 6 0.21
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (20 bp):
ATAAAAATAACAGTAATAAT
Found at i:5758894 original size:18 final size:19
Alignment explanation
Indices: 5758863--5758901 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
5758853 AAATAATATG
5758863 AAAATGAACTTAAATCTGA
1 AAAATGAACTTAAATCTGA
* *
5758882 AAAATGGAC-TAAATTTGA
1 AAAATGAACTTAAATCTGA
5758900 AA
1 AA
5758902 CAAAAACGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.54, C:0.08, G:0.13, T:0.26
Consensus pattern (19 bp):
AAAATGAACTTAAATCTGA
Found at i:5759358 original size:16 final size:16
Alignment explanation
Indices: 5759319--5759365 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
5759309 AAAAAGAGAA
* *
5759319 GAAAGGAGAG-GAAGA
1 GAAAGGAGAGAGAGGG
*
5759334 GAGAGGAGAGAGAGGG
1 GAAAGGAGAGAGAGGG
5759350 GAAAGGAGAGAG-GGG
1 GAAAGGAGAGAGAGGG
5759365 G
1 G
5759366 GCTGCTGGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (16 bp):
GAAAGGAGAGAGAGGG
Found at i:5759507 original size:2 final size:2
Alignment explanation
Indices: 5759500--5759546 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
5759490 TTGTTATGTA
5759500 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
5759542 AT AT A
1 AT AT A
5759547 GATTTGTAGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5767089 original size:21 final size:21
Alignment explanation
Indices: 5767051--5767130 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 21
5767041 TGATTCTCCT
*
5767051 TTTTATTATTTATATTTTTGTA
1 TTTT-TTATTTATCTTTTTGTA
* *
5767073 TTTTTTATTTCTCTTTTT-CA
1 TTTTTTATTTATCTTTTTGTA
** *
5767093 TTTTCCA-GTATCTTTTTGTA
1 TTTTTTATTTATCTTTTTGTA
* *
5767113 TCTTTTATTTCTCTTTTT
1 TTTTTTATTTATCTTTTT
5767131 CATTTTCCAG
Statistics
Matches: 43, Mismatches: 13, Indels: 5
0.70 0.21 0.08
Matches are distributed among these distances:
19 8 0.19
20 11 0.26
21 20 0.47
22 4 0.09
ACGTcount: A:0.14, C:0.11, G:0.04, T:0.71
Consensus pattern (21 bp):
TTTTTTATTTATCTTTTTGTA
Found at i:5767110 original size:40 final size:40
Alignment explanation
Indices: 5767065--5767144 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
5767055 ATTATTTATA
*
5767065 TTTTTGTATTTTTTATTTCTCTTTTTCATTTTCCAGTATC
1 TTTTTGTATCTTTTATTTCTCTTTTTCATTTTCCAGTATC
5767105 TTTTTGTATCTTTTATTTCTCTTTTTCATTTTCCAGTATC
1 TTTTTGTATCTTTTATTTCTCTTTTTCATTTTCCAGTATC
5767145 AAAGCATATG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.12, C:0.16, G:0.05, T:0.66
Consensus pattern (40 bp):
TTTTTGTATCTTTTATTTCTCTTTTTCATTTTCCAGTATC
Found at i:5770827 original size:26 final size:26
Alignment explanation
Indices: 5770791--5770872 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
5770781 TGAAATTCCA
5770791 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
5770817 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
5770843 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
5770869 ATCA
1 ATCA
5770873 ATTTGTAGCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:5772440 original size:24 final size:24
Alignment explanation
Indices: 5772394--5772440 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
5772384 TTTTTCCAAA
* *
5772394 AAAGATAAAAGTAAATTTTTTTTT
1 AAAGATAAAAGTAAAATTCTTTTT
5772418 AAAGATAAAAGTAAAATTCTTTT
1 AAAGATAAAAGTAAAATTCTTTT
5772441 CTTTTACATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (24 bp):
AAAGATAAAAGTAAAATTCTTTTT
Found at i:5773101 original size:2 final size:2
Alignment explanation
Indices: 5773096--5773128 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5773086 ATTAATAGCT
5773096 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 T
5773129 GCGCATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5773212 original size:16 final size:17
Alignment explanation
Indices: 5773186--5773228 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
5773176 TGTTATAATC
5773186 TATAT-TATAATAATAG
1 TATATATATAATAATAG
*
5773202 T-TATATATAATAGTAG
1 TATATATATAATAATAG
5773218 TATATTATATA
1 TATA-TATATA
5773229 TTATTGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 3 0.13
16 12 0.52
17 2 0.09
18 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (17 bp):
TATATATATAATAATAG
Found at i:5774021 original size:12 final size:12
Alignment explanation
Indices: 5774004--5774030 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
5773994 AGAAAGTTCG
5774004 GGTCAGATTCTA
1 GGTCAGATTCTA
5774016 GGTCAGATTCTA
1 GGTCAGATTCTA
5774028 GGT
1 GGT
5774031 TAGACCCTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (12 bp):
GGTCAGATTCTA
Found at i:5774114 original size:46 final size:47
Alignment explanation
Indices: 5774047--5774143 Score: 178
Period size: 46 Copynumber: 2.1 Consensus size: 47
5774037 CTGGATTGTT
*
5774047 TTTACTATAATTGTATAACAATAAGAATCACTACTGAAAAT-AAAAG
1 TTTACTATAATTGTATAACAATAAAAATCACTACTGAAAATAAAAAG
5774093 TTTACTATAATTGTATAACAATAAAAATCACTACTGAAAATAAAAAG
1 TTTACTATAATTGTATAACAATAAAAATCACTACTGAAAATAAAAAG
5774140 TTTA
1 TTTA
5774144 GGCACTTATA
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 40 0.82
47 9 0.18
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.32
Consensus pattern (47 bp):
TTTACTATAATTGTATAACAATAAAAATCACTACTGAAAATAAAAAG
Found at i:5774212 original size:20 final size:21
Alignment explanation
Indices: 5774167--5774222 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
5774157 TAATTTTGTT
* *
5774167 TATATTATATATATTTTATCA
1 TATATAATATATATTATATCA
*
5774188 T-TATAATATCTATTATAT-A
1 TATATAATATATATTATATCA
*
5774207 TATATATTATTATATT
1 TATATAATA-TATATT
5774223 GAGAGAGTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 2 0.07
20 20 0.71
21 6 0.21
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (21 bp):
TATATAATATATATTATATCA
Found at i:5776093 original size:26 final size:26
Alignment explanation
Indices: 5776058--5776193 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
5776048 TGATACAAAT
5776058 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
5776084 TAATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* * *
5776110 TAATAATAGGTTAGGTAAGTGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
5776136 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
5776162 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
5776188 TGATAA
1 TGATAA
5776194 GAATTTCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:5778225 original size:135 final size:137
Alignment explanation
Indices: 5777980--5778264 Score: 511
Period size: 135 Copynumber: 2.1 Consensus size: 137
5777970 GAGTAGTCTC
5777980 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
5778045 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCT-TGGCCCAGTATC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
5778109 ACTGTTA
131 ACTGTTA
*
5778116 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
5778180 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
5778245 ACTGTTA
131 ACTGTTA
**
5778252 CCTGAATGGGCTT
1 CCCAAATGGGCTT
5778265 AGGCCCAATG
Statistics
Matches: 143, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
135 94 0.66
136 49 0.34
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:5779529 original size:12 final size:12
Alignment explanation
Indices: 5779509--5779539 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
5779499 ACTCGGGGAA
5779509 GAGGCCGTGGTC
1 GAGGCCGTGGTC
*
5779521 GAGGGCGTGGTC
1 GAGGCCGTGGTC
5779533 GAGGCCG
1 GAGGCCG
5779540 AGGTAGTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.23, G:0.55, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:5784474 original size:26 final size:26
Alignment explanation
Indices: 5784417--5784550 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
5784407 TGATACAAAT
5784417 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
5784442 TAATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
5784468 TAATAATAGGTTAGGT-AATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
5784493 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
5784519 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
5784545 TGATAA
1 TGATAA
5784551 GAATTTCATG
Statistics
Matches: 103, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
25 43 0.42
26 60 0.58
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:5784475 original size:51 final size:51
Alignment explanation
Indices: 5784419--5784550 Score: 212
Period size: 51 Copynumber: 2.6 Consensus size: 51
5784409 ATACAAATTG
* *
5784419 ATAATAGGTTAGGTAAATGTTCATAATAATAGGTTAGGTAAATGTTTCATA
1 ATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAAATGTTCCATA
*
5784470 ATAATAGGTTAGGT-AATGTTCCATGATAATAGGTTAGGTAAATGTTCCATG
1 ATAATAGGTTAGGTAAATGTT-CATGATAATAGGTTAGGTAAATGTTCCATA
5784521 ATAATAGGTTAGGTAAATGTTTCATGATAA
1 ATAATAGGTTAGGTAAATG-TTCATGATAA
5784551 GAATTTCATG
Statistics
Matches: 75, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
50 6 0.08
51 55 0.73
52 12 0.16
53 2 0.03
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.36
Consensus pattern (51 bp):
ATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAAATGTTCCATA
Found at i:5786585 original size:136 final size:138
Alignment explanation
Indices: 5786337--5786624 Score: 501
Period size: 136 Copynumber: 2.1 Consensus size: 138
5786327 GAGTAGTCTC
5786337 CCCAAATGGGCTTGCATATGTTATACTGATGTTGCCATGTATTTTGAAATGGGCCTATGGGCCAT
1 CCCAAATGGGCTTGCATATGTTATA-TGATGTTGCCATGTATTTTGAAATGGGCCTATGGGCCAT
*
5786402 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTA
65 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTA
*
5786467 TCACTGT-TA
130 CCACT-TCTA
5786476 CCCAAATGGGCTTGCATATGTTAT-TGATGTTG-CATGTATTTTGAAATGGGCCTATGGGCCATA
1 CCCAAATGGGCTTGCATATGTTATATGATGTTGCCATGTATTTTGAAATGGGCCTATGGGCCATA
5786539 CTGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTAC
66 CTGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTAC
5786604 CACTTCTA
131 CACTTCTA
**
5786612 CCTGAATGGGCTT
1 CCCAAATGGGCTT
5786625 AGGCCCAATG
Statistics
Matches: 144, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
135 1 0.01
136 111 0.77
137 8 0.06
139 24 0.17
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (138 bp):
CCCAAATGGGCTTGCATATGTTATATGATGTTGCCATGTATTTTGAAATGGGCCTATGGGCCATA
CTGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTAC
CACTTCTA
Found at i:5788384 original size:37 final size:38
Alignment explanation
Indices: 5788334--5788412 Score: 151
Period size: 37 Copynumber: 2.1 Consensus size: 38
5788324 TAATAAAAAG
5788334 ATAAAATGTATTATTTCATTAATACTAGATCACATA-T
1 ATAAAATGTATTATTTCATTAATACTAGATCACATATT
5788371 ATAAAATGTATTATTTCATTAATACTAGATCACATATT
1 ATAAAATGTATTATTTCATTAATACTAGATCACATATT
5788409 ATAA
1 ATAA
5788413 TAGTAGAGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 36 0.88
38 5 0.12
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (38 bp):
ATAAAATGTATTATTTCATTAATACTAGATCACATATT
Found at i:5788638 original size:16 final size:17
Alignment explanation
Indices: 5788597--5788638 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
5788587 TTATTAAAAT
5788597 CTATATTATAATAATAG
1 CTATATTATAATAATAG
* *
5788614 CTTTA-TATAATAGTAG
1 CTATATTATAATAATAG
5788630 -TATATTATA
1 CTATATTATA
5788639 TATTATTGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 3 0.14
16 14 0.67
17 4 0.19
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (17 bp):
CTATATTATAATAATAG
Found at i:5788827 original size:12 final size:12
Alignment explanation
Indices: 5788805--5788837 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
5788795 ATATCATGTA
5788805 ATATTAT-ATCT
1 ATATTATAATCT
*
5788816 TTATTATAATCT
1 ATATTATAATCT
5788828 ATATTATAAT
1 ATATTATAAT
5788838 AATAGTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (12 bp):
ATATTATAATCT
Found at i:5789210 original size:17 final size:18
Alignment explanation
Indices: 5789188--5789221 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
5789178 TGAATATATT
5789188 AAAAAAGAATTA-CATTA
1 AAAAAAGAATTATCATTA
5789205 AAAAAAGAATTATCATT
1 AAAAAAGAATTATCATT
5789222 TTAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (18 bp):
AAAAAAGAATTATCATTA
Found at i:5798422 original size:26 final size:26
Alignment explanation
Indices: 5798393--5798500 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
5798383 TGGTACAAAT
*
5798393 TGATAACGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
5798419 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
5798445 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
5798471 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
5798497 TGAT
1 TGAT
5798501 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:5799985 original size:28 final size:26
Alignment explanation
Indices: 5799943--5800017 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
5799933 AAAAGTAGCT
* *
5799943 AAATTACTATAATACCCCTATGTATGAA
1 AAATTACTGTTATACCCCTA-G-ATGAA
* *
5799971 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGAA
*
5799997 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
5800018 GGTTAATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.31
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGAA
Found at i:5800160 original size:27 final size:27
Alignment explanation
Indices: 5800119--5800231 Score: 122
Period size: 27 Copynumber: 4.2 Consensus size: 27
5800109 GAGGAAGCGT
*
5800119 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
5800146 TCTGGTGGCTCTGCCACATATATCT-A
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
5800172 TTCTGGTGGCTCTGCCACGATTATCTGTA
1 -TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
5800201 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
5800227 TCTGG
1 TCTGG
5800232 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.71
28 15 0.20
29 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:5800224 original size:54 final size:54
Alignment explanation
Indices: 5800118--5800231 Score: 158
Period size: 54 Copynumber: 2.1 Consensus size: 54
5800108 GGAGGAAGCG
*
5800118 TTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTA
1 TTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTA
* * * * *
5800172 TTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTG
1 TTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTA
5800226 TTCTGG
1 TTCTGG
5800232 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.37
Consensus pattern (54 bp):
TTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTA
Found at i:5801236 original size:16 final size:17
Alignment explanation
Indices: 5801210--5801252 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
5801200 TATTATAATC
5801210 TATAT-TATAATAATAG
1 TATATATATAATAATAG
*
5801226 T-TATATATAATAGTAG
1 TATATATATAATAATAG
5801242 TATATTATATA
1 TATA-TATATA
5801253 TTATTGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 3 0.13
16 12 0.52
17 2 0.09
18 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (17 bp):
TATATATATAATAATAG
Found at i:5801951 original size:22 final size:22
Alignment explanation
Indices: 5801926--5801967 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
5801916 TAGGTTTTGA
5801926 GCCATATTGATATTGGGCTCAG
1 GCCATATTGATATTGGGCTCAG
*
5801948 GCCATATTGGTATTGGGCTC
1 GCCATATTGATATTGGGCTC
5801968 GGGTTCTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (22 bp):
GCCATATTGATATTGGGCTCAG
Found at i:5804389 original size:11 final size:11
Alignment explanation
Indices: 5804373--5804415 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
5804363 TAGAATATAT
5804373 CCCATACCTTG
1 CCCATACCTTG
* *
5804384 CCCATACATTT
1 CCCATACCTTG
*
5804395 CCCATACC-TA
1 CCCATACCTTG
5804405 CCCATACCTTG
1 CCCATACCTTG
5804416 GAAAGGTCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.23, C:0.44, G:0.05, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:5809042 original size:11 final size:11
Alignment explanation
Indices: 5809026--5809068 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
5809016 TAGAATATAT
5809026 CCCATACCTTG
1 CCCATACCTTG
*
5809037 CCCATACCTTT
1 CCCATACCTTG
*
5809048 CCCATACC-TA
1 CCCATACCTTG
5809058 CCCATACCTTG
1 CCCATACCTTG
5809069 GAAAGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.21, C:0.47, G:0.05, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:5809053 original size:22 final size:21
Alignment explanation
Indices: 5809025--5809067 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
5809015 TTAGAATATA
*
5809025 TCCCATACCTTGCCCATACCTT
1 TCCCATACC-TACCCATACCTT
5809047 TCCCATACCTACCCATACCTT
1 TCCCATACCTACCCATACCTT
5809068 GGAAAGGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.21, C:0.47, G:0.02, T:0.30
Consensus pattern (21 bp):
TCCCATACCTACCCATACCTT
Found at i:5811219 original size:9 final size:9
Alignment explanation
Indices: 5811178--5811227 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
5811168 TAATTTTGTT
5811178 TATATTATA
1 TATATTATA
*
5811187 TATTTTATCA
1 TATATTAT-A
*
5811197 T-TATAATA
1 TATATTATA
*
5811205 TCTATTATA
1 TATATTATA
5811214 TATATTAT-
1 TATATTATA
5811222 TATATT
1 TATATT
5811228 GAGAGAGTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
8 8 0.24
9 24 0.71
10 2 0.06
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (9 bp):
TATATTATA
Found at i:5813714 original size:25 final size:25
Alignment explanation
Indices: 5813666--5813714 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
5813656 TACTCTTACT
*
5813666 AAAAGATAAATAGAAAAAGCAAAAA
1 AAAAGATAAATAGAAAAAGAAAAAA
*
5813691 AAAAGAT-AATAGAAATAATAAAAA
1 AAAAGATAAATAGAAA-AAGAAAAA
5813715 GATAAAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (25 bp):
AAAAGATAAATAGAAAAAGAAAAAA
Found at i:5814010 original size:16 final size:17
Alignment explanation
Indices: 5813984--5814026 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
5813974 TATTATAATC
5813984 TATAT-TATAATAATAG
1 TATATATATAATAATAG
*
5814000 T-TATATATAATAGTAG
1 TATATATATAATAATAG
5814016 TATATTATATA
1 TATA-TATATA
5814027 TTATTGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 3 0.13
16 12 0.52
17 2 0.09
18 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (17 bp):
TATATATATAATAATAG
Found at i:5814461 original size:16 final size:18
Alignment explanation
Indices: 5814433--5814472 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
5814423 TACATATATA
5814433 ATTTTAGTATTAAA-AAT
1 ATTTTAGTATTAAAGAAT
5814450 ATTTTA-TATTAAAGTAAT
1 ATTTTAGTATTAAAG-AAT
5814468 ATTTT
1 ATTTT
5814473 TAAAATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 6 0.29
18 8 0.38
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (18 bp):
ATTTTAGTATTAAAGAAT
Found at i:5818434 original size:19 final size:20
Alignment explanation
Indices: 5818407--5818450 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
5818397 TGAAAAGCAA
5818407 TAATAAAATTATTAA-AAAT
1 TAATAAAATTATTAATAAAT
* *
5818426 TAATTAAATTTTTAATAAA-
1 TAATAAAATTATTAATAAAT
5818445 TAATAA
1 TAATAA
5818451 TATTTAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TAATAAAATTATTAATAAAT
Found at i:5824587 original size:33 final size:33
Alignment explanation
Indices: 5824545--5824612 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
5824535 CAAATAACTC
5824545 ATGTAAATTTATTATCGATAAAAAATTAATATA
1 ATGTAAATTTATTATCGATAAAAAATTAATATA
5824578 ATGTAAATTTATTATCGATAAAAAATTAATATA
1 ATGTAAATTTATTATCGATAAAAAATTAATATA
5824611 AT
1 AT
5824613 TATAATTATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (33 bp):
ATGTAAATTTATTATCGATAAAAAATTAATATA
Found at i:5824603 original size:18 final size:18
Alignment explanation
Indices: 5824549--5824604 Score: 55
Period size: 16 Copynumber: 3.3 Consensus size: 18
5824539 TAACTCATGT
5824549 AAATTTATTATCGATAAA
1 AAATTTATTATCGATAAA
* * **
5824567 AAA-TTAATAT-AAT-GT
1 AAATTTATTATCGATAAA
5824582 AAATTTATTATCGATAAA
1 AAATTTATTATCGATAAA
5824600 AAATT
1 AAATT
5824605 AATATAATTA
Statistics
Matches: 27, Mismatches: 8, Indels: 6
0.66 0.20 0.15
Matches are distributed among these distances:
15 3 0.11
16 8 0.30
17 8 0.30
18 8 0.30
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.39
Consensus pattern (18 bp):
AAATTTATTATCGATAAA
Found at i:5827732 original size:17 final size:18
Alignment explanation
Indices: 5827710--5827748 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
5827700 TTTAGGTGTG
*
5827710 TTGACATTGGTACG-TAT
1 TTGACATGGGTACGTTAT
*
5827727 TTGACATGGGTATGTTAT
1 TTGACATGGGTACGTTAT
5827745 TTGA
1 TTGA
5827749 AGGGTCGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.23, C:0.08, G:0.26, T:0.44
Consensus pattern (18 bp):
TTGACATGGGTACGTTAT
Found at i:5829985 original size:16 final size:16
Alignment explanation
Indices: 5829964--5829999 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
5829954 ATCATTACAT
*
5829964 GTTTTAGTCAATTTAA
1 GTTTTAATCAATTTAA
*
5829980 GTTTTAATCATTTTAA
1 GTTTTAATCAATTTAA
5829996 GTTT
1 GTTT
5830000 GAGTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.11, T:0.56
Consensus pattern (16 bp):
GTTTTAATCAATTTAA
Found at i:5833026 original size:7 final size:7
Alignment explanation
Indices: 5833016--5833040 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
5833006 AATATGAAAG
5833016 AAATTAA
1 AAATTAA
5833023 AAATTAA
1 AAATTAA
5833030 AAATTAA
1 AAATTAA
5833037 AAAT
1 AAAT
5833041 ATAATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATTAA
Found at i:5834068 original size:17 final size:18
Alignment explanation
Indices: 5834048--5834081 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5834038 AAGTGAATTG
5834048 AAATTGT-GAAATTAAAT
1 AAATTGTAGAAATTAAAT
5834065 AAATTGTAGAAATTAAA
1 AAATTGTAGAAATTAAA
5834082 AAAAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (18 bp):
AAATTGTAGAAATTAAAT
Found at i:5834822 original size:10 final size:10
Alignment explanation
Indices: 5834795--5834844 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
5834785 TGAAATTCTA
5834795 AAAGATAAAT
1 AAAGATAAAT
*
5834805 ACCA-ATAAAT
1 A-AAGATAAAT
*
5834815 AAAGATAATT
1 AAAGATAAAT
5834825 AAAGATAAAT
1 AAAGATAAAT
5834835 GAAA-ATAAAT
1 -AAAGATAAAT
5834845 CCTAAAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 1 0.03
10 28 0.85
11 4 0.12
ACGTcount: A:0.66, C:0.04, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:5835481 original size:22 final size:24
Alignment explanation
Indices: 5835434--5835481 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
5835424 TTTATAATTT
* *
5835434 TTATGTTTTTATAAATTTTTAGAA
1 TTATGTTTTTATAAATTTCTAAAA
5835458 TTAT-TTTTTAT-AATTTCTAAAA
1 TTATGTTTTTATAAATTTCTAAAA
5835480 TT
1 TT
5835482 TATATAGTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 11 0.50
23 7 0.32
24 4 0.18
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (24 bp):
TTATGTTTTTATAAATTTCTAAAA
Found at i:5835484 original size:23 final size:25
Alignment explanation
Indices: 5835433--5835484 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
5835423 GTTTATAATT
* *
5835433 TTTATGTTTTTATAAATTTTTAGAA
1 TTTATGTTTTTATAAATTTCTAAAA
5835458 -TTAT-TTTTTAT-AATTTCTAAAA
1 TTTATGTTTTTATAAATTTCTAAAA
5835480 TTTAT
1 TTTAT
5835485 ATAGTCTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 9 0.38
23 11 0.46
24 4 0.17
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (25 bp):
TTTATGTTTTTATAAATTTCTAAAA
Found at i:5835591 original size:8 final size:8
Alignment explanation
Indices: 5835572--5835628 Score: 53
Period size: 8 Copynumber: 6.5 Consensus size: 8
5835562 ATATGTGCAT
5835572 TTTTATTAA
1 TTTTA-TAA
5835581 TTTTATAA
1 TTTTATAA
5835589 TTTTATAAA
1 TTTTAT-AA
5835598 TTATTAATAA
1 TT-TT-ATAA
5835608 TTTTTTATAA
1 --TTTTATAA
5835618 TTTTA-AA
1 TTTTATAA
5835625 TTTT
1 TTTT
5835629 TAAATAATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
7 6 0.14
8 14 0.33
9 9 0.21
10 8 0.19
11 4 0.09
12 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TTTTATAA
Found at i:5835594 original size:17 final size:17
Alignment explanation
Indices: 5835572--5835628 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
5835562 ATATGTGCAT
5835572 TTTTATTAATTTTATAA
1 TTTTATTAATTTTATAA
*
5835589 TTTTATAAATTATTAATAA
1 TTTTATTAATT-TT-ATAA
*
5835608 TTTTTTATAATTTTA-AA
1 TTTTAT-TAATTTTATAA
5835625 TTTT
1 TTTT
5835629 TAAATAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 16 0.47
18 3 0.09
19 11 0.32
20 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTATTAATTTTATAA
Found at i:5835624 original size:27 final size:30
Alignment explanation
Indices: 5835581--5835637 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 30
5835571 TTTTTATTAA
5835581 TTTTATAATTTTATAAATTATT-AATAATT
1 TTTTATAATTTTATAAATTATTAAATAATT
*
5835610 TTTTATAA-TTT-TAAATTTTTAAATAATT
1 TTTTATAATTTTATAAATTATTAAATAATT
5835638 ATTAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 8 0.31
28 10 0.38
29 8 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTTATAATTTTATAAATTATTAAATAATT
Found at i:5835644 original size:35 final size:38
Alignment explanation
Indices: 5835571--5835657 Score: 117
Period size: 36 Copynumber: 2.3 Consensus size: 38
5835561 CATATGTGCA
*
5835571 TTTTTATTAATTTTATAATTTTATAAATTATTAATAA-T
1 TTTTTA-TAATTTTATAATTTTATAAATAATTAATAATT
*
5835609 TTTTTATAATTTTA-AATTTT-TAAATAATTATTAATT
1 TTTTTATAATTTTATAATTTTATAAATAATTAATAATT
*
5835645 TTTTTATATTTTT
1 TTTTTATAATTTT
5835658 GAACTCATCT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
35 12 0.27
36 19 0.42
37 8 0.18
38 6 0.13
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (38 bp):
TTTTTATAATTTTATAATTTTATAAATAATTAATAATT
Found at i:5835647 original size:19 final size:19
Alignment explanation
Indices: 5835586--5835648 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
5835576 ATTAATTTTA
* * *
5835586 TAATTTTATAAATTATTAA
1 TAATTTTTTAAATAATTAT
5835605 TAATTTTTT--ATAATT-T
1 TAATTTTTTAAATAATTAT
*
5835621 TAAATTTTTAAATAATTAT
1 TAATTTTTTAAATAATTAT
5835640 TAATTTTTT
1 TAATTTTTT
5835649 TATATTTTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
16 8 0.22
17 5 0.14
18 6 0.17
19 17 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TAATTTTTTAAATAATTAT
Found at i:5837192 original size:28 final size:29
Alignment explanation
Indices: 5837152--5837207 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 29
5837142 TCTTAGTTGC
5837152 ATACTTATATTTACTTA-TCAAATTTTGT
1 ATACTTATATTTACTTATTCAAATTTTGT
5837180 ATACTTATATTTACTTATTCAAATTTTG
1 ATACTTATATTTACTTATTCAAATTTTG
5837208 GTCATTGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 17 0.63
29 10 0.37
ACGTcount: A:0.32, C:0.11, G:0.04, T:0.54
Consensus pattern (29 bp):
ATACTTATATTTACTTATTCAAATTTTGT
Found at i:5841899 original size:26 final size:25
Alignment explanation
Indices: 5841860--5841913 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
5841850 TAGTGACTAG
*
5841860 TTTGATCAACTAATTCTATTAATTGA
1 TTTGACCAACTAATTCTATTAATT-A
* *
5841886 TTTGACCAATTAATTTTATTAATTA
1 TTTGACCAACTAATTCTATTAATTA
5841911 TTT
1 TTT
5841914 TATAAAAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (25 bp):
TTTGACCAACTAATTCTATTAATTA
Found at i:5842997 original size:17 final size:16
Alignment explanation
Indices: 5842971--5843021 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
5842961 GGGAATTGGC
*
5842971 TTTTCATTTTACCTTTT
1 TTTTCGTTTT-CCTTTT
*
5842988 TTTTCGTTTTCTTTTT
1 TTTTCGTTTTCCTTTT
5843004 TTTCTCGTTTT-CTTTT
1 TTT-TCGTTTTCCTTTT
5843020 TT
1 TT
5843022 GACTTAGCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.47
17 16 0.53
ACGTcount: A:0.04, C:0.16, G:0.04, T:0.76
Consensus pattern (16 bp):
TTTTCGTTTTCCTTTT
Found at i:5843001 original size:15 final size:16
Alignment explanation
Indices: 5842983--5843021 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
5842973 TTCATTTTAC
5842983 CTTTTTTT-TCGTTTT
1 CTTTTTTTCTCGTTTT
5842998 CTTTTTTTTCTCGTTTT
1 C-TTTTTTTCTCGTTTT
5843015 CTTTTTT
1 CTTTTTT
5843022 GACTTAGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 13 0.59
17 8 0.36
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.79
Consensus pattern (16 bp):
CTTTTTTTCTCGTTTT
Found at i:5845524 original size:3 final size:3
Alignment explanation
Indices: 5845516--5845568 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
5845506 TCCCTCTTTT
5845516 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5845564 TTA TT
1 TTA TT
5845569 TATGTTTTCC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5848922 original size:32 final size:32
Alignment explanation
Indices: 5848886--5848986 Score: 93
Period size: 32 Copynumber: 3.2 Consensus size: 32
5848876 TTAACGCTAG
5848886 GTACCATAATAAAACACATATTAATAGTTCAT
1 GTACCATAATAAAACACATATTAATAGTTCAT
* * * * *
5848918 GTACCAT-ATTAAGCA-TTTTATAAAAG-T-AT
1 GTACCATAATAAAACACATAT-TAATAGTTCAT
*
5848947 AGATACCATAATAAAACACATATTAATAGTTCAA
1 -G-TACCATAATAAAACACATATTAATAGTTCAT
5848981 GTACCA
1 GTACCA
5848987 CATTAGATAT
Statistics
Matches: 51, Mismatches: 11, Indels: 14
0.67 0.14 0.18
Matches are distributed among these distances:
29 2 0.04
30 4 0.08
31 17 0.33
32 23 0.45
33 4 0.08
34 1 0.02
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.31
Consensus pattern (32 bp):
GTACCATAATAAAACACATATTAATAGTTCAT
Found at i:5848965 original size:63 final size:63
Alignment explanation
Indices: 5848887--5849008 Score: 192
Period size: 63 Copynumber: 1.9 Consensus size: 63
5848877 TAACGCTAGG
* *
5848887 TACCATAATAAAACACATATTAATAGTTCATGTACCATATTA-AGCATTTTATAAAAGTATAGA
1 TACCATAATAAAACACATATTAATAGTTCAAGTACCACATTAGA-CATTTTATAAAAGTATAGA
* *
5848950 TACCATAATAAAACACATATTAATAGTTCAAGTACCACATTAGATATTTTATGAAAGTA
1 TACCATAATAAAACACATATTAATAGTTCAAGTACCACATTAGACATTTTATAAAAGTA
5849009 CAAATGCCAA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
63 53 0.98
64 1 0.02
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (63 bp):
TACCATAATAAAACACATATTAATAGTTCAAGTACCACATTAGACATTTTATAAAAGTATAGA
Found at i:5849450 original size:22 final size:23
Alignment explanation
Indices: 5849425--5849483 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 23
5849415 AGTCATGCCT
5849425 GTGTGAGATAGGCT-ACATGGCC
1 GTGTGAGATAGGCTCACATGGCC
*
5849447 GTGTGAG-T-GGGTCACATGGCC
1 GTGTGAGATAGGCTCACATGGCC
*
5849468 ATGTG-GATAGG-TCACA
1 GTGTGAGATAGGCTCACA
5849484 CAACTGCGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 4 0.12
21 19 0.59
22 9 0.28
ACGTcount: A:0.22, C:0.17, G:0.37, T:0.24
Consensus pattern (23 bp):
GTGTGAGATAGGCTCACATGGCC
Found at i:5853094 original size:11 final size:11
Alignment explanation
Indices: 5853072--5853107 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
5853062 AATATTTAAC
5853072 TAAAAT-AAAA
1 TAAAATAAAAA
5853082 TAAAATAAAAA
1 TAAAATAAAAA
5853093 TAAAATAATAAA
1 TAAAATAA-AAA
5853105 TAA
1 TAA
5853108 TAAAAGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 6 0.25
11 12 0.50
12 6 0.25
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:5853130 original size:30 final size:29
Alignment explanation
Indices: 5853094--5853150 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 29
5853084 AAATAAAAAT
5853094 AAAATAATAAATAATAAA-AGAAAAGAAAGG
1 AAAATAATAAATAA-AAAGA-AAAAGAAAGG
5853124 AAAATAATAAATAAAAAGAAAAAGAAA
1 AAAATAATAAATAAAAAGAAAAAGAAA
5853151 AATTGGGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.42
30 15 0.58
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.12
Consensus pattern (29 bp):
AAAATAATAAATAAAAAGAAAAAGAAAGG
Found at i:5856884 original size:27 final size:27
Alignment explanation
Indices: 5856854--5856916 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
5856844 AGATAATTAA
5856854 AATA-AAATCTTAAAATTAAATAATCCT
1 AATATAAATCTTAAAATT-AATAATCCT
** * *
5856881 AATATTTATCTTAATATTAATTATCCT
1 AATATAAATCTTAAAATTAATAATCCT
5856908 AATATAAAT
1 AATATAAAT
5856917 AAAATAAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (27 bp):
AATATAAATCTTAAAATTAATAATCCT
Found at i:5856899 original size:28 final size:27
Alignment explanation
Indices: 5856860--5856912 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
5856850 TTAAAATAAA
5856860 ATCTTAAAATTAAATAATCCTAATATTT
1 ATCTTAAAATT-AATAATCCTAATATTT
* *
5856888 ATCTTAATATTAATTATCCTAATAT
1 ATCTTAAAATTAATAATCCTAATAT
5856913 AAATAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.45
Consensus pattern (27 bp):
ATCTTAAAATTAATAATCCTAATATTT
Found at i:5857583 original size:23 final size:23
Alignment explanation
Indices: 5857553--5857598 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
5857543 CGAGCTATCA
5857553 TAGTTGCAGCATATACATTTTTC
1 TAGTTGCAGCATATACATTTTTC
5857576 TAGTTGCAGCATATACATTTTTC
1 TAGTTGCAGCATATACATTTTTC
5857599 CCTATCTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.43
Consensus pattern (23 bp):
TAGTTGCAGCATATACATTTTTC
Found at i:5862619 original size:28 final size:28
Alignment explanation
Indices: 5862587--5862650 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
5862577 AAGAAATTAT
* *
5862587 AAATACAATTATAAATTTTCT-AATATCA
1 AAATAAAATTATAAATTTT-TAAAAATCA
5862615 AAATAAAATTATAAATTTTTAAAAATCA
1 AAATAAAATTATAAATTTTTAAAAATCA
5862643 AAATAAAA
1 AAATAAAA
5862651 AAACTTGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 1 0.03
28 32 0.97
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.34
Consensus pattern (28 bp):
AAATAAAATTATAAATTTTTAAAAATCA
Found at i:5867624 original size:11 final size:10
Alignment explanation
Indices: 5867608--5867647 Score: 57
Period size: 9 Copynumber: 4.1 Consensus size: 10
5867598 CATTTTTTTT
5867608 TATTTTTTAA
1 TATTTTTTAA
5867618 TA-TTTTTAA
1 TATTTTTTAA
5867627 -ATTTTTTAA
1 TATTTTTTAA
5867636 TAATTTTTTAA
1 T-ATTTTTTAA
5867647 T
1 T
5867648 CGAGCTAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 1 0.04
9 14 0.52
10 2 0.07
11 10 0.37
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TATTTTTTAA
Found at i:5868203 original size:18 final size:19
Alignment explanation
Indices: 5868180--5868220 Score: 75
Period size: 18 Copynumber: 2.2 Consensus size: 19
5868170 ATAATTGGGG
5868180 TTAAAATGGAATAT-AAAA
1 TTAAAATGGAATATAAAAA
5868198 TTAAAATGGAATATAAAAA
1 TTAAAATGGAATATAAAAA
5868217 TTAA
1 TTAA
5868221 GTTATAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (19 bp):
TTAAAATGGAATATAAAAA
Found at i:5875788 original size:21 final size:21
Alignment explanation
Indices: 5875762--5875802 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5875752 AGACAAGCGA
* *
5875762 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
5875783 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
5875803 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:5882462 original size:3 final size:3
Alignment explanation
Indices: 5882430--5882543 Score: 56
Period size: 3 Copynumber: 36.3 Consensus size: 3
5882420 ACCTTATTTT
*
5882430 TTA TATA TTA TAA TTA TT- TTA TTA TATA TTA TT- TATA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T-TA TTA TTA TTA
* * * ** *
5882476 TCTA TTG TATA TTG TTT TTCA CAAA TTA TTA TTA TT- TTA -CA TTA TTA
1 T-TA TTA T-TA TTA TTA TT-A -TTA TTA TTA TTA TTA TTA TTA TTA TTA
5882523 CTTA TATA TTA TTA TTA TTA T
1 -TTA T-TA TTA TTA TTA TTA T
5882544 GTCTTTACTT
Statistics
Matches: 85, Mismatches: 13, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
2 6 0.07
3 60 0.71
4 19 0.22
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:5882465 original size:19 final size:20
Alignment explanation
Indices: 5882423--5882473 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
5882413 TTTTTTAACC
5882423 TTATTTT-TTATATATTATAA
1 TTATTTTATTATATATTAT-A
5882443 TTATTTTATTATATATTAT-
1 TTATTTTATTATATATTATA
*
5882462 TTATATTATTAT
1 TTATTTTATTAT
5882474 TATCTATTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 11 0.38
20 7 0.24
21 11 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATTTTATTATATATTATA
Found at i:5882481 original size:19 final size:18
Alignment explanation
Indices: 5882423--5882667 Score: 69
Period size: 20 Copynumber: 13.1 Consensus size: 18
5882413 TTTTTTAACC
*
5882423 TTATTTTTTATA-TATTA
1 TTATTATTTATATTATTA
*
5882440 TAATTATTT-TATTA-TA
1 TTATTATTTATATTATTA
5882456 -TATTATTTATATTATTA
1 TTATTATTTATATTATTA
* *
5882473 TTATCTATTGTATATTGTTT
1 TTAT-TATT-TATATTATTA
** *
5882493 TTCACAAATTATTATTATTTTACA
1 TT-ATTATTTA-TATTA--TT--A
5882517 TTATTACTTATATATTATTA
1 TTATTA-TT-TATATTATTA
* *
5882537 TTATTATGTCT-TTACTT-
1 TTATTATTTATATTA-TTA
* *
5882554 GTATTATATAT-TTATTAA
1 TTATTATTTATATTATT-A
**
5882572 TTATTTATACATATTATATA
1 TTA-TTATTTATATTAT-TA
* *
5882592 TTATTTTTTACA-TATATA
1 TTATTATTTATATTAT-TA
* *
5882610 CTT-TCATATTATA-TATTG
1 -TTATTAT-TTATATTATTA
*
5882628 TAATTATTTATATTATTA
1 TTATTATTTATATTATTA
* *
5882646 TGTCATTTTTTATACTATTA
1 T-T-ATTATTTATATTATTA
5882666 TT
1 TT
5882668 TTTTATCTAT
Statistics
Matches: 168, Mismatches: 34, Indels: 50
0.67 0.13 0.20
Matches are distributed among these distances:
15 7 0.04
16 11 0.07
17 31 0.18
18 26 0.15
19 29 0.17
20 46 0.27
21 2 0.01
22 4 0.02
23 2 0.01
24 8 0.05
25 2 0.01
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.60
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:5882536 original size:30 final size:30
Alignment explanation
Indices: 5882423--5882541 Score: 114
Period size: 30 Copynumber: 3.8 Consensus size: 30
5882413 TTTTTTAACC
* *
5882423 TTATTTTTTATATATTATAATTATTTTATTA
1 TTATTATTTATATATTATTATTATTTTA-TA
*
5882454 TATATTATTTATATTATTATTATCTATTGTATA
1 T-TATTATTTATA-TATTATTAT-TATTTTATA
* * * *
5882487 TTGTT-TTTCACAAATTATTATTATTTTACA
1 TTATTATTT-ATATATTATTATTATTTTATA
*
5882517 TTATTACTTATATATTATTATTATT
1 TTATTATTTATATATTATTATTATT
5882542 ATGTCTTTAC
Statistics
Matches: 71, Mismatches: 12, Indels: 11
0.76 0.13 0.12
Matches are distributed among these distances:
30 25 0.35
31 14 0.20
32 15 0.21
33 11 0.15
34 6 0.08
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (30 bp):
TTATTATTTATATATTATTATTATTTTATA
Found at i:5882609 original size:20 final size:23
Alignment explanation
Indices: 5882559--5882609 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
5882549 TACTTGTATT
*
5882559 ATATATTTATTAATTATTTATAC
1 ATATATATATTAATTATTTATAC
5882582 ATATTATATATT-ATT-TTT-TAC
1 ATA-TATATATTAATTATTTATAC
5882603 ATATATA
1 ATATATA
5882610 CTTTCATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 4 0.15
21 6 0.23
22 3 0.12
23 6 0.23
24 7 0.27
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (23 bp):
ATATATATATTAATTATTTATAC
Found at i:5883000 original size:17 final size:17
Alignment explanation
Indices: 5882936--5883001 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 17
5882926 TTCTAAACCA
*
5882936 ATATATTTTATGTTT-TT
1 ATATATTATAT-TTTATT
5882953 ATATAATTATTATTCTTA-T
1 ATAT-ATTA-TATT-TTATT
*
5882972 AAATATT-T-TTTTATT
1 ATATATTATATTTTATT
5882987 ATATATTATATTTTA
1 ATATATTATATTTTA
5883002 AATCTCTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
14 3 0.08
15 9 0.23
16 2 0.05
17 9 0.23
18 7 0.18
19 9 0.23
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
ATATATTATATTTTATT
Found at i:5885944 original size:26 final size:26
Alignment explanation
Indices: 5885913--5886020 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
5885903 TGAAATTCCC
*
5885913 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
5885939 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
5885965 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
5885991 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
5886017 ATCA
1 ATCA
5886021 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:5891575 original size:25 final size:26
Alignment explanation
Indices: 5891538--5891589 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
5891528 TCAAACATGC
5891538 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
5891564 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
5891589 A
1 A
5891590 AAACTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:5893085 original size:26 final size:26
Alignment explanation
Indices: 5893056--5893137 Score: 128
Period size: 26 Copynumber: 3.2 Consensus size: 26
5893046 ATAAATTCCC
5893056 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* * *
5893082 ATCATGGAATATTTACCTAATCAATT
1 ATCATGGAACATTTACCTAAACCATT
*
5893108 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
5893134 ATCA
1 ATCA
5893138 AATTGTACCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:5893300 original size:10 final size:10
Alignment explanation
Indices: 5893285--5893312 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
5893275 TAGCCTATAG
5893285 CATTTTCAAA
1 CATTTTCAAA
5893295 CATTTTCAAA
1 CATTTTCAAA
5893305 CATTTTCA
1 CATTTTCA
5893313 CATAGGTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (10 bp):
CATTTTCAAA
Found at i:5897830 original size:26 final size:26
Alignment explanation
Indices: 5897801--5897853 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
5897791 TCAAACATGC
5897801 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
5897827 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
5897853 A
1 A
5897854 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:5901878 original size:46 final size:46
Alignment explanation
Indices: 5901818--5902259 Score: 630
Period size: 46 Copynumber: 10.0 Consensus size: 46
5901808 TTTGACATGA
* * * * * *
5901818 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
5901864 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
5901910 TGCCATGGTATCTTTCAACCATGGTCTTACACCTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
5901956 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
5902002 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
5902048 TGCCATGGTATCTTTCAACCATGGTCTCACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
5902094 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C---TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
5902132 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
5902178 AGCCATGGTATCTTTCAACCATGGTCTT--ACA---C---TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
5902216 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
5902260 AGAGCACACT
Statistics
Matches: 360, Mismatches: 19, Indels: 34
0.87 0.05 0.08
Matches are distributed among these distances:
38 67 0.19
40 6 0.02
41 2 0.01
43 2 0.01
44 6 0.02
45 4 0.01
46 273 0.76
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:5902139 original size:38 final size:38
Alignment explanation
Indices: 5902088--5902247 Score: 239
Period size: 38 Copynumber: 4.0 Consensus size: 38
5902078 ACATTTCATA
5902088 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
5902126 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C
*
5902169 ATATCAGGTAGCCATGGTATCTTTCAACCATGGTCTTACAC
1 ---TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
5902210 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
5902248 ATTTCATATC
Statistics
Matches: 112, Mismatches: 2, Indels: 16
0.86 0.02 0.12
Matches are distributed among these distances:
38 71 0.63
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
46 33 0.29
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:5902183 original size:84 final size:84
Alignment explanation
Indices: 5902042--5902259 Score: 418
Period size: 84 Copynumber: 2.6 Consensus size: 84
5902032 ACATTTCATA
* *
5902042 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTCACACATTTCATATCAGGTTGCCATGGTATCT
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTAGCCATGGTATCT
5902107 TTCAACCATGGTCTTACAC
66 TTCAACCATGGTCTTACAC
5902126 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTAGCCATGGTATCT
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTAGCCATGGTATCT
5902191 TTCAACCATGGTCTTACAC
66 TTCAACCATGGTCTTACAC
5902210 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
5902260 AGAGCACACT
Statistics
Matches: 132, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 132 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (84 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTAGCCATGGTATCT
TTCAACCATGGTCTTACAC
Found at i:5904749 original size:27 final size:27
Alignment explanation
Indices: 5904719--5904780 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
5904709 GGGCAAAATG
5904719 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
5904746 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
5904773 GTAATTTT
1 GTAATTTT
5904781 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:5904794 original size:54 final size:54
Alignment explanation
Indices: 5904736--5904886 Score: 151
Period size: 54 Copynumber: 2.8 Consensus size: 54
5904726 TACCCCACAA
** * * *
5904736 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * *
5904790 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * *
5904844 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
5904887 CTGTAAATTG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 2 0.02
54 82 0.98
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:5904852 original size:81 final size:81
Alignment explanation
Indices: 5904734--5904886 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
5904724 TTTACCCCAC
** *
5904734 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
5904798 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* * *
5904815 AAGGGTATTTTAGTAATTTTA-CAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAAC-AGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
5904879 TGGTAATT
65 TGGTAATT
5904887 CTGTAAATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 3 0.05
81 60 0.94
82 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:5904902 original size:27 final size:27
Alignment explanation
Indices: 5904763--5904886 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
5904753 TACCCTACAG
* *
5904763 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
5904790 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * * *
5904817 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
5904844 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
5904871 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
5904887 CTGTAAATTG
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
27 82 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:5904902 original size:54 final size:54
Alignment explanation
Indices: 5904763--5904888 Score: 180
Period size: 54 Copynumber: 2.3 Consensus size: 54
5904753 TACCCTACAG
* * * *
5904763 GGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTCTACAAACTAGGGGTATTTTGGTAATTTTATAAACAAA
* * *
5904817 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTCTACAAACTAGGGGTATTTTGGTAATTTTATAAACAAA
*
5904871 GGGTATTTTGGTAATTCT
1 GGGTATTTTAGTAATTCT
5904889 GTAAATTGAG
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (54 bp):
GGGTATTTTAGTAATTCTACAAACTAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:5908205 original size:28 final size:28
Alignment explanation
Indices: 5908169--5908227 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
5908159 TAGAGGTATA
5908169 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
5908197 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
5908225 TCG
1 TCG
5908228 TGATCTACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.46
Consensus pattern (28 bp):
TCGGTAATTTTGCTCTTTAGGGGTAATT
Found at i:5908878 original size:27 final size:27
Alignment explanation
Indices: 5908848--5908909 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
5908838 GGGCAAAATG
5908848 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
5908875 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
5908902 GTAATTTT
1 GTAATTTT
5908910 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:5908923 original size:54 final size:54
Alignment explanation
Indices: 5908865--5909015 Score: 151
Period size: 54 Copynumber: 2.8 Consensus size: 54
5908855 TACCCCACAA
** * * *
5908865 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * *
5908919 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * *
5908973 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
5909016 CTGTAAATTG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 2 0.02
54 82 0.98
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:5908981 original size:81 final size:81
Alignment explanation
Indices: 5908863--5909015 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
5908853 TTTACCCCAC
** *
5908863 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
5908927 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* * *
5908944 AAGGGTATTTTAGTAATTTTA-CAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAAC-AGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
5909008 TGGTAATT
65 TGGTAATT
5909016 CTGTAAATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 3 0.05
81 60 0.94
82 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:5909031 original size:27 final size:27
Alignment explanation
Indices: 5908892--5909015 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
5908882 TACCCTACAG
* *
5908892 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
5908919 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * * *
5908946 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
5908973 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
5909000 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
5909016 CTGTAAATTG
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
27 82 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:5909031 original size:54 final size:54
Alignment explanation
Indices: 5908892--5909017 Score: 180
Period size: 54 Copynumber: 2.3 Consensus size: 54
5908882 TACCCTACAG
* * * *
5908892 GGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTCTACAAACTAGGGGTATTTTGGTAATTTTATAAACAAA
* * *
5908946 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTCTACAAACTAGGGGTATTTTGGTAATTTTATAAACAAA
*
5909000 GGGTATTTTGGTAATTCT
1 GGGTATTTTAGTAATTCT
5909018 GTAAATTGAG
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (54 bp):
GGGTATTTTAGTAATTCTACAAACTAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:5911079 original size:16 final size:16
Alignment explanation
Indices: 5911058--5911089 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5911048 GCCCAATAAC
*
5911058 CTAAACTACCAGCCCA
1 CTAAACTAACAGCCCA
5911074 CTAAACTAACAGCCCA
1 CTAAACTAACAGCCCA
5911090 TTACACAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.41, G:0.06, T:0.12
Consensus pattern (16 bp):
CTAAACTAACAGCCCA
Found at i:5926909 original size:26 final size:26
Alignment explanation
Indices: 5926871--5926976 Score: 157
Period size: 26 Copynumber: 4.2 Consensus size: 26
5926861 CATGAAATTC
*
5926871 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
5926897 TTATCATGGAACATTTACCTAA--C-
1 TTATCATGGAACATTTACCTAACCCA
*
5926920 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
*
5926946 TTATCAT-GAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
5926971 TTATCA
1 TTATCA
5926977 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
23 22 0.29
24 1 0.01
25 24 0.32
26 28 0.37
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:5926926 original size:49 final size:48
Alignment explanation
Indices: 5926870--5926967 Score: 169
Period size: 49 Copynumber: 2.0 Consensus size: 48
5926860 ACATGAAATT
5926870 CTTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAA
1 CTTATCATGAAACATTTACCTAACCCATTATCAT-GAACATTTACCTAA
* *
5926919 CTTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAA
1 CTTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAA
5926967 C
1 C
5926968 CTATTATCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 15 0.32
49 32 0.68
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (48 bp):
CTTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAA
Found at i:5926980 original size:20 final size:22
Alignment explanation
Indices: 5926880--5926977 Score: 88
Period size: 25 Copynumber: 4.1 Consensus size: 22
5926870 CTTATCATGA
*
5926880 AACATTTACCTAACCCATTATC
1 AACATTTACCTAACCTATTATC
* * *
5926902 ATGGAACATTTACCTAACTTATCATGG
1 ----AACATTTACCTAACCTATTAT-C
5926929 AACATTTACCTAACCTATTATC
1 AACATTTACCTAACCTATTATC
5926951 ATGAACATTTACCTAACCTATTATC
1 ---AACATTTACCTAACCTATTATC
5926976 AA
1 AA
5926978 TTTGTATCAA
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.03
23 19 0.31
25 22 0.36
26 18 0.30
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (22 bp):
AACATTTACCTAACCTATTATC
Found at i:5932645 original size:26 final size:26
Alignment explanation
Indices: 5932607--5932715 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
5932597 CATGAAATTC
* *
5932607 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
5932633 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
5932659 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
5932685 TTATCAT-GAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
5932710 TTATCA
1 TTATCA
5932716 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 24 0.30
26 57 0.70
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:5934093 original size:71 final size:72
Alignment explanation
Indices: 5933972--5934218 Score: 399
Period size: 72 Copynumber: 3.4 Consensus size: 72
5933962 TGTTTCCAAG
* * * *
5933972 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
5934037 G-TTTCA
66 GTTTTCA
* * *
5934043 AAAATCAACTCATATCGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAACTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
5934108 GTTTGTC-
66 GTTT-TCA
5934115 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
5934180 GTTTTCA
66 GTTTTCA
*
5934187 AGAATCAACTCATATTGCGAGAGGTGAGTTGA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGA
5934219 ACCTTTTAAT
Statistics
Matches: 162, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
71 61 0.38
72 99 0.61
73 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (72 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTCA
Found at i:5934269 original size:126 final size:124
Alignment explanation
Indices: 5934106--5934343 Score: 377
Period size: 126 Copynumber: 1.9 Consensus size: 124
5934096 ATTTCAACTT
*
5934106 CTGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
1 CTGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATT
* * *
5934171 TCAATTTCTGTTTTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTC
66 TCAATTTATG-TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTTTAATTC
* * * * *
5934231 CTGTTTTTCAAAAATCAGCTCATCTTGGGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAAT
1 CTGTTTGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAAT
5934296 TTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
65 TTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
5934344 GCCTCAGGGC
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
125 43 0.42
126 60 0.58
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.32
Consensus pattern (124 bp):
CTGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATT
TCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTTTAATTC
Found at i:5934339 original size:71 final size:71
Alignment explanation
Indices: 5934236--5934374 Score: 197
Period size: 71 Copynumber: 2.0 Consensus size: 71
5934226 AATTCCTGTT
* * * * *
5934236 TTTCAAAAATCAGCTCATCTTGGGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
5934301 TTTATG
66 TTTATG
* * * *
5934307 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCATGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
5934372 TTT
66 TTT
5934375 CTGCTTTTTA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
71 59 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (71 bp):
TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
TTTATG
Found at i:5934484 original size:160 final size:158
Alignment explanation
Indices: 5934222--5934534 Score: 500
Period size: 160 Copynumber: 2.0 Consensus size: 158
5934212 GAGTTGAACC
* * * *
5934222 TTTTAATTCCTGTTTTTCAAAAATCAGCTCATCTTGGGAGAGGTGAGTTGAGCCTCAAGACACGT
1 TTTTAATTCATGTTTTCCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
*
5934287 TGAGGTAATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGG
66 TGAGGTAATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAG
* * *
5934352 GCATGCTGAGGTATTTTCAATTTCTGCT
131 ACACGCTGAGGTAATTTCAATTTCTGCT
5934380 TTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
1 TTTTAATTCATGTTTTCC-A-AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
* * *
5934445 GTTGAGGTAATTTGAATTTATGTTTCAAAAATCAACTCATCTTGCGAGAGGTGAGTTGAGCCTCA
64 GTTGAGGTAATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA
*
5934510 AGACACGTTGAGGTAATTTCAATTT
129 AGACACGCTGAGGTAATTTCAATTT
5934535 ATGTTTCAAA
Statistics
Matches: 141, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
158 16 0.11
159 1 0.01
160 124 0.88
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (158 bp):
TTTTAATTCATGTTTTCCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
TGAGGTAATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAG
ACACGCTGAGGTAATTTCAATTTCTGCT
Found at i:5934517 original size:71 final size:71
Alignment explanation
Indices: 5934401--5934566 Score: 287
Period size: 71 Copynumber: 2.3 Consensus size: 71
5934391 GTTTTCCAAG
* *
5934401 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTGAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
5934466 GTTTCA
66 GTTTCA
*
5934472 AAAATCAACTCATCTTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
5934537 GTTTCA
66 GTTTCA
* *
5934543 AAAATCAATTCATGTTGCGAGAGG
1 AAAATCAACTCATATTGCGAGAGG
5934567 ATCACATGCC
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 90 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:5935147 original size:16 final size:16
Alignment explanation
Indices: 5935126--5935157 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5935116 GCCCAATAAC
*
5935126 CTAAACTACCAGCCCA
1 CTAAACTAACAGCCCA
5935142 CTAAACTAACAGCCCA
1 CTAAACTAACAGCCCA
5935158 TTACACAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.41, G:0.06, T:0.12
Consensus pattern (16 bp):
CTAAACTAACAGCCCA
Found at i:5943353 original size:16 final size:17
Alignment explanation
Indices: 5943322--5943355 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
5943312 AATAAAAAAT
*
5943322 GAATACTACGATATAAA
1 GAATAATACGATATAAA
5943339 GAATAATAC-ATATAAA
1 GAATAATACGATATAAA
5943355 G
1 G
5943356 CAAAAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (17 bp):
GAATAATACGATATAAA
Found at i:5946285 original size:83 final size:83
Alignment explanation
Indices: 5945978--5946413 Score: 728
Period size: 83 Copynumber: 5.2 Consensus size: 83
5945968 TTCGATTTGT
* * *
5945978 AAGGATGTCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
*
5946043 CTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
5946061 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTTCTCG
1 AAGGATGCC-AAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCG
* *
5946126 ACTTGTTCATTGTAAGCAC
65 ATTTGTTCCTTGTAAGCAC
*
5946145 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCG
1 AAGGATGCC-AAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCG
5946210 ATTTGTTCCTTGTAAGCAC
65 ATTTGTTCCTTGTAAGCAC
* * *
5946229 AAGGATGCCAAACCATCTTGAGTCTATTTTAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
5946294 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
5946312 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
5946377 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* *
5946395 AAGGATACCAAATCATCTT
1 AAGGATGCCAAACCATCTT
5946414 AGATCTACTT
Statistics
Matches: 336, Mismatches: 16, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
83 177 0.53
84 159 0.47
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:5946549 original size:119 final size:119
Alignment explanation
Indices: 5946338--5946741 Score: 666
Period size: 119 Copynumber: 3.4 Consensus size: 119
5946328 CTTGAGTCTG
* * * * * * * *
5946338 TTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGATTTGTTCCTTGTAAGCACAAGGATAC
1 TTTGAGAACCTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
* * *
5946403 CAAATCATCTTAGATCTACTTCAGTATAAACATTTGAAGGTTAGATCTACTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATA
5946457 TTTGAGAACCTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACCTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
*
5946522 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATA
*
5946576 TTTGAGAACGC-CTGAGAGTCAAATATGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATA
1 TTTGAGAAC-CTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATA
5946640 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATA
65 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATA
*
5946695 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTC
1 TTTGAGAACCTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTC
5946742 AAGAATACCA
Statistics
Matches: 267, Mismatches: 16, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
119 266 1.00
120 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (119 bp):
TTTGAGAACCTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATA
Found at i:5958690 original size:24 final size:23
Alignment explanation
Indices: 5958662--5958722 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
5958652 AATATGATTT
* *
5958662 AATAATAATAATTTACATTTTTAA
1 AATAAT-ATAATTTACATATATAA
* *
5958686 AATAATATATATATATATATATAA
1 AATAATATA-ATTTACATATATAA
5958710 AATAATATAATTT
1 AATAATATAATTT
5958723 GCGATACATG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 6 0.19
24 25 0.81
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
AATAATATAATTTACATATATAA
Found at i:5958912 original size:17 final size:18
Alignment explanation
Indices: 5958892--5958928 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
5958882 AGTAATTAAT
*
5958892 AAATATAAT-ATATGTGA
1 AAATATAATAATATATGA
5958909 AAATATAATAATATATGA
1 AAATATAATAATATATGA
5958927 AA
1 AA
5958929 GAGATGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
AAATATAATAATATATGA
Found at i:5959167 original size:26 final size:25
Alignment explanation
Indices: 5959137--5959196 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
5959127 ATTTTGAAAG
*
5959137 TAATAAAACTGAATTAAGGATTAAAA
1 TAATAAAACTG-AGTAAGGATTAAAA
5959163 TAATAGATAA-TGAGTAAGGATTAAAA
1 TAATA-A-AACTGAGTAAGGATTAAAA
5959189 T--TAAAACT
1 TAATAAAACT
5959197 AGAGAGAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
22 2 0.07
23 2 0.07
24 2 0.07
26 19 0.63
27 3 0.10
28 2 0.07
ACGTcount: A:0.55, C:0.03, G:0.13, T:0.28
Consensus pattern (25 bp):
TAATAAAACTGAGTAAGGATTAAAA
Found at i:5961140 original size:60 final size:61
Alignment explanation
Indices: 5961028--5961145 Score: 143
Period size: 60 Copynumber: 1.9 Consensus size: 61
5961018 TAATGTTGAA
*
5961028 GTTAAATTTATTAAATGTTTTTAAAATTTGAATTAAATTAATAAAATTTGTAAATATTGAGG
1 GTTAAATTTATTAAA-GTTTTTAAAATTTGAATTAAATTAATAAAATGTGTAAATATTGAGG
* * * *
5961090 GTTAAATTTGTTAAA-TTTTT-ATATTT-AATATCAAATTGATAGAATGTGTAAATATT
1 GTTAAATTTATTAAAGTTTTTAAAATTTGAAT-T-AAATTAATAAAATGTGTAAATATT
5961146 AAAAGGCTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
58 3 0.06
59 6 0.12
60 26 0.53
62 14 0.29
ACGTcount: A:0.42, C:0.01, G:0.11, T:0.47
Consensus pattern (61 bp):
GTTAAATTTATTAAAGTTTTTAAAATTTGAATTAAATTAATAAAATGTGTAAATATTGAGG
Found at i:5961438 original size:3 final size:3
Alignment explanation
Indices: 5961430--5961459 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
5961420 TGTTATCCAC
5961430 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5961460 GAGAATGACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Done.