Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 99 of 349
Found at i:30709438 original size:43 final size:43
Alignment explanation
Indices: 30709332--30709458 Score: 164
Period size: 43 Copynumber: 2.9 Consensus size: 43
30709322 ATAACATTTC
* *
30709332 ATTTCACCGGCATTATAGCCTTCTAGGCTCAAAGGCTCGAATAAT
1 ATTTCACCGGCATTATAGCCTACTAGGCTCAAA-GCCCG-ATAAT
* * *
30709377 ATTTCACCGGCATCATAGCCTACTAAGCTCAAAGCCCGATATT
1 ATTTCACCGGCATTATAGCCTACTAGGCTCAAAGCCCGATAAT
* * *
30709420 ATTTCACCGGTATTATAGCCTACTAGGCCCGAAGCCCGA
1 ATTTCACCGGCATTATAGCCTACTAGGCTCAAAGCCCGA
30709459 ATATCACATT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 38 0.53
44 4 0.06
45 30 0.42
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (43 bp):
ATTTCACCGGCATTATAGCCTACTAGGCTCAAAGCCCGATAAT
Found at i:30714908 original size:45 final size:45
Alignment explanation
Indices: 30714877--30715001 Score: 142
Period size: 45 Copynumber: 2.8 Consensus size: 45
30714867 TCATTTCATT
* *
30714877 GGCATTATAGCCTACCAGGCTCGAAAGCCCGAATAGTATCTCACC
1 GGCATTATAGCCTACCAGGCCCAAAAGCCCGAATAGTATCTCACC
* * * *
30714922 GGCATTATAGCCTGCTAGGCCCAAAAGCCCGAATAGTTTCTTACC
1 GGCATTATAGCCTACCAGGCCCAAAAGCCCGAATAGTATCTCACC
* * * * * *
30714967 GACATAATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 GGCATTATAGCCTACCAGGCCCAAAAGCCCGAATA
30715002 TAATACCAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GGCATTATAGCCTACCAGGCCCAAAAGCCCGAATAGTATCTCACC
Found at i:30715042 original size:38 final size:38
Alignment explanation
Indices: 30714994--30715164 Score: 209
Period size: 38 Copynumber: 4.5 Consensus size: 38
30714984 GGCTCAAAGG
* ** * *
30714994 CCCGAATATAATACCAATACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
30715032 CCCGGATATAATACCAGCACGAAGCCTGCGGGAATTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
30715070 CCCGGATA-AATTACCAGCACAAAGCCTGCAGGATTTAA
1 CCCGGATATAA-TACCAGCACGAAGCCTGCGGGATTTAA
** * *
30715108 CCCAAATATATTACCAGCACGAAGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
30715146 CCCGGATATAATTCCAGCA
1 CCCGGATATAATACCAGCA
30715165 TATAGCCTAC
Statistics
Matches: 112, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
37 2 0.02
38 109 0.97
39 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:30715176 original size:38 final size:39
Alignment explanation
Indices: 30715017--30715164 Score: 214
Period size: 38 Copynumber: 3.9 Consensus size: 39
30715007 CCAATACTAG
30715017 GCCTGCGGGATTTAACCCGGATATAA-TACCAGCACGAA
1 GCCTGCGGGATTTAACCCGGATATAATTACCAGCACGAA
* *
30715055 GCCTGCGGGAATTAACCCGGATA-AATTACCAGCACAAA
1 GCCTGCGGGATTTAACCCGGATATAATTACCAGCACGAA
* **
30715093 GCCTGCAGGATTTAACCCAAATAT-ATTACCAGCACGAA
1 GCCTGCGGGATTTAACCCGGATATAATTACCAGCACGAA
*
30715131 GCCTACGGGATTTAACCCGGATATAATT-CCAGCA
1 GCCTGCGGGATTTAACCCGGATATAATTACCAGCA
30715165 TATAGCCTAC
Statistics
Matches: 96, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
37 2 0.02
38 91 0.95
39 3 0.03
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (39 bp):
GCCTGCGGGATTTAACCCGGATATAATTACCAGCACGAA
Found at i:30715569 original size:43 final size:44
Alignment explanation
Indices: 30715461--30715595 Score: 175
Period size: 43 Copynumber: 3.1 Consensus size: 44
30715451 ACATATCATT
*
30715461 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAAT-A
* * *
30715507 T-ATTTCACCGGCATCATAGCCTACTAAGCTCAAAGCCCG-ATA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
* * *
30715549 TCATTTCACCGGTATTATAGCCTGCTAGGCCCCAAGCCCGAATA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
30715593 TCA
1 TCA
30715596 CATTTCGATA
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
42 2 0.03
43 34 0.44
44 10 0.13
45 30 0.39
46 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (44 bp):
TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
Found at i:30717883 original size:33 final size:33
Alignment explanation
Indices: 30717846--30717913 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
30717836 TCTAAGGCAC
30717846 ATGCATGCTCATTTGTTTGGCTCAACTTCACCT
1 ATGCATGCTCATTTGTTTGGCTCAACTTCACCT
30717879 ATGCATGCTCATTTGTTTGGCTCAACTTCACCT
1 ATGCATGCTCATTTGTTTGGCTCAACTTCACCT
30717912 AT
1 AT
30717914 CTTCCATTAT
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:0.19, C:0.26, G:0.15, T:0.40
Consensus pattern (33 bp):
ATGCATGCTCATTTGTTTGGCTCAACTTCACCT
Found at i:30720617 original size:5 final size:5
Alignment explanation
Indices: 30720607--30720682 Score: 86
Period size: 5 Copynumber: 14.8 Consensus size: 5
30720597 TAGAAGATAC
30720607 TATTT TATTT TATTT TA-TT TAGTTT TATTATT TATTTT TATTT T-TATT
1 TATTT TATTT TATTT TATTT TA-TTT TA-T-TT TA-TTT TATTT TAT-TT
30720655 TATTT TA-TT TATTT TATTT TATTT TATT
1 TATTT TATTT TATTT TATTT TATTT TATT
30720683 AATTTAGTTT
Statistics
Matches: 64, Mismatches: 1, Indels: 12
0.83 0.01 0.16
Matches are distributed among these distances:
4 9 0.14
5 39 0.61
6 10 0.16
7 6 0.09
ACGTcount: A:0.21, C:0.00, G:0.01, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:30720639 original size:13 final size:12
Alignment explanation
Indices: 30720610--30720694 Score: 77
Period size: 13 Copynumber: 6.8 Consensus size: 12
30720600 AAGATACTAT
30720610 TTTATTTTATTTTA
1 TTTATTTTA--TTA
30720624 TTTAGTTTTATTA
1 TTTA-TTTTATTA
30720637 TTTATTTTTATT-
1 TTTA-TTTTATTA
*
30720649 TTTATTTATTTTA
1 TTTATTT-TATTA
30720662 TTTATTTTA-T-
1 TTTATTTTATTA
30720672 TTTATTTTATTAA
1 TTTATTTTATT-A
30720685 TTTAGTTTTA
1 TTTA-TTTTA
30720695 GCCTATTTTT
Statistics
Matches: 61, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
10 9 0.15
11 5 0.08
12 8 0.13
13 25 0.41
14 9 0.15
15 5 0.08
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.75
Consensus pattern (12 bp):
TTTATTTTATTA
Found at i:30720675 original size:19 final size:19
Alignment explanation
Indices: 30720607--30720687 Score: 96
Period size: 19 Copynumber: 4.3 Consensus size: 19
30720597 TAGAAGATAC
30720607 TATTTTATTTTATTTTATT
1 TATTTTATTTTATTTTATT
*
30720626 TAGTTTTA--TTATTTATTTT
1 TA-TTTTATTTTATTT-TATT
30720645 TATTTT-TATTTATTTTATT
1 TATTTTAT-TTTATTTTATT
30720664 TATTTTATTTTATTTTATT
1 TATTTTATTTTATTTTATT
*
30720683 AATTT
1 TATTT
30720688 AGTTTTAGCC
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
18 10 0.19
19 31 0.58
20 12 0.23
ACGTcount: A:0.22, C:0.00, G:0.01, T:0.77
Consensus pattern (19 bp):
TATTTTATTTTATTTTATT
Found at i:30730258 original size:4 final size:4
Alignment explanation
Indices: 30730239--30730281 Score: 52
Period size: 4 Copynumber: 10.2 Consensus size: 4
30730229 CAAAGAAAAT
30730239 ATAA A-AA ATAAA ATAA ATAA ATATA ATATA ATAA ATAA ATAA A
1 ATAA ATAA AT-AA ATAA ATAA ATA-A ATA-A ATAA ATAA ATAA A
30730282 ATTTAAGACT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
3 3 0.08
4 20 0.56
5 13 0.36
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:30730263 original size:22 final size:22
Alignment explanation
Indices: 30730235--30730281 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
30730225 CACACAAAGA
30730235 AAATATAA-AAAATAAAATAAAT
1 AAATATAATAAAAT-AAATAAAT
*
30730257 AAATATAATATAATAAATAAAT
1 AAATATAATAAAATAAATAAAT
30730279 AAA
1 AAA
30730282 ATTTAAGACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (22 bp):
AAATATAATAAAATAAATAAAT
Found at i:30730266 original size:18 final size:18
Alignment explanation
Indices: 30730245--30730279 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30730235 AAATATAAAA
30730245 AATAAAATAAATAAATAT
1 AATAAAATAAATAAATAT
*
30730263 AATATAATAAATAAATA
1 AATAAAATAAATAAATA
30730280 AAATTTAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AATAAAATAAATAAATAT
Found at i:30735370 original size:42 final size:43
Alignment explanation
Indices: 30735261--30735415 Score: 131
Period size: 43 Copynumber: 3.6 Consensus size: 43
30735251 TGATATGTGT
* * * *
30735261 TTTCGTGTAAGACCACATTTGGGAC-GTTGGCATCGACT-TATGA
1 TTTCATGTAAGACCACATCTGGGACAG-TGGCATC-AATATTTGA
* * * * *
30735304 TTTTCGTGTAAGACCACATTTGGGA-TGATGGTATC-GTATTTGA
1 -TTTCATGTAAGACCACATCTGGGACAG-TGGCATCAATATTTGA
30735347 TTTCATGTAAGACC-CTATCTGGGACAGTGGCATCAATATTTGA
1 TTTCATGTAAGACCAC-ATCTGGGACAGTGGCATCAATATTTGA
* *
30735390 TTACATGTAAGACCACGTCTGGGACA
1 TTTCATGTAAGACCACATCTGGGACA
30735416 TTGGTATTGT
Statistics
Matches: 94, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.01
42 27 0.29
43 34 0.36
44 32 0.34
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (43 bp):
TTTCATGTAAGACCACATCTGGGACAGTGGCATCAATATTTGA
Found at i:30744865 original size:27 final size:28
Alignment explanation
Indices: 30744812--30744865 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 28
30744802 CAAAAATTAA
** *
30744812 AAATATTTATAAAAATTTTAATTTTTAT
1 AAATATTTATAAAAATTACAATATTTAT
*
30744840 AAATCTTT-TAAAAATTACAATATTTA
1 AAATATTTATAAAAATTACAATATTTA
30744866 AAAAAGCAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (28 bp):
AAATATTTATAAAAATTACAATATTTAT
Found at i:30746574 original size:3 final size:3
Alignment explanation
Indices: 30746566--30746590 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
30746556 TTTGGGACCA
30746566 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
30746591 TACCAACACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:30754438 original size:24 final size:24
Alignment explanation
Indices: 30754379--30754452 Score: 94
Period size: 24 Copynumber: 3.0 Consensus size: 24
30754369 TCGAACTCAC
* *
30754379 CTCAGCTCGTATGAGCTTACCGATAT
1 CTCAGCTCGTAAGAGCTTACTG-T-T
*
30754405 ATCAGCTCGTAAGAGCTTACTGTT
1 CTCAGCTCGTAAGAGCTTACTGTT
*
30754429 CTCAGCTCGTCAGAGCTTACTGTT
1 CTCAGCTCGTAAGAGCTTACTGTT
30754453 TCAACTCAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
24 23 0.53
25 1 0.02
26 19 0.44
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (24 bp):
CTCAGCTCGTAAGAGCTTACTGTT
Found at i:30754470 original size:23 final size:24
Alignment explanation
Indices: 30754416--30754470 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
30754406 TCAGCTCGTA
* *
30754416 AGAGCTTACTGTTCTCAGCTCGTC
1 AGAGCTTACTGTTCTCAACTCATC
30754440 AGAGCTTACTGTT-TCAACTCAAT-
1 AGAGCTTACTGTTCTCAACTC-ATC
30754463 AGAGCTTA
1 AGAGCTTA
30754471 TTGTCCATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 14 0.50
24 14 0.50
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (24 bp):
AGAGCTTACTGTTCTCAACTCATC
Found at i:30754568 original size:19 final size:19
Alignment explanation
Indices: 30754544--30754606 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
30754534 TGACGAATGA
*
30754544 GTTATACGGATGAATTACT
1 GTTATATGGATGAATTACT
* *
30754563 GTTATATAGATGAAGTACTT
1 GTTATATGGATGAATTAC-T
* * *
30754583 TTTAAATGGATGAGTTACT
1 GTTATATGGATGAATTACT
30754602 GTTAT
1 GTTAT
30754607 TGAATAATTT
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.41
Consensus pattern (19 bp):
GTTATATGGATGAATTACT
Found at i:30762155 original size:24 final size:23
Alignment explanation
Indices: 30762119--30762196 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
30762109 CCGATATATA
30762119 AGCTC-ATATGAGCTTACTGTTCTC
1 AGCTCAATA-GAGCTTACTGTT-TC
** * *
30762143 AGCTCGTTAGAGCTTACTATTTT
1 AGCTCAATAGAGCTTACTGTTTC
30762166 AGCTCAATAGAGCTTACTGTCTATC
1 AGCTCAATAGAGCTTACTGT-T-TC
30762191 AGCTCA
1 AGCTCA
30762197 GGAGGAGCTT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
23 18 0.41
24 17 0.39
25 9 0.20
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (23 bp):
AGCTCAATAGAGCTTACTGTTTC
Found at i:30767119 original size:16 final size:15
Alignment explanation
Indices: 30767094--30767139 Score: 67
Period size: 16 Copynumber: 3.0 Consensus size: 15
30767084 CTAGATCGGC
30767094 AAAA-GCCGAAAAGT
1 AAAATGCCGAAAAGT
30767108 AGAAATGCCGAAAAGCT
1 A-AAATGCCGAAAAG-T
30767125 AAAATGCCGAAAAGT
1 AAAATGCCGAAAAGT
30767140 CAGCATTTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 1 0.03
15 4 0.14
16 22 0.76
17 2 0.07
ACGTcount: A:0.52, C:0.15, G:0.22, T:0.11
Consensus pattern (15 bp):
AAAATGCCGAAAAGT
Found at i:30768569 original size:26 final size:26
Alignment explanation
Indices: 30768540--30768595 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
30768530 TGATACAAAT
30768540 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
30768566 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
30768592 TGAT
1 TGAT
30768596 GGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:30770264 original size:27 final size:27
Alignment explanation
Indices: 30770215--30770301 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
30770205 AGGAAGTGTC
*
30770215 CTGGTGGCTATGCAACA-ATTATCTGAT
1 CTGGTGGCTATGCCACATA-TATCTGAT
* *
30770242 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACATATATCTGAT
30770269 CTGGTGGCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTATGCCAC-ATATATCTGAT
30770296 CTGGTG
1 CTGGTG
30770302 TGTAATATCC
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
27 50 0.94
28 3 0.06
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTATGCCACATATATCTGAT
Found at i:30771644 original size:46 final size:46
Alignment explanation
Indices: 30771594--30771719 Score: 191
Period size: 46 Copynumber: 2.7 Consensus size: 46
30771584 TGGTTGAGCA
* *
30771594 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
30771640 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
30771686 -CTTGAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
30771720 GGGGCGGGTT
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
45 1 0.01
46 73 0.99
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:30773076 original size:27 final size:27
Alignment explanation
Indices: 30773038--30773112 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
30773028 GGCGTTACAG
30773038 GGTGGCTCTGCCACATATATCTAT-TCT
1 GGTGGCTCTGCCACA-ATATCTATATCT
30773065 GGTGGCTCTGCCACAATATCTATATCT
1 GGTGGCTCTGCCACAATATCTATATCT
* *
30773092 GGTGACT-TCGTCACAATATCT
1 GGTGGCTCT-GCCACAATATCT
30773113 GGCAGCCTCG
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 9 0.20
27 35 0.80
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTGGCTCTGCCACAATATCTATATCT
Found at i:30774803 original size:4 final size:4
Alignment explanation
Indices: 30774794--30774824 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
30774784 ATAGGAAGAT
*
30774794 ATAA ATAA ATAA ATAA ATAA GTAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
30774825 GGGCTCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:30776772 original size:51 final size:49
Alignment explanation
Indices: 30776695--30776912 Score: 182
Period size: 45 Copynumber: 4.5 Consensus size: 49
30776685 TTTGATCTAT
* * *
30776695 TCCACTGTAACTTCAGGGAAATAAGATTTGGGATTCGTAGCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTT-GGATTC-TATCTTCAATCTGC
* *
30776746 CCCACTGCAACTTCAGGGAGATAAGATTT-G---CTATCTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGGATTCTATCTTCAATCTGC
* ** *
30776791 TCCACTGCAACTTCAGGGGGATAAGACTTGTAAATTCCATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-TT-TGGATTCTATCTTCAATCTGC
* * * * * * *
30776842 TCCACTGTAATTTCAAGGAGACAAGA-TT-CA--ATATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGGATTCTATCTTCAATCTGC
* *
30776887 TCCATTGCAACTTCAAGGAGATAAGA
1 TCCACTGCAACTTCAGGGAGATAAGA
30776913 CTTGTTTTGA
Statistics
Matches: 138, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
45 70 0.51
46 3 0.02
47 2 0.01
48 1 0.01
49 2 0.01
51 60 0.43
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (49 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTGGATTCTATCTTCAATCTGC
Found at i:30776799 original size:45 final size:45
Alignment explanation
Indices: 30776735--30777187 Score: 222
Period size: 45 Copynumber: 9.9 Consensus size: 45
30776725 GGATTCGTAG
*
30776735 CTTCAATCTGCCCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * * *
30776780 CTTCAACCTGCTCCACTGCAACTTCAGGGGGATAAGACTTGTAAATTCCAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T---TGCTAT
* * * * ***
30776831 CTTCAATCTGCTCCACTGTAATTTCAAGGAGACAAGATTCAATAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * * *
30776876 CTTCAGTCTGCTCCATTGCAACTTCAAGGAGATAAGACTTG-T-T
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* ** * * * * **
30776919 -TT-GATCTATTCTACTACAACTTCAGAGAAATAAGATCTGTAATTTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-T-T--GCTAT
* * * *
30776966 AGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTTCTAT
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * * ** * * *
30777013 TTTCGACCTATTCCACTGCAACTTCAGAGAGATAAGGTTAG-TGA-
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCT-AT
* * * * * *
30777057 CTTCAATCAGCTTCACTGCAATTTCAGGAAGATAAGATTTACCAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * * * * *
30777102 C-CCTAGTTTGCTCCACTGCAACTTC-GGGAAGTTAAGATTGGCGA-
1 CTTC-AATCTGCTCCACTGCAACTTCAGGG-AGATAAGATTTGCTAT
* * * * *
30777146 CTTTAATCTGCTTCACTGCAACTTCAAGAAGATGAGATTTGC
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGC
30777188 CAAAATTCAT
Statistics
Matches: 300, Mismatches: 85, Indels: 47
0.69 0.20 0.11
Matches are distributed among these distances:
41 23 0.08
42 3 0.01
43 2 0.01
44 63 0.21
45 130 0.43
46 1 0.00
47 6 0.02
48 2 0.01
49 2 0.01
50 3 0.01
51 65 0.22
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
Found at i:30776815 original size:96 final size:96
Alignment explanation
Indices: 30776695--30776917 Score: 250
Period size: 96 Copynumber: 2.3 Consensus size: 96
30776685 TTTGATCTAT
* * * ** *
30776695 TCCACTGTAACTTCAGGGAAATAAGATTTG-GGATTCGTAGCTTCAATCTGCCCCACTGCAACTT
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAAATTC-CAGCTTCAATCTGCCCCACTGCAACTT
* * ***
30776759 CAGGGAGATAAGATTTGCTATCTTCAACCTGC
65 CAAGGAGACAAGATTCAATATCTTCAACCTGC
* * * * *
30776791 TCCACTGCAACTTCAGGGGGATAAGACTTGTAAATTCCATCTTCAATCTGCTCCACTGTAATTTC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAAATTCCAGCTTCAATCTGCCCCACTGCAACTTC
**
30776856 AAGGAGACAAGATTCAATATCTTCAGTCTGC
66 AAGGAGACAAGATTCAATATCTTCAACCTGC
* *
30776887 TCCATTGCAACTTCAAGGAGATAAGACTTGT
1 TCCACTGCAACTTCAGGGAGATAAGACTTGT
30776918 TTTGATCTAT
Statistics
Matches: 105, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
96 101 0.96
97 4 0.04
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (96 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTGTAAATTCCAGCTTCAATCTGCCCCACTGCAACTTC
AAGGAGACAAGATTCAATATCTTCAACCTGC
Found at i:30788244 original size:93 final size:93
Alignment explanation
Indices: 30788136--30788306 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
30788126 GCCCTTAAGT
* * * *
30788136 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGGCTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
30788201 CGCGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
30788229 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30788294 CGAGTTCGGATGC
66 CGAGTTCGGATGC
30788307 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:30788293 original size:46 final size:45
Alignment explanation
Indices: 30788133--30788303 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 45
30788123 CCAGCCCTTA
* * * *
30788133 AGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
* * *
30788178 AAGTGAACTCGGGCTCAACTCAACGCGTTCGGATGCCTAGTT-ACAT-C-T
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCAT
*
30788226 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
30788271 AGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 A-GTGAACTCGGACTCAACTCAACGAGTTCGGA
30788304 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 13, Indels: 20
0.76 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 1 0.01
46 56 0.55
47 27 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
Found at i:30788760 original size:30 final size:30
Alignment explanation
Indices: 30788726--30788785 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
30788716 ATTTAATACG
30788726 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
30788756 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
30788786 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:30792599 original size:4 final size:4
Alignment explanation
Indices: 30792590--30792620 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
30792580 ATAGGAAGAT
*
30792590 ATAA ATAA ATAA ATAA ATAA GTAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
30792621 GGGCCCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:30793764 original size:14 final size:13
Alignment explanation
Indices: 30793742--30793779 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 13
30793732 AAAACTGATT
30793742 TAAAAAAAGAAAA
1 TAAAAAAAGAAAA
30793755 TAAAAGAAAGAAAA
1 TAAAA-AAAGAAAA
30793769 T-AAAAAAGAAA
1 TAAAAAAAGAAA
30793780 TAGTGACTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.08
Consensus pattern (13 bp):
TAAAAAAAGAAAA
Found at i:30797778 original size:20 final size:20
Alignment explanation
Indices: 30797741--30797778 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30797731 TATAATAATA
*
30797741 ATAATAACAATAATTAAAGT
1 ATAATAACAATAAATAAAGT
30797761 ATAATAA-AATGAAATAAA
1 ATAATAACAAT-AAATAAA
30797779 AAAGAAAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (20 bp):
ATAATAACAATAAATAAAGT
Found at i:30804105 original size:4 final size:4
Alignment explanation
Indices: 30804089--30804131 Score: 79
Period size: 4 Copynumber: 11.0 Consensus size: 4
30804079 GTTTGTTAGG
30804089 TTTC TTT- TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
30804132 ATTCAGCTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 3 0.08
4 35 0.92
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:30804266 original size:16 final size:15
Alignment explanation
Indices: 30804208--30804266 Score: 59
Period size: 16 Copynumber: 3.9 Consensus size: 15
30804198 CTTTATTAAC
30804208 TTAATT-AATCTAAA-
1 TTAATTAAAT-TAAAT
*
30804222 TTAATTAATTTAAACT
1 TTAATTAAATTAAA-T
*
30804238 TTAATTAACTTAAAT
1 TTAATTAAATTAAAT
30804253 TTAATTAAAATTAA
1 TTAATT-AAATTAA
30804267 TAAAATAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
14 10 0.26
15 9 0.24
16 19 0.50
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (15 bp):
TTAATTAAATTAAAT
Found at i:30806755 original size:31 final size:31
Alignment explanation
Indices: 30806719--30806779 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
30806709 TACAATTTGA
*
30806719 TCATTGAACTATTTGAAAGTTTTCATTTAAG
1 TCATTGAACTATTTAAAAGTTTTCATTTAAG
* *
30806750 TCATTGAACTATTTAAAATTTTTTATTTAA
1 TCATTGAACTATTTAAAAGTTTTCATTTAA
30806780 CTCAGTAGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.49
Consensus pattern (31 bp):
TCATTGAACTATTTAAAAGTTTTCATTTAAG
Found at i:30809421 original size:34 final size:34
Alignment explanation
Indices: 30809383--30809453 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
30809373 AATGAATACA
*
30809383 TAGCTTGGCATATTATACAAGCATGAAAGAAGGT
1 TAGCTTGGCATATTATACAAGCATGAAACAAGGT
30809417 TAGCTTGGCATATTATACAAGCATGAAACAAGGT
1 TAGCTTGGCATATTATACAAGCATGAAACAAGGT
30809451 TAG
1 TAG
30809454 GATTAGCTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.27
Consensus pattern (34 bp):
TAGCTTGGCATATTATACAAGCATGAAACAAGGT
Found at i:30810829 original size:261 final size:261
Alignment explanation
Indices: 30810365--30810888 Score: 1048
Period size: 261 Copynumber: 2.0 Consensus size: 261
30810355 TCAAGTATAT
30810365 TTTACTATGATTTATTTATTATGTCATATTTATTATAATTAGGGACTAATCATGACAACATGAAT
1 TTTACTATGATTTATTTATTATGTCATATTTATTATAATTAGGGACTAATCATGACAACATGAAT
30810430 AGCTAGATTCTGGTTTGAAATCCACGTATGTTTGCGATGATAATTATGAAATTAAGAATCAATGG
66 AGCTAGATTCTGGTTTGAAATCCACGTATGTTTGCGATGATAATTATGAAATTAAGAATCAATGG
30810495 AGGCGTTTAGAAGTATGTCCTACTAGATTTGTTGCATTCATCGAAGTGAATGCAAACATAAAGAA
131 AGGCGTTTAGAAGTATGTCCTACTAGATTTGTTGCATTCATCGAAGTGAATGCAAACATAAAGAA
30810560 AATAAAAGATATAATCATGACCTACTAAAAGTGGAAATATAATAATAAATAAGAGAACAATGAGA
196 AATAAAAGATATAATCATGACCTACTAAAAGTGGAAATATAATAATAAATAAGAGAACAATGAGA
30810625 G
261 G
30810626 TTTACTATGATTTATTTATTATGTCATATTTATTATAATTAGGGACTAATCATGACAACATGAAT
1 TTTACTATGATTTATTTATTATGTCATATTTATTATAATTAGGGACTAATCATGACAACATGAAT
30810691 AGCTAGATTCTGGTTTGAAATCCACGTATGTTTGCGATGATAATTATGAAATTAAGAATCAATGG
66 AGCTAGATTCTGGTTTGAAATCCACGTATGTTTGCGATGATAATTATGAAATTAAGAATCAATGG
30810756 AGGCGTTTAGAAGTATGTCCTACTAGATTTGTTGCATTCATCGAAGTGAATGCAAACATAAAGAA
131 AGGCGTTTAGAAGTATGTCCTACTAGATTTGTTGCATTCATCGAAGTGAATGCAAACATAAAGAA
30810821 AATAAAAGATATAATCATGACCTACTAAAAGTGGAAATATAATAATAAATAAGAGAACAATGAGA
196 AATAAAAGATATAATCATGACCTACTAAAAGTGGAAATATAATAATAAATAAGAGAACAATGAGA
30810886 G
261 G
30810887 TT
1 TT
30810889 CTAAAATAAC
Statistics
Matches: 263, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
261 263 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.32
Consensus pattern (261 bp):
TTTACTATGATTTATTTATTATGTCATATTTATTATAATTAGGGACTAATCATGACAACATGAAT
AGCTAGATTCTGGTTTGAAATCCACGTATGTTTGCGATGATAATTATGAAATTAAGAATCAATGG
AGGCGTTTAGAAGTATGTCCTACTAGATTTGTTGCATTCATCGAAGTGAATGCAAACATAAAGAA
AATAAAAGATATAATCATGACCTACTAAAAGTGGAAATATAATAATAAATAAGAGAACAATGAGA
G
Found at i:30828385 original size:42 final size:42
Alignment explanation
Indices: 30828338--30828421 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
30828328 GAGAGAAAAG
*
30828338 AGAAAGAGAGAATACTGGAAATTCTTATTCAATTTTTCATAA
1 AGAAAGAGAGAATACTGGAAATTCTTATTCAAATTTTCATAA
30828380 AGAAAGAGAGAATACTGGAAATTCTTATTCAAATTTTCATAA
1 AGAAAGAGAGAATACTGGAAATTCTTATTCAAATTTTCATAA
30828422 CCAGTTTTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (42 bp):
AGAAAGAGAGAATACTGGAAATTCTTATTCAAATTTTCATAA
Found at i:30838079 original size:43 final size:43
Alignment explanation
Indices: 30838064--30838189 Score: 157
Period size: 43 Copynumber: 2.9 Consensus size: 43
30838054 ATCTCATATT
30838064 GATGCCAATGTCCCAGACATGGTCTTACATGAAATCATATAAG
1 GATGCCAATGTCCCAGACATGGTCTTACATGAAATCATATAAG
* * * * *
30838107 GATGCCAATGTCCCAGACATGGTCCTAAACGTAATCACAATACA-
1 GATGCCAATGTCCCAGACATGGTCTTACATGAAATCA-TATA-AG
30838151 -ATGCCAATGTCCCAGACATGGTCTTACATGTAATATCAT
1 GATGCCAATGTCCCAGACATGGTCTTACATG-AA-ATCAT
30838190 CTCAGCAATC
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
43 60 0.87
44 4 0.06
45 5 0.07
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (43 bp):
GATGCCAATGTCCCAGACATGGTCTTACATGAAATCATATAAG
Found at i:30856321 original size:20 final size:20
Alignment explanation
Indices: 30856296--30856336 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
30856286 TCAACAAGGC
30856296 AATAAGTTTAAGGAAGGCTT
1 AATAAGTTTAAGGAAGGCTT
30856316 AATAAGTTTAAGGAAGGCTT
1 AATAAGTTTAAGGAAGGCTT
30856336 A
1 A
30856337 CACTCAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.24, T:0.29
Consensus pattern (20 bp):
AATAAGTTTAAGGAAGGCTT
Found at i:30862842 original size:47 final size:47
Alignment explanation
Indices: 30862770--30862995 Score: 187
Period size: 47 Copynumber: 4.8 Consensus size: 47
30862760 GTTAAGGTGC
* *
30862770 CGATGCCATATCCCAGACACAGTCTTACACTAGCTCATATC-TCATGT
1 CGATGCCATGTCCCAGACA-TGTCTTACACTAGCTCATATCATCATGT
* * * * * * * *
30862817 AGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTTGAGGC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCATATCATCATGT
* * *
30862865 CGATG-CATGTCCCAGACATGTCTTACACTAGCACTTGTC-TCAATGT
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCTCATATCATC-ATGT
* * * *
30862911 CGATGCCATGTCCCAGAAATGGTCTTACATTGGCTC---TCATAATGT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCATATCATCATGT
30862956 GGCCGATG-CATGTCCCAGACATGTCTTACACTAGCTCATA
1 ---CGATGCCATGTCCCAGACATGTCTTACACTAGCTCATA
30862996 CGAGTGACCC
Statistics
Matches: 140, Mismatches: 27, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
45 7 0.05
46 35 0.25
47 74 0.53
48 24 0.17
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGTCTTACACTAGCTCATATCATCATGT
Found at i:30862945 original size:94 final size:93
Alignment explanation
Indices: 30862768--30862995 Score: 305
Period size: 94 Copynumber: 2.4 Consensus size: 93
30862758 TGGTTAAGGT
* * *
30862768 GCCGATGCCATATCCCAGACACAGTCTTACACTAGCTCATATCTCATGTAGATGCCATGTCCCAG
1 GCCGATG-CATGTCCCAGACA-TGTCTTACACTAGCACATATCTCATGTAGATGCCATGTCCCAG
* **
30862833 ACATGGTCTTACACTGGCT-TACATCTTGAG
64 AAATGGTCTTACACTGGCTCT-CATAATGAG
* * *
30862863 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTTGTCTCAATGTCGATGCCATGTCCCAGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATATCTC-ATGTAGATGCCATGTCCCAGA
* *
30862928 AATGGTCTTACATTGGCTCTCATAATGTG
65 AATGGTCTTACACTGGCTCTCATAATGAG
*
30862957 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCATA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATA
30862996 CGAGTGACCC
Statistics
Matches: 117, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
93 19 0.16
94 90 0.77
95 8 0.07
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (93 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATATCTCATGTAGATGCCATGTCCCAGAA
ATGGTCTTACACTGGCTCTCATAATGAG
Found at i:30865685 original size:43 final size:43
Alignment explanation
Indices: 30865637--30865781 Score: 177
Period size: 43 Copynumber: 3.4 Consensus size: 43
30865627 TGAGATTGCA
* * *
30865637 TGTAAGACCAAGTCTGGGACATTGGCATTG-TACTATGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTA-GATGATTACG
*
30865680 TGTAAGACCATGTCTGGGACATTGGCATCGTTAGATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTAGATGATTACG
* * * *
30865723 TGTAAGACTATGTCTGGGACATTGGCATCGATATGA-GATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTA-GATGATTACG
*
30865766 TGTAAGACCATATCTG
1 TGTAAGACCATGTCTG
30865782 AGATATGGCA
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
43 85 0.96
44 4 0.04
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTAGATGATTACG
Found at i:30868884 original size:50 final size:50
Alignment explanation
Indices: 30868809--30868910 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 50
30868799 CGAAGTAGAA
*
30868809 TAAAAAGGTCCAAATTTGCTAATAAGTGCTGAGCAGTAATGCCGCAACAT
1 TAAAAAGGTCCAAATTTGCTAATAAGTACTGAGCAGTAATGCCGCAACAT
* *
30868859 TAAAAAGGTCCAGATTTGCTAATAAGTATTGAGCAGTAATGCCGCAACAT
1 TAAAAAGGTCCAAATTTGCTAATAAGTACTGAGCAGTAATGCCGCAACAT
30868909 TA
1 TA
30868911 GAGAGGAGTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (50 bp):
TAAAAAGGTCCAAATTTGCTAATAAGTACTGAGCAGTAATGCCGCAACAT
Found at i:30869342 original size:21 final size:21
Alignment explanation
Indices: 30869312--30869355 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
30869302 ATACTTTAAA
*
30869312 TATGGTAGAATATTCTCGTGC
1 TATGGCAGAATATTCTCGTGC
30869333 TATGGCAGAATATTCTCGTGC
1 TATGGCAGAATATTCTCGTGC
30869354 TA
1 TA
30869356 AGGGTTCTCA
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:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (21 bp):
TATGGCAGAATATTCTCGTGC
Found at i:30877323 original size:27 final size:27
Alignment explanation
Indices: 30877279--30877476 Score: 238
Period size: 27 Copynumber: 7.3 Consensus size: 27
30877269 AAATTGTACA
30877279 CACTAAGTGTGCGA-TTGACTATGTAG
1 CACTAAGTGTGCGATTTGACTATGTAG
*
30877305 CACTAAGTGTGCGATTTGACTATGTTG
1 CACTAAGTGTGCGATTTGACTATGTAG
** *
30877332 CACTAAGTGTGCGAAATGAATATG-ATG
1 CACTAAGTGTGCGATTTGACTATGTA-G
* * **
30877359 CACTAAGTGTGCGAATTGACCATGCGG
1 CACTAAGTGTGCGATTTGACTATGTAG
30877386 CACTAAGTGTGCGAGTTTGACTATGTAG
1 CACTAAGTGTGCGA-TTTGACTATGTAG
* *
30877414 CACTAAGTGTGCGATTTGATTACGTAG
1 CACTAAGTGTGCGATTTGACTATGTAG
* * *
30877441 CACTAAGTGTGCGAGTTGATTATATAG
1 CACTAAGTGTGCGATTTGACTATGTAG
*
30877468 CACTGAGTG
1 CACTAAGTG
30877477 AGCGGACTCA
Statistics
Matches: 149, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
26 14 0.09
27 112 0.75
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
CACTAAGTGTGCGATTTGACTATGTAG
Found at i:30877471 original size:82 final size:80
Alignment explanation
Indices: 30877279--30877476 Score: 254
Period size: 82 Copynumber: 2.4 Consensus size: 80
30877269 AAATTGTACA
*
30877279 CACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGC
1 CACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGC
*
30877344 GAAATGAATATGATG
66 GAAATGAATACGATG
* **
30877359 CACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGT
1 CACTAAGTGTGCG-ATTGACTATGTAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGT
** *
30877424 GCGATTTGATTACG-TAG
64 GCGAAATGAATACGAT-G
* * *
30877441 CACTAAGTGTGCGAGTTGATTATATAGCACTGAGTG
1 CACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTG
30877477 AGCGGACTCA
Statistics
Matches: 100, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
80 13 0.13
81 26 0.26
82 61 0.61
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (80 bp):
CACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGC
GAAATGAATACGATG
Found at i:30882409 original size:27 final size:27
Alignment explanation
Indices: 30882372--30882567 Score: 241
Period size: 27 Copynumber: 7.2 Consensus size: 27
30882362 TAAATTGTAC
30882372 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30882399 AGCACTAAGTGTGCGATTTGACTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
30882426 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30882452 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30882480 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
30882508 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30882535 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
30882562 AGCACT
1 AGCACT
30882568 GATGAGCGGA
Statistics
Matches: 146, Mismatches: 20, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
27 123 0.84
28 23 0.16
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30888249 original size:22 final size:21
Alignment explanation
Indices: 30888200--30888253 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
30888190 CGACCTGTAG
**
30888200 CACGGGCGTGTCCCAGGGTCA
1 CACGGGCGTGTCCCAGGACCA
* *
30888221 CATGGGCGTGTCCCTTGGACCA
1 CACGGGCGTGTCCC-AGGACCA
30888243 CACGGGCGTGT
1 CACGGGCGTGT
30888254 GAGCCCTGCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.13, C:0.31, G:0.37, T:0.19
Consensus pattern (21 bp):
CACGGGCGTGTCCCAGGACCA
Found at i:30899157 original size:43 final size:43
Alignment explanation
Indices: 30899110--30899197 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
30899100 TTGTCTGTCA
30899110 TTTCAAATTGAGATTGAGATTTACCTCCAGATTTTGGAATAAG
1 TTTCAAATTGAGATTGAGATTTACCTCCAGATTTTGGAATAAG
*
30899153 TTTCAAATTGAGATTGAGATTTACCTTCAGATTTTGGAATAAG
1 TTTCAAATTGAGATTGAGATTTACCTCCAGATTTTGGAATAAG
30899196 TT
1 TT
30899198 ACATGAATCC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (43 bp):
TTTCAAATTGAGATTGAGATTTACCTCCAGATTTTGGAATAAG
Found at i:30900182 original size:15 final size:16
Alignment explanation
Indices: 30900162--30900200 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
30900152 ATCATTGAGT
30900162 TTTAATTAAATAAA-G
1 TTTAATTAAATAAATG
30900177 TTTAATTAAATAAATG
1 TTTAATTAAATAAATG
30900193 TTT-ATTAA
1 TTTAATTAA
30900201 TTAAGTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (16 bp):
TTTAATTAAATAAATG
Found at i:30901118 original size:16 final size:16
Alignment explanation
Indices: 30901091--30901137 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
30901081 ATATGCGAAT
30901091 TTGCACGGGATATGTGA
1 TTGCA-GGGATATGTGA
30901108 TTGCAGGGATAAT-TGA
1 TTGCAGGGAT-ATGTGA
* *
30901124 TTGTACGGATATGT
1 TTGCAGGGATATGT
30901138 TGCGAATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.08
16 17 0.65
17 7 0.27
ACGTcount: A:0.26, C:0.09, G:0.32, T:0.34
Consensus pattern (16 bp):
TTGCAGGGATATGTGA
Found at i:30908291 original size:20 final size:21
Alignment explanation
Indices: 30908257--30908296 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
30908247 ATTTCAACAT
30908257 ATAAATAAAGATAAAAATAAA
1 ATAAATAAAGATAAAAATAAA
*
30908278 ATAAA-AAAGGTAAAAATAA
1 ATAAATAAAGATAAAAATAA
30908297 TAGGTGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.17
Consensus pattern (21 bp):
ATAAATAAAGATAAAAATAAA
Found at i:30914784 original size:43 final size:45
Alignment explanation
Indices: 30914736--30914872 Score: 190
Period size: 45 Copynumber: 3.1 Consensus size: 45
30914726 TCAGCATTTC
* *
30914736 GCCTGCTAGGCTCGAAGG-CCG-ATA-TCATTTCACTGGCATTATA
1 GCCTGCTAGGCTCGAAGGCCCGAATAGT-ATATCACCGGCATTATA
* *
30914779 GCCTGCTAGGCTCGAAGGTCCGAATAGTATATCACCGGTATTATA
1 GCCTGCTAGGCTCGAAGGCCCGAATAGTATATCACCGGCATTATA
**
30914824 GCCTGCTAGGCTTAAAGGCCCGAATAGTATATCACCGGCATTATA
1 GCCTGCTAGGCTCGAAGGCCCGAATAGTATATCACCGGCATTATA
30914869 GCCT
1 GCCT
30914873 TGTAATATCC
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
43 18 0.21
44 3 0.04
45 62 0.74
46 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (45 bp):
GCCTGCTAGGCTCGAAGGCCCGAATAGTATATCACCGGCATTATA
Found at i:30916807 original size:25 final size:26
Alignment explanation
Indices: 30916754--30916824 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 26
30916744 GAGGAAGTGC
* *
30916754 AAAAGGG-TTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTATCA
30916779 AAAAGGGCTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTTGCCCCAGTTTATCA
30916805 AAAAGGGC-TTTGCCCCAGTT
1 AAAAGGGCTTTTGCCCCAGTT
30916825 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 19 0.44
26 24 0.56
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTATCA
Found at i:30916837 original size:24 final size:25
Alignment explanation
Indices: 30916753--30916837 Score: 88
Period size: 25 Copynumber: 3.4 Consensus size: 25
30916743 GGAGGAAGTG
* *
30916753 CAAAAG-GGTTTTGCCCCAGTTTAC
1 CAAAAGAGGCTTTGCCCCAGTTTAT
30916777 CGAAAAG-GGCTTTTGCCCCAGTTTAT
1 C-AAAAGAGGC-TTTGCCCCAGTTTAT
30916803 CAAAA-AGGGCTTTGCCCCAG-TTAT
1 CAAAAGA-GGCTTTGCCCCAGTTTAT
*
30916827 TAAAAGAGGCT
1 CAAAAGAGGCT
30916838 AGCCCTCCAG
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
24 13 0.25
25 22 0.42
26 18 0.34
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (25 bp):
CAAAAGAGGCTTTGCCCCAGTTTAT
Found at i:30917082 original size:31 final size:31
Alignment explanation
Indices: 30917044--30917127 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
30917034 TTGTTACAGT
30917044 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
30917075 AAAGGCTTCGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
30917106 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
30917128 CTGAGCTTGA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:30918429 original size:47 final size:47
Alignment explanation
Indices: 30918376--30918607 Score: 419
Period size: 47 Copynumber: 4.9 Consensus size: 47
30918366 ATTATTTTCT
*
30918376 TTAACTAAGTAACTTATCCAGAAATATTAAGAACAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCAGAAATAGTAAGAACAAATTTAACAAGC
30918423 TTAACTAAGTAACTTATCCAGAAATAGTAAGAACAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCAGAAATAGTAAGAACAAATTTAACAAGC
*
30918470 TTAACTAAGTAACTTATCCGGAAATAGTAAGAACAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCAGAAATAGTAAGAACAAATTTAACAAGC
* *
30918517 TTAACTAAGTAACTTATCCAGAAATATTAAGAATAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCAGAAATAGTAAGAACAAATTTAACAAGC
*
30918564 TTAACTAAGTAACTTATCCGGAAATAGTAAGAACAAATTTAACA
1 TTAACTAAGTAACTTATCCAGAAATAGTAAGAACAAATTTAACA
30918608 TCACTTCATC
Statistics
Matches: 177, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 177 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.27
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCAGAAATAGTAAGAACAAATTTAACAAGC
Found at i:30920222 original size:13 final size:13
Alignment explanation
Indices: 30920204--30920229 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30920194 AGGGATTTGT
30920204 TTATCTAAACTAA
1 TTATCTAAACTAA
30920217 TTATCTAAACTAA
1 TTATCTAAACTAA
30920230 GGGTGCACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:30923719 original size:84 final size:85
Alignment explanation
Indices: 30923578--30923736 Score: 232
Period size: 84 Copynumber: 1.9 Consensus size: 85
30923568 CAATGTCCTA
** * ** *
30923578 ATATTTAATTGTCAACCCCATTTGGTACTCTATGATGAACAGAAGCAAAATGAATATACATTTGA
1 ATATTTAATTACCAACCCCATTTGATACTCTACAATGAACAGAAGCAAAATGAATATACATTTAA
30923643 GTAA-GAAAAGCAATAATGC
66 GTAAGGAAAAGCAATAATGC
*
30923662 ATATTTAATTACCAACCCCATTTGATACT-TGACAATGAACATAAGCAAAATGAATATACATTTA
1 ATATTTAATTACCAACCCCATTTGATACTCT-ACAATGAACAGAAGCAAAATGAATATACATTTA
30923726 AGTAAGGAAAA
65 AGTAAGGAAAA
30923737 TAATAATACA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
83 1 0.02
84 60 0.91
85 5 0.08
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.28
Consensus pattern (85 bp):
ATATTTAATTACCAACCCCATTTGATACTCTACAATGAACAGAAGCAAAATGAATATACATTTAA
GTAAGGAAAAGCAATAATGC
Found at i:30924032 original size:78 final size:77
Alignment explanation
Indices: 30923944--30924101 Score: 217
Period size: 78 Copynumber: 2.0 Consensus size: 77
30923934 CTTTATTTTA
30923944 TTTTTAAATAGGACACTTGTAAGACACTTGGTAAGCCTATAAATAGACACTTAGTAAGTCCATAG
1 TTTTTAAATAGGACACTTGTAAGACACTTGGTAAGCCTATAAATAGACACTTAGTAAGTCCATAG
30924009 ATATCCAATACAT
66 ATATCCAATA-AT
* * * ** * * * * *
30924022 TTTTTTAATAGGATACTTGTAAGACATTTTTTAAGTCTATAGATAGACACTTAGTAATTCTATAT
1 TTTTTAAATAGGACACTTGTAAGACACTTGGTAAGCCTATAAATAGACACTTAGTAAGTCCATAG
30924087 ATATCCAATAAT
66 ATATCCAATAAT
30924099 TTT
1 TTT
30924102 AAGTCAAACT
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
77 5 0.07
78 65 0.93
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (77 bp):
TTTTTAAATAGGACACTTGTAAGACACTTGGTAAGCCTATAAATAGACACTTAGTAAGTCCATAG
ATATCCAATAAT
Found at i:30934105 original size:15 final size:15
Alignment explanation
Indices: 30934064--30934097 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
30934054 GGAGCCCAGA
*
30934064 ATAAGGAAATCCAAG
1 ATAAAGAAATCCAAG
*
30934079 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
30934094 ATAA
1 ATAA
30934098 TGAGATCCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.18
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:30943916 original size:4 final size:4
Alignment explanation
Indices: 30943907--30943942 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
30943897 CCTTTTTTCT
*
30943907 TTTA TTTA TTTA TTTA TTTA TTTA -TTA TTTG TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
30943943 AAAATTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:30944839 original size:27 final size:27
Alignment explanation
Indices: 30944808--30944863 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
30944798 AACTTTACGG
30944808 TTAAAATGTACACATTTAGTAAGTTGA
1 TTAAAATGTACACATTTAGTAAGTTGA
*
30944835 TTAAATTGTACACATTTAGTAAGTTGA
1 TTAAAATGTACACATTTAGTAAGTTGA
30944862 TT
1 TT
30944864 TTAGATGCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (27 bp):
TTAAAATGTACACATTTAGTAAGTTGA
Found at i:30945292 original size:16 final size:18
Alignment explanation
Indices: 30945265--30945297 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
30945255 TGTCAATATG
30945265 GTATGATTTGT-GAATTT
1 GTATGATTTGTGGAATTT
30945282 GTATG-TTTGTGGAATT
1 GTATGATTTGTGGAATT
30945298 GAGCATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (18 bp):
GTATGATTTGTGGAATTT
Found at i:30948919 original size:22 final size:22
Alignment explanation
Indices: 30948885--30948926 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
30948875 CTACAGAAAG
* *
30948885 ATGTGAAAGAGTTTTCGATGTT
1 ATGTAAAAAAGTTTTCGATGTT
30948907 ATGTAAAAAAGTTTTCGATG
1 ATGTAAAAAAGTTTTCGATG
30948927 ATTGCTACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (22 bp):
ATGTAAAAAAGTTTTCGATGTT
Found at i:30951600 original size:20 final size:21
Alignment explanation
Indices: 30951554--30951600 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
30951544 ATGAGTTTTG
30951554 AAGTTTCTTGATAAATTATTA
1 AAGTTTCTTGATAAATTATTA
* *
30951575 ATGTTTGTTG-TAAATTA-TA
1 AAGTTTCTTGATAAATTATTA
30951594 CAAGTTT
1 -AAGTTT
30951601 TATAAAGTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 2 0.09
20 12 0.55
21 8 0.36
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (21 bp):
AAGTTTCTTGATAAATTATTA
Found at i:30952917 original size:16 final size:18
Alignment explanation
Indices: 30952890--30952922 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
30952880 TGTCAATATG
30952890 GTATGATTTGT-GAATTT
1 GTATGATTTGTGGAATTT
30952907 GTATG-TTTGTGGAATT
1 GTATGATTTGTGGAATT
30952923 GAGCATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (18 bp):
GTATGATTTGTGGAATTT
Found at i:30958729 original size:28 final size:28
Alignment explanation
Indices: 30958689--30958771 Score: 139
Period size: 28 Copynumber: 3.0 Consensus size: 28
30958679 GTCCATTGCC
* *
30958689 CGTGTCTCTCACACGACCATGACATGCT
1 CGTGTCTCTCACACGGCCATGACACGCT
*
30958717 CGTGTCTCTCACACGGCCATGACACGTT
1 CGTGTCTCTCACACGGCCATGACACGCT
30958745 CGTGTCTCTCACACGGCCATGACACGC
1 CGTGTCTCTCACACGGCCATGACACGC
30958772 CCATGTCTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.19, C:0.37, G:0.20, T:0.23
Consensus pattern (28 bp):
CGTGTCTCTCACACGGCCATGACACGCT
Found at i:30958778 original size:28 final size:28
Alignment explanation
Indices: 30958686--30958779 Score: 134
Period size: 28 Copynumber: 3.4 Consensus size: 28
30958676 CGTGTCCATT
* *
30958686 GCCCGTGTCTCTCACACGACCATGACAT
1 GCCCGTGTCTCTCACACGGCCATGACAC
*
30958714 GCTCGTGTCTCTCACACGGCCATGACAC
1 GCCCGTGTCTCTCACACGGCCATGACAC
**
30958742 GTTCGTGTCTCTCACACGGCCATGACAC
1 GCCCGTGTCTCTCACACGGCCATGACAC
*
30958770 GCCCATGTCT
1 GCCCGTGTCT
30958780 TAGCCCGTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.18, C:0.38, G:0.20, T:0.23
Consensus pattern (28 bp):
GCCCGTGTCTCTCACACGGCCATGACAC
Found at i:30959877 original size:49 final size:47
Alignment explanation
Indices: 30959769--30959890 Score: 165
Period size: 47 Copynumber: 2.6 Consensus size: 47
30959759 TGATGCCGAT
* * * * *
30959769 GCCATGTCCCAGACACGGTCTTACACTGGCTCATTCATCAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATTAATCAAGGCGAC
30959816 GCCATGTCCCAGACATGGTCTTACACTGACT-ATTGAAATCAAGGCTGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATT--AATCAAGGC-GAC
30959865 GCCATGTCCCAGACATGGTCTTACAC
1 GCCATGTCCCAGACATGGTCTTACAC
30959891 GAGCTCTCAC
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
46 3 0.04
47 29 0.43
48 7 0.10
49 28 0.42
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTCATTAATCAAGGCGAC
Found at i:30959979 original size:48 final size:47
Alignment explanation
Indices: 30959765--30960130 Score: 164
Period size: 48 Copynumber: 7.7 Consensus size: 47
30959755 GGTATGATGC
* * * * * *
30959765 CGATGCCATGTCCCAGACACGGTCTTACACTGGCTCAT-TCATCAAGT-
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACACCTCT-AT-ACGTG
* * ** *
30959812 CGATGCCATGTCCCAGACATGGTCTTACACTGACTA-TTGAAATCAAG-G
1 CGATGCCATGTCCCAAACATGGTCTTACACTGAC-ACCT-CTAT-ACGTG
* * * * * *
30959860 CTGACGCCATGTCCCAGACATGGTCTTACAC-GAGCTCTCACATATTCGTAC
1 C-GATGCCATGTCCCAAACATGGTCTTACACTGA-CAC-CTC-TATACGT-G
* * * *
30959911 CGATGCCATGTCCCAAACATGGTCTTGCATTTACACCTCTATATGTG
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACACCTCTATACGTG
* * *
30959958 TCGATGCCATGTCCTAGACATGGTTTTACACTGACACCTCTATACGTG
1 -CGATGCCATGTCCCAAACATGGTCTTACACTGACACCTCTATACGTG
* ** * * *
30960006 CTGATGCTATGTCCCTGATATAGTCTTACACTGACACATC--T-CGTAG
1 C-GATGCCATGTCCCAAACATGGTCTTACACTGACACCTCTATACGT-G
* * *
30960052 CAGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCGTCTCA-A--TG
1 C-GATGCCATGTCCCAAACATGGTCTTACACTGACAC-C-TCT-ATACGTG
* *
30960098 CCGACGCCATGTCCCAGACATGGTCTTACACTG
1 -CGATGCCATGTCCCAAACATGGTCTTACACTG
30960131 GTTCTCATAA
Statistics
Matches: 249, Mismatches: 46, Indels: 47
0.73 0.13 0.14
Matches are distributed among these distances:
44 13 0.05
45 14 0.06
46 13 0.05
47 50 0.20
48 96 0.39
49 32 0.13
50 29 0.12
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGACACCTCTATACGTG
Found at i:30960156 original size:47 final size:46
Alignment explanation
Indices: 30960054--30960175 Score: 144
Period size: 47 Copynumber: 2.6 Consensus size: 46
30960044 TCTCGTAGCA
30960054 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAATGCC
*
30960100 GACGCCATGTCCCAGACATGGTCTTACACTGG-T-TC-TCAT-AATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCGTC-TCAA--T-GCC
*
30960148 GATGCATGTCCCAGACATTTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
30960176 AGCACACAAA
Statistics
Matches: 67, Mismatches: 3, Indels: 12
0.82 0.04 0.15
Matches are distributed among these distances:
45 4 0.06
46 15 0.22
47 30 0.45
48 18 0.27
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAATGCC
Found at i:30960764 original size:241 final size:241
Alignment explanation
Indices: 30960341--30960831 Score: 820
Period size: 241 Copynumber: 2.0 Consensus size: 241
30960331 AGTTGTATTA
* * *
30960341 TTTACATAGAACTTACCTCTGTATACAAAATGTAGACGACTAGTTCGACTTAGTCTACTTGTTTT
1 TTTACATAGAACTTACCTCGGTATACAAAATGTAAACGACTAGTTCGACTTAGTCCACTTGTTTT
* * * *
30960406 GCTTTTCCCCAGTCTAAGCCTGGATTTTGTAATTCTTGATCTAAAATGATAGAAATTTATTCATT
66 GCTTTTCCACAGTCTAAACCCGAATTTTGTAATTCTTGATCTAAAATGATAGAAATTTATTCATT
* * *
30960471 TCATCAGCATATTAACCTAGACACTCAAAAATTCATAATTGGATAAATTGACCATTTTTCCCCTA
131 TCATCAGCATATTAACCTAAACACTCAAAAATTCATAATTGGACAAATTGACCATTTTGCCCCTA
* **
30960536 GACTTTCACAAATTGGTCATTTTACCTCTAGGTCCGAAAATCAATT
196 GACTTTCACAAAATGACCATTTTACCTCTAGGTCCGAAAATCAATT
30960582 TTTACATAGAACTTACCTCGGTATACAAAATGTAAACGACTAGTTCGACTTAGTCCACTTGTTTT
1 TTTACATAGAACTTACCTCGGTATACAAAATGTAAACGACTAGTTCGACTTAGTCCACTTGTTTT
*
30960647 GCTTTTCCACGGTCTAAACCCGAATTTTGTAATTCTTGATCTAAAATGATAGAAATTTATTCATT
66 GCTTTTCCACAGTCTAAACCCGAATTTTGTAATTCTTGATCTAAAATGATAGAAATTTATTCATT
* *
30960712 TCATCATCATATTAACCTAAACACTCAAAAATTCATAATTGGGCAAATTGACCATTTTGCCCCTA
131 TCATCAGCATATTAACCTAAACACTCAAAAATTCATAATTGGACAAATTGACCATTTTGCCCCTA
*
30960777 GACTTTGACAAAATGACCATTTTACCTCTAGGTCCGAAAATCAATT
196 GACTTTCACAAAATGACCATTTTACCTCTAGGTCCGAAAATCAATT
30960823 TTTATCATA
1 TTTA-CATA
30960832 TTTTCTCATT
Statistics
Matches: 232, Mismatches: 17, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
241 228 0.98
242 4 0.02
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (241 bp):
TTTACATAGAACTTACCTCGGTATACAAAATGTAAACGACTAGTTCGACTTAGTCCACTTGTTTT
GCTTTTCCACAGTCTAAACCCGAATTTTGTAATTCTTGATCTAAAATGATAGAAATTTATTCATT
TCATCAGCATATTAACCTAAACACTCAAAAATTCATAATTGGACAAATTGACCATTTTGCCCCTA
GACTTTCACAAAATGACCATTTTACCTCTAGGTCCGAAAATCAATT
Found at i:30965439 original size:40 final size:39
Alignment explanation
Indices: 30965216--30965484 Score: 346
Period size: 39 Copynumber: 6.8 Consensus size: 39
30965206 TAATGGAGAA
* * *
30965216 TTATATCCGGGC-CAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTG
** * *
30965255 TTATATCTAGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTG
* *
30965294 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTG
*
30965333 TTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGTA
1 TTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGTG
*
30965372 TTATATCTGGGCTAAAGTCCCGCAGGCTTTGTGCTGGTG
1 TTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGTG
*
30965411 TTATATCCGGGCTTAAAGTCCCGCAGGCTTTGTGCTGGTA
1 TTATATCCGGGC-TAAAGTCCCGCAGGCTTTGTGCTGGTG
* *
30965451 TTATATCCGGGCTTAAAGTCCCACATGCTTTGTG
1 TTATATCCGGGC-TAAAGTCCCGCAGGCTTTGTG
30965485 GTGGGGATTG
Statistics
Matches: 214, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
39 144 0.67
40 70 0.33
ACGTcount: A:0.18, C:0.23, G:0.28, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGTG
Found at i:30971785 original size:40 final size:39
Alignment explanation
Indices: 30971612--30971807 Score: 279
Period size: 39 Copynumber: 5.0 Consensus size: 39
30971602 TAATGGAGAA
*
30971612 TTATATCCGGGCCAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
**
30971651 TTATATTTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
30971690 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
30971729 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
* *
30971768 TTATATCCGGGCTTAAAGTCCCGCAGGC-TTTGTGCTGGTG
1 TTATATCCGGGC-T-AAGTCCCGAAGGCATTCGTGCTGGTG
30971808 ATTGGATTTG
Statistics
Matches: 146, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 108 0.74
40 38 0.26
ACGTcount: A:0.17, C:0.22, G:0.30, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:30974423 original size:12 final size:12
Alignment explanation
Indices: 30974406--30974449 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
30974396 TGACTCCACC
* *
30974406 AAAAAATTATAT
1 AAAAAAATAAAT
30974418 AAAAAAATAAAT
1 AAAAAAATAAAT
30974430 AAAAATAAATAAAT
1 -AAAA-AAATAAAT
30974444 AAAAAA
1 AAAAAA
30974450 GATTTAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 12 0.43
13 8 0.29
14 8 0.29
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (12 bp):
AAAAAAATAAAT
Found at i:30974439 original size:14 final size:13
Alignment explanation
Indices: 30974418--30974449 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
30974408 AAAATTATAT
30974418 AAAAAAATAAATA
1 AAAAAAATAAATA
30974431 AAAATAAATAAATA
1 AAAA-AAATAAATA
30974445 AAAAA
1 AAAAA
30974450 GATTTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAAAATAAATA
Found at i:30974530 original size:11 final size:11
Alignment explanation
Indices: 30974514--30974543 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
30974504 TTAAAATATT
30974514 ATAAATAAATA
1 ATAAATAAATA
30974525 ATAAATAAATA
1 ATAAATAAATA
30974536 AT-AATAAA
1 ATAAATAAA
30974544 CAGAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAAATAAATA
Found at i:30974843 original size:26 final size:26
Alignment explanation
Indices: 30974792--30974844 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
30974782 CTATAAATTT
* *
30974792 TAGATCATTTACGTATTTTATAAAAA
1 TAGATCATTTACGTAATTAATAAAAA
* *
30974818 TAGATCATTTATGTAATTAATTAAAA
1 TAGATCATTTACGTAATTAATAAAAA
30974844 T
1 T
30974845 TTTTAGATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (26 bp):
TAGATCATTTACGTAATTAATAAAAA
Found at i:30984952 original size:16 final size:16
Alignment explanation
Indices: 30984933--30984979 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
30984923 TTGTATTTTT
30984933 ATTTTTAAAAATTTAA
1 ATTTTTAAAAATTTAA
** **
30984949 ATTTTTTTACTTTTAA
1 ATTTTTAAAAATTTAA
30984965 A-TTTTAAAAATTTAA
1 ATTTTTAAAAATTTAA
30984980 TTTCAATTGT
Statistics
Matches: 23, Mismatches: 8, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTTAAAAATTTAA
Found at i:30986644 original size:23 final size:22
Alignment explanation
Indices: 30986609--30986651 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
30986599 AGAATGGTAT
30986609 AAATGGGTTTTATAT-TTTATC
1 AAATGGGTTTTATATATTTATC
30986630 AAATGTGGTATTTATATATTTA
1 AAATG-GGT-TTTATATATTTA
30986652 AAATGTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 7 0.37
24 4 0.21
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.51
Consensus pattern (22 bp):
AAATGGGTTTTATATATTTATC
Found at i:30987299 original size:29 final size:29
Alignment explanation
Indices: 30987253--30987329 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
30987243 TTTGTCTCAA
* * *
30987253 GTTACATTTTAGTAACTTATATTTGAAAT
1 GTTACGTTTTAATCACTTATATTTGAAAT
*
30987282 GTTATGTTTTAATCACTTATATTTGAAAT
1 GTTACGTTTTAATCACTTATATTTGAAAT
*
30987311 GTTACGTTTTAGTCACTTA
1 GTTACGTTTTAATCACTTA
30987330 CGTTATCGTG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.49
Consensus pattern (29 bp):
GTTACGTTTTAATCACTTATATTTGAAAT
Found at i:30992868 original size:213 final size:214
Alignment explanation
Indices: 30992500--30992929 Score: 799
Period size: 213 Copynumber: 2.0 Consensus size: 214
30992490 ATCAAAGCTT
30992500 CAAACACATAATTATCATAAAAAAAAACATTCAAGATTCATCAATTGAAACTTCTAAAATTTTTA
1 CAAACACATAATTATCATAAAAAAAAACATTCAAGATTCATCAATTGAAACTTCTAAAATTTTTA
* * *
30992565 ACAAATTCAAAAACGAAGGTGTGGGCTAGTTGGACCTAGTTTCAACAATCTAAAAAAACATAAAA
66 ACAAATTCAAAAACAAAGGTATGGACTAGTTGGACCTAGTTTCAACAATCTAAAAAAACATAAAA
30992630 ATTACAAAAATTAGGTGAGAATTGAGCTCACATGCACAAGGAAGTTGAAACCGAAGCTTCCTAGG
131 ATTACAAAAATTAGGTGAGAATTGAGCTCACATGCACAAGGAAGTTGAAACCGAAGCTTCCTAGG
30992695 TCTCCAATAGTGATTTTGA
196 TCTCCAATAGTGATTTTGA
30992714 CAAACACATAATTATCAT-AAAAAAAACATTCAAGATTCATCAATTGAAACTTCTAAAATTTTTA
1 CAAACACATAATTATCATAAAAAAAAACATTCAAGATTCATCAATTGAAACTTCTAAAATTTTTA
* *
30992778 ACAAATTCAAAAACAAAGGTATGGACTAGTTGGACCTAGTTTCAACGATCTAAAAAAATATAAAA
66 ACAAATTCAAAAACAAAGGTATGGACTAGTTGGACCTAGTTTCAACAATCTAAAAAAACATAAAA
*
30992843 ATTACAAAAATTAGGTGAGAATTGAGCTCACATGCACAAGGAAGTTGAAACTGAAGCTTCCTAGG
131 ATTACAAAAATTAGGTGAGAATTGAGCTCACATGCACAAGGAAGTTGAAACCGAAGCTTCCTAGG
30992908 TCTCCAATAGTGATTTTGA
196 TCTCCAATAGTGATTTTGA
30992927 CAA
1 CAA
30992930 GGGGTTGAAG
Statistics
Matches: 210, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
213 192 0.91
214 18 0.09
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.27
Consensus pattern (214 bp):
CAAACACATAATTATCATAAAAAAAAACATTCAAGATTCATCAATTGAAACTTCTAAAATTTTTA
ACAAATTCAAAAACAAAGGTATGGACTAGTTGGACCTAGTTTCAACAATCTAAAAAAACATAAAA
ATTACAAAAATTAGGTGAGAATTGAGCTCACATGCACAAGGAAGTTGAAACCGAAGCTTCCTAGG
TCTCCAATAGTGATTTTGA
Found at i:31001517 original size:15 final size:15
Alignment explanation
Indices: 31001497--31001527 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
31001487 AATTAAAATA
31001497 TAAGTATTTACGTTG
1 TAAGTATTTACGTTG
*
31001512 TAAGTATTTATGTTG
1 TAAGTATTTACGTTG
31001527 T
1 T
31001528 CTTAAACCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (15 bp):
TAAGTATTTACGTTG
Found at i:31009898 original size:15 final size:16
Alignment explanation
Indices: 31009873--31009902 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
31009863 AACCTAGCTA
31009873 TCATCTTTTCTTTCTT
1 TCATCTTTTCTTTCTT
31009889 TCAT-TTTTCTTTCT
1 TCATCTTTTCTTTCT
31009903 CCCACCGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (16 bp):
TCATCTTTTCTTTCTT
Found at i:31014533 original size:6 final size:6
Alignment explanation
Indices: 31014524--31014583 Score: 77
Period size: 6 Copynumber: 10.2 Consensus size: 6
31014514 AATAAAATTG
* * *
31014524 AAATGA AAATAA AAATCA AAAGAA AAATAA AAATAA AAAT-A AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
*
31014571 AAATAA GAATAA A
1 AAATAA AAATAA A
31014584 TAAAAAAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
5 5 0.11
6 41 0.89
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:31014539 original size:12 final size:11
Alignment explanation
Indices: 31014504--31014583 Score: 79
Period size: 12 Copynumber: 6.7 Consensus size: 11
31014494 TATGTCTTTC
31014504 AAAATAAAATAAT
1 AAAAT-AAA-AAT
**
31014517 AAAATTGAAAT
1 AAAATAAAAAT
31014528 GAAAATAAAAAT
1 -AAAATAAAAAT
*
31014540 CAAAAGAAAAAT
1 -AAAATAAAAAT
31014552 AAAAATAAAAAT
1 -AAAATAAAAAT
31014564 AAAATAAAAAT
1 AAAATAAAAAT
31014575 AAGAATAAA
1 AA-AATAAA
31014584 TAAAAAAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
11 16 0.28
12 36 0.63
13 5 0.09
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:31014550 original size:18 final size:17
Alignment explanation
Indices: 31014504--31014593 Score: 87
Period size: 17 Copynumber: 5.2 Consensus size: 17
31014494 TATGTCTTTC
*
31014504 AAAATAAAATAATAAAATT
1 AAAATAAAAT-A-AAAATA
*
31014523 GAAATGAAAATAAAAATCA
1 AAAAT-AAAATAAAAAT-A
31014542 AAAGA-AAAATAAAAATA
1 AAA-ATAAAATAAAAATA
31014559 AAAATAAAATAAAAATA
1 AAAATAAAATAAAAATA
*
31014576 AGAAT-AAATAAAAA-A
1 AAAATAAAATAAAAATA
31014591 AAA
1 AAA
31014594 GAAGGAGTTA
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
15 3 0.05
16 10 0.16
17 20 0.32
18 16 0.26
19 7 0.11
20 6 0.10
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.17
Consensus pattern (17 bp):
AAAATAAAATAAAAATA
Found at i:31014590 original size:23 final size:23
Alignment explanation
Indices: 31014524--31014583 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
31014514 AATAAAATTG
*
31014524 AAATGAAAATAAAAATCAAAAGAA
1 AAATAAAAATAAAAAT-AAAAGAA
*
31014548 AAATAAAAATAAAAATAAAATAA
1 AAATAAAAATAAAAATAAAAGAA
*
31014571 AAATAAGAATAAA
1 AAATAAAAATAAA
31014584 TAAAAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 18 0.55
24 15 0.45
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (23 bp):
AAATAAAAATAAAAATAAAAGAA
Found at i:31015318 original size:24 final size:24
Alignment explanation
Indices: 31015291--31015336 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
31015281 AGGCCTTCGA
31015291 GCTGGGGTCGTAGGTGGAAGAGCG
1 GCTGGGGTCGTAGGTGGAAGAGCG
31015315 GCTGGGGTCGTAGGTGGAAGAG
1 GCTGGGGTCGTAGGTGGAAGAG
31015337 AGTGGTGCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.11, G:0.54, T:0.17
Consensus pattern (24 bp):
GCTGGGGTCGTAGGTGGAAGAGCG
Found at i:31016559 original size:21 final size:20
Alignment explanation
Indices: 31016535--31016574 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
31016525 TCTCCCATGC
*
31016535 CCGTGTGTTATTGTAGCACGT
1 CCGTGTATTATTGTA-CACGT
*
31016556 CCGTGTATTGTTGTACACG
1 CCGTGTATTATTGTACACG
31016575 GCTGAATGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.15, C:0.20, G:0.28, T:0.38
Consensus pattern (20 bp):
CCGTGTATTATTGTACACGT
Found at i:31027016 original size:47 final size:46
Alignment explanation
Indices: 31026904--31027076 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
31026894 GGACTATTGT
* *
31026904 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTACGA
1 GAGCTAGTGTAAAACATGTCTGGGACATGCATCGGCCACATGACGA
* * * * *
31026950 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGG-TA-GTGAGACGA
1 GAGCTAGTGTAA-AACATGTCTGGGACAT-GCATCGGCCACAT--GACGA
* * *
31026998 GAGCTAGTGTAAAACATGTCTGGGACATGCATCAGCCTC-TAGATGTA
1 GAGCTAGTGTAAAACATGTCTGGGACATGCATCGGCCACAT-GACG-A
*
31027045 -AGCCAGTGTAAAACATGTCTGGGACATGCATC
1 GAGCTAGTGTAAAACATGTCTGGGACATGCATC
31027077 TGCTACGAGT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
46 53 0.50
47 30 0.29
48 22 0.21
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAAACATGTCTGGGACATGCATCGGCCACATGACGA
Found at i:31028276 original size:13 final size:13
Alignment explanation
Indices: 31028258--31028282 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31028248 AGTTTTATTC
31028258 TTTTCTTCTTCTT
1 TTTTCTTCTTCTT
31028271 TTTTCTTCTTCT
1 TTTTCTTCTTCT
31028283 CTAGCTGAAC
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:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTCTTCTTCTT
Found at i:31029424 original size:25 final size:25
Alignment explanation
Indices: 31029394--31029441 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
31029384 TTATAATGTG
* * *
31029394 AAAATGACTATTTTGCCCTTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
31029419 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
31029442 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:31029517 original size:20 final size:21
Alignment explanation
Indices: 31029478--31029525 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
31029468 ATTTTGATAT
*
31029478 ACATGATTTGATACGATATGC
1 ACATGATATGATACGATATGC
*
31029499 ACATGATATG-TATGATATGC
1 ACATGATATGATACGATATGC
31029519 ACATGAT
1 ACATGAT
31029526 GTATTCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (21 bp):
ACATGATATGATACGATATGC
Found at i:31029616 original size:26 final size:25
Alignment explanation
Indices: 31029572--31029642 Score: 106
Period size: 26 Copynumber: 2.8 Consensus size: 25
31029562 GAGGAAGTGC
* *
31029572 AAAAGGGCTTTGCTCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
31029597 AAAAGGGCTTTTGCCCCAGTTTATCA
1 AAAAGGGC-TTTGCCCCAGTTTACCA
31029623 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
31029643 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
25 20 0.48
26 22 0.52
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:31029655 original size:24 final size:24
Alignment explanation
Indices: 31029571--31029669 Score: 78
Period size: 25 Copynumber: 4.0 Consensus size: 24
31029561 GGAGGAAGTG
* *
31029571 CAAAAG-GGCTTTGCTCCAGTTTAC
1 CAAAAGAGGCTTTGCCCCAG-TTAT
31029595 CGAAAAG-GGCTTTTGCCCCAGTTTAT
1 C-AAAAGAGGC-TTTGCCCCAG-TTAT
31029621 CAAAA-AGGGCTTTGCCCCAGTTAT
1 CAAAAGA-GGCTTTGCCCCAGTTAT
* **
31029645 TAAAAGAGGCTAGGCCTCCAGTTAT
1 CAAAAGAGGCTTTGCC-CCAGTTAT
31029670 ATGTTAAAGC
Statistics
Matches: 64, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
24 16 0.25
25 31 0.48
26 17 0.27
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (24 bp):
CAAAAGAGGCTTTGCCCCAGTTAT
Found at i:31029900 original size:31 final size:31
Alignment explanation
Indices: 31029862--31029945 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
31029852 TTGTTACAGT
31029862 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
31029893 AAAGGCTTCGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
31029924 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
31029946 CTGAGCTTGA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:31037460 original size:25 final size:25
Alignment explanation
Indices: 31037431--31037478 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
31037421 TTATAATGTG
* *
31037431 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
31037456 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
31037479 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:31037653 original size:26 final size:25
Alignment explanation
Indices: 31037609--31037679 Score: 124
Period size: 26 Copynumber: 2.8 Consensus size: 25
31037599 GAGGAAGTGC
31037609 AAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
31037634 AAAAGGGCTTTTGCCCCAGTTTATCA
1 AAAAGGGC-TTTGCCCCAGTTTACCA
31037660 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
31037680 ATTAAAAGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
25 20 0.45
26 24 0.55
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:31037937 original size:31 final size:31
Alignment explanation
Indices: 31037897--31038013 Score: 200
Period size: 31 Copynumber: 3.8 Consensus size: 31
31037887 TATTGTTACA
* *
31037897 GTAAAGGCTTCGGCCCAATGATATGAATAAT
1 GTAAAGGCTTCGGCCCAGTAATATGAATAAT
*
31037928 GAAAAGGCTTCGGCCCAGTAATATGAATAAT
1 GTAAAGGCTTCGGCCCAGTAATATGAATAAT
31037959 GTAAAGGCTTCGGCCCAGTAATATGAATAAT
1 GTAAAGGCTTCGGCCCAGTAATATGAATAAT
31037990 GTAAAGGCTTCGGCCCAGT-ATATG
1 GTAAAGGCTTCGGCCCAGTAATATG
31038014 CTGAGCTTGA
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 5 0.06
31 77 0.94
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (31 bp):
GTAAAGGCTTCGGCCCAGTAATATGAATAAT
Found at i:31043443 original size:5 final size:5
Alignment explanation
Indices: 31043433--31043464 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
31043423 TTGTGTGTTC
31043433 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
31043465 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:31043447 original size:9 final size:9
Alignment explanation
Indices: 31043433--31043463 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
31043423 TTGTGTGTTC
31043433 TTTATTTTA
1 TTTATTTTA
31043442 TTTATTTTA
1 TTTATTTTA
31043451 TTTTATTTTA
1 -TTTATTTTA
31043461 TTT
1 TTT
31043464 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:31047896 original size:5 final size:5
Alignment explanation
Indices: 31047886--31047917 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
31047876 TTGTGTGTTC
31047886 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
31047918 TTACAGATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:31047900 original size:9 final size:9
Alignment explanation
Indices: 31047886--31047916 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
31047876 TTGTGTGTTC
31047886 TTTATTTTA
1 TTTATTTTA
31047895 TTTATTTTA
1 TTTATTTTA
31047904 TTTTATTTTA
1 -TTTATTTTA
31047914 TTT
1 TTT
31047917 TTTACAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:31053799 original size:20 final size:21
Alignment explanation
Indices: 31053744--31053799 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
31053734 AATAACCACT
31053744 CGGGCGTGTTGCCCTTGCACA
1 CGGGCGTGTTGCCCTTGCACA
*
31053765 CGGGCATGTTGCCCTTGCACA
1 CGGGCGTGTTGCCCTTGCACA
31053786 CGGGCGTG-TGCCCT
1 CGGGCGTGTTGCCCT
31053800 ATTTCAAGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
20 6 0.18
21 27 0.82
ACGTcount: A:0.09, C:0.34, G:0.34, T:0.23
Consensus pattern (21 bp):
CGGGCGTGTTGCCCTTGCACA
Found at i:31068706 original size:94 final size:94
Alignment explanation
Indices: 31068583--31068754 Score: 229
Period size: 94 Copynumber: 1.8 Consensus size: 94
31068573 CCACATTATG
* * **
31068583 AGAGCCAGTGCAAGACATGTCAGGAACATGCATCAGCCTCTTGAT-ATTTAAGCCAGTGTAAGAC
1 AGAGCCAGTGCAAGACATGACAGGAACATGCATCAGCCTCGTGATGA-ACAAGCCAGTGTAAGAC
*
31068647 ATGTTTGGGACATGCATCGGCGTTGAGACA
65 ATGTCTGGGACATGCATCGGCGTTGAGACA
* * * * * *
31068677 AGAGCTAGTGTAAGACATGACTGGGACATGCATCAGCCTCGTGATGAACAAGCTAGTGTAAGACC
1 AGAGCCAGTGCAAGACATGACAGGAACATGCATCAGCCTCGTGATGAACAAGCCAGTGTAAGACA
31068742 TGTCTGGGACATG
66 TGTCTGGGACATG
31068755 GCGTCAGCTT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
94 65 0.98
95 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (94 bp):
AGAGCCAGTGCAAGACATGACAGGAACATGCATCAGCCTCGTGATGAACAAGCCAGTGTAAGACA
TGTCTGGGACATGCATCGGCGTTGAGACA
Found at i:31068749 original size:48 final size:45
Alignment explanation
Indices: 31068540--31068803 Score: 173
Period size: 46 Copynumber: 5.7 Consensus size: 45
31068530 TGGTATGTGT
* * * *
31068540 GCTAGTGTAAAACATGTCTGGGACATGCACCGACCACATT-ATGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-AGC-C-TTGATGACAA
* * * * *
31068586 GCCAGTGCAAGACATGTCAGGAACATGCATCAGCCTCTTGAT-ATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-C-CTTGATGA--CAA
* * * *
31068634 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCGTTGA-GACAAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGATGAC-A-A
*
31068680 GCTAGTGTAAGACATGACTGGGACATGCATCAGCCTCGTGATGAACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCT--TGATG-ACAA
* * * *
31068728 GCTAGTGTAAGACCTGTCTGGGACATGGCGTCAG-CTTGTTG-CAT
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCTTGATGACAA
*
31068772 G-TCAGTGTAAGACCTGTCTGGGACATGGCATC
1 GCT-AGTGTAAGACATGTCTGGGACAT-GCATC
31068804 GACATCGATA
Statistics
Matches: 177, Mismatches: 27, Indels: 30
0.76 0.12 0.13
Matches are distributed among these distances:
43 1 0.01
44 31 0.18
45 5 0.03
46 70 0.40
47 1 0.01
48 59 0.33
49 8 0.05
50 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGATGACAA
Found at i:31069431 original size:15 final size:15
Alignment explanation
Indices: 31069407--31069436 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31069397 ACGTTGAAGG
*
31069407 TTGTTTTATGAATAC
1 TTGTTATATGAATAC
31069422 TTGTTATATGAATAC
1 TTGTTATATGAATAC
31069437 AAAAGGTTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (15 bp):
TTGTTATATGAATAC
Found at i:31073187 original size:50 final size:50
Alignment explanation
Indices: 31073068--31073249 Score: 220
Period size: 50 Copynumber: 3.6 Consensus size: 50
31073058 ATTGTGAGAA
* * ** * *
31073068 CACATGTGTAGTACTATGTGCAGGCTACTATGCGTTTAAGACAGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTA--CGTGTATCAAATTTTTAGGT
* * * *
31073120 CACGTATGTAGTACTAAGTGCAGGCTACTACGTGGATCAGATTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATTTTTAGGT
* * *
31073170 CGCATGTGTAGTACTAAGTGCTGGCTACTACGTGTATCAAATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATTTTTAGGT
*
31073220 CACATGTGTAGTACTAAATGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
31073250 TGCGTACCAG
Statistics
Matches: 111, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
50 84 0.76
52 27 0.24
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATTTTTAGGT
Found at i:31073481 original size:16 final size:16
Alignment explanation
Indices: 31073460--31073491 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31073450 AGAATGGAGT
31073460 AAATGAAATTATGTAA
1 AAATGAAATTATGTAA
*
31073476 AAATGAAATTTTGTAA
1 AAATGAAATTATGTAA
31073492 TAAAACAGTT
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:0.53, C:0.00, G:0.12, T:0.34
Consensus pattern (16 bp):
AAATGAAATTATGTAA
Found at i:31074124 original size:180 final size:179
Alignment explanation
Indices: 31073822--31074174 Score: 553
Period size: 180 Copynumber: 2.0 Consensus size: 179
31073812 GAGATCTATA
* *
31073822 CCATGAGATAAATAATTTTTAGTGAAGAAAGATCAGAACTGTCGGACAGTGAAACAGGAGTATCT
1 CCATGAGATAAATAATTTTTAGTGAAGAAAGATCAGAACTATCGGACAGTGAAACAGGAGTAACT
*
31073887 TTAATGAATAAACTGTACTAATTGGCTAAATCAAAAATTCTAAAAATTTTATGGTAAGAAAATAT
66 TTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATGGTAAGAAAATAT
* * **
31073952 ATTAGTCTAGTTTCTGATAAAATTAGTGATTCTTAATTTGGAGTCGCTTT
131 ATGAGTCTAGTTTCTGAGAAAATTAACGA-TCTTAATTTGGAGTCGCTTT
* * * * * * *
31074002 CCATGAGATAACTAATTTTTAGTGAAGAGAGGTCGGAACTATTGGACAGTGAAATAGGGGTAACT
1 CCATGAGATAAATAATTTTTAGTGAAGAAAGATCAGAACTATCGGACAGTGAAACAGGAGTAACT
*
31074067 TTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATGGTAAGAATATAT
66 TTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATGGTAAGAAAATAT
*
31074132 ATGAGTCTAGTTTCTGGGAAAATTAACGATCTTAATTTGGAGT
131 ATGAGTCTAGTTTCTGAGAAAATTAACGATCTTAATTTGGAGT
31074175 TCCGTAGCTC
Statistics
Matches: 157, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
179 14 0.09
180 143 0.91
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.33
Consensus pattern (179 bp):
CCATGAGATAAATAATTTTTAGTGAAGAAAGATCAGAACTATCGGACAGTGAAACAGGAGTAACT
TTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATGGTAAGAAAATAT
ATGAGTCTAGTTTCTGAGAAAATTAACGATCTTAATTTGGAGTCGCTTT
Found at i:31085391 original size:23 final size:23
Alignment explanation
Indices: 31085361--31085407 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
31085351 GCATGGTTAA
31085361 GTTTATGAACAACTCTGAGAAAT
1 GTTTATGAACAACTCTGAGAAAT
31085384 GTTTATGAACAACTCTGAGAAAT
1 GTTTATGAACAACTCTGAGAAAT
31085407 G
1 G
31085408 GCTATGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (23 bp):
GTTTATGAACAACTCTGAGAAAT
Found at i:31085413 original size:23 final size:23
Alignment explanation
Indices: 31085364--31085415 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
31085354 TGGTTAAGTT
**
31085364 TATGAACAACTCTGAGAAATGTT
1 TATGAACAACTCTGAGAAATGGC
31085387 TATGAACAACTCTGAGAAATGGC
1 TATGAACAACTCTGAGAAATGGC
31085410 TATGAA
1 TATGAA
31085416 TTCTTATTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.27
Consensus pattern (23 bp):
TATGAACAACTCTGAGAAATGGC
Found at i:31088321 original size:79 final size:78
Alignment explanation
Indices: 31088214--31088512 Score: 301
Period size: 79 Copynumber: 3.7 Consensus size: 78
31088204 TCGAAACTGA
* * *
31088214 AATAAAATCATTGAACGGCGAGTATCAATCCCGAAATGGATTTTATTTTACTTGTTTTTGGAAAT
1 AATAAAATCATTGAACGACGGGAATCAATCCCGAAATGGATTTTA-TTTACTTGTTTTTGGAAAT
31088279 AAAACAAAATTTGG
65 AAAACAAAATTTGG
* * * *
31088293 AATAAAATCGTTGAACGACGGGAATCAATCCTGAAATGAATTTTATTTTACTCGTTTTTGGAAAT
1 AATAAAATCATTGAACGACGGGAATCAATCCCGAAATGGATTTTA-TTTACTTGTTTTTGGAAAT
31088358 AAAACAAAATTTGG
65 AAAACAAAATTTGG
* * * ** *
31088372 AATAAATTCATTGAATGACGGGAATCAATCTCGAAACAGATTTTATTTACCTTTAATTTCCCATT
1 AATAAAATCATTGAACGACGGGAATCAATCCCGAAATGGATTTTATTTA-C-TT--GTT----TT
*
31088437 TGGAAATAAAATCAAAATAATGG
58 TGGAAATAAAA-CAAAAT-TTGG
* * * * * *
31088460 AATAAAATCCGTTGTAGGGCGGGAATAAATCCCGAAATGGATCTTATTTACTT
1 AATAAAAT-CATTGAACGACGGGAATCAATCCCGAAATGGATTTTATTTACTT
31088513 TTAATTTCTC
Statistics
Matches: 181, Mismatches: 28, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
78 4 0.02
79 110 0.61
80 1 0.01
82 2 0.01
86 13 0.07
87 8 0.04
88 11 0.06
89 32 0.18
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (78 bp):
AATAAAATCATTGAACGACGGGAATCAATCCCGAAATGGATTTTATTTACTTGTTTTTGGAAATA
AAACAAAATTTGG
Found at i:31088595 original size:88 final size:86
Alignment explanation
Indices: 31088349--31088607 Score: 281
Period size: 88 Copynumber: 3.0 Consensus size: 86
31088339 TTTACTCGTT
* * *
31088349 TTTGGAAATAAA-ACAAAAT-TTGGAAT-AAATTCATTGAATGACGGGAATCAATCTCGAAACAG
1 TTTGGAAATAAATA-AAAATAATGGAATAAAATCCATTGAAAG-CGGGAAT-AATCTCGAAACAG
*
31088411 ATTTTATTTACCTTTAATTTCCCA
63 ATTTTATTTACTTTTAATTTCCCA
* * ** * **
31088435 TTTGGAAATAAAATCAAAATAATGGAATAAAATCCGTTGTAGGGCGGGAATAAATCCCGAAATGG
1 TTTGGAAAT-AAATAAAAATAATGGAATAAAATCCATTG-AAAGCGGGAAT-AATCTCGAAACAG
* * *
31088500 ATCTTATTTACTTTTAATTTCTCG
63 ATTTTATTTACTTTTAATTTCCCA
* *
31088524 TTTGGAAATAAATAAAAATAATGGAATAAAATCCATTGAACAGCGGGAATAGATCTTGAAACATA
1 TTTGGAAATAAATAAAAATAATGGAATAAAATCCATTGAA-AGCGGGAATA-ATCTCGAAACAGA
31088589 TTTTATTTACTTTTAATTT
64 TTTTATTTACTTTTAATTT
31088608 GGAAACAAAA
Statistics
Matches: 142, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
86 9 0.06
87 10 0.07
88 67 0.47
89 54 0.38
90 2 0.01
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.34
Consensus pattern (86 bp):
TTTGGAAATAAATAAAAATAATGGAATAAAATCCATTGAAAGCGGGAATAATCTCGAAACAGATT
TTATTTACTTTTAATTTCCCA
Found at i:31088924 original size:15 final size:15
Alignment explanation
Indices: 31088898--31088938 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
31088888 AAATAATTAA
31088898 ATATA-AATAAACAC
1 ATATAGAATAAACAC
*
31088912 ATATAGCATAAACAC
1 ATATAGAATAAACAC
31088927 ATATAGAATAAA
1 ATATAGAATAAA
31088939 ATCAAATAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.61, C:0.12, G:0.05, T:0.22
Consensus pattern (15 bp):
ATATAGAATAAACAC
Done.