Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 88 of 316
Found at i:26620339 original size:93 final size:93
Alignment explanation
Indices: 26620180--26620352 Score: 249
Period size: 93 Copynumber: 1.9 Consensus size: 93
26620170 CAGATATTTG
* * * * **
26620180 GGCATCCAAACTTGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAACATCCAAACTTGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACAGCCAAACTCATTGAG
26620245 TTGAGTCCGAGTTCGTGAAATGTAATTA
66 TTGAGTCCGAGTTCGTGAAATGTAATTA
* * *
26620273 GGCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAAC-GCCTGAGCTCATTGA
1 GGCATCCAAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACAGCC-AAACTCATTGA
26620337 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
26620353 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (93 bp):
GGCATCCAAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAACAGCCAAACTCATTGAG
TTGAGTCCGAGTTCGTGAAATGTAATTA
Found at i:26623338 original size:15 final size:15
Alignment explanation
Indices: 26623301--26623339 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
26623291 TATCGTATCT
26623301 TGGGTTTCTTTATTC
1 TGGGTTTCTTTATTC
* *
26623316 TAGATTTCTTTATTC
1 TGGGTTTCTTTATTC
26623331 TGGGTTTCT
1 TGGGTTTCT
26623340 CAATCTTGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.10, C:0.13, G:0.18, T:0.59
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:26626162 original size:46 final size:46
Alignment explanation
Indices: 26626101--26626276 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
26626091 TATTTGGTCA
*
26626101 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * * * * *
26626147 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACG
26626194 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
26626240 -CCTGAGCTCGTTGAGTTGATTCTGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
26626277 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
45 3 0.03
46 64 0.62
47 35 0.34
48 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:26626208 original size:93 final size:93
Alignment explanation
Indices: 26626099--26626269 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
26626089 GATATTTGGT
*
26626099 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-AAACTCGTTGAGT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTAAACTCGTTGAGT
26626163 TGAGTCCGAGTTCGTGAAATGTAACTAGG
65 TGAGTCCGAGTTCGTGAAATGTAACTAGG
* *
26626192 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAGCTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTAAACTCGTTGAGTT
* *
26626257 GATTCTGAGTTCG
66 GAGTCCGAGTTCG
26626270 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTAAACTCGTTGAGTT
GAGTCCGAGTTCGTGAAATGTAACTAGG
Found at i:26628280 original size:30 final size:30
Alignment explanation
Indices: 26628245--26628312 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
26628235 ACCTTACAGG
*
26628245 ACACACGGCCGTATACCAAGGCCATGTGTC
1 ACACACGGCCGTATACCAAAGCCATGTGTC
*
26628275 ACACACGGCTGTATACCAAAGCCATGTGTC
1 ACACACGGCCGTATACCAAAGCCATGTGTC
*
26628305 ACATACGG
1 ACACACGG
26628313 TCAAGCCACA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.29, C:0.31, G:0.22, T:0.18
Consensus pattern (30 bp):
ACACACGGCCGTATACCAAAGCCATGTGTC
Found at i:26631128 original size:30 final size:30
Alignment explanation
Indices: 26631092--26631234 Score: 101
Period size: 30 Copynumber: 4.8 Consensus size: 30
26631082 ATTCGCCAAT
26631092 AGTGAGTTCGCCATGGGGGAGTTTGACATA
1 AGTGAGTTCGCCATGGGGGAGTTTGACATA
* * *
26631122 AGTGAGTTCGCCATGGGAGAGCTCG-CTATA
1 AGTGAGTTCGCCATGGGGGAGTTTGAC-ATA
* * * * * * * *
26631152 GGAGAGTTTGCCGTAGGTGCA-TTTGCCAAA
1 AGTGAGTTCGCCAT-GGGGGAGTTTGACATA
* *
26631182 AGTGAGTTCGCCATAGTGGAGTTTGACATA
1 AGTGAGTTCGCCATGGGGGAGTTTGACATA
* * * *
26631212 ACTGAGATCACCATGGGAGAGTT
1 AGTGAGTTCGCCATGGGGGAGTT
26631235 CCCTATAGGA
Statistics
Matches: 82, Mismatches: 27, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
29 5 0.06
30 73 0.89
31 4 0.05
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (30 bp):
AGTGAGTTCGCCATGGGGGAGTTTGACATA
Found at i:26631132 original size:45 final size:45
Alignment explanation
Indices: 26631083--26631217 Score: 121
Period size: 45 Copynumber: 3.0 Consensus size: 45
26631073 CATAGGTGCA
*
26631083 TTCGCCAATAGTGAGTTCGCCATGGGGGAGTTTGACATAAGTGAG
1 TTCGCCAATAGTGAGTTCGCCATAGGGGAGTTTGACATAAGTGAG
* * * * * * * *
26631128 TTCGCC-ATGGGAGAGCTCGCTATAGGAGAGTTTGCCGTAGGTGCA-
1 TTCGCCAAT-AGTGAGTTCGCCATAGGGGAGTTTGACATAAGTG-AG
* * * *
26631173 TTTGCCAAAAGTGAGTTCGCCATAGTGGAGTTTGACATAACTGAG
1 TTCGCCAATAGTGAGTTCGCCATAGGGGAGTTTGACATAAGTGAG
26631218 ATCACCATGG
Statistics
Matches: 65, Mismatches: 21, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
44 3 0.05
45 60 0.92
46 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (45 bp):
TTCGCCAATAGTGAGTTCGCCATAGGGGAGTTTGACATAAGTGAG
Found at i:26631226 original size:90 final size:90
Alignment explanation
Indices: 26631067--26631258 Score: 285
Period size: 90 Copynumber: 2.1 Consensus size: 90
26631057 TATTATGTTT
* * * * * *
26631067 GTTTGTCATAGGTGCATTCGCCAATAGTGAGTTCGCCATGGGGGAGTTTGACATAAGTGAGTTCG
1 GTTTGCCATAGGTGCATTCGCCAAAAGTGAGTTCGCCATAGGGGAGTTTGACATAACTGAGATCA
*
26631132 CCATGGGAGAGCTCGCTATAGGAGA
66 CCATGGGAGAGCTCCCTATAGGAGA
* * *
26631157 GTTTGCCGTAGGTGCATTTGCCAAAAGTGAGTTCGCCATAGTGGAGTTTGACATAACTGAGATCA
1 GTTTGCCATAGGTGCATTCGCCAAAAGTGAGTTCGCCATAGGGGAGTTTGACATAACTGAGATCA
*
26631222 CCATGGGAGAGTTCCCTATAGGAGA
66 CCATGGGAGAGCTCCCTATAGGAGA
26631247 GTTTGCCATAGG
1 GTTTGCCATAGG
26631259 GCTATGCCTA
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.27
Consensus pattern (90 bp):
GTTTGCCATAGGTGCATTCGCCAAAAGTGAGTTCGCCATAGGGGAGTTTGACATAACTGAGATCA
CCATGGGAGAGCTCCCTATAGGAGA
Found at i:26639472 original size:13 final size:13
Alignment explanation
Indices: 26639454--26639478 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26639444 CCAAGCACAC
26639454 GCCCGTGTCCTTG
1 GCCCGTGTCCTTG
26639467 GCCCGTGTCCTT
1 GCCCGTGTCCTT
26639479 CACACGGCCT
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:0.40, G:0.28, T:0.32
Consensus pattern (13 bp):
GCCCGTGTCCTTG
Found at i:26641406 original size:32 final size:32
Alignment explanation
Indices: 26641369--26641445 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
26641359 ATGCATGTGT
* * **
26641369 GTAACTTTTCATCTTCAAGTCTCTTTGCATTA
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
* * *
26641401 TTAACTCTTCATATTCAAGCCTCTTCACATTC
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
26641433 GTAACTTTTCATA
1 GTAACTTTTCATA
26641446 ATTTATTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGCCTCTTCACATTA
Found at i:26642337 original size:20 final size:20
Alignment explanation
Indices: 26642300--26642337 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
26642290 AAAAGTTATA
*
26642300 AAAATTAAAAAATCAAAATC
1 AAAATTAAAAAATAAAAATC
26642320 AAAATTAAAAAATAAAAA
1 AAAATTAAAAAATAAAAA
26642338 AGGTTGGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (20 bp):
AAAATTAAAAAATAAAAATC
Found at i:26655203 original size:37 final size:39
Alignment explanation
Indices: 26655145--26655222 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 39
26655135 GTTCAATTCT
26655145 AATTTCAATTAAATAATATTTT-AAAATAT-TTTATTTA
1 AATTTCAATTAAATAATATTTTAAAAATATATTTATTTA
26655182 AATTT-AATTATAA-AATAATTTTGAAAAAATATATTTATTTA
1 AATTTCAATTA-AATAAT-ATTTT--AAAAATATATTTATTTA
26655223 TTTATTGGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
36 8 0.23
37 12 0.34
40 7 0.20
41 8 0.23
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (39 bp):
AATTTCAATTAAATAATATTTTAAAAATATATTTATTTA
Found at i:26656569 original size:16 final size:16
Alignment explanation
Indices: 26656548--26656597 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
26656538 ATATCTAGTC
26656548 ATATAATAAATTATTA
1 ATATAATAAATTATTA
*
26656564 ATATAATTAATTATT-
1 ATATAATAAATTATTA
26656579 -T-TAATAAATTATTTA
1 ATATAATAAATTA-TTA
26656594 ATAT
1 ATAT
26656598 TTTAATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
13 9 0.32
14 3 0.11
16 15 0.54
17 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:26656584 original size:29 final size:30
Alignment explanation
Indices: 26656551--26656616 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
26656541 TCTAGTCATA
26656551 TAATAAATTA-TTAATATAATTAA-TTATTT
1 TAATAAATTATTTAATAT-ATTAATTTATTT
*
26656580 TAATAAATTATTTAATATTTTAATTTTATTT
1 TAATAAATTATTTAATATATTAA-TTTATTT
26656611 TAATAA
1 TAATAA
26656617 GAAATGTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 14 0.42
30 7 0.21
31 12 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (30 bp):
TAATAAATTATTTAATATATTAATTTATTT
Found at i:26657098 original size:14 final size:14
Alignment explanation
Indices: 26657076--26657114 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
26657066 AAAAAAAAGT
26657076 AAGTCATTTTCCAG
1 AAGTCATTTTCCAG
*
26657090 ATA-TCATTTTCTAG
1 A-AGTCATTTTCCAG
26657104 AAGTCATTTTC
1 AAGTCATTTTC
26657115 AGTGAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 1 0.05
14 20 0.91
15 1 0.05
ACGTcount: A:0.28, C:0.18, G:0.10, T:0.44
Consensus pattern (14 bp):
AAGTCATTTTCCAG
Found at i:26659270 original size:20 final size:20
Alignment explanation
Indices: 26659229--26659332 Score: 79
Period size: 20 Copynumber: 5.1 Consensus size: 20
26659219 GATAAATTTG
*
26659229 AATCTATCGATACTT-AACAA
1 AATCTATTGATACTTGAA-AA
26659249 AATCTATTGATACTTGAAAA
1 AATCTATTGATACTTGAAAA
***
26659269 AAAGAATTGATA-TCTGAAAA
1 AATCTATTGATACT-TGAAAA
***
26659289 AAAGAATTGATATCTT-AACAA
1 AATCTATTGATA-CTTGAA-AA
26659310 AATCTATTGATACTTGACAAA
1 AATCTATTGATACTTGA-AAA
26659331 AA
1 AA
26659333 GAATTGATAT
Statistics
Matches: 70, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
19 1 0.01
20 48 0.69
21 19 0.27
22 2 0.03
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.30
Consensus pattern (20 bp):
AATCTATTGATACTTGAAAA
Found at i:26659338 original size:20 final size:20
Alignment explanation
Indices: 26659254--26659341 Score: 99
Period size: 20 Copynumber: 4.3 Consensus size: 20
26659244 AACAAAATCT
26659254 ATTGATACTTGAAAAAAAGA
1 ATTGATACTTGAAAAAAAGA
26659274 ATTGATA-TCTGAAAAAAAGA
1 ATTGATACT-TGAAAAAAAGA
***
26659294 ATTGATATCTT-AACAAAATCT
1 ATTGATA-CTTGAA-AAAAAGA
*
26659315 ATTGATACTTGACAAAAAGA
1 ATTGATACTTGAAAAAAAGA
26659335 ATTGATA
1 ATTGATA
26659342 TAGGATCGAT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
19 1 0.02
20 41 0.73
21 13 0.23
22 1 0.02
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (20 bp):
ATTGATACTTGAAAAAAAGA
Found at i:26659934 original size:28 final size:30
Alignment explanation
Indices: 26659870--26659934 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 30
26659860 ATGTTGCTAC
26659870 TATTTTGTTGTTATTGTTTAGATATTGTAT
1 TATTTTGTTGTTATTGTTTAGATATTGTAT
* *
26659900 AACTTTTGTT-TTATT-TTTA-ATTTTGTTAT
1 TA-TTTTGTTGTTATTGTTTAGATATTG-TAT
26659929 TATTTT
1 TATTTT
26659935 AAAGGCATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
28 9 0.30
29 8 0.27
30 6 0.20
31 7 0.23
ACGTcount: A:0.20, C:0.02, G:0.11, T:0.68
Consensus pattern (30 bp):
TATTTTGTTGTTATTGTTTAGATATTGTAT
Found at i:26664340 original size:3 final size:3
Alignment explanation
Indices: 26664334--26664377 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
26664324 TAAGTAAAAT
26664334 ATA ATA ATA ATA ACTA A-A AT- ATA ATA ATA AT- ATA AT- ATA ATA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
26664376 AT
1 AT
26664378 TAAAAGTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
2 8 0.22
3 25 0.69
4 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:26664353 original size:20 final size:20
Alignment explanation
Indices: 26664328--26664365 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
26664318 ATTATTTAAG
26664328 TAAAATATAATAATAATAAC
1 TAAAATATAATAATAATAAC
26664348 TAAAATATAATAATAATA
1 TAAAATATAATAATAATA
26664366 TAATATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAATATAATAATAATAAC
Found at i:26664391 original size:10 final size:9
Alignment explanation
Indices: 26664328--26664410 Score: 60
Period size: 10 Copynumber: 8.4 Consensus size: 9
26664318 ATTATTTAAG
26664328 TAAAATATAA
1 TAAAATA-AA
*
26664338 TAATAATAAC
1 TAA-AATAAA
26664348 TAAAATATAA
1 TAAAATA-AA
26664358 TAATAATATAA
1 TAA-AATA-AA
* *
26664369 TATAATAAT
1 TAAAATAAA
26664378 TAAAAGTAAA
1 TAAAA-TAAA
26664388 TAAAATAAA
1 TAAAATAAA
26664397 -AGAAATAGAA
1 TA-AAATA-AA
26664407 TAAA
1 TAAA
26664411 GAAAGAAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
8 1 0.02
9 18 0.30
10 27 0.45
11 14 0.23
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (9 bp):
TAAAATAAA
Found at i:26668099 original size:27 final size:28
Alignment explanation
Indices: 26668047--26668101 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
26668037 TTTACAGTCC
26668047 GGGCCTGAGCCCCTTACAGAATCAATTT
1 GGGCCTGAGCCCCTTACAGAATCAATTT
26668075 GGGCCTGAG-CCCTTACAG-ATACAATTT
1 GGGCCTGAGCCCCTTACAGAAT-CAATTT
26668102 CAAAATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 2 0.08
27 15 0.58
28 9 0.35
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (28 bp):
GGGCCTGAGCCCCTTACAGAATCAATTT
Found at i:26668602 original size:17 final size:18
Alignment explanation
Indices: 26668566--26668606 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
26668556 AAAATGGGCG
26668566 CACACGCCCATGTAGGCC
1 CACACGCCCATGTAGGCC
* *
26668584 CACAGGCCCGTGT-GGCC
1 CACACGCCCATGTAGGCC
26668601 CACACG
1 CACACG
26668607 GCACAAATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.20, C:0.44, G:0.27, T:0.10
Consensus pattern (18 bp):
CACACGCCCATGTAGGCC
Found at i:26668713 original size:31 final size:31
Alignment explanation
Indices: 26668678--26668745 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
26668668 CCTAGAATCT
* *
26668678 CACACGCCCGTGTGGTTTAC-CTATGTGGGCC
1 CACACGCCCATGTGGTTTACTC-ATGTGGGAC
*
26668709 CACACGCCCATGTGGTTTACTCGTGTGGGAC
1 CACACGCCCATGTGGTTTACTCATGTGGGAC
26668740 CACACG
1 CACACG
26668746 ACCAAATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 32 0.97
32 1 0.03
ACGTcount: A:0.16, C:0.32, G:0.28, T:0.24
Consensus pattern (31 bp):
CACACGCCCATGTGGTTTACTCATGTGGGAC
Found at i:26677475 original size:24 final size:24
Alignment explanation
Indices: 26677431--26677482 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
26677421 TTTCTAGAAG
**
26677431 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGTATTTATTAACATAATAT
*
26677455 ATTTAGTATTTATTAACATAATTT
1 ATTTAGTATTTATTAACATAATAT
26677479 ATTT
1 ATTT
26677483 GAACTACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.56
Consensus pattern (24 bp):
ATTTAGTATTTATTAACATAATAT
Found at i:26688095 original size:59 final size:62
Alignment explanation
Indices: 26688014--26688130 Score: 150
Period size: 62 Copynumber: 1.9 Consensus size: 62
26688004 AACACTTTCA
* * * *
26688014 TATTAAATTGATATAATATTTATC-T-T-GATAAATATGATATTAAATTTAATATTAAATCT
1 TATTAAAATAATAAAATATTTATCTTGTAGATAAATATGAAATTAAATTTAATATTAAATCT
* * *
26688073 TATTAAAATAATAAAATGTTTATCTTGTAGATAAATATTAAATTATATTTAATATTAA
1 TATTAAAATAATAAAATATTTATCTTGTAGATAAATATGAAATTAAATTTAATATTAA
26688131 GATAATCACT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 20 0.42
60 1 0.02
61 1 0.02
62 26 0.54
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (62 bp):
TATTAAAATAATAAAATATTTATCTTGTAGATAAATATGAAATTAAATTTAATATTAAATCT
Found at i:26688128 original size:17 final size:19
Alignment explanation
Indices: 26688106--26688154 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
26688096 CTTGTAGATA
26688106 AATATTAAATTAT-A-TTT
1 AATATTAAATTATCACTTT
*
26688123 AATATTAAGATAATCACTTT
1 AATATTAA-ATTATCACTTT
26688143 AATATTAAATTA
1 AATATTAAATTA
26688155 ATAAAATGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 8 0.30
18 4 0.15
19 4 0.15
20 11 0.41
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (19 bp):
AATATTAAATTATCACTTT
Found at i:26694837 original size:15 final size:15
Alignment explanation
Indices: 26694817--26694846 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
26694807 CTATGCATGC
*
26694817 AAAATATAAAAGACA
1 AAAATACAAAAGACA
26694832 AAAATACAAAAGACA
1 AAAATACAAAAGACA
26694847 TGATAGTGAA
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:0.73, C:0.10, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAATACAAAAGACA
Found at i:26698188 original size:3 final size:3
Alignment explanation
Indices: 26698177--26698206 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
26698167 AGAAGAGAAA
*
26698177 GAG GCG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
26698207 AAGAAGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.03, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:26699843 original size:46 final size:46
Alignment explanation
Indices: 26699669--26699849 Score: 247
Period size: 46 Copynumber: 3.9 Consensus size: 46
26699659 TTCGACATGA
* * * * *
26699669 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCACGT
* ** ** *
26699715 TGCCATGGTATCATTCAACCATGGTCTTATTCATTTCCCGTTACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
26699761 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
26699807 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCA
26699850 AGTCTTACAC
Statistics
Matches: 120, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
45 4 0.03
46 116 0.97
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
Found at i:26699866 original size:67 final size:67
Alignment explanation
Indices: 26699784--26699912 Score: 231
Period size: 67 Copynumber: 1.9 Consensus size: 67
26699774 TTCAACCATG
*
26699784 GTCTTACACATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTC
1 GTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTC
26699849 AA
66 AA
* *
26699851 GTCTTACACGTTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 GTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
26699913 ATCAGGTTGC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (67 bp):
GTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTC
AA
Found at i:26699890 original size:46 final size:46
Alignment explanation
Indices: 26699850--26699963 Score: 185
Period size: 46 Copynumber: 2.5 Consensus size: 46
26699840 TTTCATGTCA
*
26699850 AGTCTTACACGTTTCATATCAGGTTGCCATGGTATCTTTCAACCAT
1 AGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCAT
*
26699896 GGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCAT
1 AGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCAT
*
26699942 GGTCTTACACATTTTC-TATCAG
1 AGTCTTACACA-TTTCATATCAG
26699964 AGAGCACACT
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
46 61 0.94
47 4 0.06
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
AGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCAT
Found at i:26702121 original size:11 final size:11
Alignment explanation
Indices: 26702105--26702156 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
26702095 TATACTAAAT
26702105 AAATAATAATA
1 AAATAATAATA
*
26702116 AAATAAT-ATT
1 AAATAATAATA
* *
26702126 AAATATCTCATA
1 AAATA-ATAATA
*
26702138 AAATATTAATA
1 AAATAATAATA
26702149 AAATAATA
1 AAATAATA
26702157 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:26703167 original size:21 final size:21
Alignment explanation
Indices: 26703141--26703181 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
26703131 GCCTGTTGAG
26703141 TTGGGGTACCCTCTTGCTGAT
1 TTGGGGTACCCTCTTGCTGAT
* *
26703162 TTGGGGTAGCCTGTTGCTGA
1 TTGGGGTACCCTCTTGCTGA
26703182 GTTAGGACAC
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:0.10, C:0.20, G:0.34, T:0.37
Consensus pattern (21 bp):
TTGGGGTACCCTCTTGCTGAT
Found at i:26703909 original size:40 final size:40
Alignment explanation
Indices: 26703865--26703965 Score: 184
Period size: 40 Copynumber: 2.5 Consensus size: 40
26703855 AAAAAAATAC
26703865 TCACTGCATGCATATTAAAAAATATTCAACACACCAACAA
1 TCACTGCATGCATATTAAAAAATATTCAACACACCAACAA
*
26703905 TCACTGTATGCATATTAAAAAATATTCAACACACCAACAA
1 TCACTGCATGCATATTAAAAAATATTCAACACACCAACAA
*
26703945 TCAGTGCATGCATATTAAAAA
1 TCACTGCATGCATATTAAAAA
26703966 CATTCACTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.47, C:0.22, G:0.07, T:0.25
Consensus pattern (40 bp):
TCACTGCATGCATATTAAAAAATATTCAACACACCAACAA
Found at i:26706023 original size:64 final size:64
Alignment explanation
Indices: 26705952--26706093 Score: 221
Period size: 64 Copynumber: 2.2 Consensus size: 64
26705942 TAGGATCTTG
* *
26705952 GATACAAACAATAATAGATATACACAATAAACATTAGTTTGATAATGGCATTCATACAATGGCA
1 GATACAAACAATAACAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGGCA
* **
26706016 GATACAAATAATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGGCA
1 GATACAAACAATAACAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGGCA
* *
26706080 GATATACACAATAA
1 GATACAAACAATAA
26706094 ACATCAGTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 68 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.25
Consensus pattern (64 bp):
GATACAAACAATAACAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGGCA
Found at i:26706082 original size:48 final size:48
Alignment explanation
Indices: 26706025--26706131 Score: 196
Period size: 48 Copynumber: 2.2 Consensus size: 48
26706015 AGATACAAAT
*
26706025 AATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCATAC
1 AATGGCAGATATACACAATAAACATCAGTTTGATAATGGAATTCATAC
*
26706073 AATGGCAGATATACACAATAAACATCAGTTTGATAATGGAATTCGTAC
1 AATGGCAGATATACACAATAAACATCAGTTTGATAATGGAATTCATAC
26706121 AATGGCAGATA
1 AATGGCAGATA
26706132 CGCTAATTAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (48 bp):
AATGGCAGATATACACAATAAACATCAGTTTGATAATGGAATTCATAC
Found at i:26706705 original size:30 final size:32
Alignment explanation
Indices: 26706639--26706707 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
26706629 ATCGTTAATC
* *
26706639 AGTGACTATTTTGTCACTTTTTTATAACGTTG
1 AGTGACTATTTTGTAACTTTTTGATAACGTTG
*
26706671 -GTGACTGTTTTGTAACTTTTTGA-AA-GTTG
1 AGTGACTATTTTGTAACTTTTTGATAACGTTG
26706700 AGTGACTA
1 AGTGACTA
26706708 AAATGAAACC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 4 0.12
30 8 0.25
31 20 0.62
ACGTcount: A:0.23, C:0.10, G:0.20, T:0.46
Consensus pattern (32 bp):
AGTGACTATTTTGTAACTTTTTGATAACGTTG
Found at i:26719205 original size:11 final size:11
Alignment explanation
Indices: 26719189--26719214 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
26719179 AACTTTGTCC
26719189 TTTCCTTTCCT
1 TTTCCTTTCCT
26719200 TTTCCTTTCCT
1 TTTCCTTTCCT
26719211 TTTC
1 TTTC
26719215 GAGGAATCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTCCTTTCCT
Found at i:26719207 original size:16 final size:17
Alignment explanation
Indices: 26719181--26719212 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
26719171 TCTTCAACAA
26719181 CTTTGTCCTTTCCTTTC
1 CTTTGTCCTTTCCTTTC
26719198 CTTT-TCCTTTCCTTT
1 CTTTGTCCTTTCCTTT
26719213 TCGAGGAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.00, C:0.34, G:0.03, T:0.62
Consensus pattern (17 bp):
CTTTGTCCTTTCCTTTC
Found at i:26720214 original size:10 final size:9
Alignment explanation
Indices: 26720196--26720228 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
26720186 AAAGTAAATC
26720196 TTTTTTTCT
1 TTTTTTTCT
26720205 TTTCTTTTCT
1 TTT-TTTTCT
26720215 TTTTTTT-T
1 TTTTTTTCT
26720223 TTTTTT
1 TTTTTT
26720229 GTAATCCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 7 0.30
9 7 0.30
10 9 0.39
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:26720217 original size:18 final size:16
Alignment explanation
Indices: 26720194--26720228 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
26720184 ATAAAGTAAA
26720194 TCTTTTTTTCTTTTCTTT
1 TCTTTTTTT-TTTT-TTT
26720212 TCTTTTTTTTTTTTTT
1 TCTTTTTTTTTTTTTT
26720228 T
1 T
26720229 GTAATCCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 4 0.24
18 9 0.53
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (16 bp):
TCTTTTTTTTTTTTTT
Found at i:26721317 original size:11 final size:12
Alignment explanation
Indices: 26721300--26721333 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
26721290 ATTTAAGTAA
26721300 ATATTATAATAT
1 ATATTATAATAT
26721312 -TATTATAATAT
1 ATATTATAATAT
26721323 ATCATTATAAT
1 AT-ATTATAAT
26721334 TAAAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.55
12 1 0.05
13 8 0.40
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (12 bp):
ATATTATAATAT
Found at i:26721418 original size:15 final size:15
Alignment explanation
Indices: 26721390--26721423 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
26721380 ACATAAAGTT
26721390 GAAACGAAAAAGAAA
1 GAAACGAAAAAGAAA
26721405 GAAA-GAAAATAGAAA
1 GAAACGAAAA-AGAAA
26721420 GAAA
1 GAAA
26721424 AAGAAAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.74, C:0.03, G:0.21, T:0.03
Consensus pattern (15 bp):
GAAACGAAAAAGAAA
Found at i:26722955 original size:21 final size:22
Alignment explanation
Indices: 26722926--26722967 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
26722916 TGAACATATG
*
26722926 TATGTTATGTTCAAG-TAATAA
1 TATGGTATGTTCAAGTTAATAA
26722947 TATGGTATGTTCAAGTTAATA
1 TATGGTATGTTCAAGTTAATA
26722968 CTCAAATGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.43
Consensus pattern (22 bp):
TATGGTATGTTCAAGTTAATAA
Found at i:26723670 original size:19 final size:20
Alignment explanation
Indices: 26723641--26723679 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
26723631 AAAGGAACAT
26723641 TATGATTAAATTATGATGTG
1 TATGATTAAATTATGATGTG
*
26723661 TATG-TTAAATTATTATGTG
1 TATGATTAAATTATGATGTG
26723680 ATTATTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (20 bp):
TATGATTAAATTATGATGTG
Found at i:26724679 original size:19 final size:19
Alignment explanation
Indices: 26724627--26724677 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
26724617 ATGGGATTTC
*
26724627 TTATTTTT-TTATTATAATT
1 TTATTTTTCTT-TTCTAATT
26724646 TTATTTTTCTTTTCTAATT
1 TTATTTTTCTTTTCTAATT
26724665 TTAATTTTTCTTT
1 TT-ATTTTTCTTT
26724678 CTCTTCCCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.75
Consensus pattern (19 bp):
TTATTTTTCTTTTCTAATT
Found at i:26730556 original size:13 final size:13
Alignment explanation
Indices: 26730540--26730580 Score: 82
Period size: 13 Copynumber: 3.2 Consensus size: 13
26730530 TGCGGTGTAA
26730540 AAGTACTTTTGAG
1 AAGTACTTTTGAG
26730553 AAGTACTTTTGAG
1 AAGTACTTTTGAG
26730566 AAGTACTTTTGAG
1 AAGTACTTTTGAG
26730579 AA
1 AA
26730581 AATTTAAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (13 bp):
AAGTACTTTTGAG
Found at i:26731876 original size:42 final size:43
Alignment explanation
Indices: 26731794--26731879 Score: 113
Period size: 42 Copynumber: 2.0 Consensus size: 43
26731784 ATAAAAACAT
* **
26731794 ATAAATATTTTTAAATATATATAATGATAAAATTTAAAATTAA
1 ATAAATATATTTAAATATATATAATGATAAAAAATAAAATTAA
*
26731837 ATAAATATATTTAAA-ATATATAATTATATAAAAAT-AAATTAA
1 ATAAATATATTTAAATATATATAATGATA-AAAAATAAAATTAA
26731879 A
1 A
26731880 ATCCTTCACT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 20 0.53
43 18 0.47
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (43 bp):
ATAAATATATTTAAATATATATAATGATAAAAAATAAAATTAA
Found at i:26737103 original size:7 final size:7
Alignment explanation
Indices: 26737093--26737125 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
26737083 GGAGTGGGGG
26737093 CTTTTGC
1 CTTTTGC
26737100 CTTTTGC
1 CTTTTGC
26737107 CTTTTGC
1 CTTTTGC
*
26737114 CTTTTGG
1 CTTTTGC
26737121 CTTTT
1 CTTTT
26737126 CATTAAAGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.15, T:0.61
Consensus pattern (7 bp):
CTTTTGC
Found at i:26744671 original size:15 final size:16
Alignment explanation
Indices: 26744651--26744685 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
26744641 GCTTTTAAAA
26744651 TAATATGAA-TTGTTT
1 TAATATGAACTTGTTT
*
26744666 TAATATGAACTTTTTT
1 TAATATGAACTTGTTT
26744682 TAAT
1 TAAT
26744686 TTATTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (16 bp):
TAATATGAACTTGTTT
Found at i:26747321 original size:17 final size:17
Alignment explanation
Indices: 26747299--26747336 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
26747289 GTTCGAAAAA
26747299 GGACTAAATCGCATAAG
1 GGACTAAATCGCATAAG
26747316 GGACTAAATCGCATAAG
1 GGACTAAATCGCATAAG
26747333 GGAC
1 GGAC
26747337 AAAAGTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.39, C:0.18, G:0.26, T:0.16
Consensus pattern (17 bp):
GGACTAAATCGCATAAG
Found at i:26749470 original size:48 final size:48
Alignment explanation
Indices: 26749396--26749496 Score: 125
Period size: 48 Copynumber: 2.1 Consensus size: 48
26749386 TAGGGGTGTT
**
26749396 ACATGGCATCGGCAATGTTACAAGAGCTAGAT-TAAGACCAAGT-TTGGG
1 ACATGGCATCGGCAATGAGACAAGAGCTAG-TGTAAGACCAAGTCTT-GG
* * *
26749444 ACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACCATGTCTTGG
1 ACATGGCATCGGCAATGAGACAAGAGCTAGTGTAAGACCAAGTCTTGG
26749492 ACATG
1 ACATG
26749497 ATATCAGCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
47 1 0.02
48 43 0.93
49 2 0.04
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.23
Consensus pattern (48 bp):
ACATGGCATCGGCAATGAGACAAGAGCTAGTGTAAGACCAAGTCTTGG
Found at i:26757099 original size:48 final size:48
Alignment explanation
Indices: 26756995--26757264 Score: 240
Period size: 48 Copynumber: 5.6 Consensus size: 48
26756985 TGTGTGCTAC
* * * * * * *
26756995 TGTAAGGCCATGTTTGGGACATGGAATCGAC-ACATTATGAAAGCTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCAATATTATGAGAGCCAG
* *
26757042 TGCAAGACCATGTTTGGAACATGGCATTGGCAATATTATGAGAGCCAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCAATATTATGAGAGCCAG
* * * *
26757090 TGTAAGACCATGTTTGGAACATGGCATCGACAATGTTATGAGACCCAA
1 TGTAAGACCATGTTTGGAACATGGCATCGGCAATATTATGAGAGCCAG
* * * * * *
26757138 TGTAAGACCATTTTTGGAACATGGCATCAGTAATGTTACGAGAGCCTG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCAATATTATGAGAGCCAG
* * * * * * * *
26757186 AGTAAGAGCATGTCT-GAGACATGGCATCGGTATTGA-GACGAGAGCTAG
1 TGTAAGACCATGTTTGGA-ACATGGCATCGGCAAT-ATTATGAGAGCCAG
* *
26757234 TGTAAGACCATGTCTGGGACATGGCATCGGC
1 TGTAAGACCATGTTTGGAACATGGCATCGGC
26757265 CTCGACATAT
Statistics
Matches: 182, Mismatches: 37, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
47 27 0.15
48 154 0.85
49 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (48 bp):
TGTAAGACCATGTTTGGAACATGGCATCGGCAATATTATGAGAGCCAG
Found at i:26757279 original size:48 final size:48
Alignment explanation
Indices: 26757187--26757284 Score: 117
Period size: 48 Copynumber: 2.0 Consensus size: 48
26757177 GAGAGCCTGA
* * * *
26757187 GTAAGAGCATGTCTGAGACATGGCATCGGTATTGAGACGAGAGCTAGT
1 GTAAGACCATGTCTGAGACATGGCATCGGCATCGACACGAGAGCTAGT
* * *
26757235 GTAAGACCATGTCTGGGACATGGCATCGGCCTCGACA-TATGAGCTAGT
1 GTAAGACCATGTCTGAGACATGGCATCGGCATCGACACGA-GAGCTAGT
26757283 GT
1 GT
26757285 GGCCTCGACA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
47 1 0.02
48 41 0.98
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (48 bp):
GTAAGACCATGTCTGAGACATGGCATCGGCATCGACACGAGAGCTAGT
Found at i:26757292 original size:23 final size:23
Alignment explanation
Indices: 26757262--26757307 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
26757252 ACATGGCATC
26757262 GGCCTCGACATATGAGCTAGTGT
1 GGCCTCGACATATGAGCTAGTGT
*
26757285 GGCCTCGACATGTGAGCTAGTGT
1 GGCCTCGACATATGAGCTAGTGT
26757308 AAAACTATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.22, G:0.33, T:0.26
Consensus pattern (23 bp):
GGCCTCGACATATGAGCTAGTGT
Found at i:26759123 original size:19 final size:19
Alignment explanation
Indices: 26759073--26759126 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 19
26759063 TAGCATCGAA
* * *
26759073 GTGCATCCTGACGTACAAG
1 GTGCATCTTGGCGCACAAG
*
26759092 ATGCATACTTGGCGCACAAG
1 GTGCAT-CTTGGCGCACAAG
26759112 GTGCATCTTGGCGCA
1 GTGCATCTTGGCGCA
26759127 TAAGTGTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.24, C:0.26, G:0.28, T:0.22
Consensus pattern (19 bp):
GTGCATCTTGGCGCACAAG
Found at i:26760252 original size:20 final size:20
Alignment explanation
Indices: 26760229--26760267 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26760219 TTAATTAAAA
*
26760229 TAATTAACCTTACTTTAATT
1 TAATAAACCTTACTTTAATT
*
26760249 TAATAAACCTTATTTTAAT
1 TAATAAACCTTACTTTAAT
26760268 GAAGCTATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATAAACCTTACTTTAATT
Found at i:26773363 original size:43 final size:43
Alignment explanation
Indices: 26773256--26773363 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 43
26773246 TAGCCCAGCT
* *
26773256 ATGGTCTTACACAAAATCAAATAACGATGCCAATGTGCCAGAC
1 ATGGTCTTACACATAATCACATAACGATGCCAATGTGCCAGAC
* * * * * *
26773299 ATAGTCTTACACGTGACCACATAATGATGCCAATGT-CCTAGGC
1 ATGGTCTTACACATAATCACATAACGATGCCAATGTGCC-AGAC
26773342 ATGGTCTTACACATAATCACAT
1 ATGGTCTTACACATAATCACAT
26773364 CTCGTTAATC
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 2 0.04
43 50 0.96
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAACGATGCCAATGTGCCAGAC
Found at i:26774872 original size:30 final size:30
Alignment explanation
Indices: 26774836--26774895 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
26774826 TTCCCGAGCC
26774836 TAGGGGCAAAAGT-GTAATTATGCAAAAGTT
1 TAGGGGCAAAA-TAGTAATTATGCAAAAGTT
* *
26774866 TAGGGGCAAAATAGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATAGTAATTATGCAAAAGTT
26774896 CGTATTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATAGTAATTATGCAAAAGTT
Found at i:26775357 original size:46 final size:46
Alignment explanation
Indices: 26775304--26775474 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
26775294 TGGTTGAGCA
*
26775304 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* **** * * * *
26775350 TCCGAACTTGTTGAGTTGAGTCCGAGTTCTGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGA-ACG
*
26775396 TCC-AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* *
26775441 -CCTGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
26775475 GGGCGGGTTA
Statistics
Matches: 99, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
44 2 0.02
45 32 0.32
46 65 0.66
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:26775463 original size:91 final size:92
Alignment explanation
Indices: 26775301--26775469 Score: 270
Period size: 91 Copynumber: 1.8 Consensus size: 92
26775291 GGATGGTTGA
* **
26775301 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCATTGAGT
26775366 TGAGTCCGAGTTCTGAGATGTAACTAG
66 TGAGTCCGAGTTCTGAGATGTAACTAG
* *
26775393 GCATCC-AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCC-GAACTCATTGAG
26775456 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
26775470 ACTTAGGGCG
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
90 2 0.03
91 63 0.89
92 6 0.08
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCTGAGATGTAACTAG
Found at i:26777481 original size:31 final size:28
Alignment explanation
Indices: 26777423--26777481 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
26777413 AAGAGTTGTT
*
26777423 GATTAGTAAGTACCAGGGATTGTTCCTA
1 GATTAGTAAGTACCAGGAATTGTTCCTA
*
26777451 GATTAGTAAGTATGCTAGGAATATGTTCCTA
1 GATTAGTAAGTA--CCAGGAAT-TGTTCCTA
26777482 CGAAGCCAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 12 0.46
30 6 0.23
31 8 0.31
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.34
Consensus pattern (28 bp):
GATTAGTAAGTACCAGGAATTGTTCCTA
Found at i:26782821 original size:46 final size:46
Alignment explanation
Indices: 26782768--26782940 Score: 206
Period size: 46 Copynumber: 3.7 Consensus size: 46
26782758 TGGTTGAGCA
*
26782768 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * * * *
26782814 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGA-ACG
* *
26782861 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * *
26782907 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
26782941 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
45 1 0.01
46 68 0.65
47 35 0.33
48 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:26782924 original size:93 final size:93
Alignment explanation
Indices: 26782765--26782936 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
26782755 GGATGGTTGA
* * * *
26782765 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTGAGT
26782830 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
* *
26782858 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTGAGT
26782923 TGAGTCCGAGTTCA
66 TGAGTCCGAGTTCA
26782937 CTTAGGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:26785546 original size:40 final size:40
Alignment explanation
Indices: 26785491--26785798 Score: 535
Period size: 40 Copynumber: 7.7 Consensus size: 40
26785481 GAGCATTGGA
26785491 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
26785531 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
26785571 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
26785611 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
26785651 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
26785691 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
26785731 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
26785771 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
26785799 ATGTGTTTGC
Statistics
Matches: 255, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 255 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:26798801 original size:30 final size:30
Alignment explanation
Indices: 26798765--26798824 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
26798755 TTCCCGAGCC
26798765 TAGGGGCAAAAGT-GTAATTATGCAAAAGTT
1 TAGGGGCAAAA-TAGTAATTATGCAAAAGTT
* *
26798795 TAGGGGCAAAATAGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATAGTAATTATGCAAAAGTT
26798825 CGTATTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATAGTAATTATGCAAAAGTT
Found at i:26799297 original size:47 final size:47
Alignment explanation
Indices: 26799246--26799422 Score: 204
Period size: 47 Copynumber: 3.8 Consensus size: 47
26799236 TGGTTGAACA
* *
26799246 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGTGAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* * *
26799293 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA--A--CG
*
26799340 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
*
26799386 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
26799423 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
43 2 0.02
44 5 0.05
45 5 0.05
46 34 0.31
47 57 0.51
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
Found at i:26815976 original size:21 final size:21
Alignment explanation
Indices: 26815952--26816015 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
26815942 GCGTCGTATT
26815952 TCAGGCACCTCGTGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
*
26815973 TCAGGCACCTCGTGTGTCGTT
1 TCAGGCACCTCGTGTGTCGTA
* * **
26815994 TTAGGCACTTTATGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
26816015 T
1 T
26816016 ACTGATCAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (21 bp):
TCAGGCACCTCGTGTGTCGTA
Found at i:26833117 original size:79 final size:80
Alignment explanation
Indices: 26832967--26833117 Score: 200
Period size: 79 Copynumber: 1.9 Consensus size: 80
26832957 AGTTGAAATA
*
26832967 CTATCGAGTCATACCTACTGAATATACTGAAATGTATGCGCTATGGAGCCATACCTACTGAATTT
1 CTATCGAGTCATACCTACTGAATATACTGAAATGTATGCGCTATGGAGCCATACATACTGAATTT
*
26833032 ATTGAAATGTATGCG
66 ACTGAAATGTATGCG
* * * * *
26833047 CTATCGAG-CTATACCTATTGATTCTACTGAAA-GTATGCTCTATTGAGCCATACATACTG-ATT
1 CTATCGAGTC-ATACCTACTGAATATACTGAAATGTATGCGCTATGGAGCCATACATACTGAATT
26833109 CTACTGAAA
65 -TACTGAAA
26833118 GTAGCTCAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 3 0.05
79 32 0.52
80 27 0.44
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (80 bp):
CTATCGAGTCATACCTACTGAATATACTGAAATGTATGCGCTATGGAGCCATACATACTGAATTT
ACTGAAATGTATGCG
Found at i:26833120 original size:39 final size:40
Alignment explanation
Indices: 26832967--26833117 Score: 189
Period size: 40 Copynumber: 3.8 Consensus size: 40
26832957 AGTTGAAATA
* * *
26832967 CTATCGAGTCATACCTACTGAATATACTGAAATGTATGCG
1 CTATCGAGCCATACCTACTGATTCTACTGAAATGTATGCG
* *
26833007 CTATGGAGCCATACCTACTGAATT-TATTGAAATGTATGCG
1 CTATCGAGCCATACCTACTG-ATTCTACTGAAATGTATGCG
* * *
26833047 CTATCGAGCTATACCTATTGATTCTACTGAAA-GTATGCT
1 CTATCGAGCCATACCTACTGATTCTACTGAAATGTATGCG
* *
26833086 CTATTGAGCCATACATACTGATTCTACTGAAA
1 CTATCGAGCCATACCTACTGATTCTACTGAAA
26833118 GTAGCTCAAA
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 37 0.39
40 57 0.59
41 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (40 bp):
CTATCGAGCCATACCTACTGATTCTACTGAAATGTATGCG
Found at i:26853385 original size:47 final size:47
Alignment explanation
Indices: 26853267--26853439 Score: 191
Period size: 45 Copynumber: 3.7 Consensus size: 47
26853257 GGATGGTTGA
*
26853267 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
26853315 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
*
26853358 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
26853407 -C-GCCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
26853440 TAGGGCGGGT
Statistics
Matches: 108, Mismatches: 8, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 33 0.31
46 30 0.28
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
Found at i:26869315 original size:21 final size:21
Alignment explanation
Indices: 26869291--26869354 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
26869281 GCGTCGTATT
26869291 TCAGGCACCTCGTGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
*
26869312 TCAGGCACCTCGTGTGTCGTT
1 TCAGGCACCTCGTGTGTCGTA
* * **
26869333 TTAGGCACTTTATGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
26869354 T
1 T
26869355 ACTGATCAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (21 bp):
TCAGGCACCTCGTGTGTCGTA
Found at i:26886599 original size:79 final size:80
Alignment explanation
Indices: 26886449--26886599 Score: 200
Period size: 79 Copynumber: 1.9 Consensus size: 80
26886439 AGTTGAAATA
*
26886449 CTATCGAGTCATACCTACTGAATATACTGAAATGTATGCGCTATGGAGCCATACCTACTGAATTT
1 CTATCGAGTCATACCTACTGAATATACTGAAATGTATGCGCTATGGAGCCATACATACTGAATTT
*
26886514 ATTGAAATGTATGCG
66 ACTGAAATGTATGCG
* * * * *
26886529 CTATCGAG-CTATACCTATTGATTCTACTGAAA-GTATGCTCTATTGAGCCATACATACTG-ATT
1 CTATCGAGTC-ATACCTACTGAATATACTGAAATGTATGCGCTATGGAGCCATACATACTGAATT
26886591 CTACTGAAA
65 -TACTGAAA
26886600 GTAGCTCAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 3 0.05
79 32 0.52
80 27 0.44
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (80 bp):
CTATCGAGTCATACCTACTGAATATACTGAAATGTATGCGCTATGGAGCCATACATACTGAATTT
ACTGAAATGTATGCG
Found at i:26886602 original size:39 final size:40
Alignment explanation
Indices: 26886449--26886599 Score: 189
Period size: 40 Copynumber: 3.8 Consensus size: 40
26886439 AGTTGAAATA
* * *
26886449 CTATCGAGTCATACCTACTGAATATACTGAAATGTATGCG
1 CTATCGAGCCATACCTACTGATTCTACTGAAATGTATGCG
* *
26886489 CTATGGAGCCATACCTACTGAATT-TATTGAAATGTATGCG
1 CTATCGAGCCATACCTACTG-ATTCTACTGAAATGTATGCG
* * *
26886529 CTATCGAGCTATACCTATTGATTCTACTGAAA-GTATGCT
1 CTATCGAGCCATACCTACTGATTCTACTGAAATGTATGCG
* *
26886568 CTATTGAGCCATACATACTGATTCTACTGAAA
1 CTATCGAGCCATACCTACTGATTCTACTGAAA
26886600 GTAGCTCAAA
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 37 0.39
40 57 0.59
41 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (40 bp):
CTATCGAGCCATACCTACTGATTCTACTGAAATGTATGCG
Found at i:26902238 original size:30 final size:30
Alignment explanation
Indices: 26902202--26902259 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
26902192 GTGAGAAGGC
26902202 TGGTGGTTGAAGGCATGCGGCTAAAAACTT
1 TGGTGGTTGAAGGCATGCGGCTAAAAACTT
26902232 TGGTGGTTGAAGGCATGCGGCTAAAAAC
1 TGGTGGTTGAAGGCATGCGGCTAAAAAC
26902260 ATAGTGGGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.24
Consensus pattern (30 bp):
TGGTGGTTGAAGGCATGCGGCTAAAAACTT
Found at i:26902641 original size:44 final size:43
Alignment explanation
Indices: 26902501--26902646 Score: 143
Period size: 45 Copynumber: 3.3 Consensus size: 43
26902491 GGAATGCGAT
* * * *
26902501 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACTCCAA
1 ATCTGTTATCTTTGATCTGCTCTCTGTC-AACACAGAGACT-CAA
* *
26902546 ATCTGTCAT-TTTCGATCTGCTCTTCTGTCAACACAGATA-TGCCAA
1 ATCTGTTATCTTT-GATCTGCTC-TCTGTCAACACAGAGACT--CAA
* *
26902591 ACCTGTTATCTTTGATCTGCTCTCTATCAACACAGAGACATCAA
1 ATCTGTTATCTTTGATCTGCTCTCTGTCAACACAGAGAC-TCAA
26902635 ATCTGTTATCTT
1 ATCTGTTATCTT
26902647 CAACTTGTTC
Statistics
Matches: 84, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
44 32 0.38
45 44 0.52
46 8 0.10
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.35
Consensus pattern (43 bp):
ATCTGTTATCTTTGATCTGCTCTCTGTCAACACAGAGACTCAA
Found at i:26902753 original size:44 final size:44
Alignment explanation
Indices: 26902705--26902863 Score: 126
Period size: 44 Copynumber: 3.6 Consensus size: 44
26902695 TGCTTCACTG
* *
26902705 TAAGCATAGGAATGTCAGATATGCTATCTTCGATCTGTTCCCTA
1 TAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTA
* * * * * * *
26902749 TAAGCACAGGGATGCCAAATCTACTGTTTTC-AACTTGTTCCCTA
1 TAAGCACAGGAATGTCAGATCTGCTATCTTCGATC-TGTTCCCTA
* * * ** * *
26902793 TAAGCATAGGGATG-C-CATGCTGAAATCTTTGATCTGCTTCACTA
1 TAAGCACAGGAATGTCAGAT-CTGCTATCTTCGATCTG-TTCCCTA
26902837 TAAGCACAGGAATGTCAGATCTGCTAT
1 TAAGCACAGGAATGTCAGATCTGCTAT
26902864 TTTCAGTCTG
Statistics
Matches: 85, Mismatches: 24, Indels: 11
0.71 0.20 0.09
Matches are distributed among these distances:
42 2 0.02
43 10 0.12
44 65 0.76
45 6 0.07
46 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
TAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTA
Found at i:26903298 original size:86 final size:86
Alignment explanation
Indices: 26903065--26903440 Score: 412
Period size: 86 Copynumber: 4.3 Consensus size: 86
26903055 GATTTCTAGC
* * * *
26903065 CTGTTACCCTACTACTTAGGGGGTTAAGGCCCATCGTCTTCGATCTGTTTCCCTACTACTTAGGG
1 CTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGG
* ***
26903130 TGATAAGATCTGTGAATTTAAC
66 GGATAAGATCTGT-AATTTGGT
* * *** * * * *
26903152 CTGTTGCCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCCTCGAT-TATCTCCACTAATGCTTAGG
1 CTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCC-CTACTGCTTAGG
* *
26903216 GAGATAAGATCTGTAATTCGGT
65 GGGATAAGATCTGTAATTTGGT
* * * *
26903238 CTGTTACCTTACTACTTAGGGGTTTAAGACCCTTTGTCTTTGATCTGTTTCCCCACTGCTTAGGG
1 CTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGG
*
26903303 GGATAAGATCTGCAATTTGGT
66 GGATAAGATCTGTAATTTGGT
* *
26903324 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCAATCTGTTTCCCTACTGCTTAGGG
1 CTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGG
* * *
26903389 GGTTAAGATCTGTAAATCTTCAGC
66 GGATAAGATCTGT-AAT-TT-GGT
* * *
26903413 CTATTACCCTACTGCTTAGGGGGTTAAG
1 CTGTTACCCTACTACTTAGGGGTTTAAG
26903441 GCTTGTAAAT
Statistics
Matches: 240, Mismatches: 44, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
86 143 0.60
87 68 0.28
88 2 0.01
89 27 0.11
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (86 bp):
CTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGG
GGATAAGATCTGTAATTTGGT
Found at i:26903300 original size:44 final size:44
Alignment explanation
Indices: 26903065--26903396 Score: 160
Period size: 44 Copynumber: 7.7 Consensus size: 44
26903055 GATTTCTAGC
* * * * * *
26903065 CTGTTACCCTACTACTTAGGGGGTTAAGGCCCATCGTCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGACCCTTTGTCTTTGAT
* * * * * ** * *
26903109 CTGTTTCCCTACTACTTAGGGTGATAAGA-TCTGTGAATTTAAC
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGACCCTTTGTCTTTGAT
* * *** * * *
26903152 CTGTTGCCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCCTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGACCCTTTGTCTTTGAT
* * * * * * * * *
26903196 -TATCTCCACTAATGCTTAGGGAGATAAGA---TCTGTAATTCGGT
1 CTGTTTCC-CTACTGCTTAGGGGGTTAAGACCCTTTGT-CTTTGAT
* * * *
26903238 CTGTTACCTTACTACTTAGGGGTTTAAGACCCTTTGTCTTTGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGACCCTTTGTCTTTGAT
* * * *
26903282 CTGTTTCCCCACTGCTTAGGGGGATAAGA---TCTG-CAATTTGGT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGACCCTTTGTC--TTTGAT
* * * **
26903324 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCAAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGACCCTTTGTCTTTGAT
26903368 CTGTTTCCCTACTGCTTAGGGGGTTAAGA
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGA
26903397 TCTGTAAATC
Statistics
Matches: 203, Mismatches: 72, Indels: 26
0.67 0.24 0.09
Matches are distributed among these distances:
40 1 0.00
41 6 0.03
42 49 0.24
43 36 0.18
44 104 0.51
45 6 0.03
46 1 0.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (44 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGACCCTTTGTCTTTGAT
Found at i:26903448 original size:45 final size:43
Alignment explanation
Indices: 26903374--26903482 Score: 139
Period size: 43 Copynumber: 2.5 Consensus size: 43
26903364 CAATCTGTTT
26903374 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTATTA
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAA--TTCAGCCTATTA
* * * *
26903419 CCCTACTGCTTAGGGGGTTAAG-GCTTGTAAATTCGGCTTGTTA
1 CCCTACTGCTTAGGGGGTTAAGATC-TGTAAATTCAGCCTATTA
*
26903462 CCCTACTGCTTAAGGGGTTAA
1 CCCTACTGCTTAGGGGGTTAA
26903483 AGCCCATCAT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
43 29 0.50
44 1 0.02
45 28 0.48
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (43 bp):
CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTATTA
Found at i:26903479 original size:43 final size:44
Alignment explanation
Indices: 26903282--26903482 Score: 160
Period size: 45 Copynumber: 4.6 Consensus size: 44
26903272 TGTCTTTGAT
* * * * ** *
26903282 CTGTTTCCCCACTGCTTAGGGGGATAAGATCTG-CAA-TTTGGT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAACTTCAGC
* * *** **
26903324 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCT-TCGTCTTCAAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGA-TCTGTAAACTTCAGC
*
26903368 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAA-CTTCAGC
* * *
26903413 CTATTACCCTACTGCTTAGGGGGTTAAG-GCTTGTAAA-TTCGGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATC-TGTAAACTTCAGC
* *
26903456 TTGTTACCCTACTGCTTAAGGGGTTAA
1 CTGTTACCCTACTGCTTAGGGGGTTAA
26903483 AGCCCATCAT
Statistics
Matches: 128, Mismatches: 25, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
42 25 0.20
43 34 0.27
44 32 0.25
45 37 0.29
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAACTTCAGC
Found at i:26910837 original size:15 final size:14
Alignment explanation
Indices: 26910795--26910844 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
26910785 ATAACTTTGA
*
26910795 ATGCAAATGATGTG
1 ATGCAAATGATGAG
26910809 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
26910824 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
26910838 ATGCAAA
1 ATGCAAA
26910845 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:26910887 original size:14 final size:14
Alignment explanation
Indices: 26910868--26910894 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26910858 CTGGTTCAAC
26910868 TTTATTTAGAAAAT
1 TTTATTTAGAAAAT
26910882 TTTATTTAGAAAA
1 TTTATTTAGAAAA
26910895 AGAATATCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
TTTATTTAGAAAAT
Found at i:26927581 original size:23 final size:22
Alignment explanation
Indices: 26927555--26927613 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
26927545 ATTATCAAAA
26927555 CAAA-AATATTATTAGCAATTACG
1 CAAATAATATTATTAG-AATT-CG
*
26927578 CAAATACTTATT-TTAGAATTCG
1 CAAATA-ATATTATTAGAATTCG
26927600 -AAATAATATTATTA
1 CAAATAATATTATTA
26927614 TTTATTGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
20 4 0.13
21 8 0.26
22 2 0.06
23 8 0.26
24 5 0.16
25 4 0.13
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (22 bp):
CAAATAATATTATTAGAATTCG
Found at i:26927734 original size:19 final size:18
Alignment explanation
Indices: 26927710--26927753 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
26927700 TAATGATTAC
26927710 TTAAATTAATTATATAAAA
1 TTAAATTAATTAT-TAAAA
**
26927729 TTAAATTTTTTATTAAAA
1 TTAAATTAATTATTAAAA
26927747 -TAAATTA
1 TTAAATTA
26927754 TATAAATACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 6 0.27
18 5 0.23
19 11 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTAAATTAATTATTAAAA
Found at i:26938646 original size:21 final size:21
Alignment explanation
Indices: 26938603--26938676 Score: 75
Period size: 20 Copynumber: 3.7 Consensus size: 21
26938593 AAATCTCGAG
* *
26938603 ATTTAGGGTTTGA-GTTTAGA
1 ATTTAAGGTTTTAGGTTTAGA
*
26938623 ATTTAAGGTTTTAGGTTCAGA
1 ATTTAAGGTTTTAGGTTTAGA
*
26938644 ATTCAAGG-TTTAGGTTTA-A
1 ATTTAAGGTTTTAGGTTTAGA
*
26938663 ATTT-AGGATTTAGG
1 ATTTAAGGTTTTAGG
26938677 GTTACAAGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
18 3 0.07
19 10 0.22
20 20 0.43
21 13 0.28
ACGTcount: A:0.28, C:0.03, G:0.26, T:0.43
Consensus pattern (21 bp):
ATTTAAGGTTTTAGGTTTAGA
Found at i:26948685 original size:30 final size:30
Alignment explanation
Indices: 26948651--26948711 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
26948641 TCCTTAACTC
26948651 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
26948681 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
26948711 A
1 A
26948712 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:26950857 original size:24 final size:25
Alignment explanation
Indices: 26950812--26950884 Score: 89
Period size: 24 Copynumber: 3.0 Consensus size: 25
26950802 TTCAACTATG
*
26950812 ATTAAACT-TAATCATTTTAATATTAA
1 ATTAAA-TATAAT-ATTTAAATATTAA
26950838 ATT-AATATAATATTTAAATATTAA
1 ATTAAATATAATATTTAAATATTAA
*
26950862 ATTAAATTTAATA-TTAAATATTA
1 ATTAAATATAATATTTAAATATTA
26950885 TTAAAATACT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
24 26 0.60
25 14 0.33
26 3 0.07
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTAAATATAATATTTAAATATTAA
Found at i:26950967 original size:20 final size:18
Alignment explanation
Indices: 26950917--26950968 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
26950907 TACAAGATAA
26950917 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
26950934 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
26950954 AATATTAAATTAATA
1 AATATTAAATTAATA
26950969 AAATCTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:26960108 original size:35 final size:35
Alignment explanation
Indices: 26960065--26960220 Score: 141
Period size: 35 Copynumber: 4.5 Consensus size: 35
26960055 CAAGGTTTAT
*
26960065 TATATCATCACATATGGCCAAATATACAAGTACAA
1 TATATCATCACATATGGCCAAATATACAAGTTCAA
* * * * * *
26960100 TTTATCATCATATATGACCGAATATTCAAGCTCAA
1 TATATCATCACATATGGCCAAATATACAAGTTCAA
* * ** * * *** *
26960135 TAAAACATCACAGGTAGTCAAATATTTTAGTTTAA
1 TATATCATCACATATGGCCAAATATACAAGTTCAA
* *
26960170 TATAACATCACATGTGGCCAAATATACAAGTTCAA
1 TATATCATCACATATGGCCAAATATACAAGTTCAA
26960205 TATATCATCACATATG
1 TATATCATCACATATG
26960221 TACATACCTA
Statistics
Matches: 90, Mismatches: 31, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
35 90 1.00
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.31
Consensus pattern (35 bp):
TATATCATCACATATGGCCAAATATACAAGTTCAA
Found at i:26964436 original size:5 final size:5
Alignment explanation
Indices: 26964426--26964487 Score: 124
Period size: 5 Copynumber: 12.4 Consensus size: 5
26964416 TTATGTTTTA
26964426 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
26964476 ATTAT ATTAT AT
1 ATTAT ATTAT AT
26964488 AAACTAAAGA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 57 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:26965778 original size:15 final size:15
Alignment explanation
Indices: 26965758--26965814 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
26965748 CGATGAATTT
*
26965758 ATTGAATTTATATTG
1 ATTGAAATTATATTG
*
26965773 ATTGAAATTATTTTG
1 ATTGAAATTATATTG
26965788 ATTGAAATTATATTG
1 ATTGAAATTATATTG
26965803 ATTG-AATTATAT
1 ATTGAAATTATAT
26965815 AATATATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 8 0.21
15 31 0.79
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:26966213 original size:23 final size:23
Alignment explanation
Indices: 26966187--26966273 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
26966177 GCTTTATCGA
* * *
26966187 TCAGGCACTTTATGTGTCATATT
1 TCAGGCACCTCATGTGTCGTATT
*
26966210 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
26966231 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
26966253 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
26966274 ACTGATCAGG
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
21 35 0.65
22 2 0.04
23 17 0.31
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:26974216 original size:9 final size:9
Alignment explanation
Indices: 26974202--26974229 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
26974192 TTTCCCTTTC
26974202 TTCTTTCTT
1 TTCTTTCTT
26974211 TTCTTTCTT
1 TTCTTTCTT
26974220 TTCTTTCTT
1 TTCTTTCTT
26974229 T
1 T
26974230 CATTCTTACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTCTTTCTT
Found at i:26974453 original size:16 final size:17
Alignment explanation
Indices: 26974436--26974511 Score: 61
Period size: 20 Copynumber: 4.4 Consensus size: 17
26974426 TATTTATTAT
26974436 ATAAATATCTTATAAT-
1 ATAAATATCTTATAATA
* *
26974452 ATAATTA-CTTA-ATTA
1 ATAAATATCTTATAATA
26974467 ATAAATATCTTTTATAAATA
1 ATAAATATC--TTAT-AATA
26974487 ATAAATATC-TATTAATA
1 ATAAATATCTTA-TAATA
26974504 ATTAAATA
1 A-TAAATA
26974512 CATGCATTAC
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
14 2 0.04
15 10 0.21
16 7 0.15
17 7 0.15
18 10 0.21
20 12 0.25
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (17 bp):
ATAAATATCTTATAATA
Found at i:26977048 original size:28 final size:28
Alignment explanation
Indices: 26977008--26977064 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
26976998 CCATTGGAAG
26977008 TAAAGTTAATAATTTTTAGTTTTGTATT
1 TAAAGTTAATAATTTTTAGTTTTGTATT
26977036 TAAAGTTAATAATTTTTAGTTTTGTATT
1 TAAAGTTAATAATTTTTAGTTTTGTATT
26977064 T
1 T
26977065 GATTCGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.58
Consensus pattern (28 bp):
TAAAGTTAATAATTTTTAGTTTTGTATT
Found at i:26982642 original size:34 final size:34
Alignment explanation
Indices: 26982568--26982642 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 34
26982558 AATATTGTTT
* * *
26982568 AATATAAATTAATTTTAATATTTTTTATTAATCA
1 AATATAAATAAATTTAAATATTATTTATTAATCA
*
26982602 ATTATAAA-AAATTTAAATAATTATTT-TTAATACA
1 AATATAAATAAATTTAAAT-ATTATTTATTAAT-CA
26982636 AATATAA
1 AATATAA
26982643 TTTTATTAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
33 13 0.38
34 21 0.62
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (34 bp):
AATATAAATAAATTTAAATATTATTTATTAATCA
Found at i:26983781 original size:18 final size:18
Alignment explanation
Indices: 26983760--26983796 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
26983750 TAAATTTTCG
*
26983760 AATTCGAATAACTTGAAT
1 AATTCGAATAAATTGAAT
26983778 AATTCGAATAAATTGAAT
1 AATTCGAATAAATTGAAT
26983796 A
1 A
26983797 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.32
Consensus pattern (18 bp):
AATTCGAATAAATTGAAT
Found at i:26984461 original size:37 final size:37
Alignment explanation
Indices: 26984411--26984487 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
26984401 TCAAAATACA
26984411 TAATCAGAAGATAATTGAAGAACCTAAGCAAAGAAGC
1 TAATCAGAAGATAATTGAAGAACCTAAGCAAAGAAGC
26984448 TAATCAGAAGATAATTGAAGAACCTAAGCAAAGAAGC
1 TAATCAGAAGATAATTGAAGAACCTAAGCAAAGAAGC
26984485 TAA
1 TAA
26984488 CCCGTATATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.52, C:0.13, G:0.18, T:0.17
Consensus pattern (37 bp):
TAATCAGAAGATAATTGAAGAACCTAAGCAAAGAAGC
Found at i:26985979 original size:38 final size:38
Alignment explanation
Indices: 26985928--26986004 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
26985918 CCACGCGGCT
26985928 AGGTCACACGCCCATGTGAAACATACTGACTAGGTTTC
1 AGGTCACACGCCCATGTGAAACATACTGACTAGGTTTC
*
26985966 AGGTCACACGCCCATGTGAAACATACTGACTTGGTTTC
1 AGGTCACACGCCCATGTGAAACATACTGACTAGGTTTC
26986004 A
1 A
26986005 AATTTAACAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.25
Consensus pattern (38 bp):
AGGTCACACGCCCATGTGAAACATACTGACTAGGTTTC
Found at i:26987818 original size:20 final size:21
Alignment explanation
Indices: 26987780--26987819 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
26987770 CTTGTATGAC
26987780 TATCATCAAACATTCAAAATG
1 TATCATCAAACATTCAAAATG
*
26987801 TATCATTAAACA-TCAAAAT
1 TATCATCAAACATTCAAAAT
26987820 ACTCATGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.50, C:0.17, G:0.03, T:0.30
Consensus pattern (21 bp):
TATCATCAAACATTCAAAATG
Found at i:26992941 original size:488 final size:488
Alignment explanation
Indices: 26992025--26993481 Score: 2720
Period size: 488 Copynumber: 3.0 Consensus size: 488
26992015 TTGTTAACAT
26992025 TCAGGTCTATAGTTTCTCACACTGTCAGCACTCGATACCAATGTAGCTTGAGCTTTAGGACTTGA
1 TCAGGTCTATAGTTTCTCACACTGTCAGCACTCGATACCAATGTAGCTTGAGCTTTAGGACTTGA
*
26992090 AAATTATTTTCCACGATCTCTGCTCGAATACCCGATTGAAACATTTGGATGAGTGAACAAATCTT
66 AAATTATTTTCCACGATCTCTGCTCGAATGCCCGATTGAAACATTTGGATGAGTGAACAAATCTT
* *
26992155 TGAATTTCTTTAATGGAGATTGATATGGCTTATTCATTGATCTTTTTCTCGAGTCTCCAGCCTCT
131 TGAATTTCTTTGACGGAGATTGATATGGCTTATTCATTGATCTTTTTCTCGAGTCTCCAGCCTCT
26992220 GAATGTGCTTTTCTCTTTTCTTTACTAAGCTCATTGGCTTTGCAAGCTCTGTCGACCAGGACAAC
196 GAATGTGCTTTTCTCTTTTCTTTACTAAGCTCATTGGCTTTGCAAGCTCTGTCGACCAGGACAAC
26992285 AAATTCTTTCAATTCTAGAATTCTGACTAGAAGTTTAATATCCTCATTCAACCCATCAACAAATT
261 AAATTCTTTCAATTCTAGAATTCTGACTAGAAGTTTAATATCCTCATTCAACCCATCAACAAATT
**
26992350 GTTTGCACATGATTTCTTCAGTAGAAATATATTCCTGAGCATACTTAATCAACCGTACAAATTCT
326 GTTTGCACATGATTTCTTTGGTAGAAATATATTCCTGAGCATACTTAATCAACCGTACAAATTCT
*
26992415 TTTTCATACTCGGTCACCGTCATACGGCCCTGTTTCAATTCTAGAAACTCTTTGTGCTTTTGATC
391 CTTTCATACTCGGTCACCGTCATACGGCCCTGTTTCAATTCTAGAAACTCTTTGTGCTTTTGATC
*
26992480 AAGAAACTGCTGACTTATATATTTCTCACACTG
456 AAGAAACTGCTGACTTATATATTTCTCACACTA
26992513 TCAGGTCTATAGTTTCTCACACTGTCAGCACTCGATACCAATGTAGCTTGAGCTTTAGGACTTGA
1 TCAGGTCTATAGTTTCTCACACTGTCAGCACTCGATACCAATGTAGCTTGAGCTTTAGGACTTGA
*
26992578 AAATTATTTTCCACGATCTCTACTCGAATGCCCGATTGAAACATTTGGATGAGTGAACAAATCTT
66 AAATTATTTTCCACGATCTCTGCTCGAATGCCCGATTGAAACATTTGGATGAGTGAACAAATCTT
26992643 TGAATTTCTTTGACGGAGATTGATATGGCTTATTCATTGATCTTTTTCTCGAGTCTCCAGCCTCT
131 TGAATTTCTTTGACGGAGATTGATATGGCTTATTCATTGATCTTTTTCTCGAGTCTCCAGCCTCT
26992708 GAATGTGCTTTTCTCTTTTCTTTACTAAGCTCATTGGCTTTGCAAGCTCTGTCGACCAGGACAAC
196 GAATGTGCTTTTCTCTTTTCTTTACTAAGCTCATTGGCTTTGCAAGCTCTGTCGACCAGGACAAC
*
26992773 AAATTCTTTCAATTCTAGAATTCTGACTAGAAGTTTAATATCCTCATTCAACCCATCAAAAAATT
261 AAATTCTTTCAATTCTAGAATTCTGACTAGAAGTTTAATATCCTCATTCAACCCATCAACAAATT
26992838 GTTTGCACATGATTTCTTTGGTAGAAATATATTCCTGAGCATACTTAATCAACCGTACAAATTCT
326 GTTTGCACATGATTTCTTTGGTAGAAATATATTCCTGAGCATACTTAATCAACCGTACAAATTCT
*
26992903 CTTTCATACTCGGTCACCGTCATACGACCCTGTTTCAATTCTAGAAACTCTTTGTGCTTTTGATC
391 CTTTCATACTCGGTCACCGTCATACGGCCCTGTTTCAATTCTAGAAACTCTTTGTGCTTTTGATC
26992968 AAGAAACTGCTGACTTATATATTTCTCACACTA
456 AAGAAACTGCTGACTTATATATTTCTCACACTA
*
26993001 TCAGGTCTATAGTTTCTCACACTATCAGCACTCGATACCAATGTAGCTTGAGCTTTAGGACTTGA
1 TCAGGTCTATAGTTTCTCACACTGTCAGCACTCGATACCAATGTAGCTTGAGCTTTAGGACTTGA
*
26993066 AAATTATTTTCCACGATCTCTGCTCGAATGCCGGATTGAAACATTTGGATGAGTGAACAAATCTT
66 AAATTATTTTCCACGATCTCTGCTCGAATGCCCGATTGAAACATTTGGATGAGTGAACAAATCTT
* **
26993131 TGAATTTCTTTGACGGAGATTGATATGGCTTATTCATTGGTCTTTTTCTCGAGTCTATAGCCTCT
131 TGAATTTCTTTGACGGAGATTGATATGGCTTATTCATTGATCTTTTTCTCGAGTCTCCAGCCTCT
26993196 GAATGTGCTTTTCTCTTTTCTTTACTAAGCTCATTGGCTTTGCAAGCTCTGTCGACCAGGACAAC
196 GAATGTGCTTTTCTCTTTTCTTTACTAAGCTCATTGGCTTTGCAAGCTCTGTCGACCAGGACAAC
*
26993261 AAATTCTTTCAATTTTAGAATTCTGACTAGAAGTTTAATATCCTCATTCAACCCATCAACAAATT
261 AAATTCTTTCAATTCTAGAATTCTGACTAGAAGTTTAATATCCTCATTCAACCCATCAACAAATT
*
26993326 GTTTGCACATGATTT-TTTCGGTAGAAATATATTCCTGAGCATACTTAATCAATCGTACAAATTC
326 GTTTGCACATGATTTCTTT-GGTAGAAATATATTCCTGAGCATACTTAATCAACCGTACAAATTC
26993390 TCTTTCATACTCGGTCACCGTCATACGGCCCTGTTTCAATTCTAGAAACTCTTTGTGCTTTTGAT
390 TCTTTCATACTCGGTCACCGTCATACGGCCCTGTTTCAATTCTAGAAACTCTTTGTGCTTTTGAT
*
26993455 CAATG-AACTACTGACTTATATATTTCT
455 CAA-GAAACTGCTGACTTATATATTTCT
26993482 TCTGGAACTC
Statistics
Matches: 946, Mismatches: 21, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
487 3 0.00
488 942 1.00
489 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.37
Consensus pattern (488 bp):
TCAGGTCTATAGTTTCTCACACTGTCAGCACTCGATACCAATGTAGCTTGAGCTTTAGGACTTGA
AAATTATTTTCCACGATCTCTGCTCGAATGCCCGATTGAAACATTTGGATGAGTGAACAAATCTT
TGAATTTCTTTGACGGAGATTGATATGGCTTATTCATTGATCTTTTTCTCGAGTCTCCAGCCTCT
GAATGTGCTTTTCTCTTTTCTTTACTAAGCTCATTGGCTTTGCAAGCTCTGTCGACCAGGACAAC
AAATTCTTTCAATTCTAGAATTCTGACTAGAAGTTTAATATCCTCATTCAACCCATCAACAAATT
GTTTGCACATGATTTCTTTGGTAGAAATATATTCCTGAGCATACTTAATCAACCGTACAAATTCT
CTTTCATACTCGGTCACCGTCATACGGCCCTGTTTCAATTCTAGAAACTCTTTGTGCTTTTGATC
AAGAAACTGCTGACTTATATATTTCTCACACTA
Found at i:26999450 original size:20 final size:21
Alignment explanation
Indices: 26999412--26999451 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
26999402 CTTGCATGAC
26999412 TATCATCAAACATTCAAAATG
1 TATCATCAAACATTCAAAATG
*
26999433 TATCATTAAACA-TCAAAAT
1 TATCATCAAACATTCAAAAT
26999452 ACTCATGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.50, C:0.17, G:0.03, T:0.30
Consensus pattern (21 bp):
TATCATCAAACATTCAAAATG
Found at i:27000648 original size:28 final size:28
Alignment explanation
Indices: 27000623--27000679 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
27000613 CCTAAAACTC
27000623 TAAACCCAT-ATTTATTTTTTAAAAACCA
1 TAAA-CCATAATTTATTTTTTAAAAACCA
*
27000651 TAAACCTTAATTTATTTTTTTCAAAAACC
1 TAAACCATAATTTA-TTTTTT-AAAAACC
27000680 CTAACCCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 3 0.12
28 9 0.36
29 6 0.24
30 7 0.28
ACGTcount: A:0.40, C:0.18, G:0.00, T:0.42
Consensus pattern (28 bp):
TAAACCATAATTTATTTTTTAAAAACCA
Found at i:27000719 original size:79 final size:76
Alignment explanation
Indices: 27000610--27000756 Score: 179
Period size: 79 Copynumber: 1.9 Consensus size: 76
27000600 CCTATTAAAA
* * * * *
27000610 AACCCTAAAACTCTAAACCCATATTTATTTTTTAAAAACCATAAACCTTAATTTATTTTTTTCAA
1 AACCCTAAAACTCTAAACCCAAATTCATTTTTCAAAAACCATAAACCCTAA-TT-TTTTTTCCAA
27000675 AAACCCTAACCCT
64 AAACCCTAACCCT
* * *
27000688 AACCCTTAAAAC-CTTAAACCTAAATTCATTTTTCAAAAATCTTAAACCCTAATTTTTTTTCCAA
1 AACCC-TAAAACTC-TAAACCCAAATTCATTTTTCAAAAACCATAAACCCTAATTTTTTTTCCAA
27000752 AAACC
64 AAACC
27000757 TTACCCATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
77 14 0.24
78 8 0.14
79 37 0.63
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.35
Consensus pattern (76 bp):
AACCCTAAAACTCTAAACCCAAATTCATTTTTCAAAAACCATAAACCCTAATTTTTTTTCCAAAA
ACCCTAACCCT
Found at i:27000726 original size:28 final size:28
Alignment explanation
Indices: 27000695--27000759 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
27000685 CCTAACCCTT
27000695 AAAACCTTAAA-CCTAAATTCATTTTT-CA
1 AAAACCTTAAACCCT-AATT-ATTTTTCCA
* *
27000723 AAAATCTTAAACCCTAATTTTTTTTCCA
1 AAAACCTTAAACCCTAATTATTTTTCCA
27000751 AAAACCTTA
1 AAAACCTTA
27000760 CCCATAAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 5 0.16
28 24 0.75
29 3 0.09
ACGTcount: A:0.42, C:0.22, G:0.00, T:0.37
Consensus pattern (28 bp):
AAAACCTTAAACCCTAATTATTTTTCCA
Found at i:27001806 original size:19 final size:20
Alignment explanation
Indices: 27001757--27001814 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
27001747 TTTTCTTACA
27001757 TAAA-ATTTTCAAAATTTATC
1 TAAAGATTTT-AAAATTTATC
*
27001777 TAAATATTTTAAAATTTA-C
1 TAAAGATTTTAAAATTTATC
* *
27001796 TTAAGATTTTAAATTTTAT
1 TAAAGATTTTAAAATTTAT
27001815 TTATTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 16 0.48
20 12 0.36
21 5 0.15
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (20 bp):
TAAAGATTTTAAAATTTATC
Found at i:27004213 original size:6 final size:6
Alignment explanation
Indices: 27004204--27004230 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
27004194 ATTATTATTT
27004204 TTATAA TTATAA TTATAA TTATAA TTA
1 TTATAA TTATAA TTATAA TTATAA TTA
27004231 CTATGTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTATAA
Found at i:27010193 original size:35 final size:35
Alignment explanation
Indices: 27010142--27010235 Score: 102
Period size: 34 Copynumber: 2.7 Consensus size: 35
27010132 AATAGTCCTG
* * *
27010142 GGCCTAAGCCCTTCTCAGTATCAATTA-ACATTTTC
1 GGCCTTAGCCCATCTCAGTATCAATTATACA-TTAC
* * *
27010177 GGCCTTAGCCCATCTCAGTATC-AGTATGCATTAG
1 GGCCTTAGCCCATCTCAGTATCAATTATACATTAC
*
27010211 GGCCTTAGCCCATCACAGTATCAAT
1 GGCCTTAGCCCATCTCAGTATCAAT
27010236 AGCAATCATG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
34 26 0.53
35 23 0.47
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.30
Consensus pattern (35 bp):
GGCCTTAGCCCATCTCAGTATCAATTATACATTAC
Found at i:27017506 original size:25 final size:25
Alignment explanation
Indices: 27017489--27017535 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
27017479 TTTGATATAT
27017489 AATGAA-TTTATTGAATTTATATTG
1 AATGAATTTTATTGAATTTATATTG
*
27017513 ATTGAATTTTATTGAATTTATAT
1 AATGAATTTTATTGAATTTATAT
27017536 GATATATGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (25 bp):
AATGAATTTTATTGAATTTATATTG
Found at i:27017527 original size:14 final size:15
Alignment explanation
Indices: 27017498--27017527 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27017488 TAATGAATTT
27017498 ATTGAATTTATATTG
1 ATTGAATTTATATTG
27017513 ATTGAATTT-TATTG
1 ATTGAATTTATATTG
27017527 A
1 A
27017528 ATTTATATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:27024336 original size:13 final size:13
Alignment explanation
Indices: 27024318--27024364 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
27024308 TTCTTCCTTC
27024318 TCTTCTCTTTTCT
1 TCTTCTCTTTTCT
*
27024331 TCTTCTATTTTCT
1 TCTTCTCTTTTCT
* *
27024344 TTTTCTCCTTTTTT
1 TCTTCT-CTTTTCT
27024358 TCTTCTC
1 TCTTCTC
27024365 CAGCCGAAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
13 18 0.64
14 10 0.36
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (13 bp):
TCTTCTCTTTTCT
Found at i:27024344 original size:18 final size:19
Alignment explanation
Indices: 27024308--27024346 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
27024298 GAGTGCCGAA
*
27024308 TTCTTCCTTCTCTTCTCTT
1 TTCTTCCTTCTATTCTCTT
*
27024327 TTCTT-CTTCTATTTTCTT
1 TTCTTCCTTCTATTCTCTT
27024345 TT
1 TT
27024347 TCTCCTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (19 bp):
TTCTTCCTTCTATTCTCTT
Found at i:27025860 original size:20 final size:20
Alignment explanation
Indices: 27025823--27025862 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
27025813 TTGTTATAGG
*
27025823 CCAACTGTATTGAGATGGGC
1 CCAACTGTATTAAGATGGGC
* *
27025843 CCAACTGTGTTAATATGGGC
1 CCAACTGTATTAAGATGGGC
27025863 AAGGCCCAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (20 bp):
CCAACTGTATTAAGATGGGC
Found at i:27034856 original size:37 final size:37
Alignment explanation
Indices: 27034806--27034884 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
27034796 TTATTACGAA
* * *
27034806 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
27034843 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
27034880 GTCTT
1 GTCTT
27034885 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:27035081 original size:47 final size:47
Alignment explanation
Indices: 27035003--27035386 Score: 615
Period size: 47 Copynumber: 8.1 Consensus size: 47
27034993 CCCTTCGGGA
* * * * * *
27035003 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27035050 CCTGTCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27035097 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27035144 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27035193 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27035240 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27035287 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27035336 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27035383 CTTA
1 CTTA
27035387 CTATCATTTC
Statistics
Matches: 316, Mismatches: 17, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
47 224 0.71
49 92 0.29
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27035200 original size:96 final size:94
Alignment explanation
Indices: 27035003--27035386 Score: 615
Period size: 96 Copynumber: 4.0 Consensus size: 94
27034993 CCCTTCGGGA
* * * * * * * *
27035003 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
27035068 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
27035097 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATAC
27035162 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27035193 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
27035258 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
27035287 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
*
27035352 ACTTTCACGTTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
27035383 CTTA
1 CTTA
27035387 CTATCATTTC
Statistics
Matches: 272, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
94 94 0.35
96 178 0.65
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:27035272 original size:143 final size:143
Alignment explanation
Indices: 27035005--27035386 Score: 642
Period size: 143 Copynumber: 2.7 Consensus size: 143
27034995 CTTCGGGACT
* * * * * * * *
27035005 TATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
27035068 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
27035133 GGCCATTAGGCCC
131 GGCCATTAGGCCC
*
27035146 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACAC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
27035211 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
27035276 GGCCATTAGGCCT
131 GGCCATTAGGCCC
27035289 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
27035354 TTTCACGTTCATCACATCGGCCATTAGGCCTTA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTA
27035387 CTATCATTTC
Statistics
Matches: 226, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
141 8 0.04
142 1 0.00
143 217 0.96
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (143 bp):
TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCC
Found at i:27039398 original size:29 final size:29
Alignment explanation
Indices: 27039366--27039425 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
27039356 AGATGTGTCG
* * *
27039366 TGATATAGGTTTAGCTAGGATGGGTAACT
1 TGATATAGATTTAGCTAGGATGAGCAACT
* *
27039395 TGATATATATTTAGCTCGGATGAGCAACT
1 TGATATAGATTTAGCTAGGATGAGCAACT
27039424 TG
1 TG
27039426 GTGTGGTGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.28, C:0.10, G:0.27, T:0.35
Consensus pattern (29 bp):
TGATATAGATTTAGCTAGGATGAGCAACT
Done.