Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 135 of 204
Found at i:41366643 original size:3 final size:3
Alignment explanation
Indices: 41366622--41366679 Score: 80
Period size: 3 Copynumber: 19.0 Consensus size: 3
41366612 TAAAATTACT
* * *
41366622 TAA TAA TTAT TAA TGA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
41366668 TAA TAA TAA TAA
1 TAA TAA TAA TAA
41366680 AGTTAACAAG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
3 46 0.96
4 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:41368534 original size:95 final size:94
Alignment explanation
Indices: 41368363--41368542 Score: 297
Period size: 95 Copynumber: 1.9 Consensus size: 94
41368353 AAGATATGAA
*
41368363 ATCTTCAATCTATTCCACTGCCAACCAAGGAATAGAATTATCGGCTTCAATGTACTCCACTATAG
1 ATCTTCAATCTATTCCACTGCCAACCAAGGAATAGAATTATCGGCTTCAATGTACTCCACTATAA
* *
41368428 TCATAGTGAGGTAAAATCTGCCATCTTCG
66 TCACAGGGAGGTAAAATCTGCCATCTTCG
* * *
41368457 ATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTA
1 ATCTTCAATCTATTCCACTGCCAACCAAGGA-ATAGAATTATCGGCTTCAATGTACTCCACTATA
41368522 ATCACAGGGAGGTAAAATCTG
65 ATCACAGGGAGGTAAAATCTG
41368543 AAATTCTTTG
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
94 29 0.37
95 50 0.63
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (94 bp):
ATCTTCAATCTATTCCACTGCCAACCAAGGAATAGAATTATCGGCTTCAATGTACTCCACTATAA
TCACAGGGAGGTAAAATCTGCCATCTTCG
Found at i:41368834 original size:88 final size:88
Alignment explanation
Indices: 41368730--41369199 Score: 771
Period size: 88 Copynumber: 5.3 Consensus size: 88
41368720 CTTCAATCTA
* * *
41368730 CTCCGTCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTTAATGCGGGAAGG
1 CTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGG
41368795 CAAGATCTTTTGTCTTCAACCAG
66 CAAGATCTTTTGTCTTCAACCAG
*
41368818 CTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGAAAGG
1 CTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGG
41368883 CAAGATCTTTTGTCTTCAACCAG
66 CAAGATCTTTTGTCTTCAACCAG
* * * *
41368906 CTCCGTCACAACTGAGAGAGGCAAGGTTTGTGTCTTTGACCTGCTTCGCTGTCATTGCAGGAAGG
1 CTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGG
41368971 CAAGATCTTTTGTCTTCAACCAG
66 CAAGATCTTTTGTCTTCAACCAG
* *
41368994 CTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGTTGTCAATGCAGAAAGG
1 CTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGG
41369059 CAAGATCTTTTGTCTTCAACCAG
66 CAAGATCTTTTGTCTTCAACCAG
* * * *
41369082 CTCCATCACAACCAAGAGAGGCAAGGTTTGTGTCTTTGACCTGCTTCCCTGTCACTGCAGGAAGG
1 CTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGG
* * *
41369147 CAAGATATGTTATCTTCAACCAG
66 CAAGATCTTTTGTCTTCAACCAG
41369170 CTCCA-CTACAACCGAGAGAGGCAAGGTTTG
1 CTCCATC-ACAACCGAGAGAGGCAAGGTTTG
41369200 CAACTTCATT
Statistics
Matches: 356, Mismatches: 25, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
87 1 0.00
88 355 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (88 bp):
CTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGG
CAAGATCTTTTGTCTTCAACCAG
Found at i:41370450 original size:7 final size:7
Alignment explanation
Indices: 41370431--41370481 Score: 68
Period size: 7 Copynumber: 7.0 Consensus size: 7
41370421 TTAGCCTCTC
41370431 CATTTTT
1 CATTTTT
41370438 -ACTTTTT
1 CA-TTTTT
41370445 CATTTTTT
1 CA-TTTTT
41370453 CATTTTT
1 CATTTTT
41370460 CATTTTT
1 CATTTTT
41370467 CATTTTTT
1 CA-TTTTT
41370475 CATTTTT
1 CATTTTT
41370482 TTTGACTCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
6 1 0.03
7 24 0.60
8 15 0.38
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (7 bp):
CATTTTT
Found at i:41370451 original size:8 final size:8
Alignment explanation
Indices: 41370440--41370482 Score: 72
Period size: 8 Copynumber: 5.6 Consensus size: 8
41370430 CCATTTTTAC
41370440 TTTTTCAT
1 TTTTTCAT
41370448 TTTTTCA-
1 TTTTTCAT
41370455 TTTTTCA-
1 TTTTTCAT
41370462 TTTTTCAT
1 TTTTTCAT
41370470 TTTTTCAT
1 TTTTTCAT
41370478 TTTTT
1 TTTTT
41370483 TTGACTCAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 14 0.41
8 20 0.59
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTCAT
Found at i:41370456 original size:22 final size:22
Alignment explanation
Indices: 41370431--41370481 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 22
41370421 TTAGCCTCTC
41370431 CATTTTT-ACTTTTTCATTTTTT
1 CATTTTTCA-TTTTTCATTTTTT
41370453 CATTTTTCATTTTTCATTTTTT
1 CATTTTTCATTTTTCATTTTTT
41370475 CATTTTT
1 CATTTTT
41370482 TTTGACTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (22 bp):
CATTTTTCATTTTTCATTTTTT
Found at i:41371280 original size:12 final size:11
Alignment explanation
Indices: 41371255--41371301 Score: 51
Period size: 11 Copynumber: 4.1 Consensus size: 11
41371245 CGCCTTGACC
41371255 TCTCTTTTTCTT
1 TCTCTTTTT-TT
*
41371267 TTTCTTCTTTTT
1 TCTCTT-TTTTT
41371279 T-TCTTTTTTTT
1 TCTC-TTTTTTT
41371290 TCTCTTTTTTT
1 TCTCTTTTTTT
41371301 T
1 T
41371302 GACTTTGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
11 16 0.52
12 12 0.39
13 3 0.10
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TCTCTTTTTTT
Found at i:41371281 original size:11 final size:11
Alignment explanation
Indices: 41371265--41371300 Score: 58
Period size: 10 Copynumber: 3.5 Consensus size: 11
41371255 TCTCTTTTTC
41371265 TTTTTCTTCTT
1 TTTTTCTTCTT
41371276 TTTTTCTT-TT
1 TTTTTCTTCTT
41371286 TTTTTC-TCTT
1 TTTTTCTTCTT
41371296 TTTTT
1 TTTTT
41371301 TGACTTTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 1 0.04
10 15 0.62
11 8 0.33
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTCTTCTT
Found at i:41371284 original size:23 final size:22
Alignment explanation
Indices: 41371257--41371301 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
41371247 CCTTGACCTC
41371257 TCTTTTTCTTTT-TCTTCTTTTTT
1 TCTTTTT-TTTTCTCTT-TTTTTT
41371280 TCTTTTTTTTTCTCTTTTTTTT
1 TCTTTTTTTTTCTCTTTTTTTT
41371302 GACTTTGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (22 bp):
TCTTTTTTTTTCTCTTTTTTTT
Found at i:41371287 original size:10 final size:10
Alignment explanation
Indices: 41371260--41371301 Score: 57
Period size: 11 Copynumber: 3.9 Consensus size: 10
41371250 TGACCTCTCT
41371260 TTTTCTTTTTC
1 TTTT-TTTTTC
41371271 TTCTTTTTTTC
1 TT-TTTTTTTC
41371282 TTTTTTTTTC
1 TTTTTTTTTC
41371292 TCTTTTTTTT
1 T-TTTTTTTT
41371302 GACTTTGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.31
11 18 0.62
12 2 0.07
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:41371298 original size:8 final size:8
Alignment explanation
Indices: 41371259--41371288 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
41371249 TTGACCTCTC
41371259 TTTTTCTT
1 TTTTTCTT
41371267 TTTCTTCTT
1 TTT-TTCTT
41371276 TTTTTCTT
1 TTTTTCTT
41371284 TTTTT
1 TTTTT
41371289 TTCTCTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTCTT
Found at i:41371301 original size:21 final size:22
Alignment explanation
Indices: 41371260--41371300 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
41371250 TGACCTCTCT
41371260 TTTTCTTTTTCTTCTTTTTTTC
1 TTTTCTTTTTCTTCTTTTTTTC
41371282 TTTT-TTTTTC-TCTTTTTTT
1 TTTTCTTTTTCTTCTTTTTTT
41371301 TGACTTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
21 6 0.32
22 4 0.21
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (22 bp):
TTTTCTTTTTCTTCTTTTTTTC
Found at i:41371307 original size:23 final size:23
Alignment explanation
Indices: 41371258--41371307 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
41371248 CTTGACCTCT
*
41371258 CTTTTTCTTTTTCTTCTTTTTTT
1 CTTTTTCTTTTTCTTCTTTTTTA
41371281 CTTTTT-TTTTCTCTT-TTTTTTGA
1 CTTTTTCTTTT-TCTTCTTTTTT-A
41371304 CTTT
1 CTTT
41371308 GATTTTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (23 bp):
CTTTTTCTTTTTCTTCTTTTTTA
Found at i:41372535 original size:13 final size:13
Alignment explanation
Indices: 41372517--41372542 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41372507 CCTGCATGAT
41372517 ATTCGCATTGTGC
1 ATTCGCATTGTGC
41372530 ATTCGCATTGTGC
1 ATTCGCATTGTGC
41372543 CATTTGGGGT
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:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (13 bp):
ATTCGCATTGTGC
Found at i:41375491 original size:18 final size:17
Alignment explanation
Indices: 41375468--41375509 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
41375458 TCCAAACGCA
41375468 AAATATTGCCTTATTTTG
1 AAATATTGCCTT-TTTTG
*
41375486 AAATATTTTCCTTTTTTG
1 AAATA-TTGCCTTTTTTG
41375504 AAATAT
1 AAATAT
41375510 GAAGTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 15 0.68
19 6 0.27
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (17 bp):
AAATATTGCCTTTTTTG
Found at i:41375861 original size:18 final size:20
Alignment explanation
Indices: 41375821--41375862 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
41375811 ATAAATATGC
* *
41375821 ATATATATATATATAAATTT
1 ATATATATATAGATAAATGT
41375841 ATATATAT-TAGATAAA-GT
1 ATATATATATAGATAAATGT
41375859 ATAT
1 ATAT
41375863 GTAATGTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 7 0.35
20 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
ATATATATATAGATAAATGT
Found at i:41375966 original size:3 final size:3
Alignment explanation
Indices: 41375952--41375989 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
41375942 AATATAATGG
*
41375952 TAA TAA TGA TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
41375990 AGTTAACAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:41375973 original size:17 final size:17
Alignment explanation
Indices: 41375953--41375986 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
41375943 ATATAATGGT
*
41375953 AATAATGATAATAATAA
1 AATAATAATAATAATAA
41375970 AATAATAATAATAATAA
1 AATAATAATAATAATAA
41375987 TAAAGTTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
AATAATAATAATAATAA
Found at i:41375975 original size:20 final size:20
Alignment explanation
Indices: 41375952--41375990 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
41375942 AATATAATGG
*
41375952 TAATAATGATAATAATAAAA
1 TAATAATAATAATAATAAAA
41375972 TAATAATAATAATAATAAA
1 TAATAATAATAATAATAAA
41375991 GTTAACAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (20 bp):
TAATAATAATAATAATAAAA
Found at i:41378292 original size:83 final size:82
Alignment explanation
Indices: 41378188--41378339 Score: 241
Period size: 83 Copynumber: 1.8 Consensus size: 82
41378178 TTTAGGGGCC
* * * *
41378188 TAAAGTGTAATTTTATTATATATTAATTTATAATTTTATATTTATAAGAAGACTGAATTGACAAA
1 TAAAGTGTAATTTCACTATATATTAATTTATAATTTTATATTTATAAGAAGACTAAAATGA-AAA
41378253 TTTTCTTTTGGAGGGGGT
65 TTTTCTTTTGGAGGGGGT
* *
41378271 TAAAGTGTAATTTCACTATATATTAATTTATAATTTTCTATTTATAAGAGGACTAAAATGAAAAT
1 TAAAGTGTAATTTCACTATATATTAATTTATAATTTTATATTTATAAGAAGACTAAAATGAAAAT
41378336 TTTC
66 TTTC
41378340 ATTATTCGGA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
82 8 0.13
83 55 0.87
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (82 bp):
TAAAGTGTAATTTCACTATATATTAATTTATAATTTTATATTTATAAGAAGACTAAAATGAAAAT
TTTCTTTTGGAGGGGGT
Found at i:41380777 original size:18 final size:19
Alignment explanation
Indices: 41380754--41380794 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
41380744 TTTAAATACA
41380754 TTTATTTTAT-TATATCAT
1 TTTATTTTATCTATATCAT
*
41380772 TTTA-TTTATCTATATCCT
1 TTTATTTTATCTATATCAT
41380790 TTTAT
1 TTTAT
41380795 ATAATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTATTTTATCTATATCAT
Found at i:41380862 original size:30 final size:30
Alignment explanation
Indices: 41380826--41380888 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
41380816 TTTATTATTG
*
41380826 TTATTATTATTATTAATACCATCATCATTA
1 TTATTATTATTATTAATACCATAATCATTA
*
41380856 TTATTATTATTATTAATACCATAATTATTA
1 TTATTATTATTATTAATACCATAATCATTA
41380886 TTA
1 TTA
41380889 AATTGTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (30 bp):
TTATTATTATTATTAATACCATAATCATTA
Found at i:41380882 original size:15 final size:15
Alignment explanation
Indices: 41380834--41380885 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
41380824 TGTTATTATT
*
41380834 ATTATTAATACCATC
1 ATTATTAATACCATA
* * ** *
41380849 ATCATTATTATTATT
1 ATTATTAATACCATA
41380864 ATTATTAATACCATA
1 ATTATTAATACCATA
41380879 ATTATTA
1 ATTATTA
41380886 TTAAATTGTT
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATTAATACCATA
Found at i:41380888 original size:3 final size:3
Alignment explanation
Indices: 41380817--41380870 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
41380807 TTTAAGATTT
* * ** * *
41380817 TTA TTA TTG TTA TTA TTA TTA TTA ATA CCA TCA TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
41380865 TTA TTA
1 TTA TTA
41380871 ATACCATAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:41383211 original size:46 final size:46
Alignment explanation
Indices: 41383113--41383457 Score: 572
Period size: 46 Copynumber: 7.6 Consensus size: 46
41383103 TACGTATGAT
* * *
41383113 CACTTATCAC-TTGTC-CCTGATTAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
41383156 CACTTATCACTTTGTCATTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
41383202 CACTTATCACTTTGTCACTTGATCAGTTAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
41383248 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
41383294 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
41383340 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAACTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
41383386 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
41383432 CACTTATCACTTTGTCAC-TGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
41383458 AGTACTCAAA
Statistics
Matches: 284, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
43 10 0.04
44 5 0.02
45 26 0.09
46 243 0.86
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:41384959 original size:3 final size:3
Alignment explanation
Indices: 41384945--41385005 Score: 70
Period size: 3 Copynumber: 20.3 Consensus size: 3
41384935 ATATAAAAGT
* * *
41384945 ATA ATG ATA ATA ATA TATA ATA ATA ATA ATA ATA ATA ACA ATA ACA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
41384991 ATA TTA ATA A-A ATA A
1 ATA ATA ATA ATA ATA A
41385006 ATTAAAAACC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
2 2 0.04
3 43 0.90
4 3 0.06
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:41384965 original size:16 final size:16
Alignment explanation
Indices: 41384944--41384988 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
41384934 TATATAAAAG
*
41384944 TATAATGATAATAATA
1 TATAATAATAATAATA
41384960 TATAATAATAATAATA
1 TATAATAATAATAATA
*
41384976 -ATAATAACAATAA
1 TATAATAATAATAA
41384989 CAATATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 12 0.44
16 15 0.56
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
TATAATAATAATAATA
Found at i:41386530 original size:100 final size:100
Alignment explanation
Indices: 41386419--41386911 Score: 709
Period size: 100 Copynumber: 4.9 Consensus size: 100
41386409 CCAATTACAA
* * * * * * * * *
41386419 TGTCGAGGAAACAAGATCCGCCGTCGT-AGCTTCAATCTGTTCAACTGCACCGCTAAGGAGGTAA
1 TGTCGGGGAAACCAGATCTGCCGTTGTGA-CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAA
* *
41386483 GATCCGTCGTTGTGGTTTCAATCTTTTTAATTACGC
65 GATCCGCCGTTGTGGCTTCAATCTTTTTAATTACGC
* * * * *
41386519 TGTCGGGGAAACCAGATCCGCTGTTGTGACTTCAATCTACTTCACTGCACTGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
* *
41386584 ATCCGCTGTTGTGGCTTCAATCTTTTTAATTATGC
66 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTACGC
* * *
41386619 TGTCGGGGAAACTAGATCTGCCGTTGTAACTTCAATCAGCTCCACTGCACCGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
* *
41386684 ATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGC
66 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTACGC
*
41386719 TGTCGGGGAAACCAGATCTGCCATTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
*
41386784 ATCCGCCATTGTGGCTTCAATCTTTTTAATTACGC
66 ATCCGCCGTTGTGGCTTCAATCTTTTTAATTACGC
* * *
41386819 TGTCGGGGAAACTAGATCTGTCGTTGTGACTTCAATCTGCTCTACTGCACCGCCAGGGAAGTAAG
1 TGTCGGGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
*
41386884 ATCTGCCGTTGTGGCTTCAATCTTTTTA
66 ATCCGCCGTTGTGGCTTCAATCTTTTTA
41386912 CTGTACTGTC
Statistics
Matches: 351, Mismatches: 41, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
100 350 1.00
101 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.30
Consensus pattern (100 bp):
TGTCGGGGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAG
ATCCGCCGTTGTGGCTTCAATCTTTTTAATTACGC
Found at i:41386536 original size:50 final size:50
Alignment explanation
Indices: 41386481--41386856 Score: 248
Period size: 50 Copynumber: 7.5 Consensus size: 50
41386471 CTAAGGAGGT
* ** *
41386481 AAGATCCGTCGTTGTGGTTTCAATCTTTTTAATTACGCTGTCGGGGAAAC
1 AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCGCTGTCGGGGAAAC
* * ** * * * * * **
41386531 CAGATCCGCTGTTGTGACTTCAATCTACTTCACTGCACTGCCAGGGAAGT
1 AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCGCTGTCGGGGAAAC
* * **
41386581 AAGATCCGCTGTTGTGGCTTCAATCTTTTTAATTATGCTGTCGGGGAAAC
1 AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCGCTGTCGGGGAAAC
* * * *** ** * * * * * **
41386631 TAGATCTGCCGTTGTAACTTCAATCAGCTCCACTGCACCGCCAGGGAAGT
1 AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCGCTGTCGGGGAAAC
* *
41386681 AAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAAC
1 AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCGCTGTCGGGGAAAC
* * * ** ** * * * * * **
41386731 CAGATCTGCCATTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGT
1 AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCGCTGTCGGGGAAAC
* * *
41386781 AAGATCCGCCATTGTGGCTTCAATCTTTTTAATTACGCTGTCGGGGAAAC
1 AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCGCTGTCGGGGAAAC
* * *
41386831 TAGATCTGTCGTTGTGACTTCAATCT
1 AAGATCCGCCGTTGTGACTTCAATCT
41386857 GCTCTACTGC
Statistics
Matches: 230, Mismatches: 96, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
50 230 1.00
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.31
Consensus pattern (50 bp):
AAGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCGCTGTCGGGGAAAC
Found at i:41386878 original size:50 final size:50
Alignment explanation
Indices: 41386532--41386906 Score: 219
Period size: 50 Copynumber: 7.5 Consensus size: 50
41386522 CGGGGAAACC
* * * * *
41386532 AGATCCGCTGTTGTGACTTCAATCTACT-TCACTGCACTGCCAGGGAAGTA
1 AGATCTGCCGTTGTGACTTCAATCTGCTCT-ACTGCACCGCCAGGGAACTA
* * * * * * * * * *
41386582 AGATCCGCTGTTGTGGCTTCAATCT-TTTTAAT-TATGCTGTCGGGGAAACT-
1 AGATCTGCCGTTGTGACTTCAATCTGCTCTACTGCA--CCGCCAGGG-AACTA
* * * *
41386632 AGATCTGCCGTTGTAACTTCAATCAGCTCCACTGCACCGCCAGGGAAGTA
1 AGATCTGCCGTTGTGACTTCAATCTGCTCTACTGCACCGCCAGGGAACTA
* * * * * * * * *
41386682 AGATCTGCCGTTGTGGCTTCAATCT-TTTTAATTGCGCTGTCGGGGAAAC-C
1 AGATCTGCCGTTGTGACTTCAATCTGCTCT-ACTGCACCGCCAGGG-AACTA
* * *
41386732 AGATCTGCCATTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
1 AGATCTGCCGTTGTGACTTCAATCTGCTCTACTGCACCGCCAGGGAACTA
* * * * * * * * *
41386782 AGATCCGCCATTGTGGCTTCAATCT-TTTTAAT-TACGCTGTCGGGGAAACT-
1 AGATCTGCCGTTGTGACTTCAATCTGCTCTACTGCAC-C-GCCAGGG-AACTA
* *
41386832 AGATCTGTCGTTGTGACTTCAATCTGCTCTACTGCACCGCCAGGGAAGTA
1 AGATCTGCCGTTGTGACTTCAATCTGCTCTACTGCACCGCCAGGGAACTA
*
41386882 AGATCTGCCGTTGTGGCTTCAATCT
1 AGATCTGCCGTTGTGACTTCAATCT
41386907 TTTTACTGTA
Statistics
Matches: 239, Mismatches: 69, Indels: 34
0.70 0.20 0.10
Matches are distributed among these distances:
48 3 0.01
49 16 0.07
50 200 0.84
51 17 0.07
52 3 0.01
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (50 bp):
AGATCTGCCGTTGTGACTTCAATCTGCTCTACTGCACCGCCAGGGAACTA
Found at i:41387041 original size:88 final size:88
Alignment explanation
Indices: 41386934--41388221 Score: 1748
Period size: 88 Copynumber: 14.6 Consensus size: 88
41386924 GGTAATAAGA
* ** * * * * *
41386934 CTGGTGTCTTCGATCTGCTTAACCGTCAGTACAGGAATGTAAGATCTGCCATTTTCGACCTACTC
1 CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
* *
41386999 CACTACTACCCAGAGAGACAAGG
66 CACTACTGCCCAGGGAGACAAGG
* * * * *
41387022 CTGGTATCTTCGATCTGCTTCGCTGCCAGTAAAGAAATGTAAGATCTG-TCATTTTCAACCTACT
1 CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCT-ATTTTCAACCTACT
*
41387086 CCACTACTACCCAGGGAGACAAGG
65 CCACTACTGCCCAGGGAGACAAGG
* * * *
41387110 CTGGTATCTTCGATCTGCTTCGCTG-CTAGTAAAGAAATGTAAGATCTG-TCATTTTCAACCTAC
1 CTGGTATCTTCGATCTGCTTCGCTGTC-AGTACAGGAAGGCAAGATCTGCT-ATTTTCAACCTAC
*
41387173 TCCACTACTACCCAGGGAGACAAGG
64 TCCACTACTGCCCAGGGAGACAAGG
** * * ** *
41387198 CTGGTATCTTTTATCTGATTCGCTATCAGTACAGGAAGGCAAGATCTATTATTTTCAACCTGCTC
1 CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
*
41387263 CGCTACTGCCCAGGGAGACAAGG
66 CACTACTGCCCAGGGAGACAAGG
* * *
41387286 CTGATATCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTC
1 CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
** *
41387351 TGCTACTGCCCAGTGAGACAAGG
66 CACTACTGCCCAGGGAGACAAGG
* * *
41387374 CTGGTATATTCGATCTGTTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
1 CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
*
41387439 CACTACTACCCAGGGAGACAAGG
66 CACTACTGCCCAGGGAGACAAGG
* * *
41387462 CTGG-ATCTTTGATCTGCTTCGTTGTCAGTACAGG-AGGCAAGATCTGCTATTTTCAACCTGCTC
1 CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
* *
41387525 CGCTACTGCCCAGGGATACAAGG
66 CACTACTGCCCAGGGAGACAAGG
* * * ** *
41387548 CTGGTATCTTCGATCTGCTTCGCTGTTAGTACAGAAAGGCAAGATCTGCTATCTTCAGTCTGCTC
1 CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
* * ** * * *
41387613 CGCTGCAAACTCAGGAAGGCAAGG
66 CACTAC-TGCCCAGGGAGACAAGG
* * *
41387637 CT-GAAGTCTTTGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCT
1 CTGGTA-TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACT
**
41387701 CTGCTACTGCCCAGGGAGACAAGG
65 CCACTACTGCCCAGGGAGACAAGG
*
41387725 CTGGTATCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
1 CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
* *
41387790 CGCTACTGCCCAGGGAGACAAAG
66 CACTACTGCCCAGGGAGACAAGG
* *
41387813 CTGGTATCTTCGATCTGCTTCTCTGTCAGTATAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
1 CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
41387878 CACTACTGCCCAGGGAGACAAGG
66 CACTACTGCCCAGGGAGACAAGG
* *
41387901 CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTG-TCATTCTCAACCTACT
1 CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCT-ATTTTCAACCTACT
*
41387965 CTACTACTGCCCAGGGAGACAAGG
65 CCACTACTGCCCAGGGAGACAAGG
* *
41387989 CTGGTATCTTTGATCTGCTTCGCTGTCAGTACAGG-AGTGCAAGATCTGCTATTTTCAACCTGCT
1 CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAG-GCAAGATCTGCTATTTTCAACCTACT
*
41388053 CCGCTACTGCCCAGGGAGACAAGG
65 CCACTACTGCCCAGGGAGACAAGG
* * *
41388077 CTAGTATCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTG-TCATTTCCAACCTACT
1 CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCT-ATTTTCAACCTACT
41388141 CCACTACTGCCCAGGGAGACAAGG
65 CCACTACTGCCCAGGGAGACAAGG
*
41388165 CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCA
1 CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCA
41388222 GTCTGCTCCG
Statistics
Matches: 1078, Mismatches: 107, Indels: 30
0.89 0.09 0.02
Matches are distributed among these distances:
86 52 0.05
87 56 0.05
88 892 0.83
89 78 0.07
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (88 bp):
CTGGTATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
CACTACTGCCCAGGGAGACAAGG
Found at i:41388903 original size:37 final size:37
Alignment explanation
Indices: 41388853--41388928 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
41388843 GGATAGTCTC
41388853 AATTTAGACCTTTCCTTCCCAGATATTTCAACCGTTA
1 AATTTAGACCTTTCCTTCCCAGATATTTCAACCGTTA
*
41388890 AATTTAGACCTTTCCTTCCCAGATATTTCAACCTTTA
1 AATTTAGACCTTTCCTTCCCAGATATTTCAACCGTTA
41388927 AA
1 AA
41388929 CTTGGTGCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.29, C:0.26, G:0.07, T:0.38
Consensus pattern (37 bp):
AATTTAGACCTTTCCTTCCCAGATATTTCAACCGTTA
Found at i:41389545 original size:22 final size:19
Alignment explanation
Indices: 41389520--41389568 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 19
41389510 TTAGACTCTC
41389520 TATTTTTACTTTTTCCATTTTT
1 TATTTTTA-TTTTT-CA-TTTT
41389542 TATTTTTTATTTTTCATTTT
1 TA-TTTTTATTTTTCATTTT
41389562 TATTTTT
1 TATTTTT
41389569 TCACATCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 5 0.19
20 6 0.23
21 2 0.08
22 7 0.27
23 6 0.23
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (19 bp):
TATTTTTATTTTTCATTTT
Found at i:41389546 original size:7 final size:7
Alignment explanation
Indices: 41389522--41389569 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
41389512 AGACTCTCTA
41389522 TTTTTACT
1 TTTTTA-T
*
41389530 TTTTCCAT
1 TTTT-TAT
41389538 TTTTTAT
1 TTTTTAT
41389545 TTTTTAT
1 TTTTTAT
*
41389552 TTTTCA-
1 TTTTTAT
41389558 TTTTTAT
1 TTTTTAT
41389565 TTTTT
1 TTTTT
41389570 CACATCTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
6 5 0.15
7 19 0.56
8 9 0.26
9 1 0.03
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTAT
Found at i:41389554 original size:21 final size:20
Alignment explanation
Indices: 41389530--41389569 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
41389520 TATTTTTACT
41389530 TTTTCCATTTTTTATTTTTTA
1 TTTTCCA-TTTTTATTTTTTA
*
41389551 TTTTTCATTTTTATTTTTT
1 TTTTCCATTTTTATTTTTT
41389570 CACATCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTCCATTTTTATTTTTTA
Found at i:41389562 original size:14 final size:13
Alignment explanation
Indices: 41389522--41389569 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 13
41389512 AGACTCTCTA
41389522 TTTTTACTTTTTCCAT
1 TTTTTA-TTTTT--AT
41389538 TTTTTATTTTTTAT
1 TTTTTA-TTTTTAT
*
41389552 TTTTCATTTTTAT
1 TTTTTATTTTTAT
41389565 TTTTT
1 TTTTT
41389570 CACATCTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 11 0.38
14 7 0.24
16 11 0.38
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:41390069 original size:1 final size:1
Alignment explanation
Indices: 41390063--41390165 Score: 80
Period size: 1 Copynumber: 103.0 Consensus size: 1
41390053 TCGGTAGAGG
* * * * * * * * *
41390063 TTTTTTTTGTTTTTGTTTTTATTTTTTATTTTTTATTTTTTATTTTTTATTTTTTATTTTTTATT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * **
41390128 TTTTATTTTTTATTTTTTTTTATTTTTTCCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
41390166 GCATTGAATC
Statistics
Matches: 76, Mismatches: 26, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 76 1.00
ACGTcount: A:0.10, C:0.02, G:0.02, T:0.86
Consensus pattern (1 bp):
T
Found at i:41390155 original size:7 final size:7
Alignment explanation
Indices: 41390078--41390145 Score: 136
Period size: 7 Copynumber: 9.7 Consensus size: 7
41390068 TTTGTTTTTG
41390078 TTTTTAT
1 TTTTTAT
41390085 TTTTTAT
1 TTTTTAT
41390092 TTTTTAT
1 TTTTTAT
41390099 TTTTTAT
1 TTTTTAT
41390106 TTTTTAT
1 TTTTTAT
41390113 TTTTTAT
1 TTTTTAT
41390120 TTTTTAT
1 TTTTTAT
41390127 TTTTTAT
1 TTTTTAT
41390134 TTTTTAT
1 TTTTTAT
41390141 TTTTT
1 TTTTT
41390146 TTTATTTTTT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 61 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTAT
Found at i:41390165 original size:21 final size:20
Alignment explanation
Indices: 41390063--41390148 Score: 120
Period size: 21 Copynumber: 4.2 Consensus size: 20
41390053 TCGGTAGAGG
* *
41390063 TTTTTTTT-GTTTTTGTTTT
1 TTTTTTTTATTTTTTATTTT
*
41390082 TATTTTTTATTTTTTATTTT
1 TTTTTTTTATTTTTTATTTT
41390102 TTATTTTTTATTTTTTATTTT
1 TT-TTTTTTATTTTTTATTTT
41390123 TTATTTTTTATTTTTTATTTT
1 TT-TTTTTTATTTTTTATTTT
41390144 TTTTT
1 TTTTT
41390149 ATTTTTTCCT
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
19 7 0.11
20 13 0.21
21 41 0.67
ACGTcount: A:0.10, C:0.00, G:0.02, T:0.87
Consensus pattern (20 bp):
TTTTTTTTATTTTTTATTTT
Found at i:41394903 original size:3 final size:3
Alignment explanation
Indices: 41394889--41394958 Score: 79
Period size: 3 Copynumber: 23.3 Consensus size: 3
41394879 ATATAAAAGT
* *
41394889 ATA ATG ATA ATA ATA TATA ATA ATA ATG ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
41394935 ACA ATA ACA ATA TTA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
41394959 ATTAAAAACC
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
2 2 0.04
3 50 0.91
4 3 0.05
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:41404499 original size:30 final size:33
Alignment explanation
Indices: 41404464--41404536 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 33
41404454 TTTAGTTTTT
*
41404464 TTATTATATTG-TTAATACTGTT-TATT-TATA
1 TTATTATATTGTTTAATACTATTATATTATATA
* *
41404494 TTATTAT-TAGTTTAATATTATTATATTATATA
1 TTATTATATTGTTTAATACTATTATATTATATA
41404526 TATATTATATT
1 T-TATTATATT
41404537 ATATTTACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
29 2 0.06
30 16 0.47
31 4 0.12
32 5 0.15
33 6 0.18
34 1 0.03
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.60
Consensus pattern (33 bp):
TTATTATATTGTTTAATACTATTATATTATATA
Found at i:41404522 original size:5 final size:5
Alignment explanation
Indices: 41404512--41404550 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
41404502 AGTTTAATAT
41404512 TATTA TATTA TATATA TATTA TATTA TATT- TACTTA TAT
1 TATTA TATTA TAT-TA TATTA TATTA TATTA TA-TTA TAT
41404551 GCGCATATGC
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 2 0.06
5 22 0.71
6 7 0.23
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:41404533 original size:16 final size:15
Alignment explanation
Indices: 41404485--41404550 Score: 68
Period size: 16 Copynumber: 4.4 Consensus size: 15
41404475 TTAATACTGT
41404485 TTAT-TTATATTATTA
1 TTATATTATA-TATTA
41404500 TTAGT-TTA-ATATTA
1 TTA-TATTATATATTA
41404514 TTATATTATATATATA
1 TTATATTATATAT-TA
41404530 TTATATTATAT-TTA
1 TTATATTATATATTA
41404544 CTTATAT
1 -TTATAT
41404551 GCGCATATGC
Statistics
Matches: 46, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
13 1 0.02
14 13 0.28
15 15 0.33
16 17 0.37
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (15 bp):
TTATATTATATATTA
Found at i:41413458 original size:50 final size:50
Alignment explanation
Indices: 41413404--41413729 Score: 206
Period size: 50 Copynumber: 6.5 Consensus size: 50
41413394 CCTATCTCTT
* * *
41413404 TGGCATTACAGTGGAACGGATTGAAGCCACAACGACGAATCTTGTTTCCC
1 TGGCATTGCAGTGGAACAGATTGAAGCCACAACGGCGAATCTTGTTTCCC
* ** * * *
41413454 TGGCAGTGTTGTGGAACAGATTGAAGCTACGACGGCGGAT-TTGGTTTCCC
1 TGGCATTGCAGTGGAACAGATTGAAGCCACAACGGCGAATCTT-GTTTCCC
* * ** * **
41413504 CGACATTGCAGTTAAAAAGATTGAAGCCACAACGGC-AGATCTTACTTCCC
1 TGGCATTGCAGTGGAACAGATTGAAGCCACAACGGCGA-ATCTTGTTTCCC
** * * * * *
41413554 TGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCC
1 TGGCATTGCAGTGGAACAGATTGAAGCCACAACGGCGAATCTTGTTTCCC
* * * ** * * ***
41413604 CGACATTGCAATTTAAAAGATTGAAGCCACAACGACGAATCTTACCTCCC
1 TGGCATTGCAGTGGAACAGATTGAAGCCACAACGGCGAATCTTGTTTCCC
** * * * * * *
41413654 TGGCGGTGTAGTGGAATAGATTGAAGTCGCGACGGTGAATCTTGTTTCCC
1 TGGCATTGCAGTGGAACAGATTGAAGCCACAACGGCGAATCTTGTTTCCC
* * ** *
41413704 TGACATTGTAGTTAAACAAATTGAAG
1 TGGCATTGCAGTGGAACAGATTGAAG
41413730 TAAATAATCC
Statistics
Matches: 195, Mismatches: 77, Indels: 8
0.70 0.28 0.03
Matches are distributed among these distances:
49 2 0.01
50 191 0.98
51 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (50 bp):
TGGCATTGCAGTGGAACAGATTGAAGCCACAACGGCGAATCTTGTTTCCC
Found at i:41413599 original size:100 final size:100
Alignment explanation
Indices: 41413422--41413729 Score: 424
Period size: 100 Copynumber: 3.1 Consensus size: 100
41413412 CAGTGGAACG
** * *
41413422 GATTGAAGCCACAACGACGAATCTTGTTTCCCTGGCAGTGTTGTGGAACAGATTGAAGCTACGAC
1 GATTGAAGCCACAACGACGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGAC
*
41413487 GGCGGATTTGGTTTCCCCGACATTGCAGTTAAAAA
66 GGCGGATCTGGTTTCCCCGACATTGCAGTTAAAAA
*
41413522 GATTGAAGCCACAACGGC-AGATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
1 GATTGAAGCCACAACGACGA-ATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
* *
41413586 CGGCGGATCTGGTTTCCCCGACATTGCAATTTAAAA
65 CGGCGGATCTGGTTTCCCCGACATTGCAGTTAAAAA
* * *
41413622 GATTGAAGCCACAACGACGAATCTTACCTCCCTGGCGGTGTAGTGGAATAGATTGAAG-TCGCGA
1 GATTGAAGCCACAACGACGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCT-ACGA
* * * * *
41413686 CGGTGAATCTTGTTTCCCTGACATTGTAGTTAAACAA
65 CGGCGGATCTGGTTTCCCCGACATTGCAGTTAAA-AA
41413723 -ATTGAAG
1 GATTGAAG
41413730 TAAATAATCC
Statistics
Matches: 185, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
99 2 0.01
100 180 0.97
101 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (100 bp):
GATTGAAGCCACAACGACGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGAC
GGCGGATCTGGTTTCCCCGACATTGCAGTTAAAAA
Found at i:41413887 original size:82 final size:82
Alignment explanation
Indices: 41413771--41413975 Score: 225
Period size: 82 Copynumber: 2.5 Consensus size: 82
41413761 GAGCGGATCA
* * * * *** * *
41413771 AAATGATAGATCTCATCTCTCTGATGTTGTAGTAGAGCAGATTGTATCAGACTCATCTTTAAAGT
1 AAATGACAGATCTTATCTCTCTGAAGTTGAAGTAGAGCAGATCACATCAAACTCATCTTTAAAAT
*
41413836 TGCAGTGGAATAAGTTG
66 TGCAGTAGAATAAGTTG
* * *
41413853 AAATGACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAACTTATTTTTAAAAT
1 AAATGACAGATCTTATCTCTCTGAAGTTGAAGTAGAGCAGATCACATCAAACTCATCTTTAAAAT
41413918 TGCAGTAGAATAAGTTG
66 TGCAGTAGAATAAGTTG
* * * *
41413935 AAGCT-ACA-AGTCTTATCTCCCTGAAATTGAAGTGGAGCAGA
1 AA-ATGACAGA-TCTTATCTCTCTGAAGTTGAAGTAGAGCAGA
41413976 CTAAAGATAG
Statistics
Matches: 104, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
81 1 0.01
82 102 0.98
83 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (82 bp):
AAATGACAGATCTTATCTCTCTGAAGTTGAAGTAGAGCAGATCACATCAAACTCATCTTTAAAAT
TGCAGTAGAATAAGTTG
Found at i:41415167 original size:3 final size:3
Alignment explanation
Indices: 41415159--41415210 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
41415149 TGTTTATTTA
* *
41415159 TAT TAT TAT TAG T-T TAA TAT TAT TA- TAT TAT TA- TAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
41415202 TAT TAT TAT
1 TAT TAT TAT
41415211 ATTTACTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 5 0.12
3 33 0.80
4 3 0.07
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:41415186 original size:8 final size:8
Alignment explanation
Indices: 41415156--41415213 Score: 64
Period size: 8 Copynumber: 6.9 Consensus size: 8
41415146 TACTGTTTAT
41415156 TTATATTA
1 TTATATTA
41415164 TTATTAGTT-
1 TTA-TA-TTA
*
41415173 TAATATTA
1 TTATATTA
41415181 TTATATTA
1 TTATATTA
41415189 TTATATTA
1 TTATATTA
41415197 TATATTATTA
1 T-TA-TATTA
41415207 TTATATT
1 TTATATT
41415214 TACTTATATG
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
7 2 0.05
8 25 0.58
9 8 0.19
10 8 0.19
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (8 bp):
TTATATTA
Found at i:41415222 original size:23 final size:23
Alignment explanation
Indices: 41415156--41415207 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 23
41415146 TACTGTTTAT
41415156 TTATATTATTATTAGTT-TAATATTA
1 TTATATTATTA-TA-TTAT-ATATTA
41415181 TTATATTATTATATTATATATTA
1 TTATATTATTATATTATATATTA
41415204 TTAT
1 TTAT
41415208 TATATTTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 12 0.46
24 3 0.12
25 11 0.42
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TTATATTATTATATTATATATTA
Found at i:41419446 original size:48 final size:48
Alignment explanation
Indices: 41419375--41419468 Score: 125
Period size: 48 Copynumber: 2.0 Consensus size: 48
41419365 AAAAACAATG
* * * *
41419375 TTGTTAGAGAGATAATTATGAATCCTAAATATCATTCAGCACATGATA
1 TTGTTACAGAGATAACTATGAATCCTAAACATCATTAAGCACATGATA
* * *
41419423 TTGTTACATAGATAACTATGAATCCTGAACATCGTTAAGCACATGA
1 TTGTTACAGAGATAACTATGAATCCTAAACATCATTAAGCACATGA
41419469 CTAATACCCA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (48 bp):
TTGTTACAGAGATAACTATGAATCCTAAACATCATTAAGCACATGATA
Found at i:41421488 original size:26 final size:25
Alignment explanation
Indices: 41421453--41421509 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
41421443 AAGTTTTTTT
41421453 AATTTCT-ATTTA--TTTTT-T-AG
1 AATTTCTAATTTATTTTTTTATAAG
41421473 AATTTTCTAATTTATTTTTTTATAAG
1 AA-TTTCTAATTTATTTTTTTATAAG
41421499 AATTTCTAATT
1 AATTTCTAATT
41421510 AGTTTCTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
20 2 0.06
21 5 0.16
22 5 0.16
24 5 0.16
25 10 0.32
26 4 0.13
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (25 bp):
AATTTCTAATTTATTTTTTTATAAG
Found at i:41421509 original size:25 final size:21
Alignment explanation
Indices: 41421453--41421492 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
41421443 AAGTTTTTTT
41421453 AATTTCT-ATTTATTTTTTAG
1 AATTTCTAATTTATTTTTTAG
41421473 AATTTTCTAATTTATTTTTT
1 AA-TTTCTAATTTATTTTTT
41421493 TATAAGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 5 0.28
22 11 0.61
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (21 bp):
AATTTCTAATTTATTTTTTAG
Found at i:41424851 original size:44 final size:44
Alignment explanation
Indices: 41424752--41425429 Score: 251
Period size: 44 Copynumber: 15.8 Consensus size: 44
41424742 TATCTTAGTT
* * * * *
41424752 TGCTCCACTACAATCTTCAGGGAAATAAGA-CT-AGA-TGCGATC
1 TGCTCCACTGCAA-CTTCAGGGAGATAAGATCTGTGATTTCAATC
* *
41424794 TGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTCAATC
* * * *
41424837 CGCTCCACTGCAACTTCAGGAAGATAGGATTACTG-GCTTT-AATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-T-CTGTGATTTCAATC
* * *
41424881 TGCT---C--C-ACTTCAGGGAGATAAGATTTGTCATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGAT-TTCAATC
* * * * *
41424920 TGC-CTTACTGCAACTTCA-AGAGGATAAGA-CT-TGCTTACTTAGTC
1 TGCTC-CACTGCAACTTCAGGGA-GATAAGATCTGTGATT--TCAATC
** ** * * *
41424964 CACTCCACTGCAACTTCAGGGAGATAAGA-CT-AAATGT-GACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTCAATC
* * * * * ** * *
41425005 TGCT-CTCTACAATTTCAGAGAAATAAGATCTAAGGTTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTCAATC
* * * * *
41425048 CGC-CCACTGCAACTTCAGCGAGATAGGATTACCG-GCTTT-AATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-T-CTGTGATTTCAATC
* ** *
41425091 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCATTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGAT-TTCAATC
* * *
41425136 TGC-CTCACTGCAACTTCA-AGAGGATAAGA-CT-TGCTTACTCAGTC
1 TGCTC-CACTGCAACTTCAGGGA-GATAAGATCTGTGATT--TCAATC
* * * *
41425180 CGCTCCACTGCAACTTCAGGGAGATAAGA-CT-AGA-TGCGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTCAATC
* * * * * *
41425221 TGCT-CTCTGCAACTTCAGAGAGATAAGATATGAGGTTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTCAATC
** * * *
41425264 CAC-CCACTGCAACTTCAGCGAGATAGGAT-TGTCGCTTT-AATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGT-GATTTCAATC
* * *** *
41425306 TGCTCCACTGCAACTTCAGGGAGATGAGATTTGCCCTCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGAT-TTCAATC
* * * * *
41425351 TGC-CTCGCTGCAACTTCA-GGAGAATAAGACTTTCTTATTT-AGTC
1 TGCTC-CACTGCAACTTCAGGGAG-ATAAGA-TCTGTGATTTCAATC
41425395 TGCTCCACTGCAACTTCAGGGAGATAAGACTCTGT
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TCTGT
41425430 ATGTTATCTT
Statistics
Matches: 474, Mismatches: 111, Indels: 100
0.69 0.16 0.15
Matches are distributed among these distances:
36 2 0.00
37 2 0.00
38 17 0.04
39 7 0.01
40 55 0.12
41 21 0.04
42 23 0.05
43 98 0.21
44 161 0.34
45 81 0.17
46 7 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTCAATC
Found at i:41425156 original size:216 final size:216
Alignment explanation
Indices: 41424753--41425425 Score: 993
Period size: 216 Copynumber: 3.1 Consensus size: 216
41424743 ATCTTAGTTT
* *
41424753 GCTCCACTACAATCTTCAGGGAAATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
1 GCTCCACTGCAA-CTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
* * * *
41424818 AAGATCTGTGATTTCAATCCGCTCCACTGCAACTTCAG-GAAGATAGGATTACTGGCTTTAATCT
65 AAGATCTGAGGTTTTAATCCGC-CCACTGCAACTTCAGCG-AGATAGGATTACCGGCTTTAATCT
* *
41424882 GCT---C--C-ACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTTACTGCAACTTCAAGA
128 GCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAAGA
41424941 GGATAAGACTTGCTTACTTAGTCC
193 GGATAAGACTTGCTTACTTAGTCC
* * * * * * *
41424965 ACTCCACTGCAACTTCAGGGAGATAAGACTAAATGTGACCTGCTCTCTACAATTTCAGAGAAATA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
*
41425030 AGATCTAAGGTTTTAATCCGCCCACTGCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGCT
66 AGATCTGAGGTTTTAATCCGCCCACTGCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGCT
*
41425095 CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCATTCTGCCTCACTGCAACTTCAAGAGGA
131 CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAAGAGGA
*
41425160 TAAGACTTGCTTACTCAGTCC
196 TAAGACTTGCTTACTTAGTCC
41425181 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
* * **
41425246 AGATATGAGGTTTTAATCCACCCACTGCAACTTCAGCGAGATAGGATTGTC-GCTTTAATCTGCT
66 AGATCTGAGGTTTTAATCCGCCCACTGCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGCT
* * * * *
41425310 CCACTGCAACTTCAGGGAGATGAGATTTGCCCTCTTCAGTCTGCCTCGCTGCAACTTCAGGAGAA
131 CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAAGAGGA
* * *
41425375 TAAGACTTTCTTATTTAGTCT
196 TAAGACTTGCTTACTTAGTCC
41425396 GCTCCACTGCAACTTCAGGGAGATAAGACT
1 GCTCCACTGCAACTTCAGGGAGATAAGACT
41425426 CTGTATGTTA
Statistics
Matches: 414, Mismatches: 40, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
210 41 0.10
211 64 0.15
212 10 0.02
213 1 0.00
215 120 0.29
216 178 0.43
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (216 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
AGATCTGAGGTTTTAATCCGCCCACTGCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGCT
CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAAGAGGA
TAAGACTTGCTTACTTAGTCC
Found at i:41440547 original size:14 final size:14
Alignment explanation
Indices: 41440510--41440549 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
41440500 TGTTGTATGC
41440510 ATTTTATTAATAA-
1 ATTTTATTAATAAT
41440523 A-TTTA--AATAAT
1 ATTTTATTAATAAT
41440534 ATTTTATTAATAAT
1 ATTTTATTAATAAT
41440548 AT
1 AT
41440550 GGTTACGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
10 5 0.22
11 1 0.04
12 8 0.35
13 1 0.04
14 8 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTTTATTAATAAT
Found at i:41441740 original size:30 final size:30
Alignment explanation
Indices: 41441700--41441757 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
41441690 CTGAGCATTT
* *
41441700 CCACATGGGCTTGGCACACGCCTGTGTGAG
1 CCACACGGGCTTGACACACGCCTGTGTGAG
41441730 CCACACGGGCTTGACACACGCCTGTGTG
1 CCACACGGGCTTGACACACGCCTGTGTG
41441758 CCAGCCGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.17, C:0.33, G:0.31, T:0.19
Consensus pattern (30 bp):
CCACACGGGCTTGACACACGCCTGTGTGAG
Found at i:41442323 original size:6 final size:6
Alignment explanation
Indices: 41442312--41442342 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
41442302 CCCTATTCTA
41442312 TATTTT TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT TATTTT T
41442343 TTACCTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:41444085 original size:97 final size:98
Alignment explanation
Indices: 41443961--41444156 Score: 340
Period size: 97 Copynumber: 2.0 Consensus size: 98
41443951 CTAAAAATAA
* *
41443961 TAAAGGAAATATTCCGAGTTTGGGATTTTAGAGGAATCGTGACCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTAGGATTTTAGAGGAATCGTGACCTAACGTATTGGGTGTGATTTC
*
41444026 TTAAATCTTGGATAAGTGAAT-TTTTTTTAAAG
66 TTAAATCTTGGATAAGTGAATGTTCTTTTAAAG
*
41444058 TAAAGGAAATATTCCAAGTTTAGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTAGGATTTTAGAGGAATCGTGACCTAACGTATTGGGTGTGATTTC
*
41444123 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGAATGTTCTTTTAAAG
41444156 T
1 T
41444157 TTTATTGCAC
Statistics
Matches: 93, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
97 82 0.88
98 11 0.12
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTAGGATTTTAGAGGAATCGTGACCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGAATGTTCTTTTAAAG
Found at i:41449054 original size:40 final size:40
Alignment explanation
Indices: 41449003--41449119 Score: 198
Period size: 40 Copynumber: 2.9 Consensus size: 40
41448993 CGTTTGGAGC
* **
41449003 AAAAGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTAATT
1 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
41449043 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
1 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
*
41449083 AAAAGCGTCGCTAAAGAGTGAGCATTAGTGGCGTTTA
1 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTA
41449120 TAGATAACGC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.22
Consensus pattern (40 bp):
AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
Found at i:41449478 original size:111 final size:112
Alignment explanation
Indices: 41449067--41449880 Score: 1391
Period size: 112 Copynumber: 7.3 Consensus size: 112
41449057 AGAGTGAGCA
** * *
41449067 TTAGTGGCGTTTAAGGAAAAGCGTCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
41449132 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTT-GGGGGGGAC
*
41449180 TTAGTGGCTTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
41449245 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
41449292 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
41449357 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTT-GGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
* * *
41449403 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTATAAATAACGCCA
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
41449468 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
*
41449515 TTAGTGGCGTTTATTGCAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
41449580 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTT-GGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
*
41449626 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
41449691 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
* * ** * * * *
41449738 TTAGTGGCGTTTATTGTAAAGCGCAGCTAAAGAGTGAACATTAGCAGCGCTTATAAAAAAATGCC
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAT-AGATAACGCC
* *
41449803 GCAAATAATACTCCCAGACGGTGCCGTTTTGTGTCCTTTGGGGGGG-C
65 GCAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
*
41449850 ATTAGTGGCGTTTTTTGTAAAGCGCCGCTAA
1 -TTAGTGGCGTTTATTGTAAAGCGCCGCTAA
41449881 TCTAGGTGTT
Statistics
Matches: 671, Mismatches: 26, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
111 217 0.32
112 276 0.41
113 178 0.27
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (112 bp):
TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
Found at i:41449496 original size:223 final size:223
Alignment explanation
Indices: 41449067--41449880 Score: 1403
Period size: 223 Copynumber: 3.6 Consensus size: 223
41449057 AGAGTGAGCA
** * *
41449067 TTAGTGGCGTTTAAGGAAAAGCGTCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
*
41449132 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGGACTTAGTGGCTTTTATTGT
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTT--GGGGGGACTTAGTGGCGTTTATTGT
*
41449197 AAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCGCAAATAATACACCCAGA
129 AAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCGCAAATAATACACCCAGA
41449262 CGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
194 CGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
41449292 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
41449357 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGACTTAGTGGCGTTTATTGTAA
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGACTTAGTGGCGTTTATTGTAA
* *
41449422 AGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTATAAATAACGCCACAAATAATACACCCAGACG
131 AGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCGCAAATAATACACCCAGACG
41449487 GTGCCGTTTTGTGGCCTTTGGGGGGGAC
196 GTGCCGTTTTGTGGCCTTTGGGGGGGAC
*
41449515 TTAGTGGCGTTTATTGCAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
41449580 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGACTTAGTGGCGTTTATTGTAA
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGACTTAGTGGCGTTTATTGTAA
41449645 AGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCGCAAATAATACACCCAGACG
131 AGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCGCAAATAATACACCCAGACG
41449710 GTGCCGTTTTGTGGCCTTTGGGGGGGAC
196 GTGCCGTTTTGTGGCCTTTGGGGGGGAC
* * ** * * * *
41449738 TTAGTGGCGTTTATTGTAAAGCGCAGCTAAAGAGTGAACATTAGCAGCGCTTATAAAAAAATGCC
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAT-AGATAACGCC
* * * *
41449803 GCAAATAATACTCCCAGACGGTGCCGTTTTGTGTCCTTTGGGGGGGCATTAGTGGCGTTTTTTGT
65 GCAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGAC-TTAGTGGCGTTTATTGT
41449868 AAAGCGCCGCTAA
129 AAAGCGCCGCTAA
41449881 TCTAGGTGTT
Statistics
Matches: 563, Mismatches: 24, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
223 384 0.68
224 51 0.09
225 128 0.23
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (223 bp):
TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGACTTAGTGGCGTTTATTGTAA
AGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAAATAACGCCGCAAATAATACACCCAGACG
GTGCCGTTTTGTGGCCTTTGGGGGGGAC
Found at i:41451667 original size:84 final size:84
Alignment explanation
Indices: 41451556--41451756 Score: 330
Period size: 84 Copynumber: 2.4 Consensus size: 84
41451546 TAGTTAAACT
*** *
41451556 TTTAGTGGCGTTTTTAGGAAAATGCCACAAATAATGCAATTCCAGACCACGAAAACGGTGTCGTT
1 TTTAGTGGCGTTTTTCCAAAAATGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTT
*
41451621 TCTGTTCATAGCTGTAATA
66 TCTGTTCACAGCTGTAATA
* *
41451640 TTTAGTGGCGTTTTTCTAAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTT
1 TTTAGTGGCGTTTTTCCAAAAATGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTT
41451705 TCTGTTCACAGCTGTAATA
66 TCTGTTCACAGCTGTAATA
41451724 TTTAGTGGCGTTTTTACCAAAAATGCCACAAAA
1 TTTAGTGGCGTTTTT-CCAAAAATGCCACAAAA
41451757 CGGTGTTAAT
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 93 0.86
85 15 0.14
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.30
Consensus pattern (84 bp):
TTTAGTGGCGTTTTTCCAAAAATGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTT
TCTGTTCACAGCTGTAATA
Found at i:41452978 original size:11 final size:11
Alignment explanation
Indices: 41452958--41452997 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
41452948 GAATATCTCA
41452958 AACT-ATGGGT
1 AACTAATGGGT
41452968 AACTAATGGGT
1 AACTAATGGGT
41452979 AACTAATGGGT
1 AACTAATGGGT
41452990 AACTAATG
1 AACTAATG
41452998 TATTATCATC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
10 4 0.14
11 25 0.86
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.28
Consensus pattern (11 bp):
AACTAATGGGT
Found at i:41454362 original size:17 final size:17
Alignment explanation
Indices: 41454340--41454716 Score: 214
Period size: 17 Copynumber: 21.6 Consensus size: 17
41454330 GTTAAATTTA
41454340 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
41454357 TTACTAAAATAAATTAC
1 TTACTAAAATACATTAC
*
41454374 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
41454397 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
41454414 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
* *
41454431 TTACATAAATTTGTTTAAATTTA-
1 TTAC-TAAA-----ATACA-TTAC
*
41454454 TTTCTAAAATACATTAC
1 TTACTAAAATACATTAC
*
41454471 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
41454494 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
41454511 TAACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
41454528 TTACTAAAAT---TT-G
1 TTACTAAAATACATTAC
** *
41454541 TT--T-AAATTTATTAA
1 TTACTAAAATACATTAC
*
41454555 TTACTTAAATACATTAC
1 TTACTAAAATACATTAC
41454572 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
41454589 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
41454612 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
41454629 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
41454646 TTACTAAAAT---TT-G
1 TTACTAAAATACATTAC
** *
41454659 TT--T-AAATTTATTAA
1 TTACTAAAATACATTAC
*
41454673 TTACTTAAATACATTAC
1 TTACTAAAATACATTAC
41454690 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
41454707 TTACTAAAAT
1 TTACTAAAAT
41454717 TTGTTTAAAT
Statistics
Matches: 288, Mismatches: 26, Indels: 92
0.71 0.06 0.23
Matches are distributed among these distances:
10 8 0.03
11 2 0.01
13 8 0.03
14 8 0.03
16 14 0.05
17 185 0.64
18 4 0.01
22 4 0.01
23 43 0.15
24 12 0.04
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (17 bp):
TTACTAAAATACATTAC
Found at i:41454413 original size:40 final size:40
Alignment explanation
Indices: 41454357--41454638 Score: 179
Period size: 40 Copynumber: 6.7 Consensus size: 40
41454347 AATACATTAC
*
41454357 TTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTA
1 TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
*
41454397 TTACTAAAATACATTACTTACTAAAATACATTACTTACATAAATTTGTTTAAA
1 TTACTAAAATACATTACTTACTAAAAT---TT-GTT---TAAA----TTT--A
41454450 TTTATTTCTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
1 -TTA---CTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
* * *
41454494 TTACTAAAATACATTACTAACTAAAATACATTACTTACTAAAATTTG
1 TTACTAAAATACATTACTTACTAAAAT---TT-GTT--T-AAATTTA
** * * *
41454541 TT--T-AAATTTATTAATTACTTAAA------TACA-TTA
1 TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
41454571 CTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
1 -TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
41454612 TTACTAAAATACATTACTTACTAAAAT
1 TTACTAAAATACATTACTTACTAAAAT
41454639 ACATTACTTA
Statistics
Matches: 189, Mismatches: 18, Indels: 70
0.68 0.06 0.25
Matches are distributed among these distances:
30 2 0.01
31 4 0.02
32 1 0.01
33 1 0.01
34 16 0.08
40 79 0.42
41 3 0.02
43 7 0.04
44 20 0.11
45 1 0.01
46 4 0.02
47 12 0.06
50 4 0.02
51 3 0.02
53 3 0.02
54 5 0.03
57 24 0.13
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (40 bp):
TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
Found at i:41454419 original size:57 final size:57
Alignment explanation
Indices: 41454331--41454480 Score: 266
Period size: 57 Copynumber: 2.6 Consensus size: 57
41454321 CGATTGAATG
41454331 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTAC-TAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACAT-AAATTTGT
*
41454388 TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACATAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACATAAATTTGT
*
41454445 TTAAATTTATTTCTAAAATACATTACTTACTAAAAT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAAT
41454481 TTGTTTAAAT
Statistics
Matches: 90, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
57 89 0.99
58 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.01, T:0.43
Consensus pattern (57 bp):
TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACATAAATTTGT
Found at i:41454476 original size:97 final size:100
Alignment explanation
Indices: 41454352--41454581 Score: 378
Period size: 97 Copynumber: 2.3 Consensus size: 100
41454342 ACTAAAATAC
* *
41454352 ATTACTTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
1 ATTA-TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTAA
41454417 CTAAAATACATTACTTAC-ATAAATTTGTTTAAATTT
65 CTAAAATACATTACTTACTA-AAATTTGTTTAAATTT
41454453 A-T-TT-CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTAAC
1 ATTATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTAAC
41454515 TAAAATACATTACTTACTAAAATTTGTTTAAATTT
66 TAAAATACATTACTTACTAAAATTTGTTTAAATTT
*
41454550 ATTAATTACTTAAATACATTACTTACTAAAAT
1 ATT-ATTACTAAAATACATTACTTACTAAAAT
41454582 ACATTACTTA
Statistics
Matches: 121, Mismatches: 3, Indels: 10
0.90 0.02 0.07
Matches are distributed among these distances:
97 90 0.74
98 4 0.03
100 3 0.02
101 24 0.20
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (100 bp):
ATTATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTAAC
TAAAATACATTACTTACTAAAATTTGTTTAAATTT
Found at i:41454518 original size:57 final size:57
Alignment explanation
Indices: 41454457--41454749 Score: 469
Period size: 57 Copynumber: 5.0 Consensus size: 57
41454447 AAATTTATTT
* *
41454457 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTAA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTTAAATACATTACTTA
41454514 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTAATTACTTAAATACATTACTTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAA--T-TT-ATTACTTAAATACATTACTTA
*
41454575 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTTAAATACATTACTTA
41454632 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTAATTACTTAAATACATTACTTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAA--T-TT-ATTACTTAAATACATTACTTA
**
41454693 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTTAAATATGTTACTTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTTAAATACATTACTTA
41454750 AATTTATTAC
Statistics
Matches: 222, Mismatches: 6, Indels: 16
0.91 0.02 0.07
Matches are distributed among these distances:
57 105 0.47
58 4 0.02
59 4 0.02
60 4 0.02
61 105 0.47
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (57 bp):
CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTTAAATACATTACTTA
Found at i:41454569 original size:61 final size:61
Alignment explanation
Indices: 41454457--41454732 Score: 469
Period size: 61 Copynumber: 4.7 Consensus size: 61
41454447 AAATTTATTT
*
41454457 CTAAAATACATTACTTACTAAAATTTGTTTAAA--T-TT-ATTACTAAAATACATTACTAA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTAATTACTAAAATACATTACTTA
*
41454514 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTAATTACTTAAATACATTACTTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTAATTACTAAAATACATTACTTA
41454575 CTAAAATACATTACTTACTAAAATTTGTTTAAA--T-TT-ATTACTAAAATACATTACTTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTAATTACTAAAATACATTACTTA
*
41454632 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTAATTACTTAAATACATTACTTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTAATTACTAAAATACATTACTTA
41454693 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTA
41454733 CTTAAATATG
Statistics
Matches: 207, Mismatches: 4, Indels: 12
0.93 0.02 0.05
Matches are distributed among these distances:
57 86 0.42
58 2 0.01
59 3 0.01
60 4 0.02
61 112 0.54
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (61 bp):
CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTAATTACTAAAATACATTACTTA
Found at i:41454739 original size:13 final size:13
Alignment explanation
Indices: 41454721--41454765 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
41454711 TAAAATTTGT
41454721 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
41454734 TTAAATATGTTAC
1 TTAAATTTATTAC
41454747 TTAAATTTATTAC
1 TTAAATTTATTAC
41454760 TTAAAT
1 TTAAAT
41454766 AATTATAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (13 bp):
TTAAATTTATTAC
Found at i:41454747 original size:118 final size:118
Alignment explanation
Indices: 41454457--41454749 Score: 550
Period size: 118 Copynumber: 2.5 Consensus size: 118
41454447 AAATTTATTT
*
41454457 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTAACTAAAATA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
41454522 CATTACTTACTAAAATTTGTTTAAATTTATTAATTACTTAAATACATTACTTA
66 CATTACTTACTAAAATTTGTTTAAATTTATTAATTACTTAAATACATTACTTA
41454575 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
41454640 CATTACTTACTAAAATTTGTTTAAATTTATTAATTACTTAAATACATTACTTA
66 CATTACTTACTAAAATTTGTTTAAATTTATTAATTACTTAAATACATTACTTA
* **
41454693 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTTAAATATGTTACTTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
41454750 AATTTATTAC
Statistics
Matches: 171, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 171 1.00
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (118 bp):
CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
CATTACTTACTAAAATTTGTTTAAATTTATTAATTACTTAAATACATTACTTA
Found at i:41454995 original size:73 final size:73
Alignment explanation
Indices: 41454912--41455061 Score: 300
Period size: 73 Copynumber: 2.1 Consensus size: 73
41454902 TAAAATAAAA
41454912 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
1 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
41454977 TTAATAAT
66 TTAATAAT
41454985 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
1 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
41455050 TTAATAAT
66 TTAATAAT
41455058 TATA
1 TATA
41455062 TTAGTAATGT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (73 bp):
TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
TTAATAAT
Found at i:41455028 original size:38 final size:38
Alignment explanation
Indices: 41454913--41455029 Score: 118
Period size: 38 Copynumber: 3.2 Consensus size: 38
41454903 AAAATAAAAT
41454913 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
1 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
*** * * * *
41454951 ATAAAATGTTAT-T---TTATTAAATATT-ATTAATAATT
1 ATAAAAAAATATGTGGAATATTAAA-ATTGACTATTAA-A
41454986 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
1 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
41455024 ATAAAA
1 ATAAAA
41455030 TGTTATTTTA
Statistics
Matches: 58, Mismatches: 14, Indels: 14
0.67 0.16 0.16
Matches are distributed among these distances:
34 13 0.22
35 12 0.21
36 1 0.02
37 1 0.02
38 18 0.31
39 13 0.22
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.37
Consensus pattern (38 bp):
ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
Found at i:41455138 original size:25 final size:25
Alignment explanation
Indices: 41455135--41455365 Score: 323
Period size: 26 Copynumber: 9.4 Consensus size: 25
41455125 TAATTAATTT
41455135 AACTTACATAATACATTTAACTTAC
1 AACTTACATAATACATTTAACTTAC
41455160 AACTTACATAATACA--T---TT--
1 AACTTACATAATACATTTAACTTAC
41455178 AACTTACATAATACATTTAACTTAC
1 AACTTACATAATACATTTAACTTAC
* *
41455203 AACTTACACAATACATAATAACTTAC
1 AACTTACATAATACAT-TTAACTTAC
*
41455229 AACTTACATAATACATAATAACTTAC
1 AACTTACATAATACAT-TTAACTTAC
*
41455255 AACTTACATAATACATAATAACTTAC
1 AACTTACATAATACAT-TTAACTTAC
41455281 AACTTACATAATACATTTAACTTAC
1 AACTTACATAATACATTTAACTTAC
*
41455306 AACTTACACAATACATTTAACTTAC
1 AACTTACATAATACATTTAACTTAC
*
41455331 AACTTACATAATACATAATAACTTAC
1 AACTTACATAATACAT-TTAACTTAC
41455357 AACTTACAT
1 AACTTACAT
41455366 TTAACTTACA
Statistics
Matches: 190, Mismatches: 7, Indels: 17
0.89 0.03 0.08
Matches are distributed among these distances:
18 15 0.08
20 3 0.02
23 3 0.02
25 77 0.41
26 92 0.48
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (25 bp):
AACTTACATAATACATTTAACTTAC
Found at i:41455140 original size:18 final size:18
Alignment explanation
Indices: 41455117--41455396 Score: 125
Period size: 18 Copynumber: 15.6 Consensus size: 18
41455107 AATAACTTAC
41455117 AACTTACATAATTA-ATTT
1 AACTTACATAA-TACATTT
41455135 AACTTACATAATACATTTAACTT
1 AACTTACATAATACA--T---TT
41455158 ACAACTTACATAATACATTT
1 --AACTTACATAATACATTT
41455178 AACTTACATAATACATTT
1 AACTTACATAATACATTT
* *
41455196 AACTTACA-ACTTACA--C
1 AACTTACATA-ATACATTT
*
41455212 AA--TACATAATA-ACTTAC
1 AACTTACATAATACA-TT-T
*
41455229 AACTTACATAATACATAAT
1 AACTTACATAATACAT-TT
*
41455248 AACTTACA-ACTTACA--T
1 AACTTACATA-ATACATTT
*
41455264 AA--TACATAATA-ACTTAC
1 AACTTACATAATACA-TT-T
41455281 AACTTACATAATACATTT
1 AACTTACATAATACATTT
* *
41455299 AACTTACA-ACTTACA--C
1 AACTTACATA-ATACATTT
* *
41455315 AA--TACAT-TTA-ACTTAC
1 AACTTACATAATACA-TT-T
*
41455331 AACTTACATAATACATAAT
1 AACTTACATAATACAT-TT
*
41455350 AACTTACA-ACTTACATTT
1 AACTTACATA-ATACATTT
41455368 AACTTACATAATACATTT
1 AACTTACATAATACATTT
41455386 AACTTACATAA
1 AACTTACATAA
41455397 CTTACATAAC
Statistics
Matches: 205, Mismatches: 17, Indels: 80
0.68 0.06 0.26
Matches are distributed among these distances:
12 1 0.00
13 5 0.02
14 16 0.08
15 2 0.01
16 10 0.05
17 9 0.04
18 88 0.43
19 50 0.24
20 6 0.03
23 3 0.01
25 15 0.07
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.34
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:41455373 original size:11 final size:10
Alignment explanation
Indices: 41455357--41455410 Score: 55
Period size: 9 Copynumber: 5.7 Consensus size: 10
41455347 AATAACTTAC
41455357 AACTTACATTT
1 AACTTACA-TT
41455368 AACTTACA-T
1 AACTTACATT
41455377 AA--TACATTT
1 AACTTACA-TT
41455386 AACTTACA-T
1 AACTTACATT
41455395 AACTTACA-T
1 AACTTACATT
41455404 AACTTAC
1 AACTTAC
41455411 CATTGCAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
7 4 0.10
9 23 0.59
11 12 0.31
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (10 bp):
AACTTACATT
Found at i:41460904 original size:21 final size:21
Alignment explanation
Indices: 41460878--41460947 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
41460868 CTACAACTTA
* *
41460878 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
41460899 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
41460920 AAGCGGAGGCTGCAGC-AGAG
1 AAGCAGAGGCTGCAGCGAGGG
41460940 AAGCAGAG
1 AAGCAGAG
41460948 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
20 10 0.25
21 30 0.75
ACGTcount: A:0.33, C:0.19, G:0.46, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:41461356 original size:43 final size:41
Alignment explanation
Indices: 41461255--41461418 Score: 175
Period size: 41 Copynumber: 3.9 Consensus size: 41
41461245 GTTTTTGTAT
* * *
41461255 AAAAGCGCCACTAAAGAACATGTTCTTTCGCGGCGTTTGTA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAA
* *
41461296 AAAAATGCCACTAAAGAACATGTTCTTTAGCGGCGCTTAGAAA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG-TTTG-AA
* * ***
41461339 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCC
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG-TTTGAA
** * *
41461381 TTAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTT
41461419 TTTCCTAAGC
Statistics
Matches: 104, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
41 35 0.34
42 34 0.33
43 35 0.34
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (41 bp):
AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAA
Found at i:41461408 original size:42 final size:41
Alignment explanation
Indices: 41461257--41461504 Score: 253
Period size: 42 Copynumber: 5.9 Consensus size: 41
41461247 TTTTGTATAA
* * * *
41461257 AAGCGCCACTAAAGAACATGTTCTTTCGCGGCGTTTGTAAA
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTAAT
** * *** *
41461298 AAATGCCACTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAA
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG-TT-TTTAAT
* * **
41461341 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCCTT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT-AAT
**
41461383 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTAAT
* * **
41461425 AAGCGCCGCTAAAGAACATGGTCTTTAGTGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTAAT
*
41461467 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT
41461505 GTTTGTAAAC
Statistics
Matches: 181, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
41 35 0.19
42 108 0.60
43 38 0.21
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (41 bp):
AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTAAT
Found at i:41463532 original size:46 final size:46
Alignment explanation
Indices: 41463481--41463575 Score: 163
Period size: 46 Copynumber: 2.1 Consensus size: 46
41463471 ACAAAGATAG
*
41463481 AAACCAAAAAATTATCTCCTAAATTTTAACATCTAATCTCCTAATT
1 AAACCAAAAAATTATCTCCTAAACTTTAACATCTAATCTCCTAATT
* *
41463527 AAACCAAAACATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAAAATTATCTCCTAAACTTTAACATCTAATCTCCTAATT
41463573 AAA
1 AAA
41463576 AGAAAAGAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.43, C:0.23, G:0.01, T:0.33
Consensus pattern (46 bp):
AAACCAAAAAATTATCTCCTAAACTTTAACATCTAATCTCCTAATT
Found at i:41466890 original size:16 final size:17
Alignment explanation
Indices: 41466865--41466900 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
41466855 TTCGGAAAAC
41466865 TTTAAAATTTTTATA-A
1 TTTAAAATTTTTATATA
*
41466881 TTTAACATTTTTATATA
1 TTTAAAATTTTTATATA
41466898 TTT
1 TTT
41466901 TTATACTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTAAAATTTTTATATA
Found at i:41473899 original size:68 final size:71
Alignment explanation
Indices: 41473826--41473963 Score: 203
Period size: 68 Copynumber: 2.0 Consensus size: 71
41473816 TTTAATAGAT
*
41473826 TTAATATTAAATTTAATTTAATACTTATCTTAATAG-T-AT-TT-TATTAATTTAATATTAAAGT
1 TTAATATTAAATTAAATTTAATACTTATCTT-ATAGATAATATTCTATTAATTTAATATTAAAGT
41473887 GATTATC
65 GATTATC
* *
41473894 TTAATATTAAATTAAATTTAATATTTATCTTATAGATAAATATTCTATTAATTTACTATTAAAGT
1 TTAATATTAAATTAAATTTAATACTTATCTTATAGAT-AATATTCTATTAATTTAATATTAAAGT
41473959 GATTA
65 GATTA
41473964 AATTTAATCA
Statistics
Matches: 62, Mismatches: 3, Indels: 6
0.87 0.04 0.08
Matches are distributed among these distances:
67 4 0.06
68 30 0.48
70 2 0.03
71 2 0.03
72 24 0.39
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (71 bp):
TTAATATTAAATTAAATTTAATACTTATCTTATAGATAATATTCTATTAATTTAATATTAAAGTG
ATTATC
Found at i:41478481 original size:297 final size:296
Alignment explanation
Indices: 41478099--41479275 Score: 1814
Period size: 297 Copynumber: 4.0 Consensus size: 296
41478089 CTCACGACGT
*
41478099 TTCTGAAAACATCGTTGTTAGCACCATTGGCATAGGTACCATGACGCTTTGGAAAAAGCATTAGC
1 TTCTGAAAACATCGTTGTTAGCACCATTGGCATAGGTACCATGACGCTTTGGAAAAAGCATCAGC
* *
41478164 ATAATTCAACCTAAGTCAACCTTTATTCAAGGGTTGGTAAAAACCTAGTCAAGGTCGACGTTTAA
66 ATAATTCAACCTAGGTCAACCTTTATTCAAGGGTTGGTAAAGACCTAGTCAAGGTCGACGTTTAA
* *
41478229 AAAAGGTTGGGATAGGAGGAATTAGACGATCGAAAAAAGTCAAAATAAAGCATTCATATGCCAAC
131 AAAAGGTTGGGATAGGAGGAATTAGACGATCGAAAAAAGTCAGAATAAAGCATTCATATGCCGAC
*
41478294 TTATAAAGAGTTGGTTCATGCCCCCGTCAAAGGCTACATAAAAATAGTCGAGTTAGGTCACACTT
196 TTATAAAGAGTTGGTTCATGCCCCCGTCAAAGG-GACATAAAAATAGTCGAGTTAGGTCACACTT
41478359 AGT-CAGACTTTTAAAGAGTTGGCACATGTGTCGACAC
260 AGTCCA-ACTTTTAAAGAGTTGGCACATGTGTCGACAC
*
41478396 TTCTGAAAACATCGTTGTTAGCACCATTGGCATAGGTACCATGACGCTTTGGAAAAAGCATCGGC
1 TTCTGAAAACATCGTTGTTAGCACCATTGGCATAGGTACCATGACGCTTTGGAAAAAGCATCAGC
41478461 ATAATTCAACCTAGGTCAACCTTTATTCAAGGGTTGGTAAAGACCTAGTCAAGGTCGACGTTTAA
66 ATAATTCAACCTAGGTCAACCTTTATTCAAGGGTTGGTAAAGACCTAGTCAAGGTCGACGTTTAA
* *
41478526 AAAAGGTTGGGATAGGAGGAATTA-AGCGACCCAAAAAAGTCAGAATAAAGCATTCATATGCCGA
131 AAAAGGTTGGGATAGGAGGAATTAGA-CGATCGAAAAAAGTCAGAATAAAGCATTCATATGCCGA
* * * *
41478590 CTTATAAAGAATTGGTTCATGCCCCCTTCAAAGGTGACATAAAAATAGTTGAGTTAGGTCGCACT
195 CTTATAAAGAGTTGGTTCATGCCCCCGTCAAAGG-GACATAAAAATAGTCGAGTTAGGTCACACT
* * *
41478655 TAGTCCATCTTTTAAAGAGTTGGCACATGCGTCGACGC
259 TAGTCCAACTTTTAAAGAGTTGGCACATGTGTCGACAC
*
41478693 TTCTGAAAACATCATTGTTAGCACCATTGGCATAGGTACCATGACGCTTTGGAAAAAGCATCAGC
1 TTCTGAAAACATCGTTGTTAGCACCATTGGCATAGGTACCATGACGCTTTGGAAAAAGCATCAGC
*
41478758 ATAATTCAACCTAGGTCAACCTTTATTCAAGGGTTGGTAAAGACCTAGTCAAGGTCGACATTTAA
66 ATAATTCAACCTAGGTCAACCTTTATTCAAGGGTTGGTAAAGACCTAGTCAAGGTCGACGTTTAA
* * * ** * *
41478823 AACAGGTTGAGATAGGAGGAATTAGGCGATCGAAAAAA-TTTG--GAAA-CATTCATATACCGAC
131 AAAAGGTTGGGATAGGAGGAATTAGACGATCGAAAAAAGTCAGAATAAAGCATTCATATGCCGAC
* * *
41478884 TTATAAAGAGTTGGTTCATGCCCCAGTCAAAGGGACA-AAAAATAGCCGAGTTAGGTCGCACTTA
196 TTATAAAGAGTTGGTTCATGCCCCCGTCAAAGGGACATAAAAATAGTCGAGTTAGGTCACACTTA
* * *
41478948 GTCCAACTTTTAAAGAATTGGCACATGTGTCAACTC
261 GTCCAACTTTTAAAGAGTTGGCACATGTGTCGACAC
* * * * *
41478984 TTCTGAAAACATCGTTGTTAGCACCATTAGCATAGGTACCATAACACTTTGGAAAAAGCGTCGGC
1 TTCTGAAAACATCGTTGTTAGCACCATTGGCATAGGTACCATGACGCTTTGGAAAAAGCATCAGC
* * *
41479049 ATAATTCAACCAAGGTCAACCTTTATTTAAGGGTTGGTAAAGACCTAGTCAAGGTCAACGTTTAA
66 ATAATTCAACCTAGGTCAACCTTTATTCAAGGGTTGGTAAAGACCTAGTCAAGGTCGACGTTTAA
* * * *
41479114 AAAAGGTTGGCATAGGAGGAATTAGGA-GA-CAAAAAAAAGTCAGAATAAAGAATTCATATGTCG
131 AAAAGGTTGGGATAGGAGGAATTA-GACGATC-GAAAAAAGTCAGAATAAAGCATTCATATGCCG
*
41479177 ACTTATAAAGAGTTGGTTCATGCCCTCGTCAAAGGAGACATAAAAATAGTCGAGTTAGGTCACAC
194 ACTTATAAAGAGTTGGTTCATGCCCCCGTCAAAGG-GACATAAAAATAGTCGAGTTAGGTCACAC
**
41479242 TTAGTCTGACTTTTAAAGAGTTGGCACATGTGTC
258 TTAGTCCAACTTTTAAAGAGTTGGCACATGTGTC
41479276 AACCAAAGCC
Statistics
Matches: 802, Mismatches: 67, Indels: 22
0.90 0.08 0.02
Matches are distributed among these distances:
290 1 0.00
291 205 0.26
292 7 0.01
293 44 0.05
294 6 0.01
295 43 0.05
296 7 0.01
297 487 0.61
298 2 0.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (296 bp):
TTCTGAAAACATCGTTGTTAGCACCATTGGCATAGGTACCATGACGCTTTGGAAAAAGCATCAGC
ATAATTCAACCTAGGTCAACCTTTATTCAAGGGTTGGTAAAGACCTAGTCAAGGTCGACGTTTAA
AAAAGGTTGGGATAGGAGGAATTAGACGATCGAAAAAAGTCAGAATAAAGCATTCATATGCCGAC
TTATAAAGAGTTGGTTCATGCCCCCGTCAAAGGGACATAAAAATAGTCGAGTTAGGTCACACTTA
GTCCAACTTTTAAAGAGTTGGCACATGTGTCGACAC
Found at i:41479098 original size:588 final size:593
Alignment explanation
Indices: 41478093--41479271 Score: 1895
Period size: 588 Copynumber: 2.0 Consensus size: 593
41478083 ACGATTCTCA
* *
41478093 CGACGTTTCTGAAAACATCGTTGTTAGCACCATTGGCATAGGTACCATGACGCTTTGGAAAAAGC
1 CGACGCTTCTGAAAACATCATTGTTAGCACCATTGGCATAGGTACCATGACGCTTTGGAAAAAGC
*
41478158 ATTAGCATAATTCAACCTAAGTCAACCTTTATTCAAGGGTTGGTAAAAACCTAGTCAAGGTCGAC
66 ATCAGCATAATTCAACCTAAGTCAACCTTTATTCAAGGGTTGGTAAAAACCTAGTCAAGGTCGAC
* * *
41478223 GTTTAAAAAAGGTTGGGATAGGAGGAATTAGACGATCGAAAAAAGTCAAAATAAAGCATTCATAT
131 ATTTAAAAAAGGTTGAGATAGGAGGAATTAGACGATCGAAAAAAGT-AAAAGAAAGCATTCATAT
* * * *
41478288 GCCAACTTATAAAGAGTTGGTTCATGCCCCCGTCAAAGGCTACATAAAAATAGTCGAGTTAGGTC
195 ACCAACTTATAAAGAGTTGGTTCATGCCCCAGTCAAAGGCGACATAAAAATAGCCGAGTTAGGTC
* *
41478353 ACACTTAGTCAGACTTTTAAAGAGTTGGCACATGTGTCGACACTTCTGAAAACATCGTTGTTAGC
260 ACACTTAGTCAGACTTTTAAAGAATTGGCACATGTGTCAACACTTCTGAAAACATCGTTGTTAGC
* * * *
41478418 ACCATTGGCATAGGTACCATGACGCTTTGGAAAAAGCATCGGCATAATTCAACCTAGGTCAACCT
325 ACCATTAGCATAGGTACCATAACACTTTGGAAAAAGCATCGGCATAATTCAACCAAGGTCAACCT
* *
41478483 TTATTCAAGGGTTGGTAAAGACCTAGTCAAGGTCGACGTTTAAAAAAGGTTGGGATAGGAGGAAT
390 TTATTCAAGGGTTGGTAAAGACCTAGTCAAGGTCAACGTTTAAAAAAGGTTGGCATAGGAGGAAT
* ** *
41478548 TAAGCGACCCAAAAAAGTCAGAATAAAGCATTCATATGCCGACTTATAAAGAATTGGTTCATGCC
455 TAAGAGACAAAAAAAAGTCAGAATAAAGAATTCATATGCCGACTTATAAAGAATTGGTTCATGCC
* * * *
41478613 CCCTTCAAAGGTGACATAAAAATAGTTGAGTTAGGTCGCACTTAGTC-CATCTTTTAAAGAGTTG
520 CCCGTCAAAGGAGACATAAAAATAGTCGAGTTAGGTCACACTTAGTCTCA-CTTTTAAAGAGTTG
41478677 GCACATGCGT
584 GCACATGCGT
41478687 CGACGCTTCTGAAAACATCATTGTTAGCACCATTGGCATAGGTACCATGACGCTTTGGAAAAAGC
1 CGACGCTTCTGAAAACATCATTGTTAGCACCATTGGCATAGGTACCATGACGCTTTGGAAAAAGC
* *
41478752 ATCAGCATAATTCAACCTAGGTCAACCTTTATTCAAGGGTTGGTAAAGACCTAGTCAAGGTCGAC
66 ATCAGCATAATTCAACCTAAGTCAACCTTTATTCAAGGGTTGGTAAAAACCTAGTCAAGGTCGAC
* * ***
41478817 ATTTAAAACAGGTTGAGATAGGAGGAATTAGGCGATCGAAAAAA-T-TTGGAAA-CATTCATATA
131 ATTTAAAAAAGGTTGAGATAGGAGGAATTAGACGATCGAAAAAAGTAAAAGAAAGCATTCATATA
* *
41478879 CCGACTTATAAAGAGTTGGTTCATGCCCCAGTCAAAGG-GACA-AAAAATAGCCGAGTTAGGTCG
196 CCAACTTATAAAGAGTTGGTTCATGCCCCAGTCAAAGGCGACATAAAAATAGCCGAGTTAGGTCA
*
41478942 CACTTAGTCCA-ACTTTTAAAGAATTGGCACATGTGTCAACTCTTCTGAAAACATCGTTGTTAGC
261 CACTTAGT-CAGACTTTTAAAGAATTGGCACATGTGTCAACACTTCTGAAAACATCGTTGTTAGC
*
41479006 ACCATTAGCATAGGTACCATAACACTTTGGAAAAAGCGTCGGCATAATTCAACCAAGGTCAACCT
325 ACCATTAGCATAGGTACCATAACACTTTGGAAAAAGCATCGGCATAATTCAACCAAGGTCAACCT
*
41479071 TTATTTAAGGGTTGGTAAAGACCTAGTCAAGGTCAACGTTTAAAAAAGGTTGGCATAGGAGGAAT
390 TTATTCAAGGGTTGGTAAAGACCTAGTCAAGGTCAACGTTTAAAAAAGGTTGGCATAGGAGGAAT
* * *
41479136 TAGGAGACAAAAAAAAGTCAGAATAAAGAATTCATATGTCGACTTATAAAGAGTTGGTTCATGCC
455 TAAGAGACAAAAAAAAGTCAGAATAAAGAATTCATATGCCGACTTATAAAGAATTGGTTCATGCC
* *
41479201 CTCGTCAAAGGAGACATAAAAATAGTCGAGTTAGGTCACACTTAGTCTGACTTTTAAAGAGTTGG
520 CCCGTCAAAGGAGACATAAAAATAGTCGAGTTAGGTCACACTTAGTCTCACTTTTAAAGAGTTGG
41479266 CACATG
585 CACATG
41479272 TGTCAACCAA
Statistics
Matches: 540, Mismatches: 43, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
588 320 0.59
589 6 0.01
590 45 0.08
591 3 0.01
593 1 0.00
594 165 0.31
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (593 bp):
CGACGCTTCTGAAAACATCATTGTTAGCACCATTGGCATAGGTACCATGACGCTTTGGAAAAAGC
ATCAGCATAATTCAACCTAAGTCAACCTTTATTCAAGGGTTGGTAAAAACCTAGTCAAGGTCGAC
ATTTAAAAAAGGTTGAGATAGGAGGAATTAGACGATCGAAAAAAGTAAAAGAAAGCATTCATATA
CCAACTTATAAAGAGTTGGTTCATGCCCCAGTCAAAGGCGACATAAAAATAGCCGAGTTAGGTCA
CACTTAGTCAGACTTTTAAAGAATTGGCACATGTGTCAACACTTCTGAAAACATCGTTGTTAGCA
CCATTAGCATAGGTACCATAACACTTTGGAAAAAGCATCGGCATAATTCAACCAAGGTCAACCTT
TATTCAAGGGTTGGTAAAGACCTAGTCAAGGTCAACGTTTAAAAAAGGTTGGCATAGGAGGAATT
AAGAGACAAAAAAAAGTCAGAATAAAGAATTCATATGCCGACTTATAAAGAATTGGTTCATGCCC
CCGTCAAAGGAGACATAAAAATAGTCGAGTTAGGTCACACTTAGTCTCACTTTTAAAGAGTTGGC
ACATGCGT
Found at i:41484242 original size:30 final size:30
Alignment explanation
Indices: 41484208--41484355 Score: 131
Period size: 30 Copynumber: 5.0 Consensus size: 30
41484198 AATACAAAAA
41484208 TTTAAAATTTACATTTTAACCCCCCAACTT
1 TTTAAAATTTACATTTTAACCCCCCAACTT
*
41484238 TTTAAAATTTACATTTTAA-CCTCCAACTT
1 TTTAAAATTTACATTTTAACCCCCCAACTT
*** **
41484267 TTTGTTATTTACATTTT-GGCCCCCAACTT
1 TTTAAAATTTACATTTTAACCCCCCAACTT
** * *
41484296 TTCCTAAAA-TTACATTTTGTCCTCCTAACTT
1 TT--TAAAATTTACATTTTAACCCCCCAACTT
** * *
41484327 TTTACTATTTACATTTTGATCCCCCAACT
1 TTTAAAATTTACATTTTAACCCCCCAACT
41484356 GTTATATGAA
Statistics
Matches: 94, Mismatches: 19, Indels: 10
0.76 0.15 0.08
Matches are distributed among these distances:
29 37 0.39
30 45 0.48
31 12 0.13
ACGTcount: A:0.27, C:0.25, G:0.03, T:0.45
Consensus pattern (30 bp):
TTTAAAATTTACATTTTAACCCCCCAACTT
Found at i:41484280 original size:59 final size:59
Alignment explanation
Indices: 41484214--41484355 Score: 171
Period size: 59 Copynumber: 2.4 Consensus size: 59
41484204 AAAATTTAAA
**
41484214 ATTTACATTTTAACCCCCCAACTTTT-TAAAATTTACATTTTAACCTCC-AACTTTTTGTT
1 ATTTACATTTT-ACCCCCCAACTTTTCTAAAA-TTACATTTTAACCTCCTAACTTTTTACT
** **
41484273 ATTTACATTTTGGCCCCCAACTTTTCCTAAAATTACATTTTGTCCTCCTAACTTTTTACT
1 ATTTACATTTTACCCCCCAACTTTT-CTAAAATTACATTTTAACCTCCTAACTTTTTACT
*
41484333 ATTTACATTTTGATCCCCCAACT
1 ATTTACATTTT-ACCCCCCAACT
41484356 GTTATATGAA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
58 12 0.17
59 25 0.35
60 25 0.35
61 9 0.13
ACGTcount: A:0.26, C:0.26, G:0.04, T:0.44
Consensus pattern (59 bp):
ATTTACATTTTACCCCCCAACTTTTCTAAAATTACATTTTAACCTCCTAACTTTTTACT
Found at i:41484775 original size:15 final size:15
Alignment explanation
Indices: 41484757--41484802 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
41484747 TTAAAATTAG
*
41484757 AGAAAATAAATAAAA
1 AGAAAAAAAATAAAA
*
41484772 AGAAAAGAAA-AAAA
1 AGAAAAAAAATAAAA
41484786 AGAAAAAATAATAAAA
1 AGAAAAAA-AATAAAA
41484802 A
1 A
41484803 TATAAAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 11 0.41
15 11 0.41
16 5 0.19
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.09
Consensus pattern (15 bp):
AGAAAAAAAATAAAA
Found at i:41489026 original size:4 final size:4
Alignment explanation
Indices: 41489009--41489047 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
41488999 GCATGACTAA
* *
41489009 CATT CATT -AGT CATT CATT CACT CATT CATT CATT CATT
1 CATT CATT CATT CATT CATT CATT CATT CATT CATT CATT
41489048 GTATGTACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
3 2 0.07
4 28 0.93
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.46
Consensus pattern (4 bp):
CATT
Found at i:41497562 original size:77 final size:76
Alignment explanation
Indices: 41497383--41498057 Score: 668
Period size: 77 Copynumber: 8.9 Consensus size: 76
41497373 TCCTATTTCA
* * * * ** *
41497383 TTTTTCAAAAATCAACTCA-ACATCCGAGAGGTGAGTTAAGCATCGGGTCACACGCTAAGGT-GT
1 TTTTTCAAAGATCAACTCATA-ATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATT
*
41497446 TTTCAATTTATAT
65 TTTCAATTT-TTT
** * * *
41497459 TTTTT-AAA-ATCAACTCATAATCCGAGAACTGAGTTGAGCCTCGGGTTGCATGCCGAGATATTT
1 TTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTT
*
41497522 TTCTATTTCTATT
66 TTCAATTT-T-TT
* * * * * *
41497535 TTTTTGAAA-ATTAACTCATAATTCGAGAGGTGAGTTGAGCCTCAGGTCGCATGCCGAGATATTT
1 TTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTT
*
41497599 TTCAATTTTTG
66 TTCAATTTTTT
* * * *
41497610 TTTATCAAAGATCAACTCATAGTCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGT-GTT
1 TTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTT
41497674 TTCAATTTTTGTTT
66 TTCAA--TTT-TTT
* * * ** * *
41497688 TTTTTCAAAAATCAACTCATAATCTGAGAGGTGAGTTGAACCTCAAGTCACACGCTGAGGTATAT
1 TTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTAT-T
***
41497753 TTTCAATTTCAG
65 TTTCAATTTTTT
* * *
41497765 TTTTTCGAAA-ATCAACTCATAATCTGAGAGGTGAGTTGAGCCTGGGGTCGCATGCCGAGGTATT
1 TTTTTC-AAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTA-T
* *
41497829 TTTTCTATTTTTA
64 TTTTCAATTTTTT
* * * * *
41497842 TTTTTCAAAGATCGACTCATAATCCGAGAGGTGAGTTGAGCCTTGGGTCACACGTCGAGCTATTT
1 TTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTT
*
41497907 TT-AATTTTTC
66 TTCAATTTTTT
* * * ** *
41497917 TTTTTCAAATATCAACTCATAGTCCGAGAGGTGAGTTGAGCCTCAGGTCGCACGTGGAGCTA-TT
1 TTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTT
*
41497981 TT-ATATTTTTG
66 TTCA-ATTTTTT
* * * *
41497992 TTTTTCAAAGATCAACCCATAATCCGAGAGATGAGTTGAGCCTCGGGTTGCACGCCGAGGAATTT
1 TTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTT
41498057 T
66 T
41498058 AAATTTCAGT
Statistics
Matches: 501, Mismatches: 83, Indels: 30
0.82 0.14 0.05
Matches are distributed among these distances:
74 44 0.09
75 148 0.30
76 67 0.13
77 173 0.35
78 62 0.12
80 7 0.01
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (76 bp):
TTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTT
TTCAATTTTTT
Found at i:41498608 original size:29 final size:29
Alignment explanation
Indices: 41498555--41498685 Score: 120
Period size: 29 Copynumber: 4.5 Consensus size: 29
41498545 ACAAAAACTA
* *
41498555 AAAATATACATTTTTACCCCTTAACTTTTT
1 AAAATTTACATTTTAACCCC-TAACTTTTT
41498585 AAAATTTACATTTTAACCCCTAACTTTTT
1 AAAATTTACATTTTAACCCCTAACTTTTT
** ** * *
41498614 ACTATTTACATTTTGTCCCTTAACTTTCCT
1 AAAATTTACATTTTAACCCCTAACTTT-TT
* * *
41498644 AAAA-TTAAATTTTAACCCCCAATTTTTT
1 AAAATTTACATTTTAACCCCTAACTTTTT
**
41498672 ACTATTTACATTTT
1 AAAATTTACATTTT
41498686 GATCCCCCAA
Statistics
Matches: 79, Mismatches: 20, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
28 3 0.04
29 55 0.70
30 21 0.27
ACGTcount: A:0.31, C:0.21, G:0.01, T:0.47
Consensus pattern (29 bp):
AAAATTTACATTTTAACCCCTAACTTTTT
Found at i:41498637 original size:58 final size:59
Alignment explanation
Indices: 41498561--41498691 Score: 185
Period size: 58 Copynumber: 2.2 Consensus size: 59
41498551 ACTAAAAATA
* * * * *
41498561 TACATTTTTACCCCTTAACTTT-TTAAAATTTACATTTTAACCCCTAACTTTTTACTATT
1 TACATTTTGATCCCTTAACTTTCCTAAAA-TTAAATTTTAACCCCCAACTTTTTACTATT
*
41498620 TACATTTTG-TCCCTTAACTTTCCTAAAATTAAATTTTAACCCCCAATTTTTTACTATT
1 TACATTTTGATCCCTTAACTTTCCTAAAATTAAATTTTAACCCCCAACTTTTTACTATT
41498678 TACATTTTGATCCC
1 TACATTTTGATCCC
41498692 CCAACTGCTA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
58 47 0.73
59 17 0.27
ACGTcount: A:0.28, C:0.23, G:0.02, T:0.47
Consensus pattern (59 bp):
TACATTTTGATCCCTTAACTTTCCTAAAATTAAATTTTAACCCCCAACTTTTTACTATT
Found at i:41498744 original size:30 final size:30
Alignment explanation
Indices: 41498710--41498770 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
41498700 TACCTGAAAG
41498710 TAAGAAATCAACAACAATAAAAGGACATTT
1 TAAGAAATCAACAACAATAAAAGGACATTT
41498740 TAAGAAATCAACAACAATAAAAGGACATTT
1 TAAGAAATCAACAACAATAAAAGGACATTT
41498770 T
1 T
41498771 CCCTTTCGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.56, C:0.13, G:0.10, T:0.21
Consensus pattern (30 bp):
TAAGAAATCAACAACAATAAAAGGACATTT
Found at i:41499138 original size:5 final size:5
Alignment explanation
Indices: 41499128--41499181 Score: 51
Period size: 5 Copynumber: 11.2 Consensus size: 5
41499118 TTAAAAGTAG
* *
41499128 AGAAA AGAAA AGAAAA AGAAA GGAAA AG-AA A-AAA AG-AA AGGAA AGAAA
1 AGAAA AGAAA AG-AAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA
*
41499176 GGAAA A
1 AGAAA A
41499182 AAATAATAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
4 10 0.25
5 25 0.62
6 5 0.12
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:41499167 original size:22 final size:21
Alignment explanation
Indices: 41499128--41499184 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
41499118 TTAAAAGTAG
*
41499128 AGAAAAGAAAAGAAAAA-GAA
1 AGAAAAGAAAAAAAAAAGGAA
41499148 AGGAAAAGAAAAAAAGAAAGGAA
1 A-GAAAAGAAAAAAA-AAAGGAA
*
41499171 AGAAAGGAAAAAAA
1 AGAAAAGAAAAAAA
41499185 TAATAATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 1 0.03
21 12 0.38
22 15 0.47
23 4 0.12
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (21 bp):
AGAAAAGAAAAAAAAAAGGAA
Found at i:41499172 original size:17 final size:18
Alignment explanation
Indices: 41499128--41499175 Score: 66
Period size: 16 Copynumber: 2.8 Consensus size: 18
41499118 TTAAAAGTAG
*
41499128 AGAAAAGAAAAG--AAAA
1 AGAAAGGAAAAGAAAAAA
41499144 AGAAAGGAAAAGAAAAAA
1 AGAAAGGAAAAGAAAAAA
41499162 AGAAAGG-AAAGAAA
1 AGAAAGGAAAAGAAA
41499176 GGAAAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 11 0.38
17 7 0.24
18 11 0.38
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
AGAAAGGAAAAGAAAAAA
Found at i:41505220 original size:66 final size:65
Alignment explanation
Indices: 41505114--41505251 Score: 172
Period size: 66 Copynumber: 2.1 Consensus size: 65
41505104 TCATATTCTG
* *
41505114 AAGTTGCAGCTGGAGTTCGTCATATTTTCTGCTTGCCTCTACTTCCCT-TACTGCTGTCTCCACT
1 AAGTTGCAGCTGGAGTTCGTCATATTTTCT-CTTGCCTCTACTTCCCTCGA-TGCTGCCTCCACT
41505178 TT
64 TT
* * * *
41505180 AAGTTGTAGCTGGAGTTCTTCATATTTTCT-TTGAGCCTCTACTTCTCTCGATGTTGCCTCCACT
1 AAGTTGCAGCTGGAGTTCGTCATATTTTCTCTT--GCCTCTACTTCCCTCGATGCTGCCTCCACT
41505244 TT
64 TT
41505246 AAGTTG
1 AAGTTG
41505252 AGCAATTTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
64 2 0.03
66 60 0.95
67 1 0.02
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.42
Consensus pattern (65 bp):
AAGTTGCAGCTGGAGTTCGTCATATTTTCTCTTGCCTCTACTTCCCTCGATGCTGCCTCCACTTT
Found at i:41505329 original size:13 final size:13
Alignment explanation
Indices: 41505311--41505335 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41505301 AACCTCTAAA
41505311 CTTCAGCTTGAGC
1 CTTCAGCTTGAGC
41505324 CTTCAGCTTGAG
1 CTTCAGCTTGAG
41505336 TCTGATTCCC
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:0.16, C:0.28, G:0.24, T:0.32
Consensus pattern (13 bp):
CTTCAGCTTGAGC
Found at i:41510625 original size:7 final size:7
Alignment explanation
Indices: 41510615--41510639 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
41510605 AGATAATACA
41510615 TATCAAG
1 TATCAAG
41510622 TATCAAG
1 TATCAAG
41510629 TATCAAG
1 TATCAAG
41510636 TATC
1 TATC
41510640 TAATAGGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (7 bp):
TATCAAG
Found at i:41510702 original size:9 final size:9
Alignment explanation
Indices: 41510688--41510827 Score: 132
Period size: 9 Copynumber: 16.0 Consensus size: 9
41510678 CAAGTATAAT
41510688 TAAGTTATG
1 TAAGTTATG
41510697 TAAGTTATG
1 TAAGTTATG
* * *
41510706 ATATGATATA
1 -TAAGTTATG
*
41510716 T-ATTTATG
1 TAAGTTATG
41510724 TAAGTTATG
1 TAAGTTATG
41510733 TAAGTTATG
1 TAAGTTATG
*
41510742 -ATA-TGATG
1 TA-AGTTATG
*
41510750 TATATTTATG
1 TA-AGTTATG
41510760 T-A-TTATG
1 TAAGTTATG
41510767 TAAGTTATG
1 TAAGTTATG
41510776 TAAGTTATG
1 TAAGTTATG
*
41510785 TAGGTTATG
1 TAAGTTATG
41510794 TAAGTTATG
1 TAAGTTATG
41510803 T-A-TTATG
1 TAAGTTATG
41510810 TAAGTTATG
1 TAAGTTATG
*
41510819 TATGTTATG
1 TAAGTTATG
41510828 ATCCAAAGTT
Statistics
Matches: 109, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
7 12 0.11
8 13 0.12
9 73 0.67
10 11 0.10
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (9 bp):
TAAGTTATG
Found at i:41510730 original size:36 final size:36
Alignment explanation
Indices: 41510688--41510804 Score: 159
Period size: 36 Copynumber: 3.3 Consensus size: 36
41510678 CAAGTATAAT
41510688 TAAGTTATGTAAGTTATGATATGATATATATTTATG
1 TAAGTTATGTAAGTTATGATATGATATATATTTATG
*
41510724 TAAGTTATGTAAGTTATGATATGATGTATATTTATG
1 TAAGTTATGTAAGTTATGATATGATATATATTTATG
* * * *
41510760 T-A-TTATGTAAGTTATG-TAAGTTATGTAGGTTATG
1 TAAGTTATGTAAGTTATGATATGATATATA-TTTATG
41510794 TAAGTTATGTA
1 TAAGTTATGTA
41510805 TTATGTAAGT
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
33 7 0.10
34 20 0.28
35 2 0.03
36 43 0.60
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (36 bp):
TAAGTTATGTAAGTTATGATATGATATATATTTATG
Found at i:41510770 original size:43 final size:43
Alignment explanation
Indices: 41510719--41510829 Score: 163
Period size: 43 Copynumber: 2.6 Consensus size: 43
41510709 TGATATATAT
*
41510719 TTATGTAAGTTATGTAAGTTATGATA-TGATGTATATTTATGTA
1 TTATGTAAGTTATGTAAGTTATGATAGTGATGTA-AGTTATGTA
*
41510762 TTATGTAAGTTATGTAAGTTATG-TAGGTTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGATA-GTGATGTAAGTTATGTA
*
41510805 TTATGTAAGTTATGTATGTTATGAT
1 TTATGTAAGTTATGTAAGTTATGAT
41510830 CCAAAGTTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
42 2 0.03
43 53 0.85
44 7 0.11
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.49
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAGTTATGATAGTGATGTAAGTTATGTA
Found at i:41510793 original size:34 final size:34
Alignment explanation
Indices: 41510755--41510827 Score: 105
Period size: 34 Copynumber: 2.1 Consensus size: 34
41510745 TGATGTATAT
41510755 TTATGT-A-TTATGTAAGTTATGTAAGTTATGTAGG
1 TTATGTAAGTTATGT-A-TTATGTAAGTTATGTAGG
*
41510789 TTATGTAAGTTATGTATTATGTAAGTTATGTATG
1 TTATGTAAGTTATGTATTATGTAAGTTATGTAGG
41510823 TTATG
1 TTATG
41510828 ATCCAAAGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
34 28 0.78
35 2 0.06
36 6 0.17
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (34 bp):
TTATGTAAGTTATGTATTATGTAAGTTATGTAGG
Found at i:41510933 original size:13 final size:13
Alignment explanation
Indices: 41510915--41510941 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
41510905 TGATTATCAT
41510915 CTTTAAATTTTAA
1 CTTTAAATTTTAA
41510928 CTTTAAATTTTAA
1 CTTTAAATTTTAA
41510941 C
1 C
41510942 CCTTTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (13 bp):
CTTTAAATTTTAA
Found at i:41511995 original size:21 final size:22
Alignment explanation
Indices: 41511970--41512015 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
41511960 TTTGCAAATA
*
41511970 AAATAT-GAGAATGAAGCCTTT
1 AAATATAGACAATGAAGCCTTT
*
41511991 AAATATAGGACAATGAAGGCTTT
1 AAATATA-GACAATGAAGCCTTT
41512014 AA
1 AA
41512016 CAGTTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
23 15 0.71
ACGTcount: A:0.46, C:0.09, G:0.20, T:0.26
Consensus pattern (22 bp):
AAATATAGACAATGAAGCCTTT
Found at i:41512073 original size:12 final size:12
Alignment explanation
Indices: 41512056--41512086 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
41512046 CAATAGCATG
41512056 CTCCATTCTCAA
1 CTCCATTCTCAA
*
41512068 CTCCATTCTCAC
1 CTCCATTCTCAA
41512080 CTCCATT
1 CTCCATT
41512087 TATAACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.45, G:0.00, T:0.35
Consensus pattern (12 bp):
CTCCATTCTCAA
Found at i:41520623 original size:41 final size:41
Alignment explanation
Indices: 41520563--41520682 Score: 141
Period size: 41 Copynumber: 2.9 Consensus size: 41
41520553 TTTAAGGCGT
* * *
41520563 TAAACGCCACTACTGCTTGACCTTTTACGGCGTTTTTCTCA
1 TAAACACCGCTACTGCTTGACCTTTTGCGGCGTTTTTCTCA
** * * *
41520604 TAAACATTGCTACTACTTGATCTTTTGTGGCGTTTTTCTCA
1 TAAACACCGCTACTGCTTGACCTTTTGCGGCGTTTTTCTCA
** *
41520645 TAAATGCCGCTACTGCTTGACCTATTGCGGCGTTTTTC
1 TAAACACCGCTACTGCTTGACCTTTTGCGGCGTTTTTC
41520683 CGTTAGCGCC
Statistics
Matches: 63, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (41 bp):
TAAACACCGCTACTGCTTGACCTTTTGCGGCGTTTTTCTCA
Found at i:41520864 original size:30 final size:31
Alignment explanation
Indices: 41520830--41520892 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
41520820 CTGTTGGAAA
* *
41520830 CATTTTCAGGTG-AAATCAGAAAAACGCTTC
1 CATTTTCAAGTGAAAATCAGAAAAACACTTC
41520860 CATTTTCAAGTGAAAATCAGAAAAACACTTC
1 CATTTTCAAGTGAAAATCAGAAAAACACTTC
41520891 CA
1 CA
41520893 CCTTGTAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 11 0.37
31 19 0.63
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (31 bp):
CATTTTCAAGTGAAAATCAGAAAAACACTTC
Found at i:41523640 original size:17 final size:18
Alignment explanation
Indices: 41523606--41523641 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
41523596 TTATTTTTCA
*
41523606 TTATTAAATTATAAAAAT
1 TTATTAAAATATAAAAAT
41523624 TTATTAAAATA-AAAAAT
1 TTATTAAAATATAAAAAT
41523641 T
1 T
41523642 GATGTTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTATTAAAATATAAAAAT
Found at i:41526465 original size:19 final size:19
Alignment explanation
Indices: 41526437--41526476 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
41526427 TAGCTATAGA
*
41526437 ATTAAAACAATTAAAATTC
1 ATTAAAACAATAAAAATTC
*
41526456 ATTAATACAATAAAAATTC
1 ATTAAAACAATAAAAATTC
41526475 AT
1 AT
41526477 ATTGAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAACAATAAAAATTC
Found at i:41527018 original size:21 final size:20
Alignment explanation
Indices: 41526983--41527023 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
41526973 TGCTCTTTCT
* *
41526983 TTTAATTTTTTTTATTATAC
1 TTTAATTTTTATTATAATAC
41527003 TTTAATTTATTATTATAATAC
1 TTTAATTT-TTATTATAATAC
41527024 ATATATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTAATTTTTATTATAATAC
Found at i:41527594 original size:29 final size:29
Alignment explanation
Indices: 41527557--41527612 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
41527547 TAATAATATA
41527557 ATATATTTTAAATATAAAA-TGATATTTTC
1 ATATATTTTAAAT-TAAAATTGATATTTTC
* **
41527586 ATATTTTTTTCATTAAAATTGATATTT
1 ATATATTTTAAATTAAAATTGATATTT
41527613 GATTGACTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (29 bp):
ATATATTTTAAATTAAAATTGATATTTTC
Found at i:41528110 original size:21 final size:19
Alignment explanation
Indices: 41528045--41528138 Score: 152
Period size: 19 Copynumber: 4.8 Consensus size: 19
41528035 AATTTTTGAG
41528045 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
41528064 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
41528083 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
41528102 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
41528123 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
41528139 AGATATGATT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 51 0.73
21 19 0.27
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:41528120 original size:40 final size:38
Alignment explanation
Indices: 41528045--41528145 Score: 152
Period size: 40 Copynumber: 2.7 Consensus size: 38
41528035 AATTTTTGAG
41528045 GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
*
41528083 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATG--ATATGCAATCCTAGATAT
*
41528123 GATATGTAATCTTAGA-A-GATATG
1 GATATGCAATCTTAGATATGATATG
41528146 ATTTTGTAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
36 5 0.08
38 21 0.36
39 1 0.02
40 32 0.54
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
Found at i:41528157 original size:23 final size:22
Alignment explanation
Indices: 41528077--41528161 Score: 81
Period size: 21 Copynumber: 4.0 Consensus size: 22
41528067 ATGCAATCCT
*
41528077 AGATATGATATGCAATCTTAG-
1 AGATATGATATGTAATCTTAGA
* *
41528098 ATATGAT-ATATGCAATCTT---
1 AGAT-ATGATATGTAATCTTAGA
41528117 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
41528139 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
41528162 GATTTAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.26
21 15 0.28
22 10 0.19
23 13 0.24
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:41528171 original size:22 final size:23
Alignment explanation
Indices: 41528127--41528171 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
41528117 AGATATGATA
*
41528127 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
41528150 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
41528172 GTAGATACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:41528729 original size:22 final size:22
Alignment explanation
Indices: 41528684--41528729 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
41528674 AATTTTGTTA
**
41528684 ATGTAATTATTATTATTTTCAT
1 ATGTAATTATTATTATTAGCAT
41528706 ATGTAATTATTATT-TTAGCTAT
1 ATGTAATTATTATTATTAGC-AT
41528728 AT
1 AT
41528730 ATATATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (22 bp):
ATGTAATTATTATTATTAGCAT
Found at i:41528834 original size:33 final size:30
Alignment explanation
Indices: 41528795--41528855 Score: 77
Period size: 33 Copynumber: 1.9 Consensus size: 30
41528785 TTTTCGCATA
*
41528795 TTTATTTTCTTAATATGAGGTAATTATTTTTAT
1 TTTATTTTATTAATAT-A--TAATTATTTTTAT
*
41528828 TTTATTTTATTTATATATAATTATTTTT
1 TTTATTTTATTAATATATAATTATTTTT
41528856 TTATAATCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 11 0.42
32 1 0.04
33 14 0.54
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (30 bp):
TTTATTTTATTAATATATAATTATTTTTAT
Found at i:41529336 original size:19 final size:20
Alignment explanation
Indices: 41529295--41529336 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
41529285 ATTTCTAGGC
* *
41529295 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
41529315 CATTGT-ATATTTAATATAG
1 CATTGTAATATTTAATATAG
41529334 CAT
1 CAT
41529337 CACATCATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:41529691 original size:98 final size:98
Alignment explanation
Indices: 41529575--41529771 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
41529565 TTAAAAATAA
* * *
41529575 TAAAGGAAATATTTCGAGTTTGGGATTTTAAAGGAATTATGTCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATCATGCCCTAACGTATTGGGTGTGATTTC
41529640 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
41529673 TAAAGGAAATATTCCGAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATCATGCCCTAACGTATTGGGTGTGATTTC
41529738 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
41529771 T
1 T
41529772 TTTATTGCAC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.39
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATCATGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:41535387 original size:22 final size:22
Alignment explanation
Indices: 41535359--41535413 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
41535349 AATAGATTAT
*
41535359 TATTATTAAATTTTAAT-GTGAC
1 TATTATTAAATTATAATAG-GAC
* *
41535381 TATTATTTAATTATAATAGGAT
1 TATTATTAAATTATAATAGGAC
41535403 TATTATTAAAT
1 TATTATTAAAT
41535414 ATTTTATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (22 bp):
TATTATTAAATTATAATAGGAC
Done.