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 120 of 204
Found at i:37265314 original size:7 final size:7
Alignment explanation
Indices: 37265302--37265335 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
37265292 AACCTTAAAT
*
37265302 TTTAGGA
1 TTTAGGG
37265309 TTTAGGG
1 TTTAGGG
37265316 TTTAGGG
1 TTTAGGG
37265323 TTTAGGG
1 TTTAGGG
37265330 TTTAGG
1 TTTAGG
37265336 ATTCATGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:37265321 original size:14 final size:14
Alignment explanation
Indices: 37265302--37265365 Score: 67
Period size: 14 Copynumber: 4.6 Consensus size: 14
37265292 AACCTTAAAT
37265302 TTTAGGATTTAGGG
1 TTTAGGATTTAGGG
*
37265316 TTTAGGGTTTAGGG
1 TTTAGGATTTAGGG
* *
37265330 TTTAGGATTCATGG
1 TTTAGGATTTAGGG
* *
37265344 TTT-GAATTTAAGG
1 TTTAGGATTTAGGG
*
37265357 TTTGGGATT
1 TTTAGGATT
37265366 CGACATAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
13 10 0.24
14 31 0.76
ACGTcount: A:0.20, C:0.02, G:0.33, T:0.45
Consensus pattern (14 bp):
TTTAGGATTTAGGG
Found at i:37265345 original size:21 final size:21
Alignment explanation
Indices: 37265302--37265346 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
37265292 AACCTTAAAT
* *
37265302 TTTAGGATTTAGGGTTTAGGG
1 TTTAGGATTTAGGATTCAGGG
* *
37265323 TTTAGGGTTTAGGATTCATGG
1 TTTAGGATTTAGGATTCAGGG
37265344 TTT
1 TTT
37265347 GAATTTAAGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.02, G:0.33, T:0.47
Consensus pattern (21 bp):
TTTAGGATTTAGGATTCAGGG
Found at i:37266568 original size:26 final size:27
Alignment explanation
Indices: 37266509--37266570 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
37266499 TTGGGGTCAA
**
37266509 TAAAATGACTGAAATACCCCTAAAGGG
1 TAAAATGACCAAAATACCCCTAAAGGG
*
37266536 TAAAATGACCAAAATACCCC-ATAGGG
1 TAAAATGACCAAAATACCCCTAAAGGG
37266562 TAAAATGAC
1 TAAAATGAC
37266571 TGTTCTACCC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 14 0.44
27 18 0.56
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.18
Consensus pattern (27 bp):
TAAAATGACCAAAATACCCCTAAAGGG
Found at i:37266787 original size:26 final size:26
Alignment explanation
Indices: 37266758--37266812 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
37266748 TTTGCCACAT
*
37266758 ATACTGTTATTGGCAGCTTCGCTGCG
1 ATACTGTTACTGGCAGCTTCGCTGCG
* *
37266784 ATACTTTTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTCGCTGCG
37266810 ATA
1 ATA
37266813 TTGGTGTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTCGCTGCG
Found at i:37274249 original size:40 final size:39
Alignment explanation
Indices: 37274194--37274384 Score: 276
Period size: 40 Copynumber: 4.8 Consensus size: 39
37274184 TGAAATTACT
* *
37274194 GAAGTATAA-CAGGGGCACGTATGTGCAATCAGATGTACC
1 GAAGTACAAGCAGGGGCACGTATGTGCAATCAG-GGTACC
*
37274233 GAAGTACAAGTAGGGGCACGTATGTGCAATCATGGGTACC
1 GAAGTACAAGCAGGGGCACGTATGTGCAATCA-GGGTACC
*
37274273 AAAGTACAAGCAGGGGCACGTATGTGCAATCAAGGGTACC
1 GAAGTACAAGCAGGGGCACGTATGTGCAATC-AGGGTACC
*
37274313 GAAGTACAAGCAGGGGCACGTATATGCAATCAGGGATACC
1 GAAGTACAAGCAGGGGCACGTATGTGCAATCAGGG-TACC
* *
37274353 GAAGTACAAACAGAGGCACGTATGTGCAATCA
1 GAAGTACAAGCAGGGGCACGTATGTGCAATCA
37274385 TGTATAATTA
Statistics
Matches: 138, Mismatches: 10, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
39 12 0.09
40 124 0.90
41 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.29, T:0.17
Consensus pattern (39 bp):
GAAGTACAAGCAGGGGCACGTATGTGCAATCAGGGTACC
Found at i:37284049 original size:40 final size:40
Alignment explanation
Indices: 37283958--37284151 Score: 250
Period size: 40 Copynumber: 4.9 Consensus size: 40
37283948 CGATTGAAAT
* *
37283958 TACCGAAATATAAACAGGGGCACGTATGTGCAATCA-GGG
1 TACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGG
* * *
37283997 TACCGAAGTACAAGCAGGGGCATGTATGTGCAATCATGGG
1 TACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGG
* * *
37284037 TACCGAAGTACAAAAAAGGGCACGTATGTGGAATCAGGGG
1 TACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGG
* *
37284077 TACCGAAGTACAAACAAGGGCACGTATGTGCAATTAGGGG
1 TACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGG
* *
37284117 TACC-AAGTACAAA-TGGGGACATGTATGTGCAATCA
1 TACCGAAGTACAAACAGGGG-CACGTATGTGCAATCA
37284152 TGTATAATTA
Statistics
Matches: 136, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
38 3 0.02
39 55 0.40
40 78 0.57
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (40 bp):
TACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGG
Found at i:37289574 original size:16 final size:17
Alignment explanation
Indices: 37289553--37289585 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
37289543 TTCTCTAGAA
37289553 TTATGTGATTTG-ATTC
1 TTATGTGATTTGTATTC
*
37289569 TTATGTTATTTGTATTC
1 TTATGTGATTTGTATTC
37289586 ACGGTTTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.18, C:0.06, G:0.15, T:0.61
Consensus pattern (17 bp):
TTATGTGATTTGTATTC
Found at i:37291207 original size:42 final size:42
Alignment explanation
Indices: 37291160--37291313 Score: 220
Period size: 42 Copynumber: 3.7 Consensus size: 42
37291150 TACACCGGCT
* * *
37291160 TTAAGCCTGCTAAACTTATAGTCCGAATTTATTTCACTGGCA
1 TTAAGCCTGCTAAACGTAAAGTCTGAATTTATTTCACTGGCA
* * * *
37291202 TTAAGCCTGTTAGACGTAAAGTCTGACTTTATTTCACCGGCA
1 TTAAGCCTGCTAAACGTAAAGTCTGAATTTATTTCACTGGCA
37291244 TTAAGCCTGCTAAACGTAAAGTCTGAATTTATTTCACTGGCA
1 TTAAGCCTGCTAAACGTAAAGTCTGAATTTATTTCACTGGCA
*
37291286 TTAAGCATGC-AAGACGTAAAGTCTGAAT
1 TTAAGCCTGCTAA-ACGTAAAGTCTGAAT
37291314 GGTTTCACTG
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
41 2 0.02
42 97 0.98
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (42 bp):
TTAAGCCTGCTAAACGTAAAGTCTGAATTTATTTCACTGGCA
Found at i:37291257 original size:84 final size:84
Alignment explanation
Indices: 37291152--37291311 Score: 257
Period size: 84 Copynumber: 1.9 Consensus size: 84
37291142 TGATTCAGTA
* * * * **
37291152 CACCGGCTTTAAGCCTGCTAAACTTATAGTCCGAATTTATTTCACTGGCATTAAGCCTGTTAGAC
1 CACCGGCATTAAGCCTGCTAAACGTAAAGTCCGAATTTATTTCACTGGCATTAAGCATGCAAGAC
37291217 GTAAAGTCTGACTTTATTT
66 GTAAAGTCTGACTTTATTT
*
37291236 CACCGGCATTAAGCCTGCTAAACGTAAAGTCTGAATTTATTTCACTGGCATTAAGCATGCAAGAC
1 CACCGGCATTAAGCCTGCTAAACGTAAAGTCCGAATTTATTTCACTGGCATTAAGCATGCAAGAC
37291301 GTAAAGTCTGA
66 GTAAAGTCTGA
37291312 ATGGTTTCAC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 69 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (84 bp):
CACCGGCATTAAGCCTGCTAAACGTAAAGTCCGAATTTATTTCACTGGCATTAAGCATGCAAGAC
GTAAAGTCTGACTTTATTT
Found at i:37297448 original size:12 final size:12
Alignment explanation
Indices: 37297431--37297460 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
37297421 GTTCTTAAAG
37297431 GTATGAGGCCAA
1 GTATGAGGCCAA
*
37297443 GTATGAGGCCGA
1 GTATGAGGCCAA
37297455 GTATGA
1 GTATGA
37297461 CTGAGCCGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.13, G:0.37, T:0.20
Consensus pattern (12 bp):
GTATGAGGCCAA
Found at i:37305114 original size:23 final size:22
Alignment explanation
Indices: 37305062--37305119 Score: 53
Period size: 23 Copynumber: 2.5 Consensus size: 22
37305052 TTGTCCTTAC
*
37305062 TTGTTTATTTCTTACTTTTCATT
1 TTGTTTATTT-TCACTTTTCATT
* *
37305085 TTAGTTTATTTTCAGTTTTTATCT
1 TT-GTTTATTTTCACTTTTCAT-T
*
37305109 TTGTTTTTTTT
1 TTGTTTATTTT
37305120 TTTTTTTAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 18 0.62
24 11 0.38
ACGTcount: A:0.12, C:0.09, G:0.07, T:0.72
Consensus pattern (22 bp):
TTGTTTATTTTCACTTTTCATT
Found at i:37316818 original size:17 final size:18
Alignment explanation
Indices: 37316797--37316838 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
37316787 CATAAACATA
37316797 AATCATTCATTTCAT-TAT
1 AATCATT-ATTTCATGTAT
*
37316815 -ATCAATATTTCATGTAT
1 AATCATTATTTCATGTAT
37316832 AATCATT
1 AATCATT
37316839 TTCATGAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
16 7 0.35
17 8 0.40
18 5 0.25
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (18 bp):
AATCATTATTTCATGTAT
Found at i:37317706 original size:23 final size:22
Alignment explanation
Indices: 37317667--37317709 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
37317657 ATACATTTCA
37317667 CATATACAATATTCAATTTAAG
1 CATATACAATATTCAATTTAAG
37317689 CATATA-AATATATACAATTTA
1 CATATACAATAT-T-CAATTTA
37317710 GTTACACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 7 0.37
23 7 0.37
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (22 bp):
CATATACAATATTCAATTTAAG
Found at i:37323820 original size:18 final size:18
Alignment explanation
Indices: 37323797--37323831 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
37323787 CAAGAACAAG
*
37323797 AAGCATTAAAATAGTTTC
1 AAGCATGAAAATAGTTTC
37323815 AAGCATGAAAATAGTTT
1 AAGCATGAAAATAGTTT
37323832 GACACATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (18 bp):
AAGCATGAAAATAGTTTC
Found at i:37330518 original size:23 final size:23
Alignment explanation
Indices: 37330475--37330519 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
37330465 GAAAATAATT
* *
37330475 GAAAAGAAATCTAAAGCCTAAAA
1 GAAAAGAAAACTAAAGACTAAAA
37330498 GAAAAGAAAACTGAAA-ACTAAA
1 GAAAAGAAAACT-AAAGACTAAA
37330520 TTACAAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.64, C:0.11, G:0.13, T:0.11
Consensus pattern (23 bp):
GAAAAGAAAACTAAAGACTAAAA
Found at i:37333263 original size:36 final size:36
Alignment explanation
Indices: 37333223--37333292 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
37333213 TTTCGTTAAG
*
37333223 AAATTGATTATAATAATTTGTGTATAATATATAAAT
1 AAATTGATTATAATAATTTGTATATAATATATAAAT
37333259 AAATTGATTATAATAATTTGTATATAATATATAA
1 AAATTGATTATAATAATTTGTATATAATATATAA
37333293 TTAATATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (36 bp):
AAATTGATTATAATAATTTGTATATAATATATAAAT
Found at i:37333676 original size:19 final size:20
Alignment explanation
Indices: 37333647--37333696 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
37333637 TTTGATTGGA
37333647 TAAAT-TTTAAAAAT-AATT
1 TAAATATTTAAAAATAAATT
* *
37333665 TTAATATTT-AAAGTAAATT
1 TAAATATTTAAAAATAAATT
37333684 TAAATATTTAAAA
1 TAAATATTTAAAA
37333697 GAGTTATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 8 0.31
19 15 0.58
20 3 0.12
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TAAATATTTAAAAATAAATT
Found at i:37336529 original size:27 final size:27
Alignment explanation
Indices: 37336491--37336544 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
37336481 GTTGGATGGC
37336491 ATAAACTTTATGATCAGTTCTTTTTAT
1 ATAAACTTTATGATCAGTTCTTTTTAT
37336518 ATAAACTTTATGATCAGTTCTTTTTAT
1 ATAAACTTTATGATCAGTTCTTTTTAT
37336545 CTTTGTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (27 bp):
ATAAACTTTATGATCAGTTCTTTTTAT
Found at i:37345558 original size:27 final size:26
Alignment explanation
Indices: 37345493--37345690 Score: 200
Period size: 27 Copynumber: 7.5 Consensus size: 26
37345483 CATTTCATCT
**
37345493 CCTA-GGGGTATAACAGTCATTTTAC
1 CCTATGGGGTATTTCAGTCATTTTAC
* ** *
37345518 CTTATGGGGTATTTTGGACATTTTAC
1 CCTATGGGGTATTTCAGTCATTTTAC
*
37345544 CCTATAGGGGTATTTCAGTCATTCTAC
1 CCTAT-GGGGTATTTCAGTCATTTTAC
* ** *
37345571 CTTATAAAGGTATTTCGGTCATTTTAC
1 CCTAT-GGGGTATTTCAGTCATTTTAC
* *
37345598 CCTATGAGGGTATTTCGGTCATTCTAC
1 CCTATG-GGGTATTTCAGTCATTTTAC
* *
37345625 CCTTTGGGGTATTTTAGTCATTTTAC
1 CCTATGGGGTATTTCAGTCATTTTAC
*
37345651 CTTATGGGGGTATTTCAGTCATTTTAC
1 CCTAT-GGGGTATTTCAGTCATTTTAC
37345678 CCTATTGGGGTAT
1 CCTA-TGGGGTAT
37345691 CTCGGTCGGG
Statistics
Matches: 140, Mismatches: 28, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
25 3 0.02
26 40 0.29
27 96 0.69
28 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (26 bp):
CCTATGGGGTATTTCAGTCATTTTAC
Found at i:37345634 original size:80 final size:80
Alignment explanation
Indices: 37345506--37345697 Score: 251
Period size: 80 Copynumber: 2.4 Consensus size: 80
37345496 AGGGGTATAA
* * * *
37345506 CAGTCATTTTACCTTATGGGGTATTTTGGACATTTTACCCTATAGGGGTATTTCAGTCATTCTAC
1 CAGTCATTTTACCCTATGGGGTATTTCGGTCATTCTACCCTATAGGGGTATTTCAGTCATTCTAC
37345571 CTTATAAAGGTATTT
66 CTTATAAAGGTATTT
* * * *
37345586 CGGTCATTTTACCCTATGAGGGTATTTCGGTCATTCTACCCT-TTGGGGTATTTTAGTCATTTTA
1 CAGTCATTTTACCCTATG-GGGTATTTCGGTCATTCTACCCTATAGGGGTATTTCAGTCATTCTA
***
37345650 CCTTATGGGGGTATTT
65 CCTTATAAAGGTATTT
*
37345666 CAGTCATTTTACCCTATTGGGGTATCTCGGTC
1 CAGTCATTTTACCCTA-TGGGGTATTTCGGTC
37345698 GGGGGTATCT
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
80 75 0.77
81 22 0.23
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.42
Consensus pattern (80 bp):
CAGTCATTTTACCCTATGGGGTATTTCGGTCATTCTACCCTATAGGGGTATTTCAGTCATTCTAC
CTTATAAAGGTATTT
Found at i:37345662 original size:53 final size:53
Alignment explanation
Indices: 37345497--37345690 Score: 228
Period size: 53 Copynumber: 3.6 Consensus size: 53
37345487 TCATCTCCTA
** * * *
37345497 GGGGTATAACAGTCATTTTACCTTATGGGGTATTTTGGACATTTTACCCTATA
1 GGGGTATTTCAGTCATTCTACCTTATGGGGTATTTTGGTCATTTTACCCTATG
** *
37345550 GGGGTATTTCAGTCATTCTACCTTATAAAGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTCTACCTTAT-GGGGTATTTTGGTCATTTTACCCTATG
* * * *
37345604 AGGGTATTTCGGTCATTCTACCCTT-TGGGGTATTTTAGTCATTTTACCTTATG
1 GGGGTATTTCAGTCATTCTA-CCTTATGGGGTATTTTGGTCATTTTACCCTATG
* *
37345657 GGGGTATTTCAGTCATTTTACCCTATTGGGGTAT
1 GGGGTATTTCAGTCATTCTACCTTA-TGGGGTAT
37345691 CTCGGTCGGG
Statistics
Matches: 118, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
52 3 0.03
53 62 0.53
54 49 0.42
55 4 0.03
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (53 bp):
GGGGTATTTCAGTCATTCTACCTTATGGGGTATTTTGGTCATTTTACCCTATG
Found at i:37345766 original size:26 final size:27
Alignment explanation
Indices: 37345699--37345793 Score: 129
Period size: 27 Copynumber: 3.6 Consensus size: 27
37345689 ATCTCGGTCG
* ** *
37345699 GGGGTATCTCGGTTGTTTTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATA
*
37345726 GGGGTATTTCAGTCATTTTACCCTAT-
1 GGGGTATTTCGGTCATTTTACCCTATA
*
37345752 GGGGTATTTTGGTCATTTTACCCTATA
1 GGGGTATTTCGGTCATTTTACCCTATA
37345779 GGGGTATTTCGGTCA
1 GGGGTATTTCGGTCA
37345794 ATTATTGACC
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
26 24 0.40
27 36 0.60
ACGTcount: A:0.16, C:0.17, G:0.26, T:0.41
Consensus pattern (27 bp):
GGGGTATTTCGGTCATTTTACCCTATA
Found at i:37350401 original size:17 final size:18
Alignment explanation
Indices: 37350328--37350402 Score: 59
Period size: 18 Copynumber: 4.2 Consensus size: 18
37350318 TGTTTTCGAG
37350328 CAAAATAATAAGAGAATAA
1 CAAAATAATAA-AGAATAA
*
37350347 -AAAAAAGATAAAGAGATAA
1 CAAAATA-ATAAAGA-ATAA
* *
37350366 CAAACTAA-AAA-AACCAA
1 CAAAATAATAAAGAA-TAA
37350383 CAAAATAATAAA-AATAA
1 CAAAATAATAAAGAATAA
37350400 CAA
1 CAA
37350403 TGCATATAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
16 1 0.02
17 15 0.33
18 16 0.36
19 9 0.20
20 4 0.09
ACGTcount: A:0.72, C:0.09, G:0.07, T:0.12
Consensus pattern (18 bp):
CAAAATAATAAAGAATAA
Found at i:37351984 original size:22 final size:20
Alignment explanation
Indices: 37351959--37352005 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
37351949 ATACTAACGA
*
37351959 TAATAATAAACCTAAAAAATAC
1 TAATAATAAA-ATAAAAAA-AC
37351981 TAATAATAAAATAAAAAAAC
1 TAATAATAAAATAAAAAAAC
37352001 TAATA
1 TAATA
37352006 CTATGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 7 0.29
21 7 0.29
22 10 0.42
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (20 bp):
TAATAATAAAATAAAAAAAC
Found at i:37355938 original size:36 final size:35
Alignment explanation
Indices: 37355852--37356006 Score: 166
Period size: 36 Copynumber: 4.3 Consensus size: 35
37355842 ATATTCCAAC
* * *
37355852 CAAAATACACCAGAAGCTCATAACAGCTAATCCAT
1 CAAAACACACCAGATGCTCATAAGAGCTAATCCAT
** * *
37355887 CCGAACACGCAAGATGCTCATAAGAGCTAATCCATT
1 CAAAACACACCAGATGCTCATAAGAGCTAATCCA-T
* * *
37355923 CAAAACACACTAGATGCTCATAAGAGCTATTCTAT
1 CAAAACACACCAGATGCTCATAAGAGCTAATCCAT
* *
37355958 CTGAAACACACCAGATGCTCATAAGAGCTAATCCGT
1 C-AAAACACACCAGATGCTCATAAGAGCTAATCCAT
*
37355994 CCGAAACACACCA
1 -CAAAACACACCA
37356007 AAATATGGAG
Statistics
Matches: 99, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
35 29 0.29
36 69 0.70
37 1 0.01
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (35 bp):
CAAAACACACCAGATGCTCATAAGAGCTAATCCAT
Found at i:37355982 original size:72 final size:71
Alignment explanation
Indices: 37355852--37356006 Score: 193
Period size: 72 Copynumber: 2.2 Consensus size: 71
37355842 ATATTCCAAC
* *
37355852 CAAAATACACCAGAAGCTCATAACAGCTAATCCATCCGAACACGCAAGATGCTCATAAGAGCTAA
1 CAAAACACACCAGAAGCTCATAACAGCTAATCCATCCGAACACACAAGATGCTCATAAGAGCTAA
37355917 TCCATT
66 TCCATT
* * * * * * *
37355923 CAAAACACACTAGATGCTCATAAGAGCTATTCTATCTGAAACACACCAGATGCTCATAAGAGCTA
1 CAAAACACACCAGAAGCTCATAACAGCTAATCCATCCG-AACACACAAGATGCTCATAAGAGCTA
* *
37355988 ATCCGTC
65 ATCCATT
*
37355995 CGAAACACACCA
1 CAAAACACACCA
37356007 AAATATGGAG
Statistics
Matches: 70, Mismatches: 13, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
71 31 0.44
72 39 0.56
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (71 bp):
CAAAACACACCAGAAGCTCATAACAGCTAATCCATCCGAACACACAAGATGCTCATAAGAGCTAA
TCCATT
Found at i:37358334 original size:15 final size:15
Alignment explanation
Indices: 37358314--37358344 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
37358304 TAAAAATTAA
37358314 ATTAAAAAGAAAAAT
1 ATTAAAAAGAAAAAT
*
37358329 ATTAAAAATAAAAAT
1 ATTAAAAAGAAAAAT
37358344 A
1 A
37358345 AAAATGACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (15 bp):
ATTAAAAAGAAAAAT
Found at i:37360773 original size:17 final size:17
Alignment explanation
Indices: 37360741--37360773 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
37360731 CAACCAAAGA
37360741 TAACAAATTTTATAAAT
1 TAACAAATTTTATAAAT
37360758 TAACACAATTTT-TAAA
1 TAACA-AATTTTATAAA
37360774 GTTTTACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (17 bp):
TAACAAATTTTATAAAT
Found at i:37368576 original size:54 final size:54
Alignment explanation
Indices: 37368518--37368624 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
37368508 CTGTGTGACC
** * *
37368518 CAAGTCAGAGAGTTACACGGGCAAAG-ACACGGGTTGGGACACAGCCGTGTGTCT
1 CAAGTCAGAGAGTTACACGGGC-AAGTACACAAGCTGGGACACAGCCATGTGTCT
*
37368572 CAAGTCAGTGAGTTACACGGGCAAGTACACAAGCTGGGACACAGCCATGTGTC
1 CAAGTCAGAGAGTTACACGGGCAAGTACACAAGCTGGGACACAGCCATGTGTC
37368625 CCAATTTCGA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
53 3 0.06
54 44 0.94
ACGTcount: A:0.29, C:0.23, G:0.31, T:0.17
Consensus pattern (54 bp):
CAAGTCAGAGAGTTACACGGGCAAGTACACAAGCTGGGACACAGCCATGTGTCT
Found at i:37373240 original size:54 final size:54
Alignment explanation
Indices: 37373182--37373359 Score: 144
Period size: 54 Copynumber: 3.3 Consensus size: 54
37373172 TCATCTCCTA
* * * *
37373182 GGGGTATAACAGTCATTTTATCCTATAGGGGCATTTCGGTTATTCTACCCAATG
1 GGGGTATAACAGTCATTCTACCCAATAGGGGCATTTCGGTCATTCTACCCAATG
** * * * * *
37373236 GGGGTATTTCGGTCATTCTACCCAATGGGGGTATTTTGGTCATTCTACCTAATG
1 GGGGTATAACAGTCATTCTACCCAATAGGGGCATTTCGGTCATTCTACCCAATG
*** * * * *
37373290 GGGGTAT-TTTGATCATTCTACCCTAT-GGCGGTATTTCGGTCATTCTATCCTATG
1 GGGGTATAACAG-TCATTCTACCCAATAGG-GGCATTTCGGTCATTCTACCCAATG
**
37373344 GGGGTATTTCAGTCAT
1 GGGGTATAACAGTCAT
37373360 AACAGTGTAA
Statistics
Matches: 101, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
53 4 0.04
54 95 0.94
55 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.38
Consensus pattern (54 bp):
GGGGTATAACAGTCATTCTACCCAATAGGGGCATTTCGGTCATTCTACCCAATG
Found at i:37373246 original size:27 final size:27
Alignment explanation
Indices: 37373209--37373359 Score: 203
Period size: 27 Copynumber: 5.6 Consensus size: 27
37373199 TTATCCTATA
* *
37373209 GGGGCATTTCGGTTATTCTACCCAATG
1 GGGGTATTTCGGTCATTCTACCCAATG
37373236 GGGGTATTTCGGTCATTCTACCCAATG
1 GGGGTATTTCGGTCATTCTACCCAATG
* *
37373263 GGGGTATTTTGGTCATTCTACCTAATG
1 GGGGTATTTCGGTCATTCTACCCAATG
* * *
37373290 GGGGTATTTTGATCATTCTACCCTATG
1 GGGGTATTTCGGTCATTCTACCCAATG
* * *
37373317 GCGGTATTTCGGTCATTCTATCCTATG
1 GGGGTATTTCGGTCATTCTACCCAATG
*
37373344 GGGGTATTTCAGTCAT
1 GGGGTATTTCGGTCAT
37373360 AACAGTGTAA
Statistics
Matches: 111, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 111 1.00
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (27 bp):
GGGGTATTTCGGTCATTCTACCCAATG
Found at i:37374367 original size:416 final size:414
Alignment explanation
Indices: 37373579--37375226 Score: 2348
Period size: 406 Copynumber: 4.0 Consensus size: 414
37373569 AAGCCTATGG
* * * * * *
37373579 AAATGCCCATGGAGGCCAGGAC-ATTCTATCGCCCAGGATTCGCAGGTTTGGCTTTCCACACGAA
1 AAATGCTCATGGAGGCCCGTACAATT-TATCGCCCATGATTCACAGGTTTGGCTTTCCACACGAG
* *
37373643 CGATCGCACACTCGTGTGGTCTCAACACTGTATTTCGACTTTTTGGCTTTTGCCA-TTCTACAGT
65 CGATCGCACACTCGTGTGGTCTCAACACCGTATTT---CTTTTCGGCTTTTG-CAGTTCTACAGT
* * *
37373707 TACAGTGGGGTGGTTAGACACCTGATGCGATTTGCAGATTCCATTTGTTCCGAACACTCTTATTC
126 TACAGTGGGGTGGTTACACACCTGATGCGATTTGTAGATTCCCTTTGTTCCGAACACTCTTATTC
* *
37373772 CAAAAATCAATGATCATCGCACCCTTGGTTCACAGGAAAAGTGCCAATCAACCTCGACCACCACC
191 CTAAAATCAATGATCATCGCACCCTTGGTTCACAGGCAAAGTGCCAATCAACCTCGACCACCACC
* * *
37373837 AGTTACGAATGGAAGCAATGCA-GTTGGAGAAAGCGACTAAAACCTTGAAAACCTCGCCGTTCTC
256 AGTTAGGAATGGAAGCAATGCAGGTTGGAGAAAGCGACGAAAACCTTGAAAACCTCGCCGATCTC
*
37373901 CCATCGAGAACAAGGAACAAATGAGATGATATATATCTCTCCACAACAACAACCTCCCCAAATCC
321 CCATCGAGAACAAGGAACAAATGAGATGATATATATCTCTCCATAACAACAACCTCCCCAAATCC
37373966 CAATATTCTCTCCTCAAATCTCTCCAAAT
386 CAATATTCTCTCCTCAAATCTCTCCAAAT
* * *
37373995 AAATGCTCATGGAGGCCCCTACAATTTATCGCTCATGATTCACTGGTTTGGCTTTCCACACGAGC
1 AAATGCTCATGGAGGCCCGTACAATTTATCGCCCATGATTCACAGGTTTGGCTTTCCACACGAGC
*
37374060 GATGGCACACTCGTGTGGTCT-AACCACCGTATTTCAGCTTTTCGGCTTTTGCCA-TTCTACAGT
66 GATCGCACACTCGTGTGGTCTCAA-CACCGTATTT---CTTTTCGGCTTTTG-CAGTTCTACAGT
* * * *
37374123 TACAGTGGGGTGGTTAGACACCTAATGCGATTTGTAG-TTCCCTTTGTTCCGGACACTCTTATTT
126 TACAGTGGGGTGGTTACACACCTGATGCGATTTGTAGATTCCCTTTGTTCCGAACACTCTTATTC
*
37374187 CTAAAATCAATGATCATCGCACCCTTGGTTCATAGGCAAAGTGCCAATCAACCTCGACCACCACC
191 CTAAAATCAATGATCATCGCACCCTTGGTTCACAGGCAAAGTGCCAATCAACCTCGACCACCACC
* * *
37374252 AGTTAGGAATGGAAGCAATGCAGGTTGGAGAAAGCGATGAAAATCTTGAAAACCTCGCTGATCTC
256 AGTTAGGAATGGAAGCAATGCAGGTTGGAGAAAGCGACGAAAACCTTGAAAACCTCGCCGATCTC
*
37374317 CCATCGAGAACAAGGAACAAATGAGATGATATATATCTCCCCATAACAACAACCTCCCCAAATCC
321 CCATCGAGAACAAGGAACAAATGAGATGATATATATCTCTCCATAACAACAACCTCCCCAAATCC
* * *
37374382 CAATATTCTCTCCTTAAATCTTTCTAAAT
386 CAATATTCTCTCCTCAAATCTCTCCAAAT
* * * * *
37374411 AAATGCTCATGGAGACCCTTACAGTTTATCACCCATGATTCACAGGTTCGGCTTTCCACACGAGC
1 AAATGCTCATGGAGGCCCGTACAATTTATCGCCCATGATTCACAGGTTTGGCTTTCCACACGAGC
* * * * * * *
37374476 GATCGTACGCTCGTATGGTCTC-A-A-CGT-TGTATTTT-AGCTTTTGCAGCTCTACAGTTACAG
66 GATCGCACACTCGTGTGGTCTCAACACCGTATTTCTTTTCGGCTTTTGCAGTTCTACAGTTACAG
* * *
37374536 TGGGGTGGTTACACACCTGATGCGGTTTGTAGATTCCCTTTGTTTCGAACACTCTTATTCCGAAA
131 TGGGGTGGTTACACACCTGATGCGATTTGTAGATTCCCTTTGTTCCGAACACTCTTATTCCTAAA
* * *
37374601 ATCAATGATCATCGCACCCTTAGTTCACAGGCAAAGTGCCTATCAACCTCGACCACCACCAATTA
196 ATCAATGATCATCGCACCCTTGGTTCACAGGCAAAGTGCCAATCAACCTCGACCACCACCAGTTA
*
37374666 GGAATGGAAGCAATGCAGGTTGGAGAAAGTGACGAAAACCTTGAAAACCTCGCCGATCTCCCATC
261 GGAATGGAAGCAATGCAGGTTGGAGAAAGCGACGAAAACCTTGAAAACCTCGCCGATCTCCCATC
* *
37374731 GAGAACAA-G--CAAATGAGATGATATATATCTTTCCACT-ACAACAACCTCCCTAAATCCCAAT
326 GAGAACAAGGAACAAATGAGATGATATATATCTCTCCA-TAACAACAACCTCCCCAAATCCCAAT
*
37374792 ATTCTCTCCTCAAATCTCTCTAAAT
390 ATTCTCTCCTCAAATCTCTCCAAAT
* * * * * * * *
37374817 AAATGCTCATGGAGGCCCGTATAGTTTATCGCCCATGGTTCGCAGGTTTGGTTTTCCATACAAGT
1 AAATGCTCATGGAGGCCCGTACAATTTATCGCCCATGATTCACAGGTTTGGCTTTCCACACGAGC
* *
37374882 AATCGCACACTCGTGTGGTCTCAACACTGTA-TTC----CGGCTTTTGCAGTTCTACAGTTACAG
66 GATCGCACACTCGTGTGGTCTCAACACCGTATTTCTTTTCGGCTTTTGCAGTTCTACAGTTACAG
* *
37374942 TGGGGTGGTTACACACCTGATGCAATTTGTAGATTCCTTTTGTTCCGAACACTCTTATT-CTGAA
131 TGGGGTGGTTACACACCTGATGCGATTTGTAGATTCCCTTTGTTCCGAACACTCTTATTCCT-AA
* *
37375006 AATCAATGAGCATCGCACCCTTGGTTCACAGGCAAAGTGCCAATCAACCTTGACCACCACCAGTT
195 AATCAATGATCATCGCACCCTTGGTTCACAGGCAAAGTGCCAATCAACCTCGACCACCACCAGTT
* * **
37375071 AGGAATGGAAGCAATGCAGGTTGGAGAAAGTGACGAAAACCTTGAAAACCTTGTTGATCTCCCAT
260 AGGAATGGAAGCAATGCAGGTTGGAGAAAGCGACGAAAACCTTGAAAACCTCGCCGATCTCCCAT
* * * *
37375136 TGAGAACAAGGAACAAATAAGATGATATATATCTCTCCATAACAACAACCTCCCTAATTCCCAAT
325 CGAGAACAAGGAACAAATGAGATGATATATATCTCTCCATAACAACAACCTCCCCAAATCCCAAT
37375201 ATTCTCTCCTCAAATCTCTCCAAAT
390 ATTCTCTCCTCAAATCTCTCCAAAT
37375226 A
1 A
37375227 TCCTTCCTCA
Statistics
Matches: 1109, Mismatches: 106, Indels: 41
0.88 0.08 0.03
Matches are distributed among these distances:
405 1 0.00
406 352 0.32
407 5 0.00
408 52 0.05
409 237 0.21
412 2 0.00
413 3 0.00
414 1 0.00
415 109 0.10
416 344 0.31
417 3 0.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (414 bp):
AAATGCTCATGGAGGCCCGTACAATTTATCGCCCATGATTCACAGGTTTGGCTTTCCACACGAGC
GATCGCACACTCGTGTGGTCTCAACACCGTATTTCTTTTCGGCTTTTGCAGTTCTACAGTTACAG
TGGGGTGGTTACACACCTGATGCGATTTGTAGATTCCCTTTGTTCCGAACACTCTTATTCCTAAA
ATCAATGATCATCGCACCCTTGGTTCACAGGCAAAGTGCCAATCAACCTCGACCACCACCAGTTA
GGAATGGAAGCAATGCAGGTTGGAGAAAGCGACGAAAACCTTGAAAACCTCGCCGATCTCCCATC
GAGAACAAGGAACAAATGAGATGATATATATCTCTCCATAACAACAACCTCCCCAAATCCCAATA
TTCTCTCCTCAAATCTCTCCAAAT
Found at i:37375223 original size:24 final size:24
Alignment explanation
Indices: 37375198--37375244 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
37375188 CCTAATTCCC
*
37375198 AATATTCTCTCCTCAAATCTCTCCA
1 AATATCCT-TCCTCAAATCTCTCCA
*
37375223 AATATCCTTCCTCAATTCTCTC
1 AATATCCTTCCTCAAATCTCTC
37375245 TATGACCAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.26, C:0.36, G:0.00, T:0.38
Consensus pattern (24 bp):
AATATCCTTCCTCAAATCTCTCCA
Found at i:37376548 original size:27 final size:27
Alignment explanation
Indices: 37376506--37376562 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
37376496 CTTGTATAGT
* *
37376506 TATAATTCTTTGTCAAAAATCAAATGA
1 TATAATTCTTTGTCAAAAACCAAAAGA
*
37376533 TATAATTC-TTGATCAATAACCAAAAGA
1 TATAATTCTTTG-TCAAAAACCAAAAGA
37376560 TAT
1 TAT
37376563 TACATTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 3 0.12
27 23 0.88
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.35
Consensus pattern (27 bp):
TATAATTCTTTGTCAAAAACCAAAAGA
Found at i:37377676 original size:39 final size:39
Alignment explanation
Indices: 37377632--37377752 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 39
37377622 AATATCAAAA
37377632 AGGAAAGCAACAT-GTCTAAAACAAAAAAGGAAGCAACTT
1 AGGAAAGCAACATAGT-TAAAACAAAAAAGGAAGCAACTT
* *
37377671 GGGAAAGCAACATCCAAGTTCAAACAAAAAAGGAAGCAACTT
1 AGGAAAGCAACAT---AGTTAAAACAAAAAAGGAAGCAACTT
*
37377713 AGGAAAGCAACATCCAGGTTCAAACAAAAAAAGG-AGCAAC
1 AGGAAAGCAACAT--A-GTTAAAAC-AAAAAAGGAAGCAAC
37377753 ATGGAAGGAA
Statistics
Matches: 72, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
39 12 0.17
41 2 0.03
42 48 0.67
43 10 0.14
ACGTcount: A:0.52, C:0.18, G:0.19, T:0.11
Consensus pattern (39 bp):
AGGAAAGCAACATAGTTAAAACAAAAAAGGAAGCAACTT
Found at i:37377703 original size:42 final size:42
Alignment explanation
Indices: 37377650--37377752 Score: 172
Period size: 42 Copynumber: 2.5 Consensus size: 42
37377640 AACATGTCTA
*
37377650 AAACAAAAAAGGAAGCAACTTGGGAAAGCAACATCCAAGTTC
1 AAACAAAAAAGGAAGCAACTTAGGAAAGCAACATCCAAGTTC
*
37377692 AAACAAAAAAGGAAGCAACTTAGGAAAGCAACATCCAGGTTC
1 AAACAAAAAAGGAAGCAACTTAGGAAAGCAACATCCAAGTTC
37377734 AAACAAAAAAAGG-AGCAAC
1 AAAC-AAAAAAGGAAGCAAC
37377753 ATGGAAGGAA
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
42 50 0.86
43 8 0.14
ACGTcount: A:0.53, C:0.18, G:0.18, T:0.10
Consensus pattern (42 bp):
AAACAAAAAAGGAAGCAACTTAGGAAAGCAACATCCAAGTTC
Found at i:37380050 original size:25 final size:25
Alignment explanation
Indices: 37379997--37380044 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
37379987 TAATAATAAG
**
37379997 ATATGAAACATTTTAAAGAATATAT
1 ATATGAAACATTCGAAAGAATATAT
37380022 ATATGAAA-ATTCGAAAGACATAT
1 ATATGAAACATTCGAAAGA-ATAT
37380045 TCATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.31
Consensus pattern (25 bp):
ATATGAAACATTCGAAAGAATATAT
Found at i:37381886 original size:44 final size:43
Alignment explanation
Indices: 37381817--37382156 Score: 337
Period size: 44 Copynumber: 7.8 Consensus size: 43
37381807 TCATCGTTTT
* *
37381817 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAGCTTC
* * **
37381861 AGTCTACTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAGC-TTC
* * *
37381906 -ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTG--GATGC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAGCTTC
* * * * * * *
37381946 GATCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGTAGCTTC
* * *
37381990 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTGTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTAGCTTC
* * * * * *
37382034 AACCTG-TCCCACTGCAACTTCAGGGGGATAAGGTTTGTCGTTTT
1 AATCTGCT-CCACTGCAACTTCAGGGAGATAA-GATTGTAGCTTC
* *
37382078 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAGCTTC
37382122 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
37382157 CGCCATGATG
Statistics
Matches: 237, Mismatches: 49, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
40 2 0.01
41 29 0.12
42 2 0.01
43 5 0.02
44 193 0.81
45 6 0.03
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (43 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAGCTTC
Found at i:37381926 original size:88 final size:87
Alignment explanation
Indices: 37381810--37382156 Score: 443
Period size: 88 Copynumber: 4.0 Consensus size: 87
37381800 ATATGATTCA
* *
37381810 TCGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAGTCTACTCCACTG
1 TCGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCACTG
37381875 CAACTTCAGGGAGATAAGATTGG
66 CAACTTCAGGGAGATAAGATT-G
* * * * * * * * * *
37381898 T-TTCTTTCATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-G--GATGCGATCTGCTCTATT
1 TCGT-TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCACT
*
37381959 GCAACTTCAGAGAGATAAGATCTG
65 GCAACTTCAGGGAGATAAGAT-TG
* * * *
37381983 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTGTATCTTCAACCTG-TCCCACT
1 TCGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCT-CCACT
* *
37382047 GCAACTTCAGGGGGATAAGGTTTG
65 GCAACTTCAGGGAGATAA-GATTG
37382071 TCGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCACTG
1 TCGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCACTG
37382136 CAACTTCAGGGAGATAAGATT
66 CAACTTCAGGGAGATAAGATT
37382157 CGCCATGATG
Statistics
Matches: 216, Mismatches: 34, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
85 67 0.31
86 3 0.01
87 6 0.03
88 137 0.63
89 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (87 bp):
TCGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCACTG
CAACTTCAGGGAGATAAGATTG
Found at i:37382256 original size:100 final size:98
Alignment explanation
Indices: 37382114--37382482 Score: 393
Period size: 100 Copynumber: 3.7 Consensus size: 98
37382104 GATAGGATTA
* * * ** *
37382114 GTAGCTTCAATCTGCTCCACTGCAACTTCAGGG-AGATAAGATTCGCCATGAT-GCGTTCAATCC
1 GTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAG-TAAGATTCGCC-TG-TGGC-TTCAATCT
* * * * ** *
37382177 ATTTAACTGCAATGTCGGGGAAGCAAGATTCACTATT
62 TTTTAACTGCAATGTCAGGGAAACAAGATTCGCCGTC
* *
37382214 GTAGCTTCAATCTGTTCCAGTACACTGCCAGGGAAGTAAGATTCG-CTGTTGTAGCTTCAATCTT
1 GTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCCTG-TG--GCTTCAATCTT
*
37382278 TTTAGCTGCAATGTCAGGGAAACAAGATTCGCCGTC
63 TTTAACTGCAATGTCAGGGAAACAAGATTCGCCGTC
* ** * *
37382314 GTAGCTTTAATCTGTTCCACTACACCATCTGGGAAGTAAGATTCGTCGTTGTGGCTTCAATCTTT
1 GTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCG-C-CTGTGGCTTCAATCTTT
*
37382379 TTAACTGCAATGTCAGGGAAACAAGATTTGCCGTC
64 TTAACTGCAATGTCAGGGAAACAAGATTCGCCGTC
* * *
37382414 GTAGCTTTAATCTGTTCCACTACACCGCCTGGGAAGTAAGATTCGCCTTTGTGGCTTCAATATTT
1 GTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCC--TGTGGCTTCAATCTTT
37382479 TTAA
64 TTAA
37382483 TCGCAACCTC
Statistics
Matches: 230, Mismatches: 30, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
98 3 0.01
99 2 0.01
100 217 0.94
101 4 0.02
102 2 0.01
103 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (98 bp):
GTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCGCCTGTGGCTTCAATCTTTTT
AACTGCAATGTCAGGGAAACAAGATTCGCCGTC
Found at i:37382426 original size:50 final size:50
Alignment explanation
Indices: 37382169--37382426 Score: 192
Period size: 50 Copynumber: 5.2 Consensus size: 50
37382159 CCATGATGCG
** * * * ** *
37382169 TTCAATCCATTTAACTGCAATGTCGGGGAAGCAAGATTCACTATTGTAGC
1 TTCAATCTTTTTAACTGCAATGTCAGGGAAACAAGATTCGCCGTCGTAGC
* ** * * * * ** * *
37382219 TTCAATCTGTTCCAGTACACTGCCAGGGAAGTAAGATTCGCTGTTGTAGC
1 TTCAATCTTTTTAACTGCAATGTCAGGGAAACAAGATTCGCCGTCGTAGC
*
37382269 TTCAATCTTTTTAGCTGCAATGTCAGGGAAACAAGATTCGCCGTCGTAGC
1 TTCAATCTTTTTAACTGCAATGTCAGGGAAACAAGATTCGCCGTCGTAGC
* * ** * *** * ** * * *
37382319 TTTAATCTGTTCCACTACACCATCTGGGAAGTAAGATTCGTCGTTGTGGC
1 TTCAATCTTTTTAACTGCAATGTCAGGGAAACAAGATTCGCCGTCGTAGC
*
37382369 TTCAATCTTTTTAACTGCAATGTCAGGGAAACAAGATTTGCCGTCGTAGC
1 TTCAATCTTTTTAACTGCAATGTCAGGGAAACAAGATTCGCCGTCGTAGC
*
37382419 TTTAATCT
1 TTCAATCT
37382427 GTTCCACTAC
Statistics
Matches: 153, Mismatches: 55, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
50 153 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (50 bp):
TTCAATCTTTTTAACTGCAATGTCAGGGAAACAAGATTCGCCGTCGTAGC
Found at i:37382448 original size:50 final size:50
Alignment explanation
Indices: 37382214--37382460 Score: 172
Period size: 50 Copynumber: 4.9 Consensus size: 50
37382204 ATTCACTATT
* * * * * ** * *
37382214 GTAGCTTCAATCTGTTCCAGTACACTGCCAGGGAAGTAAGATTCGCTGTT
1 GTAGCTTTAATCTGTTCCACTACACCGTCTGGGAAACAAGATTCGCCGTC
* ** * ** *
37382264 GTAGCTTCAATCT-TTTTAGCTGCAATGTCAGGGAAACAAGATTCGCCGTC
1 GTAGCTTTAATCTGTTCCA-CTACACCGTCTGGGAAACAAGATTCGCCGTC
* ** * *
37382314 GTAGCTTTAATCTGTTCCACTACACCATCTGGGAAGTAAGATTCGTCGTT
1 GTAGCTTTAATCTGTTCCACTACACCGTCTGGGAAACAAGATTCGCCGTC
* * * ** * ** * *
37382364 GTGGCTTCAATCTTTTTAACTGCAATGTCAGGGAAACAAGATTTGCCGTC
1 GTAGCTTTAATCTGTTCCACTACACCGTCTGGGAAACAAGATTCGCCGTC
* **
37382414 GTAGCTTTAATCTGTTCCACTACACCGCCTGGGAAGTAAGATTCGCC
1 GTAGCTTTAATCTGTTCCACTACACCGTCTGGGAAACAAGATTCGCC
37382461 TTTGTGGCTT
Statistics
Matches: 145, Mismatches: 50, Indels: 4
0.73 0.25 0.02
Matches are distributed among these distances:
49 3 0.02
50 139 0.96
51 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (50 bp):
GTAGCTTTAATCTGTTCCACTACACCGTCTGGGAAACAAGATTCGCCGTC
Found at i:37382496 original size:100 final size:99
Alignment explanation
Indices: 37382169--37382482 Score: 430
Period size: 100 Copynumber: 3.1 Consensus size: 99
37382159 CCATGATGCG
** * * * ** * * *
37382169 TTCAATCCATTTAACTGCAATGTCGGGGAAGCAAGATTCACTATTGTAGCTTCAATCTGTTCCAG
1 TTCAATCTTTTTAACTGCAATGTCAGGGAAACAAGATTCGCCGTCGTAGCTTTAATCTGTTCCAC
* * *
37382234 TACACTGCCAGGGAAGTAAGATTCGCTGTTGTAGC
66 TACACCGCCTGGGAAGTAAGATTCGCT-TTGTGGC
*
37382269 TTCAATCTTTTTAGCTGCAATGTCAGGGAAACAAGATTCGCCGTCGTAGCTTTAATCTGTTCCAC
1 TTCAATCTTTTTAACTGCAATGTCAGGGAAACAAGATTCGCCGTCGTAGCTTTAATCTGTTCCAC
** *
37382334 TACACCATCTGGGAAGTAAGATTCGTCGTTGTGGC
66 TACACCGCCTGGGAAGTAAGATTCG-CTTTGTGGC
*
37382369 TTCAATCTTTTTAACTGCAATGTCAGGGAAACAAGATTTGCCGTCGTAGCTTTAATCTGTTCCAC
1 TTCAATCTTTTTAACTGCAATGTCAGGGAAACAAGATTCGCCGTCGTAGCTTTAATCTGTTCCAC
37382434 TACACCGCCTGGGAAGTAAGATTCGCCTTTGTGGC
66 TACACCGCCTGGGAAGTAAGATTCG-CTTTGTGGC
*
37382469 TTCAATATTTTTAA
1 TTCAATCTTTTTAA
37382483 TCGCAACCTC
Statistics
Matches: 189, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
100 188 0.99
101 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (99 bp):
TTCAATCTTTTTAACTGCAATGTCAGGGAAACAAGATTCGCCGTCGTAGCTTTAATCTGTTCCAC
TACACCGCCTGGGAAGTAAGATTCGCTTTGTGGC
Found at i:37383059 original size:45 final size:46
Alignment explanation
Indices: 37382987--37383074 Score: 106
Period size: 45 Copynumber: 1.9 Consensus size: 46
37382977 AGCTCGAAAT
* *
37382987 GAATGAATTAATCAAGATAACAAATTTTGCT-AGAATACAAAATGA
1 GAATAAATTAATCAAGATAACAAATTTTGCTAAAAATACAAAATGA
**** *
37383032 GAATAAATTAATCAAGATAGTGTATTTTGTTAAAAATACAAAA
1 GAATAAATTAATCAAGATAACAAATTTTGCTAAAAATACAAAA
37383075 AATGAATAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
45 25 0.71
46 10 0.29
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (46 bp):
GAATAAATTAATCAAGATAACAAATTTTGCTAAAAATACAAAATGA
Found at i:37383371 original size:12 final size:13
Alignment explanation
Indices: 37383354--37383390 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
37383344 TTGGCCTCTT
37383354 TTTTTTCTTTTC-
1 TTTTTTCTTTTCG
37383366 TTTTTTCTTTTCG
1 TTTTTTCTTTTCG
37383379 TTTCTTT-TTTTC
1 TTT-TTTCTTTTC
37383391 AAGTGAAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.52
13 8 0.35
14 3 0.13
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (13 bp):
TTTTTTCTTTTCG
Found at i:37383382 original size:17 final size:16
Alignment explanation
Indices: 37383352--37383389 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
37383342 CCTTGGCCTC
*
37383352 TTTTTTTTCTTTTCTT
1 TTTTTTTTCGTTTCTT
37383368 TTTTCTTTTCGTTTCTT
1 TTTT-TTTTCGTTTCTT
37383385 TTTTT
1 TTTTT
37383390 CAAGTGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.84
Consensus pattern (16 bp):
TTTTTTTTCGTTTCTT
Found at i:37383840 original size:8 final size:8
Alignment explanation
Indices: 37383827--37383858 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
37383817 GGTAGAGGTT
37383827 TTTTTTTG
1 TTTTTTTG
37383835 TTTTTTTTG
1 -TTTTTTTG
37383844 TTTTTTTG
1 TTTTTTTG
37383852 TTTTTTT
1 TTTTTTT
37383859 TGCCTCCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (8 bp):
TTTTTTTG
Found at i:37383840 original size:9 final size:9
Alignment explanation
Indices: 37383826--37383860 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
37383816 CGGTAGAGGT
37383826 TTTTTTTTG
1 TTTTTTTTG
37383835 TTTTTTTTG
1 TTTTTTTTG
37383844 -TTTTTTTG
1 TTTTTTTTG
37383852 TTTTTTTTG
1 TTTTTTTTG
37383861 CCTCCACTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:37383849 original size:17 final size:17
Alignment explanation
Indices: 37383827--37383860 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
37383817 GGTAGAGGTT
37383827 TTTTTTTGTTTTTTTTG
1 TTTTTTTGTTTTTTTTG
37383844 TTTTTTTGTTTTTTTTG
1 TTTTTTTGTTTTTTTTG
37383861 CCTCCACTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (17 bp):
TTTTTTTGTTTTTTTTG
Found at i:37388005 original size:6 final size:6
Alignment explanation
Indices: 37387994--37388025 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
37387984 ATTTTTTTTG
37387994 AAATAA AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AA
37388026 TGGTCTAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:37397385 original size:19 final size:19
Alignment explanation
Indices: 37397352--37397390 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
37397342 TTCAATTCTA
37397352 ATTTGACCTAAAATT-TTT
1 ATTTGACCTAAAATTATTT
*
37397370 ATTTTACCTAAAAATTATTT
1 ATTTGACCT-AAAATTATTT
37397390 A
1 A
37397391 AAACTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 6 0.33
20 4 0.22
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (19 bp):
ATTTGACCTAAAATTATTT
Found at i:37405845 original size:16 final size:16
Alignment explanation
Indices: 37405824--37405858 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
37405814 AAACATACAC
37405824 CAATTAAATATAATGT
1 CAATTAAATATAATGT
* *
37405840 CAATTAATTATAATTT
1 CAATTAAATATAATGT
37405856 CAA
1 CAA
37405859 CCGTATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.40
Consensus pattern (16 bp):
CAATTAAATATAATGT
Found at i:37427009 original size:50 final size:50
Alignment explanation
Indices: 37426942--37427227 Score: 281
Period size: 50 Copynumber: 5.7 Consensus size: 50
37426932 GGGAATGAGA
*
37426942 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * **
37426992 TCCCATGTAAGACCATGTTTGAGACATGGCGTTGGCATTGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* ** *
37427042 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATAGAGATGTGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * **
37427092 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* ** * * * * * **
37427142 TCCCATATAAGACCACATCTGGGATATGACATTGGTA--G-TATAGAAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT-G-AGAGG
* *
37427191 TCCCATGTAAGACTATGTCTGGGACATAGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
37427228 TGTTATATTC
Statistics
Matches: 196, Mismatches: 38, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
47 3 0.02
48 2 0.01
49 31 0.16
50 160 0.82
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:37427455 original size:20 final size:20
Alignment explanation
Indices: 37427430--37427468 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
37427420 TGAGTTATTT
37427430 AAGTAAGCAAGCAAGTAAAC
1 AAGTAAGCAAGCAAGTAAAC
**
37427450 AAGTAAGTGAGCAAGTAAA
1 AAGTAAGCAAGCAAGTAAA
37427469 GAAGAGAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.10, G:0.23, T:0.13
Consensus pattern (20 bp):
AAGTAAGCAAGCAAGTAAAC
Found at i:37427465 original size:12 final size:12
Alignment explanation
Indices: 37427429--37427467 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
37427419 ATGAGTTATT
37427429 TAAGTAAGCAAG
1 TAAGTAAGCAAG
* *
37427441 CAAGTAAACAAG
1 TAAGTAAGCAAG
*
37427453 TAAGTGAGCAAG
1 TAAGTAAGCAAG
37427465 TAA
1 TAA
37427468 AGAAGAGAGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.51, C:0.10, G:0.23, T:0.15
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:37456419 original size:16 final size:15
Alignment explanation
Indices: 37456398--37456428 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
37456388 TAGTAAATTA
37456398 ATAATTAACTTAAAAT
1 ATAATTAAC-TAAAAT
37456414 ATAATTAACTAAAAT
1 ATAATTAACTAAAAT
37456429 CAATGTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (15 bp):
ATAATTAACTAAAAT
Found at i:37458748 original size:42 final size:42
Alignment explanation
Indices: 37458690--37458788 Score: 128
Period size: 42 Copynumber: 2.4 Consensus size: 42
37458680 CATGGCCTAG
*
37458690 CACACAGGCATGTGAGGCCATTTCGAGAGTTACAAAGCCTGA
1 CACACAGGCATGTGAGGCCATTTCGAAAGTTACAAAGCCTGA
* * *
37458732 CACACAGGCGTGTGAGGCCATTTTGAAAGTTACATAGCCT-A
1 CACACAGGCATGTGAGGCCATTTCGAAAGTTACAAAGCCTGA
* *
37458773 GCACACGGGCAGGTGA
1 -CACACAGGCATGTGA
37458789 CTTGGCCGTG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
41 1 0.02
42 48 0.98
ACGTcount: A:0.29, C:0.23, G:0.28, T:0.19
Consensus pattern (42 bp):
CACACAGGCATGTGAGGCCATTTCGAAAGTTACAAAGCCTGA
Found at i:37460480 original size:71 final size:71
Alignment explanation
Indices: 37460364--37460506 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
37460354 GAGTGAGACC
37460364 GTCGAGAAACTCTAGAAATGTGGATAATAGTCGTAATGGGACTAAGGATTCTTCTATGAGATCTG
1 GTCGAGAAACTCTAGAAATGTGGATAATAGTCGTAATGGGACTAAGGATTCTTCTATGAGATCTG
37460429 AGGTAT
66 AGGTAT
*
37460435 GTCGAGAAACTCTAGAAATGTGGATAATAGTCGTAATGGGACTAAGGATTCTTCTATGATATCTG
1 GTCGAGAAACTCTAGAAATGTGGATAATAGTCGTAATGGGACTAAGGATTCTTCTATGAGATCTG
37460500 AGGTAT
66 AGGTAT
37460506 G
1 G
37460507 AGCATCAGCT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (71 bp):
GTCGAGAAACTCTAGAAATGTGGATAATAGTCGTAATGGGACTAAGGATTCTTCTATGAGATCTG
AGGTAT
Found at i:37469020 original size:21 final size:21
Alignment explanation
Indices: 37468995--37469047 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
37468985 TTTCTAAATG
37468995 GTAAATTTGGTATTTGTGAAT
1 GTAAATTTGGTATTTGTGAAT
* * *
37469016 GTAAACTTGTTATTTTTGAAT
1 GTAAATTTGGTATTTGTGAAT
*
37469037 GCAAATTTGGT
1 GTAAATTTGGT
37469048 TTGTGATCAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.28, C:0.04, G:0.21, T:0.47
Consensus pattern (21 bp):
GTAAATTTGGTATTTGTGAAT
Found at i:37473784 original size:40 final size:40
Alignment explanation
Indices: 37473740--37473826 Score: 120
Period size: 40 Copynumber: 2.2 Consensus size: 40
37473730 AGTGTAACTC
* * *
37473740 GGGCACGAAAGTGAAATCAGGGGTACTGAAGTACAAACAA
1 GGGCACAAAAGTGAAATCAAGGGTACAGAAGTACAAACAA
* * *
37473780 GGGCACAAAAGTGCAATCAAGTGTACAGAAGTACAAACAG
1 GGGCACAAAAGTGAAATCAAGGGTACAGAAGTACAAACAA
37473820 GGGCACA
1 GGGCACA
37473827 TATGTCCAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.43, C:0.17, G:0.29, T:0.11
Consensus pattern (40 bp):
GGGCACAAAAGTGAAATCAAGGGTACAGAAGTACAAACAA
Found at i:37473800 original size:20 final size:20
Alignment explanation
Indices: 37473740--37473800 Score: 50
Period size: 20 Copynumber: 3.0 Consensus size: 20
37473730 AGTGTAACTC
* * *
37473740 GGGCACGAAAGTGAAATCAG
1 GGGCACAAAAGTGCAATCAA
* ** * *
37473760 GGGTACTGAAGTACAAACAA
1 GGGCACAAAAGTGCAATCAA
37473780 GGGCACAAAAGTGCAATCAA
1 GGGCACAAAAGTGCAATCAA
37473800 G
1 G
37473801 TGTACAGAAG
Statistics
Matches: 29, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.43, C:0.16, G:0.30, T:0.11
Consensus pattern (20 bp):
GGGCACAAAAGTGCAATCAA
Found at i:37484745 original size:19 final size:19
Alignment explanation
Indices: 37484712--37484786 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
37484702 AAATTAAATC
*
37484712 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
* *
37484731 TCTAATATTGTATATATCATA
1 TCTAAGATTG--CATATCATA
37484752 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
37484771 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
37484787 CTCGAAGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 32 0.65
21 17 0.35
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:37484796 original size:17 final size:18
Alignment explanation
Indices: 37484744--37484796 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
37484734 AATATTGTAT
*
37484744 ATATCATATCTAAGATTGC
1 ATATCA-ATCGAAGATTGC
*
37484763 ATATCATATCTAAGATTGC
1 ATATCA-ATCGAAGATTGC
*
37484782 ATATC-CTCGAAGATT
1 ATATCAATCGAAGATT
37484797 ATATTTCCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.25
19 24 0.75
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (18 bp):
ATATCAATCGAAGATTGC
Found at i:37488932 original size:12 final size:12
Alignment explanation
Indices: 37488917--37488948 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
37488907 TTTAAAAAAA
37488917 ATTATAAATAAT
1 ATTATAAATAAT
37488929 ATTATAAATAAT
1 ATTATAAATAAT
*
37488941 ATAATAAA
1 ATTATAAA
37488949 ATAAAAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
ATTATAAATAAT
Found at i:37491137 original size:30 final size:30
Alignment explanation
Indices: 37491101--37491159 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
37491091 TGGGTAATCT
37491101 TGATATAATACCAACTTGCGTGAGCAACTG
1 TGATATAATACCAACTTGCGTGAGCAACTG
* * * *
37491131 TGATATAATATCAGCTTGTGTGAGGAACT
1 TGATATAATACCAACTTGCGTGAGCAACT
37491160 TATTCCCGCG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (30 bp):
TGATATAATACCAACTTGCGTGAGCAACTG
Found at i:37500271 original size:138 final size:138
Alignment explanation
Indices: 37500003--37500594 Score: 864
Period size: 138 Copynumber: 4.3 Consensus size: 138
37499993 TAGATAAAGC
* * * *
37500003 TAATAAATGAATTTGATTTATACAAAATATTAATTGTATATATTTTATCGAAA-TTATTAATAGA
1 TAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTA-CCAAATTTATTAATA-T
* * *
37500067 AAAAAATTATATTAATTAATTTCGGTTAAAATATAAAAGACATGGAAATTAATATTCTGTTGGAA
64 AAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAA
37500132 AGAATATAAT
129 AGAATATAAT
37500142 TAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTATT-CCAAATTTATTAATATA
1 TAATATATGAATTTGATTCATACAAAATATTAATTGTATATATT-TTACCAAATTTATTAATATA
* * * * * *
37500206 AATAGTTATGTTAATTCATTTCGGTCAAAATATAAAAGACATGTAAATTAATATTCTTTTAGAAA
65 AACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAA
37500271 GAATATAAT
130 GAATATAAT
* * *
37500280 TAATATATGAATTTGATTCATACAAAATATTAATTGTTTATATTTTATCGAATTTATTAATATAA
1 TAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATATAA
* * * * *
37500345 ACAATTCTATTAATCAATTTCGATCAAAATATAAAGGACATGAAAATTAATATTCTTTTGGAAAG
66 ACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAG
37500410 AATATAAT
131 AATATAAT
* * *
37500418 TAATATATGAATTTGATTCATATAAAATATTAATTGTATATATTTTACCGAATTTATGAATATAA
1 TAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATATAA
* * * *
37500483 ACAGTTATATTAATTAATTGCGGTCAAAATATTAAATACATGGAAATTAATATTCTTTTGGAAAG
66 ACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAG
*
37500548 AATATATT
131 AATATAAT
* *
37500556 TAATATATAAATTTTATTCATACAAAATATTAATTGTAT
1 TAATATATGAATTTGATTCATACAAAATATTAATTGTAT
37500595 TTATATAGAG
Statistics
Matches: 408, Mismatches: 42, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
137 2 0.00
138 353 0.87
139 51 0.12
140 2 0.00
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.41
Consensus pattern (138 bp):
TAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATATAA
ACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAG
AATATAAT
Found at i:37504114 original size:20 final size:20
Alignment explanation
Indices: 37504038--37504116 Score: 68
Period size: 21 Copynumber: 3.8 Consensus size: 20
37504028 AATTTATACT
*
37504038 TAAATAATATATAATATTATAA
1 TAAA-AATATATAA-ATTTTAA
* * * **
37504060 TATAAACATTTAAAAATTAA
1 TAAAAATATATAAATTTTAA
*
37504080 TAAAATATATGTAAATTTTAA
1 TAAAA-ATATATAAATTTTAA
37504101 TAAAAATATATAAATT
1 TAAAAATATATAAATT
37504117 ATTCAATTAT
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
20 18 0.41
21 23 0.52
22 3 0.07
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (20 bp):
TAAAAATATATAAATTTTAA
Found at i:37506327 original size:18 final size:18
Alignment explanation
Indices: 37506304--37506342 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
37506294 TGCCTCTTAA
**
37506304 AAGTACTTTTAGGGTTAG
1 AAGTACTTTTAAAGTTAG
37506322 AAGTACTTTTAAAGTTAG
1 AAGTACTTTTAAAGTTAG
37506340 AAG
1 AAG
37506343 CAATGCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.36
Consensus pattern (18 bp):
AAGTACTTTTAAAGTTAG
Found at i:37508572 original size:19 final size:19
Alignment explanation
Indices: 37508548--37508585 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
37508538 TCTTTTCCAC
37508548 TTGTCACTTTCAAAGCTTT
1 TTGTCACTTTCAAAGCTTT
37508567 TTGTCACTTTCAAAGCTTT
1 TTGTCACTTTCAAAGCTTT
37508586 GTAGTGCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (19 bp):
TTGTCACTTTCAAAGCTTT
Found at i:37524285 original size:79 final size:78
Alignment explanation
Indices: 37524154--37524307 Score: 211
Period size: 79 Copynumber: 2.0 Consensus size: 78
37524144 CTTATTTATG
* *
37524154 TCGATGACTTGTTGATTACAGGAAATGATATTGGGTTGATTGATAAGTTAAAAAAAGGTTCTCCA
1 TCGATGAATTGTTGATTACAGGAAATGACATTGGGTTGATTGATAAGTT-AAAAAAGGTTCTCCA
37524219 TCAAAGTTTTAGGA
65 TCAAAGTTTTAGGA
* * * * *
37524233 TCGATGAATTTTTTATTACGGGGAATGACATTGGGCTT-ATTGATGAGTTAAAAAAGGTTCTCCA
1 TCGATGAATTGTTGATTACAGGAAATGACATTGGG-TTGATTGATAAGTTAAAAAAGGTTCTCCA
*
37524297 TCAGAGTTTTA
65 TCAAAGTTTTA
37524308 AAATGAAAGG
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
78 25 0.38
79 39 0.59
80 2 0.03
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.36
Consensus pattern (78 bp):
TCGATGAATTGTTGATTACAGGAAATGACATTGGGTTGATTGATAAGTTAAAAAAGGTTCTCCAT
CAAAGTTTTAGGA
Found at i:37533175 original size:23 final size:23
Alignment explanation
Indices: 37533146--37533189 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
37533136 ATTATTATTT
37533146 TTTTTTACTT-TTCTTTGTTTAAA
1 TTTTTTACTTCTTC-TTGTTTAAA
37533169 TTTTTTACTTCTTCTTGTTTA
1 TTTTTTACTTCTTCTTGTTTA
37533190 TTTAAGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.14, C:0.11, G:0.05, T:0.70
Consensus pattern (23 bp):
TTTTTTACTTCTTCTTGTTTAAA
Found at i:37533233 original size:17 final size:18
Alignment explanation
Indices: 37533213--37533246 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37533203 GTAGTTTTTT
*
37533213 TTTTCA-AATATTTTTAG
1 TTTTCATAAAATTTTTAG
37533230 TTTTCATAAAATTTTTA
1 TTTTCATAAAATTTTTA
37533247 AACTATTATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (18 bp):
TTTTCATAAAATTTTTAG
Found at i:37535480 original size:208 final size:208
Alignment explanation
Indices: 37534824--37535454 Score: 1104
Period size: 208 Copynumber: 3.0 Consensus size: 208
37534814 AACTATGTCA
* * *
37534824 TTTTCTTGTTGAGTTTTAGACACAATAGTGGCGCTACAAAGAAATCGCC-GCTGAAGCT-AATCA
1 TTTTCTTGTTGACTTTTAGACACAATAGTGGCGCTTCGAAGAAATC-CCTGCTGAA-CTCAATCA
* *
37534887 TTAGCGGCGCTTTAGAGGAAGCGCCGCAAAAAGTTTTAAGCATACGCTATCGTTTTCTATTGTGC
64 TTAGCAGCGCTTTAGAGGAAGCGCCGCAAAAAGTTTTAAGCATACGCTGTCGTTTTCTATTGTGC
37534952 TTAGGGACATTAGTGGCGCTTCGCGAAAAACGCCGCAAAAGTCAAGCATTATCGGTAATAGTTTT
129 TTAGGGACATTAGTGGCGCTTCGCGAAAAACGCCGCAAAAGTCAAGCATTATCGGTAATAGTTTT
37535017 AGGCAAACTACAACG
194 AGGCAAACTACAACG
37535032 TTTTCTTGTTGACTTTTAGACACAATAGTGGCGCTTCGAAGAAATCCCTGCTGAACTCAATCATT
1 TTTTCTTGTTGACTTTTAGACACAATAGTGGCGCTTCGAAGAAATCCCTGCTGAACTCAATCATT
*
37535097 AGCAGCGCTTTAGAGGAAGCGCTGCAAAAAGTTTTAAGCATACGCTGTCGTTTTCTATTGTGCTT
66 AGCAGCGCTTTAGAGGAAGCGCCGCAAAAAGTTTTAAGCATACGCTGTCGTTTTCTATTGTGCTT
37535162 AGGGACATTAGTGGCGCTTCGCGAAAAACGCCGCAAAAGTCAAGCATTATCGGTAATAGTTTTAG
131 AGGGACATTAGTGGCGCTTCGCGAAAAACGCCGCAAAAGTCAAGCATTATCGGTAATAGTTTTAG
*
37535227 GCAAACTACAACA
196 GCAAACTACAACG
37535240 TTTTCTTGTTGACTTTTAGACACAATAGTGGCGCTTCGAAGAAATCCCTGCTGAACTCAATCATT
1 TTTTCTTGTTGACTTTTAGACACAATAGTGGCGCTTCGAAGAAATCCCTGCTGAACTCAATCATT
* * * *
37535305 AGCAGCACTTTAGAGGAAGCGCCGCAAAAATTTTTAAGCATACGCCGTCATTTTCTATTGTGCTT
66 AGCAGCGCTTTAGAGGAAGCGCCGCAAAAAGTTTTAAGCATACGCTGTCGTTTTCTATTGTGCTT
* *
37535370 AGGGACATTAGTGGCGCTTCGCGAAAAACGCCGCAAAATTCAAGCATTATCGATAATAGTTTTAG
131 AGGGACATTAGTGGCGCTTCGCGAAAAACGCCGCAAAAGTCAAGCATTATCGGTAATAGTTTTAG
*
37535435 GCAAACGACAACG
196 GCAAACTACAACG
37535448 TTTTCTT
1 TTTTCTT
37535455 TTTTAGATTT
Statistics
Matches: 405, Mismatches: 16, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
207 4 0.01
208 401 0.99
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (208 bp):
TTTTCTTGTTGACTTTTAGACACAATAGTGGCGCTTCGAAGAAATCCCTGCTGAACTCAATCATT
AGCAGCGCTTTAGAGGAAGCGCCGCAAAAAGTTTTAAGCATACGCTGTCGTTTTCTATTGTGCTT
AGGGACATTAGTGGCGCTTCGCGAAAAACGCCGCAAAAGTCAAGCATTATCGGTAATAGTTTTAG
GCAAACTACAACG
Found at i:37536368 original size:28 final size:29
Alignment explanation
Indices: 37536293--37536369 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 29
37536283 TTAATGATTA
*
37536293 AGGGTTTATGGTTTAGGG-TCTAAGGAAT
1 AGGGTTTATGGTTTAGGGTTTTAAGGAAT
* * * * *
37536321 AGAGTTTACGGTTGATGGTTTTCAGG-AT
1 AGGGTTTATGGTTTAGGGTTTTAAGGAAT
*
37536349 AGGGGTTATGGTTTAGGGTTT
1 AGGGTTTATGGTTTAGGGTTT
37536370 AGGTTATTTA
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
28 32 0.86
29 5 0.14
ACGTcount: A:0.21, C:0.04, G:0.36, T:0.39
Consensus pattern (29 bp):
AGGGTTTATGGTTTAGGGTTTTAAGGAAT
Found at i:37539047 original size:9 final size:9
Alignment explanation
Indices: 37539020--37539067 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
37539010 GTTCAAATTT
37539020 CATAACTTA
1 CATAACTTA
* *
37539029 CGTAATTTA
1 CATAACTTA
37539038 CATAACTTA
1 CATAACTTA
37539047 CATAA-TT-
1 CATAACTTA
37539054 CATAACTTA
1 CATAACTTA
37539063 CATAA
1 CATAA
37539068 TTTAATTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 5 0.15
8 4 0.12
9 24 0.73
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:37539059 original size:16 final size:16
Alignment explanation
Indices: 37539018--37539095 Score: 83
Period size: 16 Copynumber: 5.0 Consensus size: 16
37539008 AAGTTCAAAT
*
37539018 TTCATAACTTACGTAA
1 TTCATAACTTACATAA
37539034 TTTACATAACTTACATAA
1 -TT-CATAACTTACATAA
37539052 TTCATAACTTACATAA
1 TTCATAACTTACATAA
*
37539068 TT--TAA-TT-TATAA
1 TTCATAACTTACATAA
*
37539080 TACATAACTTACATAA
1 TTCATAACTTACATAA
37539096 ATTATTAATA
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
12 5 0.10
13 2 0.04
14 6 0.12
15 2 0.04
16 20 0.38
17 4 0.08
18 13 0.25
ACGTcount: A:0.44, C:0.15, G:0.01, T:0.40
Consensus pattern (16 bp):
TTCATAACTTACATAA
Found at i:37539211 original size:23 final size:20
Alignment explanation
Indices: 37539161--37539390 Score: 61
Period size: 18 Copynumber: 11.2 Consensus size: 20
37539151 TTAAAAATTG
37539161 ATACATTACATAACTTACATA
1 ATACA-TACATAACTTACATA
*
37539182 ACCTACATACATAAACTTACA-C
1 A--TACATACAT-AACTTACATA
*
37539204 ATA-ATACATAACTTATATA
1 ATACATACATAACTTACATA
* ***
37539223 ACTTAAATTTGTAA--TACATA
1 A--TACATACATAACTTACATA
*
37539243 ATA-ATACATAACCTACATA
1 ATACATACATAACTTACATA
* * *
37539262 A-A-TTAAATAAGTTACATA
1 ATACATACATAACTTACATA
* *
37539280 ATACACAAAAAAACAAAAACTTACAT-
1 AT--AC----ATACATAA-CTTACATA
*
37539306 A-ACTTACATAACTTACATA
1 ATACATACATAACTTACATA
*
37539325 ATATCCTACATGATAACTTACATA
1 ATA-CATAC---ATAACTTACATA
*
37539349 ATA-ATACATAACCTACATA
1 ATACATACATAACTTACATA
* * *
37539368 A-A-TTAAATAAGTTACATA
1 ATACATACATAACTTACATA
37539386 ATACA
1 ATACA
37539391 CAAAAACAAA
Statistics
Matches: 153, Mismatches: 30, Indels: 53
0.65 0.13 0.22
Matches are distributed among these distances:
17 5 0.03
18 44 0.29
19 33 0.22
20 9 0.06
21 8 0.05
22 14 0.09
23 14 0.09
24 15 0.10
26 5 0.03
27 6 0.04
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.30
Consensus pattern (20 bp):
ATACATACATAACTTACATA
Found at i:37539280 original size:9 final size:9
Alignment explanation
Indices: 37539237--37539663 Score: 89
Period size: 9 Copynumber: 49.0 Consensus size: 9
37539227 AAATTTGTAA
*
37539237 TACATAATAA
1 TACATAA-AT
**
37539247 TACATAACC
1 TACATAAAT
37539256 TACATAAAT
1 TACATAAAT
* *
37539265 TAAATAAGT
1 TACATAAAT
37539274 TACAT-AA-
1 TACATAAAT
* *
37539281 TACACAAAAA
1 TACA-TAAAT
* *
37539291 AACAAAAACT
1 TACATAAA-T
*
37539301 TACATAACT
1 TACATAAAT
*
37539310 TACATAACT
1 TACATAAAT
37539319 TACATAATAT
1 TACATAA-AT
37539329 CCTACATGATAACT
1 --TACAT-A-AA-T
*
37539343 TACATAATAA
1 TACATAA-AT
**
37539353 TACATAACC
1 TACATAAAT
37539362 TACATAAAT
1 TACATAAAT
* *
37539371 TAAATAAGT
1 TACATAAAT
37539380 TACAT-AA-
1 TACATAAAT
*
37539387 TACACAAA-
1 TACATAAAT
* *
37539395 AACAAAAACT
1 TACATAAA-T
*
37539405 TACATAACT
1 TACATAAAT
*
37539414 TCCAT-AA-
1 TACATAAAT
*
37539421 TACATAACT
1 TACATAAAT
**
37539430 TACATAACC
1 TACATAAAT
*
37539439 TAC-TTAA-
1 TACATAAAT
*
37539446 TACATAACT
1 TACATAAAT
37539455 TACAT-AA-
1 TACATAAAT
* * *
37539462 CACACAACT
1 TACATAAAT
*
37539471 TACATAACT
1 TACATAAAT
37539480 TACAT-AAT
1 TACATAAAT
*
37539488 GTAC-TTAA-
1 -TACATAAAT
**
37539496 TACATAACC
1 TACATAAAT
37539505 TACAT-AA-
1 TACATAAAT
*
37539512 TACATAACT
1 TACATAAAT
**
37539521 TACATAACC
1 TACATAAAT
37539530 TACAT-AA-
1 TACATAAAT
* *
37539537 GACATAACT
1 TACATAAAT
*
37539546 TACATAAGT
1 TACATAAAT
*
37539555 TTCAT-AAT
1 TACATAAAT
*
37539563 ATAC--AACT
1 -TACATAAAT
*
37539571 TACATAACT
1 TACATAAAT
37539580 TACAT-AA-
1 TACATAAAT
*
37539587 TACATAACT
1 TACATAAAT
*
37539596 TACATAATT
1 TACATAAAT
*
37539605 TAC-TTAA-
1 TACATAAAT
*
37539612 TACATAACT
1 TACATAAAT
*
37539621 TACATAATT
1 TACATAAAT
*
37539630 TAC-TTAA-
1 TACATAAAT
*
37539637 TACATAACT
1 TACATAAAT
*
37539646 TACATAACT
1 TACATAAAT
*
37539655 TACACAAAT
1 TACATAAAT
37539664 ATATGATGTG
Statistics
Matches: 305, Mismatches: 74, Indels: 77
0.67 0.16 0.17
Matches are distributed among these distances:
7 44 0.14
8 41 0.13
9 175 0.57
10 29 0.10
11 2 0.01
12 10 0.03
13 2 0.01
14 2 0.01
ACGTcount: A:0.49, C:0.19, G:0.01, T:0.30
Consensus pattern (9 bp):
TACATAAAT
Found at i:37539346 original size:12 final size:12
Alignment explanation
Indices: 37539313--37539652 Score: 67
Period size: 12 Copynumber: 27.1 Consensus size: 12
37539303 CATAACTTAC
37539313 ATAACTTACATA
1 ATAACTTACATA
* * *
37539325 ATATCCTACATG
1 ATAACTTACATA
37539337 ATAACTTACATA
1 ATAACTTACATA
37539349 ATAA--TACATA
1 ATAACTTACATA
* *
37539359 ACCT-ACATAAATTAA
1 A--TAACTTACA-T-A
*
37539374 ATAAGTTACATA
1 ATAACTTACATA
** * *
37539386 ATACACAAAAACA
1 ATA-ACTTACATA
*
37539399 AAAACTTACATA
1 ATAACTTACATA
** *
37539411 ACTTCCATA-ATA
1 A-TAACTTACATA
37539423 CATAACTTACATA
1 -ATAACTTACATA
37539436 ACCT-ACTTA-ATA
1 A--TAACTTACATA
37539448 CATAACTTACATA
1 -ATAACTTACATA
* * *
37539461 ACACAC-AACTTA
1 ATA-ACTTACATA
37539473 CATAACTTACATA
1 -ATAACTTACATA
*
37539486 ATGTACTTA-ATA
1 AT-AACTTACATA
*
37539498 CATAACCTACATA
1 -ATAACTTACATA
* *
37539511 AT-ACATAACTTA
1 ATAAC-TTACATA
*
37539523 CATAACCTACATAAGA
1 -ATAACTTACAT---A
37539539 CATAACTTACATA
1 -ATAACTTACATA
** *
37539552 AGTTTCATA-ATA
1 A-TAACTTACATA
*
37539564 TACAACTTACATA
1 -ATAACTTACATA
* *
37539577 ACTTACATA-ATA
1 A-TAACTTACATA
37539589 CATAACTTACATA
1 -ATAACTTACATA
*
37539602 ATTTACTTA-ATA
1 A-TAACTTACATA
37539614 CATAACTTACATA
1 -ATAACTTACATA
*
37539627 ATTTACTTA-ATA
1 A-TAACTTACATA
37539639 CATAACTTACATA
1 -ATAACTTACATA
37539652 A
1 A
37539653 CTTACACAAA
Statistics
Matches: 229, Mismatches: 59, Indels: 80
0.62 0.16 0.22
Matches are distributed among these distances:
10 7 0.03
11 4 0.02
12 109 0.48
13 87 0.38
14 8 0.03
15 2 0.01
16 12 0.05
ACGTcount: A:0.48, C:0.20, G:0.01, T:0.31
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:37539357 original size:106 final size:102
Alignment explanation
Indices: 37539237--37539427 Score: 337
Period size: 106 Copynumber: 1.8 Consensus size: 102
37539227 AAATTTGTAA
37539237 TACATAATAATACATAACCTACATAAATTAAATAAGTTACATAATACACAAAAAAACAAAAACTT
1 TACATAATAATACATAACCTACATAAATTAAATAAGTTACATAATACAC--AAAAACAAAAACTT
37539302 ACATAACTTACATAACTTACATAATATCCTACATGATAACT
64 ACATAACTTACATAA--TACATAATATCCTACATGATAACT
37539343 TACATAATAATACATAACCTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTAC
1 TACATAATAATACATAACCTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTAC
*
37539408 ATAACTTCCATAATACATAA
66 ATAACTTACATAATACATAA
37539428 CTTACATAAC
Statistics
Matches: 84, Mismatches: 1, Indels: 4
0.94 0.01 0.04
Matches are distributed among these distances:
102 7 0.08
104 28 0.33
106 49 0.58
ACGTcount: A:0.54, C:0.18, G:0.02, T:0.27
Consensus pattern (102 bp):
TACATAATAATACATAACCTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTAC
ATAACTTACATAATACATAATATCCTACATGATAACT
Found at i:37539426 original size:16 final size:16
Alignment explanation
Indices: 37539405--37539652 Score: 156
Period size: 16 Copynumber: 16.0 Consensus size: 16
37539395 AACAAAAACT
*
37539405 TACATAACTTCCATAA
1 TACATAACTTACATAA
37539421 TACATAACTTACAT-A
1 TACATAACTTACATAA
*
37539436 -AC----C-TACTTAA
1 TACATAACTTACATAA
37539446 TACATAACTTACATAA
1 TACATAACTTACATAA
* *
37539462 CACACAACTTACATAA
1 TACATAACTTACATAA
*
37539478 CTTACATAA-TGTACTTAA
1 --TACATAACT-TACATAA
*
37539496 TACATAACCTACATAA
1 TACATAACTTACATAA
37539512 TACATAACTTACAT-A
1 TACATAACTTACATAA
37539527 -AC----C-TACATAA
1 TACATAACTTACATAA
*
37539537 GACATAACTTACATAA
1 TACATAACTTACATAA
* *
37539553 GTTTCATAA-TATACA-ACT
1 --TACATAACT-TACATA-A
37539571 TACATAACTTACATAA
1 TACATAACTTACATAA
37539587 TACATAACTTACATAA
1 TACATAACTTACATAA
*
37539603 TTTACTTAA--TACATAA
1 --TACATAACTTACATAA
* *
37539619 CTTACATAATTTACTTAA
1 --TACATAACTTACATAA
37539637 TACATAACTTACATAA
1 TACATAACTTACATAA
37539653 CTTACACAAA
Statistics
Matches: 182, Mismatches: 22, Indels: 56
0.70 0.08 0.22
Matches are distributed among these distances:
9 9 0.05
10 4 0.02
11 4 0.02
14 4 0.02
15 4 0.02
16 120 0.66
17 5 0.03
18 32 0.18
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:37539455 original size:50 final size:50
Alignment explanation
Indices: 37539401--37539655 Score: 262
Period size: 50 Copynumber: 5.3 Consensus size: 50
37539391 CAAAAACAAA
37539401 AACTTACATAACTTCCATAATACATAACTTACATAACCTACTTAATACAT
1 AACTTACATAACTTCCATAATACATAACTTACATAACCTACTTAATACAT
* * **
37539451 AACTTACATAAC-ACACA-ACTTACATAACTTACATAATGTACTTAATACAT
1 AACTTACATAACTTC-CATA-ATACATAACTTACATAACCTACTTAATACAT
* *
37539501 AAC---C-T-A----CATAATACATAACTTACATAACCTACATAAGACAT
1 AACTTACATAACTTCCATAATACATAACTTACATAACCTACTTAATACAT
* * * * * *
37539542 AACTTACATAAGTTTCATAATATACAACTTACATAACTTACATAATACAT
1 AACTTACATAACTTCCATAATACATAACTTACATAACCTACTTAATACAT
* * * **
37539592 AACTTACATAATTTACTTAATACATAACTTACATAATTTACTTAATACAT
1 AACTTACATAACTTCCATAATACATAACTTACATAACCTACTTAATACAT
37539642 AACTTACATAACTT
1 AACTTACATAACTT
37539656 ACACAAATAT
Statistics
Matches: 172, Mismatches: 21, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
41 31 0.18
42 1 0.01
44 1 0.01
45 2 0.01
46 2 0.01
47 1 0.01
49 2 0.01
50 132 0.77
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.33
Consensus pattern (50 bp):
AACTTACATAACTTCCATAATACATAACTTACATAACCTACTTAATACAT
Found at i:37539468 original size:75 final size:73
Alignment explanation
Indices: 37539353--37539658 Score: 288
Period size: 75 Copynumber: 4.2 Consensus size: 73
37539343 TACATAATAA
* * * *
37539353 TACATAACCTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTACATAACTTCCA
1 TACATAACCTACAT-AA-TACATAACTTACATAATACAC-AAAAC-ATAACTTACATAACTTACA
37539418 TAATACATAACT
62 TAATACATAACT
*
37539430 TACATAACCTACTTAATACATAACTTACAT-A-ACAC---AC--AACTTACATAACTTACATAAT
1 TACATAACCTACATAATACATAACTTACATAATACACAAAACATAACTTACATAACTTACATAA-
*
37539488 GTACTTAA--
65 -TACATAACT
* * * *
37539496 TACATAACCTACATAATACATAACTTACATAACCTACATAAGACATAACTTACATAAGTTTCATA
1 TACATAACCTACATAATACATAACTTACATAA--TACACAAAACATAACTTACATAACTTACATA
* *
37539561 ATATACAACT
64 ATACATAACT
* ** * * *
37539571 TACATAACTTACATAATACATAACTTACATAATTTACTTAATACATAACTTACATAATTTACTTA
1 TACATAACCTACATAATACATAACTTACATAA--TACACAAAACATAACTTACATAACTTACATA
37539636 ATACATAACT
64 ATACATAACT
*
37539646 TACATAACTTACA
1 TACATAACCTACA
37539659 CAAATATATG
Statistics
Matches: 194, Mismatches: 22, Indels: 28
0.80 0.09 0.11
Matches are distributed among these distances:
66 48 0.25
67 1 0.01
68 6 0.03
69 2 0.01
70 3 0.02
73 10 0.05
74 1 0.01
75 108 0.56
76 2 0.01
77 13 0.07
ACGTcount: A:0.48, C:0.20, G:0.01, T:0.31
Consensus pattern (73 bp):
TACATAACCTACATAATACATAACTTACATAATACACAAAACATAACTTACATAACTTACATAAT
ACATAACT
Found at i:37539657 original size:25 final size:25
Alignment explanation
Indices: 37539301--37539652 Score: 83
Period size: 25 Copynumber: 14.0 Consensus size: 25
37539291 AACAAAAACT
37539301 TACATAACTTACATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* * *
37539326 TATCCT-ACAT-GATAACTTACATAATAA
1 TA-CATAACTTACATAACTTAC---ATAA
* * *
37539353 TACATAACCTACATAAATTAAATAA
1 TACATAACTTACATAACTTACATAA
* ** *
37539378 GTTACATAA--TACACAA-AAACAAAAA
1 --TACATAACTTACATAACTTAC-ATAA
*
37539403 CTTACATAACTTCCATAA--TACATAA
1 --TACATAACTTACATAACTTACATAA
* *
37539428 CTTACATAACCTACTTAA--TACATAA
1 --TACATAACTTACATAACTTACATAA
*
37539453 CTTACATAAC--ACACAACTTACATAA
1 --TACATAACTTACATAACTTACATAA
*
37539478 CTTACATAA-TGTACTTAA--TACATAA
1 --TACATAACT-TACATAACTTACATAA
37539503 CCTACATAA--TACATAACTTACATAA
1 --TACATAACTTACATAACTTACATAA
*
37539528 CCTACATAA--GACATAACTTACATAA
1 --TACATAACTTACATAACTTACATAA
*
37539553 GTTTCATAA-TATAC--AACTTACATAA
1 --TACATAACT-TACATAACTTACATAA
37539578 CTTACATAA--TACATAACTTACATAA
1 --TACATAACTTACATAACTTACATAA
*
37539603 TTTACTTAA--TACATAACTTACATAA
1 --TACATAACTTACATAACTTACATAA
*
37539628 TTTACTTAA--TACATAACTTACATAA
1 --TACATAACTTACATAACTTACATAA
37539653 CTTACACAAA
Statistics
Matches: 269, Mismatches: 36, Indels: 44
0.77 0.10 0.13
Matches are distributed among these distances:
23 13 0.05
24 10 0.04
25 206 0.77
26 6 0.02
27 27 0.10
28 7 0.03
ACGTcount: A:0.48, C:0.20, G:0.01, T:0.31
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:37543796 original size:21 final size:21
Alignment explanation
Indices: 37543770--37543825 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
37543760 AATAGCGGTG
*
37543770 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
37543791 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
37543812 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
37543826 AACAATGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:37548279 original size:2 final size:2
Alignment explanation
Indices: 37548268--37548299 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
37548258 ACAAAACAAA
37548268 AG AG -G AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
37548300 TTGGAGATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:37549686 original size:24 final size:25
Alignment explanation
Indices: 37549636--37549688 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
37549626 AAATAGCATA
** *
37549636 TTAAAATTTAAAAAGTATATTTAAT
1 TTAAAATAAAAAAAATATATTTAAT
37549661 TTAAAATAAAAAAAATATATTT-AT
1 TTAAAATAAAAAAAATATATTTAAT
37549685 TTAA
1 TTAA
37549689 TAAATAATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
TTAAAATAAAAAAAATATATTTAAT
Found at i:37550996 original size:22 final size:23
Alignment explanation
Indices: 37550957--37551011 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
37550947 TTTTAAAATA
** **
37550957 TTTTTAAAATACTTTTTTTTTTG
1 TTTTTAAAATACAATTTTTGGTG
37550980 TTTTTAAAATA-AATTTTTGGTG
1 TTTTTAAAATACAATTTTTGGTG
37551002 TTTATTAAAA
1 TTT-TTAAAA
37551012 AATGGGTCGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 10 0.37
23 17 0.63
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (23 bp):
TTTTTAAAATACAATTTTTGGTG
Found at i:37552658 original size:21 final size:21
Alignment explanation
Indices: 37552634--37552697 Score: 94
Period size: 21 Copynumber: 3.0 Consensus size: 21
37552624 TGTAGATCAA
37552634 ACTTATCATAATACA-TGTCAT
1 ACTTATCATAATACAGT-TCAT
*
37552655 ACTTATCATAACACAGTTCAT
1 ACTTATCATAATACAGTTCAT
*
37552676 ACTTATCATAATACAGATCAT
1 ACTTATCATAATACAGTTCAT
37552697 A
1 A
37552698 TTGAGCATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
21 38 0.97
22 1 0.03
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (21 bp):
ACTTATCATAATACAGTTCAT
Found at i:37559428 original size:14 final size:14
Alignment explanation
Indices: 37559409--37559435 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
37559399 CATTTCTTGG
37559409 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
37559423 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
37559436 AGTGGCCCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:37568964 original size:50 final size:50
Alignment explanation
Indices: 37568897--37568992 Score: 115
Period size: 50 Copynumber: 1.9 Consensus size: 50
37568887 ACGGTTGCAC
* *
37568897 AAGTGGAATCCGAATAGAAGTACACT-TCTTCTATTTGATATTGATTGTAT
1 AAGTAGAATCCGAATAGAAGTACACTCT-TTCTATTTGACATTGATTGTAT
* * *
37568947 AAGTAGAATCC-ATATAGAATTTCTCTCTTTCTATTTGACATTGATT
1 AAGTAGAATCCGA-ATAGAAGTACACTCTTTCTATTTGACATTGATT
37568993 AGAATAAGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
49 1 0.03
50 37 0.95
51 1 0.03
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.41
Consensus pattern (50 bp):
AAGTAGAATCCGAATAGAAGTACACTCTTTCTATTTGACATTGATTGTAT
Found at i:37572115 original size:22 final size:20
Alignment explanation
Indices: 37572079--37572120 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
37572069 AAGTTCCCAT
37572079 AAAGACTTGAGTTAAGTTAA
1 AAAGACTTGAGTTAAGTTAA
37572099 AAAGACTCTCGAGTTAAGTTAA
1 AAAGACT-T-GAGTTAAGTTAA
37572121 GCGAGAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.35
21 1 0.05
22 12 0.60
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (20 bp):
AAAGACTTGAGTTAAGTTAA
Found at i:37573133 original size:57 final size:56
Alignment explanation
Indices: 37573045--37573221 Score: 201
Period size: 57 Copynumber: 3.1 Consensus size: 56
37573035 AAAACTTTTG
**
37573045 TGGCAAAAATCTGGAAAGGTAAGCCTATGTGGCGAACCGGTTAAAGGACAACCTTTA
1 TGGCAAAAATCTGGAAAGGTAAGCCTATGTGGCGAACCTATTAAAGGACAA-CTTTA
* ** * * * *
37573102 TGGCAAAACTCTAAAAAGGTAAGCGTATGTGGCGAACCTATTAAAAGACAGGCTTTG
1 TGGCAAAAATCTGGAAAGGTAAGCCTATGTGGCGAACCTATTAAAGGACA-ACTTTA
* * * * * *
37573159 TGGCAAAAATCTGGAAGGGTAAGCCTTTGTGGCAAACCTCTTAAAGAACGACTTTA
1 TGGCAAAAATCTGGAAAGGTAAGCCTATGTGGCGAACCTATTAAAGGACAACTTTA
37573215 TGGCAAA
1 TGGCAAA
37573222 TCTGTGAAAG
Statistics
Matches: 97, Mismatches: 22, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
56 11 0.11
57 86 0.89
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (56 bp):
TGGCAAAAATCTGGAAAGGTAAGCCTATGTGGCGAACCTATTAAAGGACAACTTTA
Found at i:37573231 original size:27 final size:28
Alignment explanation
Indices: 37573183--37573245 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 28
37573173 AAGGGTAAGC
* *
37573183 CTTTGTGGCAAACCTCTTAAAGAACG-A
1 CTTTATGGCAAACCTCTGAAAGAACGTA
* * * *
37573210 CTTTATGGCAAATCTGTGAAAGGACGTC
1 CTTTATGGCAAACCTCTGAAAGAACGTA
37573238 CTTTATGG
1 CTTTATGG
37573246 TGAACTCTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
27 21 0.72
28 8 0.28
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (28 bp):
CTTTATGGCAAACCTCTGAAAGAACGTA
Found at i:37579293 original size:40 final size:40
Alignment explanation
Indices: 37579199--37579343 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
37579189 TACTCGAATG
*
37579199 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
37579240 ACATCCGGACTAAGAT-CCGACGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * * *
37579280 ATATCTGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
37579320 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
37579344 CTTGTGCGAG
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 59 0.67
41 27 0.31
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:37584948 original size:15 final size:15
Alignment explanation
Indices: 37584928--37584957 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37584918 CCCAGCCCAT
*
37584928 AACCAAATTAATAAA
1 AACCAAAATAATAAA
37584943 AACCAAAATAATAAA
1 AACCAAAATAATAAA
37584958 TTAAATGTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (15 bp):
AACCAAAATAATAAA
Found at i:37593347 original size:45 final size:45
Alignment explanation
Indices: 37593292--37594011 Score: 945
Period size: 45 Copynumber: 16.0 Consensus size: 45
37593282 AAAAAAATAT
* * *
37593292 CAGATCTTGTCTTCCTTTATTGGCAGTGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
*
37593337 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCCAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
* * * * *
37593382 TAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGACAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
* * ** * * * *
37593427 CAAATCTTGTCTTCCTATATTGGTGGCGAAGTACATCAAAAGTTAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATAA
* * * * * *
37593473 CAGATCTTGTTTTCCTGTACTGCCAGTGAAGTAGATTGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
* *
37593518 CAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCAAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
* * *
37593563 CAGATCTTGTCTTTCTGTATTGGCAACGAAGTAGATTGAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
* **
37593608 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGGGAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
* *** * * * * *
37593653 TAGATCTTGTCTAATTGCATTTGCAACAAAGTAGATTGAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
37593698 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
* *
37593743 TAGATCTTGTCTTCCTGTATTTGCAGCGAAGTAGATCGAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
* * *
37593788 CAGATCTTGTCTTCTTGTATTGGCTGCTAAGTAGATCGAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
* * * * *
37593833 TAGATCTTGTCTTTCTGTATTGACAGTGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
* * *
37593878 CAGATCTTGTCTTTCTGTATTGGTAGCGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
*
37593923 CAGATCTTGTATTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
37593968 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA
37594012 GCAAGCATTA
Statistics
Matches: 581, Mismatches: 93, Indels: 2
0.86 0.14 0.00
Matches are distributed among these distances:
45 549 0.94
46 32 0.06
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (45 bp):
CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
Found at i:37594080 original size:89 final size:88
Alignment explanation
Indices: 37593969--37594133 Score: 276
Period size: 89 Copynumber: 1.9 Consensus size: 88
37593959 CGAAGATAAC
* * *
37593969 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAAGCATTATCTCCCTGAGCA
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-ACCAAGCATTATATCCCTAAGCA
37594034 GTAGTGGAGCAGGTTTAAAGTAGG
65 GTAGTGGAGCAGGTTTAAAGTAGG
* *
37594058 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACCCAAGCCTTATATCCCTAAGCAG
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAACCAAGCATTATATCCCTAAGCAG
37594123 TAGTGGAGCAG
66 TAGTGGAGCAG
37594134 ATCAAAGACG
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
88 30 0.42
89 41 0.58
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (88 bp):
AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAACCAAGCATTATATCCCTAAGCAG
TAGTGGAGCAGGTTTAAAGTAGG
Found at i:37594284 original size:44 final size:44
Alignment explanation
Indices: 37594112--37594416 Score: 120
Period size: 44 Copynumber: 6.9 Consensus size: 44
37594102 AAGCCTTATA
* ** *
37594112 TCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATC
1 TCCCTAAGCAGTAGTGGAGCAGATTAAAGACGGTGAATCTTGTC
* * * * **** * *
37594156 TTCCTAAGGTAGTAG-GGAAACAGATTTAAG-CCACCAGTCCTGTC
1 TCCCTAA-GCAGTAGTGG-AGCAGATTAAAGACGGTGAATCTTGTC
* * * * * *** *
37594200 TCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTATGGATCTTGTC
1 TCCCTAAGCAGTAGTGGAGCAGATTAAAGACGGTGAATCTTGTC
* *
37594244 TCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATC
1 TCCCTAAGCAGTAGTGGAGCAGATTAAAGACGGTGAATCTTGTC
* * ** * * *
37594288 TTCCC-AAG--GTAGTAGGAAAGCAGGTTTAAG-CCATCAGTCCTGTC
1 -TCCCTAAGCAGTAGT-GG--AGCAGATTAAAGACGGTGAATCTTGTC
* * * * * * ** *
37594332 TCCCTAAACAGCAGTGGAGTAGGTTGAGGATTGT-ACATCCTGTC
1 TCCCTAAGCAGTAGTGGAGCAGATTAAAGACGGTGA-ATCTTGTC
*
37594376 TCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTT
1 TCCCTAAGCAGTAGTGGAGCAGATTAAAGACGGTGAATCTT
37594417 ATCTTTCCAA
Statistics
Matches: 182, Mismatches: 65, Indels: 28
0.66 0.24 0.10
Matches are distributed among these distances:
42 5 0.03
43 29 0.16
44 113 0.62
45 31 0.17
46 4 0.02
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.25
Consensus pattern (44 bp):
TCCCTAAGCAGTAGTGGAGCAGATTAAAGACGGTGAATCTTGTC
Found at i:37594460 original size:132 final size:131
Alignment explanation
Indices: 37594112--37594448 Score: 514
Period size: 132 Copynumber: 2.5 Consensus size: 131
37594102 AAGCCTTATA
** *
37594112 TCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATC-TTCCTAAGGTAGTAGGGAAA
1 TCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTTCC-AAGGTAGTA-GGAAG
* * ** *
37594176 CAGATTTAAGCCACCAGTCCTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTATGGATCTT
64 CAGATTTAAGCCACCAGTCCTGTCTCCCTAAACAGCAGTGGAGTAGGTTGAAGATTATACATCCT
37594241 GTC
129 GTC
*
37594244 TCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGAAAGC
1 TCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTTCCAAGGTAGTAGG-AAGC
* * * *
37594309 AGGTTTAAGCCATCAGTCCTGTCTCCCTAAACAGCAGTGGAGTAGGTTGAGGATTGTACATCCTG
65 AGATTTAAGCCACCAGTCCTGTCTCCCTAAACAGCAGTGGAGTAGGTTGAAGATTATACATCCTG
37594374 TC
130 TC
37594376 TCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTTCCAAGGTAGTAGAGAAGC
1 TCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTTCCAAGGTAGTAG-GAAGC
37594441 AGATTTAA
65 AGATTTAA
37594449 AACACCGGTC
Statistics
Matches: 187, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
131 2 0.01
132 181 0.97
133 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (131 bp):
TCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTTCCAAGGTAGTAGGAAGCA
GATTTAAGCCACCAGTCCTGTCTCCCTAAACAGCAGTGGAGTAGGTTGAAGATTATACATCCTGT
C
Found at i:37594642 original size:50 final size:50
Alignment explanation
Indices: 37594477--37594649 Score: 158
Period size: 50 Copynumber: 3.5 Consensus size: 50
37594467 TTGGCATTAC
* * *
37594477 AGTGGAACAGATTGAAGCTACAATAGCGAATCTTAC-TTCCCGGGCAG-TGT
1 AGTGGAACAGATTGAAGCTACAACAACGAATCTTACTTTCCC-AGC-GTTGT
* **
37594527 AGTGGAACAGATTGAAGCTACAACAACGAATC-T-CGTTTCCCAGACATTAC
1 AGTGGAACAGATTGAAGCTACAACAACGAATCTTAC-TTTCCCAG-CGTTGT
** * * *
37594577 AGTTAAATAGATTGAAGTTACAACAACGAATCTTACTTTCCTAGCGTTGT
1 AGTGGAACAGATTGAAGCTACAACAACGAATCTTACTTTCCCAGCGTTGT
*
37594627 AGTGGAACA-AGTTGAAGATACAA
1 AGTGGAACAGA-TTGAAGCTACAA
37594650 GCCTTATCTC
Statistics
Matches: 98, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
48 1 0.01
49 3 0.03
50 85 0.87
51 8 0.08
52 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25
Consensus pattern (50 bp):
AGTGGAACAGATTGAAGCTACAACAACGAATCTTACTTTCCCAGCGTTGT
Found at i:37594690 original size:44 final size:44
Alignment explanation
Indices: 37594622--37594811 Score: 147
Period size: 45 Copynumber: 4.3 Consensus size: 44
37594612 CTTTCCTAGC
* * *
37594622 GTTGTAGTGGAACA-AGTTGAAGATACAAGCCTTATCTCCTTGAA
1 GTTGCAGTGGAGCAGAG-TGAAGATACAAGTCTTATCTCCTTGAA
* * *
37594666 GTTGCAGTGGAGCAG-GCTGAAGATAGCGAA-TCTTTTGTCCTAGAA
1 GTTGCAGTGGAGCAGAG-TGAAGATA-C-AAGTCTTATCTCCTTGAA
* * *
37594711 GTTAC-GTGGAGCAGAGTGAAGATTGCAAGTCTTATCCCCTTGAA
1 GTTGCAGTGGAGCAGAGTGAAGA-TACAAGTCTTATCTCCTTGAA
** * * *
37594755 GTTGCAGTGGAGCAGAAAGAAGATGACGAA-TCCTATCCCCTTGAC
1 GTTGCAGTGGAGCAGAGTGAAGAT-AC-AAGTCTTATCTCCTTGAA
*
37594800 GTGGCAGTGGAG
1 GTTGCAGTGGAG
37594812 TGGATCGAAG
Statistics
Matches: 117, Mismatches: 20, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
43 2 0.02
44 53 0.45
45 58 0.50
46 4 0.03
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.25
Consensus pattern (44 bp):
GTTGCAGTGGAGCAGAGTGAAGATACAAGTCTTATCTCCTTGAA
Found at i:37594777 original size:45 final size:45
Alignment explanation
Indices: 37594652--37594811 Score: 155
Period size: 45 Copynumber: 3.6 Consensus size: 45
37594642 AGATACAAGC
* ** *
37594652 CTTATCTCCTTGAAGTTGCAGTGGAGCAGGCTGAAGATAGCGAAT
1 CTTATCCCCTTGAAGTTGCAGTGGAGCAGAATGAAGATTGCGAAT
* ** * * *
37594697 CTTTTGTCCTAGAAGTTAC-GTGGAGCAGAGTGAAGATTGC-AAGT
1 CTTATCCCCTTGAAGTTGCAGTGGAGCAGAATGAAGATTGCGAA-T
*
37594741 CTTATCCCCTTGAAGTTGCAGTGGAGCAGAAAGAAGA-TGACGAAT
1 CTTATCCCCTTGAAGTTGCAGTGGAGCAGAATGAAGATTG-CGAAT
* * *
37594786 CCTATCCCCTTGACGTGGCAGTGGAG
1 CTTATCCCCTTGAAGTTGCAGTGGAG
37594812 TGGATCGAAG
Statistics
Matches: 94, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
43 2 0.02
44 35 0.37
45 55 0.59
46 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (45 bp):
CTTATCCCCTTGAAGTTGCAGTGGAGCAGAATGAAGATTGCGAAT
Found at i:37595021 original size:15 final size:15
Alignment explanation
Indices: 37595001--37595030 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37594991 CCCAGCCCAT
*
37595001 AACCAAATTAATAAA
1 AACCAAAATAATAAA
37595016 AACCAAAATAATAAA
1 AACCAAAATAATAAA
37595031 TTAAATGTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (15 bp):
AACCAAAATAATAAA
Found at i:37595160 original size:18 final size:19
Alignment explanation
Indices: 37595131--37595166 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
37595121 ACCCGTATGG
*
37595131 CCCAATACCCAATTACATA
1 CCCAATACCCAAATACATA
37595150 CCCAA-ACCCAAATACAT
1 CCCAATACCCAAATACAT
37595167 CAAGCCCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.17
Consensus pattern (19 bp):
CCCAATACCCAAATACATA
Found at i:37597285 original size:60 final size:60
Alignment explanation
Indices: 37597192--37597313 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
37597182 TTATTTACGC
37597192 AAAAGTTTTCAAAAATAATGCGATACTCGAAATTTGGGGTCCTCAAGAAGATTGTACCCT
1 AAAAGTTTTCAAAAATAATGCGATACTCGAAATTTGGGGTCCTCAAGAAGATTGTACCCT
*
37597252 AAAAGTTTTCAAAAATAATGCGATACTCGAAATTTGGGGTCCTCAAGAAGATTTTACCCT
1 AAAAGTTTTCAAAAATAATGCGATACTCGAAATTTGGGGTCCTCAAGAAGATTGTACCCT
37597312 AA
1 AA
37597314 CTCATTGGGT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (60 bp):
AAAAGTTTTCAAAAATAATGCGATACTCGAAATTTGGGGTCCTCAAGAAGATTGTACCCT
Found at i:37598910 original size:18 final size:18
Alignment explanation
Indices: 37598852--37598910 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
37598842 TTATCAATCT
* *
37598852 ACATGTATAAGCATATCA
1 ACATGTATAAGCAAACCA
*
37598870 ACATGT-TAA-CAACCAACCT
1 ACATGTATAAGC-A--AACCA
37598889 ACATGTATAAGCAAACCA
1 ACATGTATAAGCAAACCA
37598907 ACAT
1 ACAT
37598911 ATTAATGACC
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
16 1 0.03
17 4 0.12
18 14 0.44
19 8 0.25
20 4 0.12
21 1 0.03
ACGTcount: A:0.46, C:0.24, G:0.08, T:0.22
Consensus pattern (18 bp):
ACATGTATAAGCAAACCA
Found at i:37618545 original size:11 final size:12
Alignment explanation
Indices: 37618530--37618560 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
37618520 TAAATGATAT
37618530 TTTATTATTTTA
1 TTTATTATTTTA
37618542 -TTATTATTTTA
1 TTTATTATTTTA
37618553 TTTATTAT
1 TTTATTAT
37618561 ATATATAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:37624440 original size:17 final size:17
Alignment explanation
Indices: 37624418--37624470 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
37624408 TATTCTATTA
37624418 ATTTATTAAGATTTAAT
1 ATTTATTAAGATTTAAT
* *
37624435 ATTTATCAAGA-TAAAT
1 ATTTATTAAGATTTAAT
*
37624451 ATTAGATTAA-ATTTAAT
1 ATT-TATTAAGATTTAAT
37624468 ATT
1 ATT
37624471 AAAGTGATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 8 0.28
17 21 0.72
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (17 bp):
ATTTATTAAGATTTAAT
Found at i:37625560 original size:23 final size:23
Alignment explanation
Indices: 37625530--37625578 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
37625520 GTCATTCATA
37625530 TTAACACATTTATTATTATTCTG
1 TTAACACATTTATTATTATTCTG
37625553 TTAACACATTTATTATTATTCTG
1 TTAACACATTTATTATTATTCTG
37625576 TTA
1 TTA
37625579 TACATATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.04, T:0.53
Consensus pattern (23 bp):
TTAACACATTTATTATTATTCTG
Found at i:37625586 original size:20 final size:22
Alignment explanation
Indices: 37625530--37625587 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 22
37625520 GTCATTCATA
37625530 TTAACACATTTATTATTATTCTG
1 TTAACACA-TTATTATTATTCTG
37625553 TTAACACATTTATTATTATTCTG
1 TTAACACA-TTATTATTATTCTG
*
37625576 TTATACATATTA
1 TTA-ACACATTA
37625588 ACACCGTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
23 29 0.88
24 4 0.12
ACGTcount: A:0.33, C:0.12, G:0.03, T:0.52
Consensus pattern (22 bp):
TTAACACATTATTATTATTCTG
Found at i:37632359 original size:17 final size:17
Alignment explanation
Indices: 37632333--37632383 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
37632323 ATTCTATTAG
37632333 TTTATTAAGATTTAATA
1 TTTATTAAGATTTAATA
* *
37632350 TTTATCAAGA-TAAATA
1 TTTATTAAGATTTAATA
37632366 TTTGATTAA-ATTTAATA
1 TTT-ATTAAGATTTAATA
37632383 T
1 T
37632384 AAAAGTGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 9 0.32
17 19 0.68
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (17 bp):
TTTATTAAGATTTAATA
Found at i:37637537 original size:3 final size:3
Alignment explanation
Indices: 37637524--37637608 Score: 80
Period size: 3 Copynumber: 28.3 Consensus size: 3
37637514 AGGTAAATTG
* * * * * * * *
37637524 ATA AAA ATA ATA ATA ATA CTA ATA CTA ATA ATA GTA GTA GTA GTA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
37637572 ATA ATA ATA ATA ATA ACA ATA CTA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
37637609 CAAGAGTATT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:37639106 original size:50 final size:50
Alignment explanation
Indices: 37638991--37639176 Score: 164
Period size: 50 Copynumber: 3.7 Consensus size: 50
37638981 GGTAAAGAGA
* * * *
37638991 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTACATGAGA--AC
* * *
37639043 TCCC--GTAATACCATGTCTGGGACATGGCATGGGCACCTATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTACATGAGAAC
* * * * * * *
37639091 TCCCATGTAAGACCATATATGGGATACGACATTGGCA-TTACA-GAAAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTACATGAGAAC
* * *
37639139 ATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
37639177 TGTATTATCA
Statistics
Matches: 107, Mismatches: 24, Indels: 9
0.76 0.17 0.06
Matches are distributed among these distances:
48 10 0.09
49 32 0.30
50 61 0.57
52 4 0.04
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTACATGAGAAC
Found at i:37645988 original size:22 final size:22
Alignment explanation
Indices: 37645960--37646003 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
37645950 TTTGCTACCT
37645960 TTAGCTTGAATCTGTTCCACTG
1 TTAGCTTGAATCTGTTCCACTG
37645982 TTAGCTTGAATCTGTTCCACTG
1 TTAGCTTGAATCTGTTCCACTG
37646004 CAATGCCAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (22 bp):
TTAGCTTGAATCTGTTCCACTG
Found at i:37646286 original size:123 final size:124
Alignment explanation
Indices: 37646098--37646806 Score: 519
Period size: 123 Copynumber: 5.5 Consensus size: 124
37646088 CTGCAACATT
* * * *
37646098 AGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTATTCTAATGTAACGCCAAG-GAGATAGGAT
1 AGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTATTCTACTGCAACGCCAAGAGAAATAAGAT
*
37646162 TCGCTGCCTTCAACTTTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTACAATGCC
66 TCGCTGCCTTCAACTTTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTGCAATGCC
* * *
37646221 AGGGTAACAAGATTCGCTA-CTCTTAGCTTTAATTTATTCTACTGCAATG-CAAGAGAAATAAGA
1 AGGGAAACAAGATTCGCTACCT-TTAGCTTTAATCTATTCTACTGCAACGCCAAGAGAAATAAGA
* * * ** **
37646284 TTCGCTGCCTTC-AGTCCTAATGCCAGGGAGATAAGATTTGTTGCCTTCAGCTTTAATCTGCTCC
65 TTCGCTGCCTTCAACT-TTAAT-CC-----GCT-CCA--------CTTCAGCTTTAATCTATTCC
*
37646348 ACTGCAATGAC
114 ACTGCAATGCC
* * *
37646359 AGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGCCAA-AGAGATAAGAT
1 AGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTATTCTACTGCAACGCCAAGAGAAATAAGAT
* *
37646423 TCGCTGCCTTCAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTGCAACGCC
66 TCGCTGCCTTCAACTTTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTGCAATGCC
* * * *
37646482 AGGGAAACAAGATTCGCTA-CTCTTAACTTTAATCTATTCTACTGTAACG-CTAGGGAAATAAGA
1 AGGGAAACAAGATTCGCTACCT-TTAGCTTTAATCTATTCTACTGCAACGCCAAGAGAAATAAGA
* * * * * * **
37646545 TTCACT-CCTTC-AGTCTTAACGCCGGGGAGATAAGATTTACTGC-CTTTAGCTTTAATTTGCTC
65 TTCGCTGCCTTCAACT-TTAA-TCC----------G-----CTCCACTTCAGCTTTAATCTATTC
***
37646607 CACTGCAACATC
113 CACTGCAATGCC
* * * * * *
37646619 AGAGAAACAAGATTCGCTAACTTTAGCTTTAATGTGTTCTATTGCAACGCCAA-AGAGATAAGAT
1 AGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTATTCTACTGCAACGCCAAGAGAAATAAGAT
* * * * * *
37646683 TCGCTGCCTTTAGCTTTAATCTGCTCCACTTTAGCTTTAATCTATTCCACTGGAATGCT
66 TCGCTGCCTTCAACTTTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTGCAATGCC
* * * *
37646742 AAGGAAATAAGATTTGCTACCTTTAGCTTTAATC-AGTTGC-ACTGCAATGCCAAG-GAAATAAG
1 AGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTA-TT-CTACTGCAACGCCAAGAGAAATAAG
37646804 ATT
64 ATT
37646807 ATTGTCTTTA
Statistics
Matches: 454, Mismatches: 84, Indels: 96
0.72 0.13 0.15
Matches are distributed among these distances:
121 1 0.00
122 24 0.05
123 222 0.49
124 3 0.01
127 1 0.00
129 2 0.00
130 1 0.00
131 1 0.00
132 2 0.00
133 1 0.00
137 81 0.18
138 108 0.24
139 7 0.02
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (124 bp):
AGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTATTCTACTGCAACGCCAAGAGAAATAAGAT
TCGCTGCCTTCAACTTTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTGCAATGCC
Found at i:37646387 original size:51 final size:51
Alignment explanation
Indices: 37646327--37646452 Score: 162
Period size: 51 Copynumber: 2.5 Consensus size: 51
37646317 AGATTTGTTG
* **
37646327 CCTTCAGCTTTAATCTGCTCCACTGCAATGACAGGGAAACAAGATTCGCTA
1 CCTTCAGCTTTAATCTGCTCCACTGCAACGACAAAGAAACAAGATTCGCTA
* * * * * *
37646378 CCTTTAGCTTTAATCTGTTCCACTGCAACGCCAAAGAGATAAGATTCGCTG
1 CCTTCAGCTTTAATCTGCTCCACTGCAACGACAAAGAAACAAGATTCGCTA
*
37646429 CCTTCAGCTTTAATCCGCTCCACT
1 CCTTCAGCTTTAATCTGCTCCACT
37646453 TCAGCTTTAA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (51 bp):
CCTTCAGCTTTAATCTGCTCCACTGCAACGACAAAGAAACAAGATTCGCTA
Found at i:37646446 original size:261 final size:261
Alignment explanation
Indices: 37645982--37646806 Score: 1122
Period size: 261 Copynumber: 3.2 Consensus size: 261
37645972 TGTTCCACTG
* * * * * **
37645982 TTAGCTTGAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTTGCTGCCTTCAGTCTTAACATC
1 TTAGCTTTAATCTATTCTACTGCAATGCAAGGGAAATAAGATTCGCTGCCTTCAGTCTTAACGCC
* * * * *
37646047 AGGGAGATAAGATTTGCTGTCTTCAGCTTTCATCTACTCCGCTGCAACATTAGGGAAACAAGATT
66 AGGGAGATAAGATTTGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACATCAGGGAAACAAGATT
* * * * *
37646112 CGCTACCTTTAGCTTTAATCTATTCTAATGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAACT
131 CGCTACCTTTAGCTTTAATCTGTTCTAATGCAACGCCAAAGAGATAAGATTCGCTGCCTTCAGCT
* *
37646177 TTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTACAATGCCAGGGTAACAAGATTCGCTACT
196 TTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCGCTACT
37646242 C
261 C
* * * *
37646243 TTAGCTTTAATTTATTCTACTGCAATGCAAGAGAAATAAGATTCGCTGCCTTCAGTCCTAATGCC
1 TTAGCTTTAATCTATTCTACTGCAATGCAAGGGAAATAAGATTCGCTGCCTTCAGTCTTAACGCC
* *
37646308 AGGGAGATAAGATTTGTTGCCTTCAGCTTTAATCTGCTCCACTGCAATGA-CAGGGAAACAAGAT
66 AGGGAGATAAGATTTGCTGCCTTCAGCTTTAATCTGCTCCACTGCAA-CATCAGGGAAACAAGAT
* *
37646372 TCGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGCCAAAGAGATAAGATTCGCTGCCTTCAGC
130 TCGCTACCTTTAGCTTTAATCTGTTCTAATGCAACGCCAAAGAGATAAGATTCGCTGCCTTCAGC
*
37646437 TTTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTAC
195 TTTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCGCTAC
37646502 TC
260 TC
* * * * *
37646504 TTAACTTTAATCTATTCTACTGTAACGCTAGGGAAATAAGATTCACT-CCTTCAGTCTTAACGCC
1 TTAGCTTTAATCTATTCTACTGCAATGCAAGGGAAATAAGATTCGCTGCCTTCAGTCTTAACGCC
* * * * *
37646568 GGGGAGATAAGATTTACTGCCTTTAGCTTTAATTTGCTCCACTGCAACATCAGAGAAACAAGATT
66 AGGGAGATAAGATTTGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACATCAGGGAAACAAGATT
* * * *
37646633 CGCTAACTTTAGCTTTAATGTGTTCTATTGCAACGCCAAAGAGATAAGATTCGCTGCCTTTAGCT
131 CGCTACCTTTAGCTTTAATCTGTTCTAATGCAACGCCAAAGAGATAAGATTCGCTGCCTTCAGCT
* * * * * * *
37646698 TTAATCTGCTCCACTTTAGCTTTAATCTATTCCACTGGAATGCTAAGGAAATAAGATTTGCTAC-
196 TTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCGCTACT
37646762 C
261 C
37646763 TTTAGCTTTAATC-AGTTGC-ACTGCAATGCCAA-GGAAATAAGATT
1 -TTAGCTTTAATCTA-TT-CTACTGCAATG-CAAGGGAAATAAGATT
37646807 ATTGTCTTTA
Statistics
Matches: 497, Mismatches: 61, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
259 3 0.01
260 219 0.44
261 274 0.55
262 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (261 bp):
TTAGCTTTAATCTATTCTACTGCAATGCAAGGGAAATAAGATTCGCTGCCTTCAGTCTTAACGCC
AGGGAGATAAGATTTGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACATCAGGGAAACAAGATT
CGCTACCTTTAGCTTTAATCTGTTCTAATGCAACGCCAAAGAGATAAGATTCGCTGCCTTCAGCT
TTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTGCAATGCCAGGGAAACAAGATTCGCTACT
C
Found at i:37646471 original size:21 final size:21
Alignment explanation
Indices: 37646430--37646473 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
37646420 GATTCGCTGC
*
37646430 CTTCAGCTTTAATCCGCTCCA
1 CTTCAGCTTTAATCCACTCCA
* *
37646451 CTTCAGCTTTAATCTATTCCA
1 CTTCAGCTTTAATCCACTCCA
37646472 CT
1 CT
37646474 GCAACGCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.34, G:0.07, T:0.39
Consensus pattern (21 bp):
CTTCAGCTTTAATCCACTCCA
Done.