Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 57 of 343
Found at i:18377156 original size:7 final size:7
Alignment explanation
Indices: 18377144--18377168 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18377134 AAAATTAAGA
18377144 AAAAGTT
1 AAAAGTT
18377151 AAAAGTT
1 AAAAGTT
18377158 AAAAGTT
1 AAAAGTT
18377165 AAAA
1 AAAA
18377169 AAAATAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (7 bp):
AAAAGTT
Found at i:18377198 original size:24 final size:25
Alignment explanation
Indices: 18377132--18377201 Score: 76
Period size: 23 Copynumber: 3.0 Consensus size: 25
18377122 TTAAAGTTTT
* * *
18377132 TTAAAATTAAGAAAAAG-TTAAAAG
1 TTAAAAGTAAGAAAAAGAATAAAAC
*
18377156 TTAAAAGTTA-AAAAA-AATAAAAC
1 TTAAAAGTAAGAAAAAGAATAAAAC
18377179 TTAAAA-TAAGAAAAAGAATAAAA
1 TTAAAAGTAAGAAAAAGAATAAAA
18377202 GAAAAAGACA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
22 2 0.05
23 21 0.55
24 15 0.39
ACGTcount: A:0.69, C:0.01, G:0.09, T:0.21
Consensus pattern (25 bp):
TTAAAAGTAAGAAAAAGAATAAAAC
Found at i:18378585 original size:20 final size:20
Alignment explanation
Indices: 18378560--18378599 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
18378550 ACTATGTATG
*
18378560 TTAATTAAATTATGTTTAAT
1 TTAATTAAACTATGTTTAAT
18378580 TTAATTAAACTATGTTTAAT
1 TTAATTAAACTATGTTTAAT
18378600 CAAGTTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (20 bp):
TTAATTAAACTATGTTTAAT
Found at i:18391041 original size:34 final size:33
Alignment explanation
Indices: 18390963--18391041 Score: 88
Period size: 34 Copynumber: 2.4 Consensus size: 33
18390953 TTATACTATA
* * *
18390963 ATTATACTTACTTTTATGGTTATCATTATTCTT
1 ATTATACTTTCTTTTATCGTTATCATTATTATT
* *
18390996 ATTATTA-TTTCTTTATATCTTTGTCATTATTATT
1 ATTA-TACTTTCTTT-TATCGTTATCATTATTATT
18391030 ATTATACTTTCT
1 ATTATACTTTCT
18391042 CTTTTTTTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
33 12 0.32
34 26 0.68
ACGTcount: A:0.24, C:0.11, G:0.04, T:0.61
Consensus pattern (33 bp):
ATTATACTTTCTTTTATCGTTATCATTATTATT
Found at i:18393005 original size:5 final size:5
Alignment explanation
Indices: 18392995--18393024 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
18392985 TTTATTGGGC
*
18392995 TCGGG TCGGG TCGGG TCGGA TCGGG TCGGG
1 TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG
18393025 CTGGGCCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.03, C:0.20, G:0.57, T:0.20
Consensus pattern (5 bp):
TCGGG
Found at i:18393281 original size:31 final size:29
Alignment explanation
Indices: 18393243--18393305 Score: 99
Period size: 31 Copynumber: 2.1 Consensus size: 29
18393233 ACTTAATAAG
18393243 CAAATGCCTCTAAAATAATAAAAAAAATTAA
1 CAAATGCCTCTAAAATAAT--AAAAAATTAA
*
18393274 CAAATGCCTTTAAAATAATAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAATTAA
18393303 CAA
1 CAA
18393306 TAAAATAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 13 0.42
31 18 0.58
ACGTcount: A:0.60, C:0.13, G:0.03, T:0.24
Consensus pattern (29 bp):
CAAATGCCTCTAAAATAATAAAAAATTAA
Found at i:18402676 original size:2 final size:2
Alignment explanation
Indices: 18402669--18402693 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18402659 AATTTTTGAA
18402669 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
18402694 AAGGAATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18403308 original size:24 final size:24
Alignment explanation
Indices: 18403242--18403310 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 24
18403232 TATAGATTAT
* *
18403242 ATATTT-AAA-TTAAATTTTACAA
1 ATATTTAAAATTTATATTTTATAA
* * *
18403264 ATAATTAATATTAAT-TATTTATAA
1 ATATTTAAAATTTATAT-TTTATAA
18403288 ATATTTAAAATTTATATTTTATA
1 ATATTTAAAATTTATATTTTATA
18403311 TATGAAAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
22 5 0.14
23 3 0.09
24 26 0.74
25 1 0.03
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (24 bp):
ATATTTAAAATTTATATTTTATAA
Found at i:18407730 original size:13 final size:13
Alignment explanation
Indices: 18407695--18407770 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 13
18407685 TTGTCAGTTA
*
18407695 TAGATTAAGAATC
1 TAGAATAAGAATC
*
18407708 -AGACTAAGAATC
1 TAGAATAAGAATC
*
18407720 TAGAATAAGAAATTG
1 TAGAATAAG-AA-TC
* *
18407735 TCAG-TTAGGAATC
1 T-AGAATAAGAATC
*
18407748 -AGACTAAGAATC
1 TAGAATAAGAATC
18407760 TAGAATAAGAA
1 TAGAATAAGAA
18407771 ATAGTAGGCT
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
11 2 0.04
12 18 0.38
13 17 0.35
14 4 0.08
15 5 0.10
16 2 0.04
ACGTcount: A:0.49, C:0.09, G:0.18, T:0.24
Consensus pattern (13 bp):
TAGAATAAGAATC
Found at i:18410395 original size:23 final size:23
Alignment explanation
Indices: 18410365--18410410 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
18410355 CCTGAAATAG
* *
18410365 ATTTCCAAAATCAGTCTAATCTT
1 ATTTCCAAAATCAATATAATCTT
18410388 ATTTCCAAAATCAATATAATCTT
1 ATTTCCAAAATCAATATAATCTT
18410411 TACTAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.20, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTTCCAAAATCAATATAATCTT
Found at i:18415454 original size:40 final size:41
Alignment explanation
Indices: 18415289--18415443 Score: 226
Period size: 41 Copynumber: 3.8 Consensus size: 41
18415279 TTTATCGTTA
* * * *
18415289 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
18415330 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
18415371 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
18415412 GTGACACATTTCGGACTATAAGT-TAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
18415444 AAGAGCCGGT
Statistics
Matches: 106, Mismatches: 4, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
39 1 0.01
40 10 0.09
41 92 0.87
42 2 0.02
43 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:18415714 original size:33 final size:33
Alignment explanation
Indices: 18415659--18415755 Score: 106
Period size: 33 Copynumber: 2.8 Consensus size: 33
18415649 AGATATGTAT
*
18415659 TATATATATATGT-TGCATTCGGCATAGGTGAA
1 TATATATATGTGTATGCATTCGGCATAGGTGAA
*
18415691 TATATTTATGTGTATGCATTCGGCATAGGTGAA
1 TATATATATGTGTATGCATTCGGCATAGGTGAA
* * *
18415724 AATAAGTGTATGTATCTATGCATTCGGCATAG
1 TAT-A-TATATG--TGTATGCATTCGGCATAG
18415756 ATGGGTATAG
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 11 0.20
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.31
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.37
Consensus pattern (33 bp):
TATATATATGTGTATGCATTCGGCATAGGTGAA
Found at i:18416493 original size:120 final size:120
Alignment explanation
Indices: 18416280--18416521 Score: 484
Period size: 120 Copynumber: 2.0 Consensus size: 120
18416270 GATAATGTTT
18416280 TGGATAATTTTGAATCCTATTGTGTAAATAGCAATGCGAAAAGAGTTTAACTTCCATGCTTGAAT
1 TGGATAATTTTGAATCCTATTGTGTAAATAGCAATGCGAAAAGAGTTTAACTTCCATGCTTGAAT
18416345 TTGATTATATATGTTCATGAATTGGACTTGCATTTGGAATTAGATATTAAAGTTA
66 TTGATTATATATGTTCATGAATTGGACTTGCATTTGGAATTAGATATTAAAGTTA
18416400 TGGATAATTTTGAATCCTATTGTGTAAATAGCAATGCGAAAAGAGTTTAACTTCCATGCTTGAAT
1 TGGATAATTTTGAATCCTATTGTGTAAATAGCAATGCGAAAAGAGTTTAACTTCCATGCTTGAAT
18416465 TTGATTATATATGTTCATGAATTGGACTTGCATTTGGAATTAGATATTAAAGTTA
66 TTGATTATATATGTTCATGAATTGGACTTGCATTTGGAATTAGATATTAAAGTTA
18416520 TG
1 TG
18416522 TTTATGTGAG
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 122 1.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (120 bp):
TGGATAATTTTGAATCCTATTGTGTAAATAGCAATGCGAAAAGAGTTTAACTTCCATGCTTGAAT
TTGATTATATATGTTCATGAATTGGACTTGCATTTGGAATTAGATATTAAAGTTA
Found at i:18423184 original size:41 final size:41
Alignment explanation
Indices: 18423018--18423173 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
18423008 TTTATCGTTA
* * * *
18423018 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
18423059 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
18423100 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
18423141 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
18423174 AAGAGCCGGT
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 102 0.95
42 2 0.02
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:18423444 original size:33 final size:33
Alignment explanation
Indices: 18423388--18423485 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
18423378 ATAGATATGT
*
18423388 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
18423420 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
18423453 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
18423486 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:18430818 original size:41 final size:41
Alignment explanation
Indices: 18430652--18430807 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
18430642 TTTATCGTTA
* * * *
18430652 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
18430693 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
18430734 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
18430775 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
18430808 AAGAGCCGGT
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 102 0.95
42 2 0.02
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:18431076 original size:33 final size:33
Alignment explanation
Indices: 18431021--18431117 Score: 106
Period size: 33 Copynumber: 2.8 Consensus size: 33
18431011 GATAGATATG
*
18431021 TATATATATATGT-TGCATTCGGCATAGGTGAA
1 TATATATATGTGTATGCATTCGGCATAGGTGAA
*
18431053 TATATTTATGTGTATGCATTCGGCATAGGTGAA
1 TATATATATGTGTATGCATTCGGCATAGGTGAA
* * *
18431086 AATAAGTGTATGTATCTATGCATTCGGCATAG
1 TAT-A-TATATG--TGTATGCATTCGGCATAG
18431118 ATGGGTATAG
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 11 0.20
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.31
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.37
Consensus pattern (33 bp):
TATATATATGTGTATGCATTCGGCATAGGTGAA
Found at i:18443899 original size:25 final size:24
Alignment explanation
Indices: 18443834--18443923 Score: 65
Period size: 25 Copynumber: 3.6 Consensus size: 24
18443824 GCAGTAAATG
* * *
18443834 GGAAGCTCTTCCAAGCTGAATAACA
1 GGAAGCTCTTACGAGCT-AATATCA
*
18443859 GGAAGCTCATGA-GAGCTAAGTATCA
1 GGAAGCTC-TTACGAGCTAA-TATCA
* *
18443884 GGAAGCTCTTACGAGCTGATTATCG
1 GGAAGCTCTTACGAGCT-AATATCA
* *
18443909 GGAAACTCTTGCGAG
1 GGAAGCTCTTACGAG
18443924 TTGTGGTGTG
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
24 4 0.08
25 46 0.88
26 2 0.04
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (24 bp):
GGAAGCTCTTACGAGCTAATATCA
Found at i:18446999 original size:2 final size:2
Alignment explanation
Indices: 18446992--18447017 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18446982 CCTTACAACT
18446992 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
18447018 CACACAACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18454861 original size:30 final size:30
Alignment explanation
Indices: 18454827--18454887 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
18454817 TCCTTAACTC
18454827 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
18454857 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
18454887 A
1 A
18454888 GGCTTGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:18456507 original size:13 final size:13
Alignment explanation
Indices: 18456503--18456527 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18456493 CAATTACCCA
18456503 ACCCAACCCAATT
1 ACCCAACCCAATT
18456516 ACCCAACCCAAT
1 ACCCAACCCAAT
18456528 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:18456512 original size:18 final size:18
Alignment explanation
Indices: 18456489--18456526 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
18456479 ATTGGATATT
18456489 AACCCAATTACCCAACCC
1 AACCCAATTACCCAACCC
18456507 AACCCAATTACCCAACCC
1 AACCCAATTACCCAACCC
18456525 AA
1 AA
18456527 TCATAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.47, G:0.00, T:0.11
Consensus pattern (18 bp):
AACCCAATTACCCAACCC
Found at i:18456571 original size:21 final size:20
Alignment explanation
Indices: 18456547--18456586 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
18456537 TACAAATAAT
18456547 TTAATAAATAAAAATAAAAAC
1 TTAAT-AATAAAAATAAAAAC
*
18456568 TTAATACTAAAAATAAAAA
1 TTAATAATAAAAATAAAAA
18456587 TAAAAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (20 bp):
TTAATAATAAAAATAAAAAC
Found at i:18456630 original size:9 final size:9
Alignment explanation
Indices: 18456612--18456670 Score: 66
Period size: 9 Copynumber: 6.6 Consensus size: 9
18456602 TTTATAAAAA
*
18456612 TAATTTGGT
1 TAATTCGGT
18456621 TAATTCGGT
1 TAATTCGGT
18456630 TAATTCGGT
1 TAATTCGGT
* *
18456639 TAATTTGGG
1 TAATTCGGT
18456648 TAATTCAGG-
1 TAATTC-GGT
*
18456657 TAATTCTGT
1 TAATTCGGT
18456666 TAATT
1 TAATT
18456671 TTATACTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
8 1 0.02
9 40 0.93
10 2 0.05
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.47
Consensus pattern (9 bp):
TAATTCGGT
Found at i:18456651 original size:27 final size:27
Alignment explanation
Indices: 18456612--18456671 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
18456602 TTTATAAAAA
*
18456612 TAATTTGGTTAATTC-GGTTAATTCGGT
1 TAATTTGGGTAATTCAGG-TAATTCGGT
*
18456639 TAATTTGGGTAATTCAGGTAATTCTGT
1 TAATTTGGGTAATTCAGGTAATTCGGT
18456666 TAATTT
1 TAATTT
18456672 TATACTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 28 0.93
28 2 0.07
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.48
Consensus pattern (27 bp):
TAATTTGGGTAATTCAGGTAATTCGGT
Found at i:18457915 original size:21 final size:21
Alignment explanation
Indices: 18457890--18457939 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
18457880 ATTCTTGAAA
18457890 TTAAAAGTATAAGACTAAATT
1 TTAAAAGTATAAGACTAAATT
*
18457911 TTAAAAATATAAGACTAAATT
1 TTAAAAGTATAAGACTAAATT
*
18457932 TCAAAAGT
1 TTAAAAGT
18457940 TCAAAGAGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.32
Consensus pattern (21 bp):
TTAAAAGTATAAGACTAAATT
Found at i:18465113 original size:12 final size:12
Alignment explanation
Indices: 18465096--18465120 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18465086 AAAATAGGGC
18465096 TTTAGCGGCATT
1 TTTAGCGGCATT
18465108 TTTAGCGGCATT
1 TTTAGCGGCATT
18465120 T
1 T
18465121 CATCAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (12 bp):
TTTAGCGGCATT
Found at i:18465196 original size:40 final size:39
Alignment explanation
Indices: 18465145--18465312 Score: 194
Period size: 41 Copynumber: 4.1 Consensus size: 39
18465135 GCAAAAATTG
* *
18465145 TAAAACACAGAGCAATAGCGGCGTTTTACCAAAAACGCCGC
1 TAAAA-ACAGAGCAATAGCGGCGCTTT-CGAAAAACGCCGC
* * *
18465186 TAAAAACAGAGCAATAGCCGCGTTTTAACAAAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGCTTT--CGAAAAACGCCGC
18465227 TAAAAACAG-GTCAATAGCGGCGCTTTCGATAAAACGCCGC
1 TAAAAACAGAG-CAATAGCGGCGCTTTCGA-AAAACGCCGC
* *
18465267 TAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGC
1 TAAAAA-CAGAGCAATAGCGGCGCTTTC-GAAAAACGCCGC
18465308 TAAAA
1 TAAAA
18465313 GTCATATAAC
Statistics
Matches: 114, Mismatches: 7, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
39 2 0.02
40 37 0.32
41 73 0.64
42 2 0.02
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (39 bp):
TAAAAACAGAGCAATAGCGGCGCTTTCGAAAAACGCCGC
Found at i:18465302 original size:81 final size:80
Alignment explanation
Indices: 18465157--18465312 Score: 199
Period size: 81 Copynumber: 1.9 Consensus size: 80
18465147 AAACACAGAG
* *
18465157 CAATAGCGGCGTTTTACCAAAAACGCCGCTAAAAACAGAGCAATAGCCGCGTTTTAACAAAAAAC
1 CAATAGCGGCGCTTTACCAAAAACGCCGCTAAAAACAGAGCAATAGCCGCGCTTT-ACAAAAAAC
18465222 GCCGCTAAAAACAGGT
65 GCCGCTAAAAACAGGT
* * * **
18465238 CAATAGCGGCGCTTT-CGATAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTT-CGGTAAA
1 CAATAGCGGCGCTTTACCA-AAAACGCCGCTAAAAA-CAGAGCAATAGCCGCGCTTTAC-AAAAA
18465301 ACGCCGCTAAAA
63 ACGCCGCTAAAA
18465313 GTCATATAAC
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
80 3 0.05
81 45 0.69
82 17 0.26
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.17
Consensus pattern (80 bp):
CAATAGCGGCGCTTTACCAAAAACGCCGCTAAAAACAGAGCAATAGCCGCGCTTTACAAAAAACG
CCGCTAAAAACAGGT
Found at i:18465327 original size:18 final size:18
Alignment explanation
Indices: 18465304--18465341 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
18465294 CGGTAAAACG
18465304 CCGCTAAAAGTCATATAA
1 CCGCTAAAAGTCATATAA
18465322 CCGCTAAAAGTCATATAA
1 CCGCTAAAAGTCATATAA
18465340 CC
1 CC
18465342 CCAAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.26, G:0.11, T:0.21
Consensus pattern (18 bp):
CCGCTAAAAGTCATATAA
Found at i:18465355 original size:19 final size:18
Alignment explanation
Indices: 18465309--18465348 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
18465299 AAACGCCGCT
* *
18465309 AAAAGTCATATAACCGCT
1 AAAAGTCATATAACCCCA
18465327 AAAAGTCATATAACCCCA
1 AAAAGTCATATAACCCCA
18465345 AAAA
1 AAAA
18465349 AATCATAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.23, G:0.07, T:0.17
Consensus pattern (18 bp):
AAAAGTCATATAACCCCA
Found at i:18465593 original size:14 final size:15
Alignment explanation
Indices: 18465576--18465612 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
18465566 TAATATTTAA
18465576 GGTTTAAGG-TCTAT
1 GGTTTAAGGTTCTAT
*
18465590 GGTTTAGGGTTCTAT
1 GGTTTAAGGTTCTAT
18465605 GGTTTAAG
1 GGTTTAAG
18465613 TTTAATGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.19, C:0.05, G:0.32, T:0.43
Consensus pattern (15 bp):
GGTTTAAGGTTCTAT
Found at i:18470402 original size:19 final size:19
Alignment explanation
Indices: 18470379--18470425 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
18470369 ATTTAATCTA
*
18470379 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
18470397 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
18470417 ATTTTTATT
1 ATTTTTATT
18470426 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:18470760 original size:43 final size:43
Alignment explanation
Indices: 18470696--18470880 Score: 235
Period size: 43 Copynumber: 4.3 Consensus size: 43
18470686 TTTCATGACT
* * * * * *
18470696 TTTAGCGGCGTTTGGGGAAAAAGTGTCGCTAAAGGTCGTAGTC
1 TTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTC
*
18470739 TTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTC
* * *
18470782 TTTAGCAGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTC
* * * *
18470825 TTTAGCCGCATTTGCGAAAAAAGCGCTGCTAAAGGTTATGGTC
1 TTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTC
*
18470868 TTTAGTGGCGTTT
1 TTTAGCGGCGTTT
18470881 TTTTAAAAGT
Statistics
Matches: 124, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 124 1.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:18470841 original size:86 final size:86
Alignment explanation
Indices: 18470696--18470914 Score: 269
Period size: 86 Copynumber: 2.6 Consensus size: 86
18470686 TTTCATGACT
* * * * * * *
18470696 TTTAGCGGCGTTTGGGGAAAAAGTGTCGCTAAAGGTCGTAGTCTTTAGCGGCGTTTGCGAAAAAA
1 TTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATGGTCTTTAGCCGCATTTGCGAAAAAA
*
18470761 GCGCCGCTAAAGGTCGTGGTC
66 GCGCCGCTAAAGGTCATGGTC
*
18470782 TTTAGCAGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATGGTCTTTAGCCGCATTTGCGAAAAAA
1 TTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATGGTCTTTAGCCGCATTTGCGAAAAAA
* *
18470847 GCGCTGCTAAAGGTTATGGTC
66 GCGCCGCTAAAGGTCATGGTC
* *** * * *
18470868 TTTAGTGGCGTTT-TTTTAAAAGTGCTGCTAAAAGTCTTGGTCTTTAG
1 TTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATGGTCTTTAG
18470915 TGGCGTTTTT
Statistics
Matches: 114, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
85 28 0.25
86 86 0.75
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.31
Consensus pattern (86 bp):
TTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGTCATGGTCTTTAGCCGCATTTGCGAAAAAA
GCGCCGCTAAAGGTCATGGTC
Found at i:18470909 original size:42 final size:42
Alignment explanation
Indices: 18470843--18470926 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
18470833 CATTTGCGAA
*
18470843 AAAAGCGCTGCTAAAGGTTATGGTCTTTAGTGGCGTTTTTTT
1 AAAAGCGCTGCTAAAAGTTATGGTCTTTAGTGGCGTTTTTTT
*
18470885 AAAAGTGCTGCTAAAAGTCT-TGGTCTTTAGTGGCGTTTTTTT
1 AAAAGCGCTGCTAAAAGT-TATGGTCTTTAGTGGCGTTTTTTT
18470927 CGAAAAACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
42 38 0.97
43 1 0.03
ACGTcount: A:0.21, C:0.12, G:0.25, T:0.42
Consensus pattern (42 bp):
AAAAGCGCTGCTAAAAGTTATGGTCTTTAGTGGCGTTTTTTT
Found at i:18473807 original size:27 final size:27
Alignment explanation
Indices: 18473758--18473915 Score: 137
Period size: 27 Copynumber: 5.9 Consensus size: 27
18473748 GCGAGGCTGC
* *
18473758 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
* *
18473785 CAGATATTGTGGTAGAGCTACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
18473811 CAGATATATGTGGCAGAGCCACCAGGT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
18473838 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
* * *
18473865 CAAATATATGTAGTAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
18473892 CAGATAATTGTGGCATAGCCACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
18473916 AGGCGCTTCC
Statistics
Matches: 104, Mismatches: 19, Indels: 16
0.75 0.14 0.12
Matches are distributed among these distances:
26 10 0.10
27 89 0.86
28 5 0.05
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:18473864 original size:54 final size:54
Alignment explanation
Indices: 18473776--18473915 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
18473766 GTGACGAAGT
* * * * * *
18473776 CACCAGATACAGAT-ATTGTGGTAGAGCTACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATCGTGGCATAGCCACCAGAACAAATATATGTAGCAGAGC
* *
18473830 CACCAGGTCAGATAATCGTGGCATAGCCACCAGAACAAATATATGTAGTAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAAATATATGTAGCAGAGC
*
18473884 CACCAGATCAGATAATTGTGGCATAGCCACCA
1 CACCAGATCAGATAATCGTGGCATAGCCACCA
18473916 AGGCGCTTCC
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
53 5 0.07
54 70 0.93
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAAATATATGTAGCAGAGC
Found at i:18482403 original size:48 final size:48
Alignment explanation
Indices: 18482348--18482674 Score: 338
Period size: 48 Copynumber: 6.8 Consensus size: 48
18482338 TGATATGTGT
* * **
18482348 GCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGA
18482396 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGA
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGA
* * *
18482444 GCTAGTGTAAGACCATGTTTGGAATATGACATCGGTAATGTTATGAGA
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGA
* * *
18482492 GCCAGTGTAAGACCATGTTTAGAACATGGCATCGGTAATGTTATGAGA
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGA
* * * * * * ** *
18482540 GCCAGTGTAAGACGATGTCTGGGACATAGCAAT-GGCATTGAGATGAGG
1 GCTAGTGTAAGACCATGTTTGGAACATGGC-ATCGGCAATGTTATGAGA
* * * * * **
18482588 GCTAGTGTAAGACCATGTCTGGGATATGGTATCGGC-CTCGACATGTA-A
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAAT-GTTATG-AGA
* *
18482636 GCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCAAT
1 GCTAGTGTAAGACCATGT-TTGGAACATGGCATCGGCAAT
18482675 TTACCCTCTT
Statistics
Matches: 238, Mismatches: 35, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
47 3 0.01
48 229 0.96
49 6 0.03
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGA
Found at i:18482615 original size:144 final size:144
Alignment explanation
Indices: 18482351--18482673 Score: 373
Period size: 144 Copynumber: 2.2 Consensus size: 144
18482341 TATGTGTGCT
* * * * *
18482351 AGTGTAAGACCATGTTTGGAACATGGCATCAGCCACATTATGAGAGCTAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTTTAGAACATGGCATCGGCAACATTATGAGAGCCAGTGTAAGACCATGTCT
* ** *
18482416 GGAACATGGCATCGGCAATGTTATGAGAGCTAGTGTAAGACCATGTTTGGAATATGACATCGGTA
66 GGAACATAGCATCGGCAATGAGATGAGAGCTAGTGTAAGACCATGTCTGGAATATGACATCGG-A
**
18482481 AT-GTTATG-AGAGCC
130 ATCGACATGTA-AGCC
* ** *
18482495 AGTGTAAGACCATGTTTAGAACATGGCATCGGTAATGTTATGAGAGCCAGTGTAAGACGATGTCT
1 AGTGTAAGACCATGTTTAGAACATGGCATCGGCAACATTATGAGAGCCAGTGTAAGACCATGTCT
* * * * ** *
18482560 GGGACATAGCAAT-GGCATTGAGATGAGGGCTAGTGTAAGACCATGTCTGGGATATGGTATCGGC
66 GGAACATAGC-ATCGGCAATGAGATGAGAGCTAGTGTAAGACCATGTCTGGAATATGACATCGGA
*
18482624 CTCGACATGTAAGCC
130 ATCGACATGTAAGCC
* *
18482639 AGTGTAAGACCATGTCTAGGACATGGCATCGGCAA
1 AGTGTAAGACCATGTTTAGAACATGGCATCGGCAA
18482674 TTTACCCTCT
Statistics
Matches: 150, Mismatches: 26, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
143 1 0.01
144 146 0.97
145 3 0.02
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (144 bp):
AGTGTAAGACCATGTTTAGAACATGGCATCGGCAACATTATGAGAGCCAGTGTAAGACCATGTCT
GGAACATAGCATCGGCAATGAGATGAGAGCTAGTGTAAGACCATGTCTGGAATATGACATCGGAA
TCGACATGTAAGCC
Found at i:18490939 original size:21 final size:21
Alignment explanation
Indices: 18490915--18490954 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
18490905 ACTATTTCTA
*
18490915 AAGTTAAAAGTCAAAACTATT
1 AAGTTAAAAGGCAAAACTATT
18490936 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAGGCAAAACTA
18490955 CGTCATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATT
Found at i:18495250 original size:18 final size:19
Alignment explanation
Indices: 18495229--18495266 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
18495219 AAGTTCAACA
18495229 ATTAAA-TTATTAA-AATAT
1 ATTAAAGTT-TTAATAATAT
18495247 ATTAAAGTTTTAATAATAT
1 ATTAAAGTTTTAATAATAT
18495266 A
1 A
18495267 AAAAATTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
ATTAAAGTTTTAATAATAT
Found at i:18498927 original size:16 final size:15
Alignment explanation
Indices: 18498901--18498935 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
18498891 TGATGTGAAT
18498901 AATATAAAATATTAA
1 AATATAAAATATTAA
*
18498916 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
18498932 AATA
1 AATA
18498936 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:18499118 original size:24 final size:23
Alignment explanation
Indices: 18499052--18499234 Score: 101
Period size: 23 Copynumber: 7.8 Consensus size: 23
18499042 AATACTACAT
18499052 AAATATATACAT-ATAT-A--AA
1 AAATATATACATAATATAATTAA
* * *
18499071 AAATAAATACGTGATA-ATATTAA
1 AAATATATACATAATATA-ATTAA
* *
18499094 AAATATGTACATAATATAGTGTAA
1 AAATATATACATAATATAAT-TAA
*
18499118 AAATACATACATAATATAATT-A
1 AAATATATACATAATATAATTAA
*
18499140 AAATATATACATAAGATAACATGTAAA
1 AAATATATACATAATAT-A-AT-T-AA
*
18499167 ATATATATATAAATAATATAGTATTAA
1 A-A-ATATATACATAATATA--ATTAA
* * *
18499194 AGATATATACATAAAAT-AGTATA
1 AAATATATACATAATATAATTA-A
* *
18499217 ATATATATACGTAATATA
1 AAATATATACATAATATA
18499235 GAATTTAGAA
Statistics
Matches: 125, Mismatches: 22, Indels: 29
0.71 0.12 0.16
Matches are distributed among these distances:
19 10 0.08
20 3 0.02
21 1 0.01
22 19 0.15
23 32 0.26
24 23 0.18
25 14 0.11
27 5 0.04
28 3 0.02
29 15 0.12
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (23 bp):
AAATATATACATAATATAATTAA
Found at i:18499120 original size:25 final size:24
Alignment explanation
Indices: 18499091--18499235 Score: 107
Period size: 24 Copynumber: 5.9 Consensus size: 24
18499081 GTGATAATAT
*
18499091 TAAAAATATGTACATAATATAGTG
1 TAAAAATATATACATAATATAGTG
* *
18499115 TAAAAATACATACATAATATAAT-
1 TAAAAATATATACATAATATAGTG
* *
18499138 T-AAAATATATACATAAGATAACATG
1 TAAAAATATATACATAATAT-A-GTG
* *
18499163 TAAAATATATATATAAATAATATAGTAT
1 T-AAA-A-ATATATACATAATATAGT-G
* * *
18499191 TAAAGATATATACATAAAATAGTA
1 TAAAAATATATACATAATATAGTG
* *
18499215 T-AATATATATACGTAATATAG
1 TAAAAATATATACATAATATAG
18499236 AATTTAGAAT
Statistics
Matches: 97, Mismatches: 16, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
22 16 0.16
23 19 0.20
24 23 0.24
25 17 0.18
27 6 0.06
28 3 0.03
29 13 0.13
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (24 bp):
TAAAAATATATACATAATATAGTG
Found at i:18499182 original size:29 final size:29
Alignment explanation
Indices: 18499142--18499208 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
18499132 TATAATTAAA
*
18499142 ATATATACATAAGATAACATGTAAA-ATAT
1 ATATATAAATAAGATAACAT-TAAAGATAT
* **
18499171 ATATATAAATAATATAGTATTAAAGATAT
1 ATATATAAATAAGATAACATTAAAGATAT
*
18499200 ATACATAAA
1 ATATATAAA
18499209 ATAGTATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (29 bp):
ATATATAAATAAGATAACATTAAAGATAT
Found at i:18499300 original size:21 final size:23
Alignment explanation
Indices: 18499241--18499300 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
18499231 TATAGAATTT
**
18499241 AGAATATACCTAAT-ATATTAAA
1 AGAATATATATAATAATATTAAA
*
18499263 AGAATATATATATATAATATTAAG
1 AGAATATATATA-ATAATATTAAA
18499287 A-AATATA-ATAATAA
1 AGAATATATATAATAA
18499301 CAAAAAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 4 0.12
22 13 0.39
23 8 0.24
24 8 0.24
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.33
Consensus pattern (23 bp):
AGAATATATATAATAATATTAAA
Found at i:18499806 original size:18 final size:18
Alignment explanation
Indices: 18499783--18499836 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
18499773 ACAAGTGGTG
18499783 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
18499801 GT-G-G--AGT-TGG-T-
1 GTGGAGCAAGTGTGGCTA
18499812 GATGGAGCAAGTGTGGCTA
1 G-TGGAGCAAGTGTGGCTA
18499831 GTGGAG
1 GTGGAG
18499837 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 16
0.64 0.00 0.36
Matches are distributed among these distances:
11 1 0.04
12 2 0.07
13 4 0.14
14 4 0.14
16 4 0.14
17 4 0.14
18 8 0.29
19 1 0.04
ACGTcount: A:0.20, C:0.07, G:0.48, T:0.24
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:18499818 original size:30 final size:30
Alignment explanation
Indices: 18499778--18499842 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
18499768 TAGGTACAAG
*
18499778 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGATGGAGCAAGTGTGGCTAGTGGAGT
18499808 TGGTGATGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGATGGAGCAAGTGTGGCTAGTGGAGT
18499838 TGGTG
1 TGGTG
18499843 GTGGCAAAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.17, C:0.06, G:0.49, T:0.28
Consensus pattern (30 bp):
TGGTGATGGAGCAAGTGTGGCTAGTGGAGT
Found at i:18500785 original size:88 final size:88
Alignment explanation
Indices: 18500500--18500794 Score: 309
Period size: 88 Copynumber: 3.4 Consensus size: 88
18500490 GTGATCCTGA
* * **
18500500 GCTCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAAC-TAGACATT--AAAAACAGAAATT
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTCTTTAAAACATA-A-ATTGAAAAAACATTAATT
* * *
18500562 GAAAATAGCTCAGCACGTGAGCCAAG
64 GAAAATACCTCAG-ACGTGACCCGAG
* * * *
18500588 GCTTAACTCACTTCTCGCAATATGAGTTGATT-TTTAAAACA-AAATTTGTAAAACAGATT--TT
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTCTTTAAAACATAAA-TTG-AAAAAACATTAATT
* *
18500649 GAAAATACCTCGGTATGTGACCCGAG
64 GAAAATACCTCAG-ACGTGACCCGAG
* *
18500675 GCTCAACTCATTTCTCGTAATATGAGTTGATTCTTGAAAAGCATAAATTGAAAAAACATTAATTG
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTCTTTAAAA-CATAAATTGAAAAAACATTAATTG
*
18500740 AAAATACCTCAG-CGTGCCCCGAG
65 AAAATACCTCAGACGTGACCCGAG
* *
18500763 ACTCAACTCATTTCTCACAATATGAGTTGATT
1 GCTCAACTCATTTCTCGCAATATGAGTTGATT
18500795 TTTTGATGAA
Statistics
Matches: 171, Mismatches: 26, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
85 1 0.01
86 3 0.02
87 60 0.35
88 80 0.47
89 10 0.06
90 17 0.10
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.29
Consensus pattern (88 bp):
GCTCAACTCATTTCTCGCAATATGAGTTGATTCTTTAAAACATAAATTGAAAAAACATTAATTGA
AAATACCTCAGACGTGACCCGAG
Found at i:18500791 original size:175 final size:174
Alignment explanation
Indices: 18500482--18500797 Score: 406
Period size: 175 Copynumber: 1.8 Consensus size: 174
18500472 TGATTCTTTA
* *
18500482 CTCGGCATGTGATCCTGAGCTCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAACTAGACA
1 CTCGGCATGTGATCCCGAGCTCAACTCATTTCTCGCAATATGAATTGACTCTTGAAAACTAGACA
* * * * *
18500547 TTAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTTAACTCACTTCTCGCAATATG
66 TTAAAAACAGAAATTGAAAATACCTCAG-ACGTGACCCAAGACTCAACTCACTTCTCACAATATG
18500612 AGTTGATTTTTAAAACAAAATTTGTAAAACAGATTTTGAAAATAC
130 AGTTGATTTTTAAAACAAAATTTGTAAAACAGATTTTGAAAATAC
* * * *
18500657 CTCGGTATGTGA-CCCGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTCTTGAAAAGCATA-
1 CTCGGCATGTGATCCCGA-GCTCAACTCATTTCTCGCAATATGAATTGACTCTTGAAAA-C-TAG
** * * *
18500720 A-ATTGAAAAAACATTAATTGAAAATACCTCAG-CGTGCCCCGAGACTCAACTCATTTCTCACAA
63 ACATT--AAAAACAGAAATTGAAAATACCTCAGACGTGACCCAAGACTCAACTCACTTCTCACAA
18500783 TATGAGTTGATTTTT
126 TATGAGTTGATTTTT
18500798 TGATGAACAG
Statistics
Matches: 120, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
174 4 0.03
175 89 0.74
176 2 0.02
177 25 0.21
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.30
Consensus pattern (174 bp):
CTCGGCATGTGATCCCGAGCTCAACTCATTTCTCGCAATATGAATTGACTCTTGAAAACTAGACA
TTAAAAACAGAAATTGAAAATACCTCAGACGTGACCCAAGACTCAACTCACTTCTCACAATATGA
GTTGATTTTTAAAACAAAATTTGTAAAACAGATTTTGAAAATAC
Found at i:18501170 original size:84 final size:83
Alignment explanation
Indices: 18501033--18501360 Score: 304
Period size: 77 Copynumber: 4.0 Consensus size: 83
18501023 TTTGAAAAAC
* * *
18501033 AGAAATTGAAAACACCTC-A-GCAT-GTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
1 AGAAATTGAAAAAACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
18501094 TTGAAAAACATAAATTGA
66 TTGAAAAACATAAATTGA
* *
18501112 GCAGAAATTGAAAAAACCTCAACGGGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATT
1 --AGAAATTGAAAAAACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
*
18501177 TTTTTG--ATA-A-AAA-T--
63 TTTTTGAAAAACATAAATTGA
* * * * * *
18501191 AGAATTTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAAAAACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
18501256 TTGAATTAAAACAGAAATTGAAAA
66 TTG-A--AAAACATAAATTG---A
* * * *
18501280 TAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
1 -AGAAATTGAAAAAACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
*
18501343 TTTTGAAACACATAAATT
64 TTTTGAAAAACATAAATT
18501361 AAAAAAAAAG
Statistics
Matches: 202, Mismatches: 25, Indels: 35
0.77 0.10 0.13
Matches are distributed among these distances:
76 7 0.03
77 54 0.27
81 20 0.10
82 5 0.02
83 6 0.03
84 36 0.18
86 16 0.08
88 37 0.18
89 7 0.03
90 14 0.07
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (83 bp):
AGAAATTGAAAAAACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TTGAAAAACATAAATTGA
Found at i:18501280 original size:77 final size:74
Alignment explanation
Indices: 18500726--18501281 Score: 577
Period size: 77 Copynumber: 7.3 Consensus size: 74
18500716 CATAAATTGA
** * * * ** *
18500726 AAAAACATTAATTGAAAATACCTCAGCGTGCCCCGAGACTCAACTCATTTCTCACAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
18500791 GATTTTTTG
66 GATTTTTTG
** ** * *
18500800 ATGAACAGAAATT-AAAACTACCTCAATGTGTCCTGAGGCTCAACTCACCTCTTGCAACATGAGT
1 AAAAACAGAAATTGAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
18500864 TGATTTTTTTG
65 TGA-TTTTTTG
* * * *
18500875 AAAAACAGAAGTTGAAAACACCTCAACGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAG
18500940 TTGATTTTTTTG
64 TTGA-TTTTTTG
*
18500952 ACAAACAGAAATTGAAAATACCTCAGCGTGTAAGCC--AGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGCGTGT---CCTGAGGCTCAACTCACCTCTCGCAATATGA
18501015 GTTGATTTTTTG
63 GTTGATTTTTTG
* *
18501027 AAAAACAGAAATTGAAAACACCTCAGCATG---TGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
18501089 GA-TTTTTG
66 GATTTTTTG
* * * * *
18501097 AAAAACATAAATTGAGCAGAAATTGAAAAAACCTCAACGGGTCTTGAGGCTCAACTCACCTCTTG
1 ------A-AAA---A-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
18501162 CAATATGAGTTGATTTTTTTG
55 CAATATGAGTTGA-TTTTTTG
* * *
18501183 ATAAAAATAGAATTTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 --AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
18501248 TTGATTTTTTG
64 TTGATTTTTTG
18501259 AATTAAAACAGAAATTGAAAATA
1 -A--AAAACAGAAATTGAAAATA
18501282 GAAATGGAAA
Statistics
Matches: 408, Mismatches: 48, Indels: 49
0.81 0.10 0.10
Matches are distributed among these distances:
70 6 0.01
71 32 0.08
73 4 0.01
74 48 0.12
75 63 0.15
76 44 0.11
77 142 0.35
78 3 0.01
80 1 0.00
81 24 0.06
82 2 0.00
84 33 0.08
86 6 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (74 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTG
Found at i:18501335 original size:165 final size:157
Alignment explanation
Indices: 18500801--18501350 Score: 535
Period size: 165 Copynumber: 3.5 Consensus size: 157
18500791 GATTTTTTGA
* * * * * * *
18500801 TGAACAGAAAT-TAAAACTACCTCAATGTGTCCTGAGGCTCAACTCACCTCTTGCAACATGAGTT
1 TGAACAGAAATGGAAAA-AACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
18500865 GATTTTTTTG-AAAAACAGAAGTTGAAAACACCTCAACGTGTGACCCGAGGCTCAACTCACCTCT
65 GATTTTTTTGAAAAAACAGAAATTGAAAACACCTCAGCATGT-----GAGGCTCAACTCACCTCT
*
18500929 CGCAATATGAGTTGATTTTTTTGACAAACAGAAAT
125 CGCAATATGAGTTGA--TTTTTGAAAAACAGAAAT
* *
18500964 TG---A-AAAT-------ACCTC-A-GCGTGTAAGCCAGGCTCAACTCACCTCTCGCAATATGAG
1 TGAACAGAAATGGAAAAAACCTCAACGCGTCT-TG--AGGCTCAACTCACCTCTCGCAATATGAG
18501016 TTGA-TTTTTTG-AAAAACAGAAATTGAAAACACCTCAGCATGTGAGGCTCAACTCACCTCTCGC
63 TTGATTTTTTTGAAAAAACAGAAATTGAAAACACCTCAGCATGTGAGGCTCAACTCACCTCTCGC
*
18501079 AATATGAGTTGATTTTTGAAAAACATAAAT
128 AATATGAGTTGATTTTTGAAAAACAGAAAT
* * * *
18501109 TGAGCAGAAATTGAAAAAACCTCAACGGGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTG
1 TGAACAGAAATGGAAAAAACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * * * *
18501174 ATTTTTTTGATAAAAATAGAATTTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
66 ATTTTTTTGA-AAAAACAGAAATTGAAAACACCTCAGCATG---TGAGGCTCAACTCACCTCTCG
18501239 CAATATGAGTTGATTTTTTGAATTAAAACAGAAAT
127 CAATATGAGTTGA-TTTTTG-A--AAAACAGAAAT
* * * *
18501274 TGAAAATAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGC
1 TG--AACAGAAATGGAAAAAACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
18501337 TGATTTTTTTGAAA
64 TGATTTTTTTGAAA
18501351 CACATAAATT
Statistics
Matches: 330, Mismatches: 29, Indels: 55
0.80 0.07 0.13
Matches are distributed among these distances:
145 18 0.05
147 33 0.10
148 1 0.00
149 4 0.01
150 3 0.01
151 2 0.01
152 40 0.12
153 30 0.09
155 31 0.09
156 12 0.04
157 2 0.01
158 29 0.09
159 4 0.01
160 1 0.00
161 34 0.10
162 6 0.02
163 3 0.01
164 2 0.01
165 57 0.17
166 1 0.00
167 17 0.05
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (157 bp):
TGAACAGAAATGGAAAAAACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTGAAAAAACAGAAATTGAAAACACCTCAGCATGTGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGATTTTTGAAAAACAGAAAT
Found at i:18501381 original size:88 final size:87
Alignment explanation
Indices: 18501218--18501382 Score: 208
Period size: 88 Copynumber: 1.9 Consensus size: 87
18501208 CAGCGTGTCC
* * *
18501218 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAATTAAAACAGAAATTGAAAATAG
1 TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTGAA-TAAAACAGAAATTAAAAAAAG
*
18501283 AAATGGAAAACACCTCAGCGTCT
65 AAATGAAAAACACCTCAGCGTCT
* * *
18501306 TGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTG-A-AACACATAAATTAAAAAAAA
1 TGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTTGAATAAAACAGAAATT--AAAAAA
*
18501369 AGAAATTAAAAACA
63 AGAAATGAAAAACA
18501383 GAATTTGAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
86 10 0.15
88 49 0.74
89 7 0.11
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (87 bp):
TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTGAATAAAACAGAAATTAAAAAAAGA
AATGAAAAACACCTCAGCGTCT
Found at i:18501512 original size:75 final size:74
Alignment explanation
Indices: 18501409--18501672 Score: 329
Period size: 76 Copynumber: 3.6 Consensus size: 74
18501399 CGACGTGTGG
* *
18501409 CCCGAGACTCAACTTACCTCTCGCAATATGAGTTGATTCTTTTGA-AAAGCAAAAATTGAAAATA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTGACAAA-CAAAAATTGAAAATA
18501473 CCTCAGCGTGT
64 CCTCAGCGTGT
* * * * * *
18501484 CCCGAGGCTCAATTCACCTTTTGCAATATGAGTTGATTTTTTGATACAAATAGAATTTGAAAATA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG--ACAAACAAAAATTGAAAATA
*
18501549 TCTCAGCGTGT
64 CCTCAGCGTGT
* *
18501560 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAAAAATTGAAATTACC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAAAAATTGAAAATACC
18501624 TCAGC--GT
66 TCAGCGTGT
** * *
18501631 CTTGAGGCTCAACTCACTTCTCGCAAAATGAGTTGATTTTTT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
18501673 TTAAACATAA
Statistics
Matches: 164, Mismatches: 21, Indels: 11
0.84 0.11 0.06
Matches are distributed among these distances:
71 35 0.21
72 5 0.03
73 22 0.13
74 5 0.03
75 39 0.24
76 55 0.34
77 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (74 bp):
CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAAAAATTGAAAATACC
TCAGCGTGT
Found at i:18501896 original size:14 final size:13
Alignment explanation
Indices: 18501861--18501905 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
18501851 TTGATTTTTG
18501861 AAAAACAGAAATT
1 AAAAACAGAAATT
*
18501874 AAAAGCAGAAATT
1 AAAAACAGAAATT
18501887 GAAAAACAGAAATT
1 -AAAAACAGAAATT
18501901 AAAAA
1 AAAAA
18501906 TACCTCGGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:18501917 original size:100 final size:101
Alignment explanation
Indices: 18501689--18501964 Score: 396
Period size: 100 Copynumber: 2.8 Consensus size: 101
18501679 ATAAATTAAA
* * *
18501689 AAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * *
18501754 GA--TTTGAAAAGCAGAATTTGTAAGGAAAAAATTG
66 GATTTTTGAAAAACAGAAATTGAAAAGAAAAAATTG
* *
18501788 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTTGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
18501853 GATTTTTGAAAAACAGAAATT-AAAAGCAGAAATTG
66 GATTTTTGAAAAACAGAAATTGAAAAGAAAAAATTG
* * * *
18501888 AAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
18501953 GATTTTTGAAAA
66 GATTTTTGAAAA
18501965 GCATAAATCA
Statistics
Matches: 158, Mismatches: 17, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
99 62 0.39
100 81 0.51
101 15 0.09
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (101 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAACAGAAATTGAAAAGAAAAAATTG
Found at i:18502075 original size:75 final size:74
Alignment explanation
Indices: 18501885--18502333 Score: 562
Period size: 75 Copynumber: 6.0 Consensus size: 74
18501875 AAAGCAGAAA
* ** * ** *
18501885 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAGACAGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
18501950 GTTGA-TTT
66 GTTGATTTT
* * * * *
18501958 TTGAAA-AGCATAAATCAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAGA-CAGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
18502022 AGTTGATTATT
65 AGTTGATT-TT
* * *
18502033 TTGAAAGACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAGACAGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
18502098 GTTGATTTT
66 GTTGATTTT
* * *
18502107 TTGAAAGACAGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGA
1 TTGAAAGACAGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
18502172 GTTGAATTTTT
66 GTTG-A-TTTT
* * * *
18502183 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGA
1 TTGAAAGACAGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
18502248 GTTGA-TTT
66 GTTGATTTT
* * * ** *
18502256 TTGAAAGGCAGAAATTGAAAATACCTCAACATGTCAGTCAAAGCTCAACTCACCTCTCGCAATAT
1 TTGAAAGACAGAAATTAAAAATACCTCAACGTGTC--TTGAGGCTCAACTCACCTCTCGCAATAT
*
18502321 GAGCTGATTTT
64 GAGTTGATTTT
18502332 TT
1 TT
18502334 TGAACCGTAA
Statistics
Matches: 340, Mismatches: 27, Indels: 15
0.89 0.07 0.04
Matches are distributed among these distances:
72 1 0.00
73 97 0.29
74 66 0.19
75 98 0.29
76 78 0.23
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.30
Consensus pattern (74 bp):
TTGAAAGACAGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTT
Found at i:18502280 original size:149 final size:148
Alignment explanation
Indices: 18501885--18502337 Score: 609
Period size: 149 Copynumber: 3.0 Consensus size: 148
18501875 AAAGCAGAAA
* * * * ** *
18501885 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * * * * *
18501950 GTTGATTTTTGAAAAGCATAAATCAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
66 GTTGATTTTTGAAAGGCAGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
*
18502015 CAATATGAGTTGATTATT
131 CAATATGAGTTGATTTTT
*
18502033 TTGAAAGACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
18502098 GTTGATTTTTTGAAAGACAGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTT
66 GTTGA-TTTTTGAAAGGCAGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
*
18502163 GCAGTATGAGTTGAATTTTT
130 GCAATATGAGTTG-ATTTTT
* * * *
18502183 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGA
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * ** *
18502248 GTTGATTTTTGAAAGGCAGAAATTGAAAATACCTCAACATGTCAGTCAAAGCTCAACTCACCTCT
66 GTTGATTTTTGAAAGGCAGAAATTAAAAATACCTCAACGTGTC--TTGAGGCTCAACTCACCTCT
*
18502313 CGCAATATGAGCTGATTTTT
129 CGCAATATGAGTTGATTTTT
18502333 TTGAA
1 TTGAA
18502338 CCGTAAAAAT
Statistics
Matches: 267, Mismatches: 34, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
148 62 0.23
149 97 0.36
150 81 0.30
151 27 0.10
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.30
Consensus pattern (148 bp):
TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAGGCAGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTT
Found at i:18514318 original size:16 final size:15
Alignment explanation
Indices: 18514292--18514326 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
18514282 TGATGTGAAT
18514292 AATATAAAATATTAA
1 AATATAAAATATTAA
*
18514307 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
18514323 AATA
1 AATA
18514327 ATAATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:18514525 original size:25 final size:25
Alignment explanation
Indices: 18514489--18514610 Score: 97
Period size: 25 Copynumber: 4.8 Consensus size: 25
18514479 TGATAATATT
*
18514489 AAAATATGTACATAATATAGTGTAA
1 AAAATATATACATAATATAGTGTAA
* *
18514514 AAAATACATACATAATATAAT-T--
1 AAAATATATACATAATATAGTGTAA
* *
18514536 AAAATATATACATAAGATAACATGTAA
1 AAAATATATACATAATAT-A-GTGTAA
* * *
18514563 AATATATATATAAATAATATAGTATTA
1 AA-A-ATATATACATAATATAGTGTAA
* *
18514590 AAGATATATACATAAAATAGT
1 AAAATATATACATAATATAGT
18514611 ATAATTTATA
Statistics
Matches: 77, Mismatches: 13, Indels: 14
0.74 0.12 0.13
Matches are distributed among these distances:
22 16 0.21
23 1 0.01
24 3 0.04
25 35 0.45
27 7 0.09
28 2 0.03
29 13 0.17
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (25 bp):
AAAATATATACATAATATAGTGTAA
Found at i:18514546 original size:22 final size:22
Alignment explanation
Indices: 18514449--18514580 Score: 85
Period size: 25 Copynumber: 5.9 Consensus size: 22
18514439 AATACTACAT
*
18514449 AAATATGTACAT-ATATAA--A
1 AAATATATACATAATATAATTA
* * *
18514468 AAATAAATACGTGATA-ATATTA
1 AAATATATACATAATATA-ATTA
* *
18514490 AAATATGTACATAATATAGTGTAAA
1 AAATATATACATAATATAAT-T--A
*
18514515 AAATACATACATAATATAATTA
1 AAATATATACATAATATAATTA
*
18514537 AAATATATACATAAGATAACATGTA
1 AAATATATACATAATAT-A-AT-TA
*
18514562 AAATATATATATAA-ATAAT
1 AAATATATACATAATATAAT
18514581 ATAGTATTAA
Statistics
Matches: 88, Mismatches: 14, Indels: 19
0.73 0.12 0.16
Matches are distributed among these distances:
19 10 0.11
20 4 0.05
22 32 0.36
23 4 0.05
24 5 0.06
25 33 0.38
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.32
Consensus pattern (22 bp):
AAATATATACATAATATAATTA
Found at i:18514579 original size:29 final size:29
Alignment explanation
Indices: 18514539--18514605 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
18514529 TATAATTAAA
*
18514539 ATATATACATAAGATAACATGTAAA-ATAT
1 ATATATAAATAAGATAACAT-TAAAGATAT
* **
18514568 ATATATAAATAATATAGTATTAAAGATAT
1 ATATATAAATAAGATAACATTAAAGATAT
*
18514597 ATACATAAA
1 ATATATAAA
18514606 ATAGTATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (29 bp):
ATATATAAATAAGATAACATTAAAGATAT
Found at i:18514655 original size:23 final size:24
Alignment explanation
Indices: 18514568--18514658 Score: 67
Period size: 27 Copynumber: 3.7 Consensus size: 24
18514558 TGTAAAATAT
** * *
18514568 ATATATAAATAATATAGTATTAAAG
1 ATATATACCTAATATAGAATT-TAG
* * *
18514593 ATATATACATAAAATAGTATAATTTAT
1 ATATATACCT--AATA-TAGAATTTAG
*
18514620 ATATATACGTAATATAGAATTTAG
1 ATATATACCTAATATAGAATTTAG
18514644 A-ATATACCTAATATA
1 ATATATACCTAATATA
18514659 TTAAAAGAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
23 13 0.24
24 9 0.17
25 13 0.24
27 14 0.26
28 5 0.09
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (24 bp):
ATATATACCTAATATAGAATTTAG
Found at i:18514679 original size:24 final size:23
Alignment explanation
Indices: 18514652--18514703 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
18514642 AGAATATACC
*
18514652 TAATATATTA-AAAGAATATATATA
1 TAATATAATATAAAGAA-ATATA-A
*
18514676 TAATATAATATTAAGAAATATAA
1 TAATATAATATAAAGAAATATAA
18514699 TAATA
1 TAATA
18514704 ACAAAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
TAATATAATATAAAGAAATATAA
Found at i:18515475 original size:4 final size:4
Alignment explanation
Indices: 18515464--18515494 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
18515454 AGAGAGAGTT
18515464 TAAA -AAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
18515495 GAGTGAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
TAAA
Found at i:18524686 original size:44 final size:44
Alignment explanation
Indices: 18524575--18524843 Score: 173
Period size: 44 Copynumber: 5.9 Consensus size: 44
18524565 ATAATTTGTA
** * * *
18524575 GCTTCAATCTATTCCACTGCAAGTTCAGGGAA-ATAAGATTCGTTG
1 GCTTCAATCTGCTCCACTGCAACTTCA-GGAAGATAAGACT-GGTG
* * * * * *
18524620 TCCTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGTG
* * * *
18524664 GCTTCAATCTGCTCCACTGCAACTTTAGAAAGATAAAATCTGCCATAATTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA-CTG---------GTG
* * * * *
18524718 ACTTCAATTTGTTCCACTACAACTTCAGGGAA-ATAAGATTGGTG
1 GCTTCAATCTGCTCCACTGCAACTTCA-GGAAGATAAGACTGGTG
* * * * *
18524762 GCTTCAGTCTGCTTCGCTGCAACTTTAGGAAGATAAGGCTGGTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGTG
*
18524806 GCTTCAATCTGCTTCACTGCAACTTCAGGAAGATAAGA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA
18524844 TTCGCCATAA
Statistics
Matches: 167, Mismatches: 44, Indels: 27
0.70 0.18 0.11
Matches are distributed among these distances:
43 4 0.02
44 100 0.60
45 29 0.17
53 2 0.01
54 29 0.17
55 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (44 bp):
GCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGTG
Found at i:18524828 original size:142 final size:143
Alignment explanation
Indices: 18524496--18524898 Score: 576
Period size: 142 Copynumber: 2.8 Consensus size: 143
18524486 TACTCCACTA
* * * *
18524496 CAACTTCAGAAAGATAAGGCTAGTGGCTTCAATCCGCTCCACTACAACTTCAGGAAGATAAGATC
1 CAACTTCAGGAAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATC
* * * * *
18524561 CGCCATAATTTGTAGCTTCAATCTATTCCACTGCAAGTTCAGGGAAATAAGATTCGTTGTCCTCA
66 TGCCATAATTTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGGTGGCCTCA
18524626 GTCTGCTCCGCTG
131 GTCTGCTCCGCTG
* * * *
18524639 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTTAGAAAGATAAAATC
1 CAACTTCAGGAAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATC
* * * *
18524704 TGCCATAATTTGTAACTTCAATTTGTTCCACTACAACTTCAGGGAAATAAGATT-GGTGGCTTCA
66 TGCCATAATTTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGGTGGCCTCA
*
18524768 GTCTGCTTCGCTG
131 GTCTGCTCCGCTG
* *
18524781 CAACTTTAGGAAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAACTTCAGGAAGATAAGAT-
1 CAACTTCAGGAAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATC
* * *
18524845 TCGCCATAATTTGTAGCTTCAATCTGTTCTACTGTAACGTCAGGGAAATAAGAT
66 T-GCCATAATTTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGAT
18524899 CCGCTATCTT
Statistics
Matches: 229, Mismatches: 30, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
141 1 0.00
142 123 0.54
143 105 0.46
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (143 bp):
CAACTTCAGGAAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATC
TGCCATAATTTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGGTGGCCTCA
GTCTGCTCCGCTG
Found at i:18525243 original size:179 final size:179
Alignment explanation
Indices: 18524968--18525433 Score: 661
Period size: 179 Copynumber: 2.6 Consensus size: 179
18524958 TACTCCACTG
* * * * * ** *
18524968 TAATTTCAAGGAGAAGAGGTTAT-TAGCTTTGATATACTCTGCTGGAACTTCAAAAAGGTAAAAA
1 TAATTTCAAGGAGAAGAGATT-TGTAGCTTCGATCTACTCCGCTAGAACTTCAAGGAGGTAAGAA
* *
18525032 TTGGTAATTTCAACCTGCTCAACTACAACTTCA-AGGAGATAAGGTTTGTGTATTTTTATCTTGC
65 TTGGTAATTTCAACCTGCTCAACTGCAACTTCAGA-GAGATAAGGTTTGTGTATTTTTATCCTGC
* * *
18525096 TCTACTGCAACTTTAGAGAGATAAGGATTGTGGCTTCGATCTGCTCCAATG
129 TCTACTGCAACTTTAGAGAGATAAAGATTATGGCTTCGATCTGCTCCAATA
* * * * *
18525147 TAATTTCAGGGAGAAGAGATTTGT-GTCTTCGATCTATTCCG-TTGAAACTTTAAGGATGTAAGA
1 TAATTTCAAGGAGAAGAGATTTGTAG-CTTCGATCTACTCCGCTAG-AACTTCAAGGAGGTAAGA
* * *
18525210 ATTGATAATTTCAACCTGCTCCATTGCAACTTCAGAGAGATAAGGTTTGTGTATTTTTATCCTGC
64 ATTGGTAATTTCAACCTGCTCAACTGCAACTTCAGAGAGATAAGGTTTGTGTATTTTTATCCTGC
18525275 TCTACTGCAACTTTAGAGAGATAAAGATTATGGCTTCGATCTGCTCCAATA
129 TCTACTGCAACTTTAGAGAGATAAAGATTATGGCTTCGATCTGCTCCAATA
*
18525326 TAATTTTAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTAGAACTTCAAGGAGGTAAGAAT
1 TAATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTAGAACTTCAAGGAGGTAAGAAT
*
18525391 TGGTAATTTCAACCTGCTCTACTGCAACTTCAGAGAGATAAGG
66 TGGTAATTTCAACCTGCTCAACTGCAACTTCAGAGAGATAAGG
18525434 CTGGTGGTTT
Statistics
Matches: 252, Mismatches: 29, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
178 4 0.02
179 244 0.97
180 4 0.02
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (179 bp):
TAATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTAGAACTTCAAGGAGGTAAGAAT
TGGTAATTTCAACCTGCTCAACTGCAACTTCAGAGAGATAAGGTTTGTGTATTTTTATCCTGCTC
TACTGCAACTTTAGAGAGATAAAGATTATGGCTTCGATCTGCTCCAATA
Found at i:18526082 original size:46 final size:46
Alignment explanation
Indices: 18526021--18526214 Score: 185
Period size: 46 Copynumber: 4.2 Consensus size: 46
18526011 AATTTATGGT
* *
18526021 TTCTTCCAA-CCATCCCATTGCAACTCAAGGGTATAGGATTTGTACC
1 TTCTT-CAATCCATCCCACTGCAACTCAAGGGTATAGGATTTGTATC
* * * * *
18526067 ATCTTCAATACATCCCACTGTAACT-TAGAGGTATAAGATTTGTATC
1 TTCTTCAATCCATCCCACTGCAACTCAAG-GGTATAGGATTTGTATC
* ** * * *
18526113 TTCTTCAATCCATCCCATTGCAGTTTAGGGGTACAGGATTTGTATC
1 TTCTTCAATCCATCCCACTGCAACTCAAGGGTATAGGATTTGTATC
* * * * **
18526159 TTTTTCAATCCATCCTACTACAACTCAGGGGTATAGGATTTGTGGC
1 TTCTTCAATCCATCCCACTGCAACTCAAGGGTATAGGATTTGTATC
18526205 TTCTTCAATC
1 TTCTTCAATC
18526215 AATTTGATCT
Statistics
Matches: 117, Mismatches: 28, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
45 5 0.04
46 111 0.95
47 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (46 bp):
TTCTTCAATCCATCCCACTGCAACTCAAGGGTATAGGATTTGTATC
Found at i:18526192 original size:92 final size:92
Alignment explanation
Indices: 18526021--18526214 Score: 219
Period size: 92 Copynumber: 2.1 Consensus size: 92
18526011 AATTTATGGT
*
18526021 TTCTTCCAA-CCATCCCATTGCAACTCAAGGGTATAGGATTTGTACCATCTTCAATACATCCCAC
1 TTCTT-CAATCCATCCCATTGCAACTCAAGGGTACAGGATTTGTACCATCTTCAATACATCCCAC
** * *
18526085 TGTAACTTAGAGGTATAAGATTTGTATC
65 TACAACTCAGAGGTATAAGATTTGTAGC
** * * * * * * *
18526113 TTCTTCAATCCATCCCATTGCAGTTTAGGGGTACAGGATTTGTATCTTTTTCAATCCATCCTACT
1 TTCTTCAATCCATCCCATTGCAACTCAAGGGTACAGGATTTGTACCATCTTCAATACATCCCACT
* * *
18526178 ACAACTCAGGGGTATAGGATTTGTGGC
66 ACAACTCAGAGGTATAAGATTTGTAGC
18526205 TTCTTCAATC
1 TTCTTCAATC
18526215 AATTTGATCT
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
91 3 0.04
92 81 0.96
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (92 bp):
TTCTTCAATCCATCCCATTGCAACTCAAGGGTACAGGATTTGTACCATCTTCAATACATCCCACT
ACAACTCAGAGGTATAAGATTTGTAGC
Found at i:18528365 original size:206 final size:207
Alignment explanation
Indices: 18527767--18528461 Score: 1085
Period size: 206 Copynumber: 3.4 Consensus size: 207
18527757 GAGAACATCC
* * * *
18527767 GAAAGTCAAATCTGCTATGTCTTCGATTTGTCCCTTGTAAACACAAGAATGCCAAATCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGG
*
18527832 ATC-TGCTTCAGTATAAACATCTAAAGGTTAGATCTGCTATGTGTCTGCTCTT-CGTCGAA-ATG
66 ATCTTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTG-TCTTCCGTCGAATATG
* *
18527894 GAGACGCCAAACTTCAATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGATTTGCTTC
130 GAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTC
18527959 ATCGTAAGCACGT
195 ATCGTAAGCACGT
* *
18527972 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTCGTAAGCACAAGGATGCCAAATCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGG
* * *
18528037 ATCTTACTTCAGTATAAACATCTGAAGGTTAGATCTGCAATGTGTCTG-CACTCCGTCGAATATG
66 ATCTTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGTC-TTCCGTCGAATATG
* *
18528101 GAGACGCTAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATTTTAGATTTGCTTC
130 GAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTC
*
18528166 ATCGTAAGCACAT
195 ATCGTAAGCACGT
* * *
18528179 GAAAGCCGAATCAGCTATGTCTTCGATTTATTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGG
* *
18528244 ATC-TGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGTCTTCCGTCGAATATGG
66 ATCTTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGTCTTCCGTCGAATATGG
* * * ** *
18528308 AGACGCCGAACTTTGATCTACTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTA
131 AGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCA
18528373 TCGTAAGCACGT
196 TCGTAAGCACGT
* *
18528385 GAAAGCCAAATCAGCTATGTCTTCGATTTCTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGG
18528450 ATCTTGCTTCAG
66 ATCTTGCTTCAG
18528462 CCAGATCTGC
Statistics
Matches: 446, Mismatches: 38, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
204 1 0.00
205 63 0.14
206 234 0.52
207 148 0.33
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (207 bp):
GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGG
ATCTTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGTCTTCCGTCGAATATGG
AGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCA
TCGTAAGCACGT
Found at i:18540545 original size:18 final size:17
Alignment explanation
Indices: 18540524--18540585 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 17
18540514 TTACAAATAA
18540524 AATATATACAAATCATAT
1 AATATATA-AAATCATAT
* **
18540542 AATAAATAATAAAAATAT
1 AATATATAA-AATCATAT
18540560 -ATATAATAAAATCTATAT
1 AATAT-ATAAAATC-ATAT
18540578 AATATATA
1 AATATATA
18540586 TAAGAAAGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
17 6 0.18
18 24 0.71
19 4 0.12
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (17 bp):
AATATATAAAATCATAT
Found at i:18540576 original size:14 final size:14
Alignment explanation
Indices: 18540519--18540581 Score: 54
Period size: 15 Copynumber: 4.3 Consensus size: 14
18540509 ATAATTTACA
*
18540519 AATAAAATATATACA
1 AATAAAATATATA-T
* * *
18540534 AATCATATAATAAAT
1 AATAAAAT-ATATAT
18540549 AATAAAAATATATAT
1 AAT-AAAATATATAT
*
18540564 AATAAAATCTATAT
1 AATAAAATATATAT
18540578 AATA
1 AATA
18540582 TATATAAGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
14 14 0.37
15 17 0.45
16 7 0.18
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (14 bp):
AATAAAATATATAT
Found at i:18540671 original size:20 final size:18
Alignment explanation
Indices: 18540645--18540698 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 18
18540635 AAAATGCATC
*
18540645 AATAAAATATAATGAAAT
1 AATAAAATATAATAAAAT
18540663 ACGATAAAA-ATATATAAAAT
1 A--ATAAAATATA-ATAAAAT
18540683 AATAATAATATAATAA
1 AATAA-AATATAATAA
18540699 GTATTTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
18 5 0.17
19 9 0.30
20 16 0.53
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (18 bp):
AATAAAATATAATAAAAT
Found at i:18540672 original size:21 final size:19
Alignment explanation
Indices: 18540648--18540698 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
18540638 ATGCATCAAT
*
18540648 AAAATATAATGAAATACGATA
1 AAAATATAATAAAATA--ATA
18540669 AAAATAT-ATAAAATAATA
1 AAAATATAATAAAATAATA
*
18540687 ATAATATAATAA
1 AAAATATAATAA
18540699 GTATTTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 9 0.33
19 4 0.15
20 7 0.26
21 7 0.26
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (19 bp):
AAAATATAATAAAATAATA
Found at i:18540728 original size:16 final size:16
Alignment explanation
Indices: 18540707--18540768 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
18540697 AAGTATTTTT
18540707 ATATAAAAATATAGTA
1 ATATAAAAATATAGTA
*
18540723 ATATAAATAATATA-AA
1 ATATAAA-AATATAGTA
**
18540739 ATATATACCATATAGTA
1 ATATA-AAAATATAGTA
* *
18540756 AAATATAAATATA
1 ATATAAAAATATA
18540769 ACAGAATGGA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
16 23 0.66
17 12 0.34
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (16 bp):
ATATAAAAATATAGTA
Found at i:18542156 original size:5 final size:5
Alignment explanation
Indices: 18542146--18542221 Score: 79
Period size: 5 Copynumber: 16.0 Consensus size: 5
18542136 CACGATCTTT
* * *
18542146 TTTTG TTTTG TTTTG TTTTG CTTTG CTTTG --TTG TTTTT TTTTG TTTTG
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG
* *
18542194 TTTTG CTTTG --TTG TTTTT TTTTG TTTTG
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG
18542222 CTGCCTCTGC
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
3 6 0.10
5 55 0.90
ACGTcount: A:0.00, C:0.04, G:0.18, T:0.78
Consensus pattern (5 bp):
TTTTG
Found at i:18542181 original size:28 final size:28
Alignment explanation
Indices: 18542148--18542223 Score: 134
Period size: 28 Copynumber: 2.7 Consensus size: 28
18542138 CGATCTTTTT
*
18542148 TTGTTTTGTTTTGTTTTGCTTTGCTTTG
1 TTGTTTTTTTTTGTTTTGCTTTGCTTTG
*
18542176 TTGTTTTTTTTTGTTTTGTTTTGCTTTG
1 TTGTTTTTTTTTGTTTTGCTTTGCTTTG
18542204 TTGTTTTTTTTTGTTTTGCT
1 TTGTTTTTTTTTGTTTTGCT
18542224 GCCTCTGCTG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.00, C:0.05, G:0.18, T:0.76
Consensus pattern (28 bp):
TTGTTTTTTTTTGTTTTGCTTTGCTTTG
Found at i:18544062 original size:16 final size:16
Alignment explanation
Indices: 18544043--18544073 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18544033 CTTCTTCACT
18544043 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
18544059 TACTTACTTACTTAA
1 TACTCACTTACTTAA
18544074 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:18544079 original size:20 final size:20
Alignment explanation
Indices: 18544040--18544079 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
18544030 AAACTTCTTC
* *
18544040 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
18544060 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
18544080 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:18544392 original size:53 final size:54
Alignment explanation
Indices: 18544304--18544519 Score: 222
Period size: 55 Copynumber: 4.0 Consensus size: 54
18544294 TACGTGGTAT
* * * *
18544304 CCTTTTGAAACTTACCATTGCCATGTCTTGACATGGTTTTACATGATATCCTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTG
* * * **
18544358 CCTTATG-AACTCACCAATGCCATGCCTTGGCATGGTATTACATGGGA-CCTTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTG
* * * * *
18544411 CCTTATAGTAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTA
1 CCTTAT-GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTG
* * *
18544466 CCTTA-GAAACCTTACCAATTGTCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 CCTTATGAAA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGATATCCTT
18544520 AAACCCTAAT
Statistics
Matches: 132, Mismatches: 24, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
52 2 0.02
53 45 0.34
54 14 0.11
55 69 0.52
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (54 bp):
CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTG
Found at i:18544458 original size:108 final size:110
Alignment explanation
Indices: 18544312--18544512 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
18544302 ATCCTTTTGA
* * *
18544312 AACTTACCATTGCCATGTCTTGACATGGTTTTACATGATATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCTTA-GAAACCTCACCAA
18544375 -TGCCATGCCTTGGCATGGTATTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTATTACATGGGACCTTTGCCTTATAGT
* * *
18544420 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCTTAGAAACCTCACCAAT
* *
18544485 TGTCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTATTACATGG
18544513 TATCCTTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.59
109 7 0.09
110 26 0.32
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTATTACATGGGACCTTTGCCTTATAGT
Found at i:18550112 original size:14 final size:14
Alignment explanation
Indices: 18550093--18550122 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18550083 ATACACAGCT
*
18550093 AATAACGATAGTAC
1 AATAACAATAGTAC
18550107 AATAACAATAGTAC
1 AATAACAATAGTAC
18550121 AA
1 AA
18550123 CACACATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.13, G:0.10, T:0.20
Consensus pattern (14 bp):
AATAACAATAGTAC
Found at i:18556039 original size:19 final size:19
Alignment explanation
Indices: 18556015--18556053 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
18556005 GTACATGTTT
18556015 TTATATTTCCCAAAATAGA
1 TTATATTTCCCAAAATAGA
18556034 TTATATTTCCCAAAATAGA
1 TTATATTTCCCAAAATAGA
18556053 T
1 T
18556054 AAATAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (19 bp):
TTATATTTCCCAAAATAGA
Found at i:18557898 original size:5 final size:5
Alignment explanation
Indices: 18557888--18557955 Score: 93
Period size: 5 Copynumber: 13.6 Consensus size: 5
18557878 ACATGATACA
*
18557888 ATATG ATATG ATAT- ACTATG ATATG ATATG ATATG ATATG ATATG TTATG
1 ATATG ATATG ATATG A-TATG ATATG ATATG ATATG ATATG ATATG ATATG
* *
18557938 ATACG TTATG ATATG ATA
1 ATATG ATATG ATATG ATA
18557956 AGTTATACTT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
4 1 0.02
5 53 0.96
6 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (5 bp):
ATATG
Found at i:18557900 original size:15 final size:15
Alignment explanation
Indices: 18557880--18557955 Score: 80
Period size: 15 Copynumber: 5.1 Consensus size: 15
18557870 GGGGTAGGAC
*
18557880 ATGATACAATATGAT
1 ATGATATAATATGAT
*
18557895 ATGATATACTATGAT
1 ATGATATAATATGAT
*
18557910 ATGATATGATATGAT
1 ATGATATAATATGAT
**
18557925 ATGATATGTTATGAT
1 ATGATATAATATGAT
* * *
18557940 ACGTTATGATATGAT
1 ATGATATAATATGAT
18557955 A
1 A
18557956 AGTTATACTT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 53 1.00
ACGTcount: A:0.39, C:0.04, G:0.17, T:0.39
Consensus pattern (15 bp):
ATGATATAATATGAT
Found at i:18564522 original size:16 final size:16
Alignment explanation
Indices: 18564501--18564535 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
18564491 ATTCTTTTAT
18564501 TAAATTTATCATCGAA
1 TAAATTTATCATCGAA
18564517 TAAATTTATCATCGAA
1 TAAATTTATCATCGAA
18564533 TAA
1 TAA
18564536 TAATTACTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (16 bp):
TAAATTTATCATCGAA
Found at i:18570559 original size:5 final size:5
Alignment explanation
Indices: 18570549--18570574 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
18570539 TGTTATCGTC
18570549 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
18570575 ATCAAATCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:18571999 original size:46 final size:46
Alignment explanation
Indices: 18571934--18572207 Score: 379
Period size: 46 Copynumber: 6.0 Consensus size: 46
18571924 TTATCTTTAA
* * * * * *
18571934 CATGATGCCATAGTGTCTTTCAACTATAGTCTTACTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * **
18571980 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
** *
18572026 CATGTTGCCATGGTATCTTTCAACCATGGTCTTTTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
18572072 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
*
18572118 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
*
18572164 CATGTTGCCATGATATCTTTCAACCATGGTCTTACAT-ATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAC-TCATTTCAT
18572208 TTCAAAAAAC
Statistics
Matches: 204, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
46 204 1.00
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
Found at i:18572184 original size:25 final size:25
Alignment explanation
Indices: 18572110--18572185 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
18572100 GTCTTACACA
*
18572110 TTTCATATCATGTTGCCATGGTATC
1 TTTCATATCATGTTGCCATGATATC
* * * *
18572135 TTTCA-ACCATG--GTC-TTACA-C
1 TTTCATATCATGTTGCCATGATATC
18572155 ATTTCATATCATGTTGCCATGATATC
1 -TTTCATATCATGTTGCCATGATATC
18572181 TTTCA
1 TTTCA
18572186 ACCATGGTCT
Statistics
Matches: 36, Mismatches: 9, Indels: 12
0.63 0.16 0.21
Matches are distributed among these distances:
20 1 0.03
21 7 0.19
22 7 0.19
24 7 0.19
25 13 0.36
26 1 0.03
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (25 bp):
TTTCATATCATGTTGCCATGATATC
Found at i:18572205 original size:21 final size:21
Alignment explanation
Indices: 18572135--18572206 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
18572125 CCATGGTATC
*
18572135 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACATA
* * * * *
18572156 TTTCATATCATGTTGCCATGATATC
1 TTTCA-ACCATG--GTC-TTACATA
18572181 TTTCAACCATGGTCTTACATA
1 TTTCAACCATGGTCTTACATA
18572202 TTTCA
1 TTTCA
18572207 TTTCAAAAAA
Statistics
Matches: 36, Mismatches: 11, Indels: 8
0.65 0.20 0.15
Matches are distributed among these distances:
21 14 0.39
22 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (21 bp):
TTTCAACCATGGTCTTACATA
Found at i:18573629 original size:10 final size:11
Alignment explanation
Indices: 18573589--18573635 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
18573579 CCCTTATTTT
*
18573589 CTTTCTCTACA
1 CTTTCTCTTCA
18573600 CTATTTCTCTTCA
1 C--TTTCTCTTCA
18573613 CTTTCTCTT-A
1 CTTTCTCTTCA
*
18573623 TTTTCTCTTCA
1 CTTTCTCTTCA
18573634 CT
1 CT
18573636 AACATATCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
10 9 0.30
11 11 0.37
13 10 0.33
ACGTcount: A:0.13, C:0.32, G:0.00, T:0.55
Consensus pattern (11 bp):
CTTTCTCTTCA
Found at i:18574078 original size:20 final size:18
Alignment explanation
Indices: 18574049--18574088 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
18574039 AATAATAAAA
*
18574049 TATCTCATTAAAATAATATT
1 TATCTAATT-AAATAAT-TT
18574069 TATCTAATTAAATAATTT
1 TATCTAATTAAATAATTT
18574087 TA
1 TA
18574089 AAATATCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (18 bp):
TATCTAATTAAATAATTT
Found at i:18579539 original size:39 final size:40
Alignment explanation
Indices: 18579494--18579716 Score: 242
Period size: 39 Copynumber: 5.7 Consensus size: 40
18579484 GCTCCTCGTT
* * * *
18579494 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
18579534 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
18579573 CGAATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
18579612 CAAAGGCCTTCGGG-CTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
18579651 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
18579692 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
18579717 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 18, Indels: 16
0.82 0.09 0.08
Matches are distributed among these distances:
38 14 0.09
39 76 0.48
40 56 0.36
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:18579725 original size:41 final size:41
Alignment explanation
Indices: 18579648--18579725 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
18579638 TTTGTATCTC
* * *
18579648 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
18579689 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
18579726 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:18587418 original size:39 final size:40
Alignment explanation
Indices: 18587373--18587596 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
18587363 GCTCCTCGTT
* * * * *
18587373 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
18587413 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* *
18587452 CGAATGCCTTCGGGACTTAACCCGGATTTAATACCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * *
18587492 CAAAGGCCTTCGGG-CTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCA
** * * * *
18587531 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
*
18587572 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
18587597 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 65 0.41
40 80 0.51
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:18587476 original size:79 final size:78
Alignment explanation
Indices: 18587373--18587596 Score: 245
Period size: 79 Copynumber: 2.8 Consensus size: 78
18587363 GCTCCTCGTT
* * * *
18587373 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAAAGCCTTCGGGACTTAACCCGGA
18587438 TTTAATAACTCGCA
66 TTT-ATAACTCGCA
* * * *
18587452 CGAATGCCTTCGGGACTTAACCCGGATTTAATACCTCGCACAAAGGCCTTCGGG-CTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAAA-GCCTTCGGGACTTAACCCGG
* *
18587516 AATTTGTATCTCGCA
65 -ATTTATAACTCGCA
* * * * * *
18587531 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAATAACTCA-CACAAAGCCTTCGGGACTTAACCCG
18587595 GA
64 GA
18587597 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
78 3 0.03
79 89 0.74
80 28 0.23
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAAAGCCTTCGGGACTTAACCCGGA
TTTATAACTCGCA
Found at i:18587605 original size:41 final size:41
Alignment explanation
Indices: 18587528--18587605 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
18587518 TTTGTATCTC
* * *
18587528 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
18587569 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
18587606 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:18592814 original size:28 final size:28
Alignment explanation
Indices: 18592777--18592834 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
18592767 TGCATAAAAT
18592777 CACTCACAAATGCTACTAATGTTACTCA
1 CACTCACAAATGCTACTAATGTTACTCA
*
18592805 CACTCACAAATGTTACTAATGTTACTCA
1 CACTCACAAATGCTACTAATGTTACTCA
18592833 CA
1 CA
18592835 ATGAATGGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.36, C:0.28, G:0.07, T:0.29
Consensus pattern (28 bp):
CACTCACAAATGCTACTAATGTTACTCA
Found at i:18619831 original size:25 final size:25
Alignment explanation
Indices: 18619797--18619848 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
18619787 AGATGAAAAC
18619797 TCCTATTTTTAGTAAACTATCCCCT
1 TCCTATTTTTAGTAAACTATCCCCT
18619822 TCCTATTTTTAGTAAACTATCCCCT
1 TCCTATTTTTAGTAAACTATCCCCT
18619847 TC
1 TC
18619849 TCCTCACCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.23, C:0.29, G:0.04, T:0.44
Consensus pattern (25 bp):
TCCTATTTTTAGTAAACTATCCCCT
Found at i:18635429 original size:6 final size:6
Alignment explanation
Indices: 18635413--18635442 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
18635403 ATACATAGTT
18635413 TTTTTA TTTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTT
18635443 TTTAGAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTTA
Found at i:18651768 original size:40 final size:40
Alignment explanation
Indices: 18651623--18651768 Score: 204
Period size: 40 Copynumber: 3.6 Consensus size: 40
18651613 GCTCCTCGTT
* * *
18651623 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCA
*
18651663 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCA
* * *
18651703 CAAATGCCTTCGGGACTTAACCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAAC-TCGCA
*
18651744 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
18651769 CATCATTCAA
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 88 0.92
41 8 0.08
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCA
Found at i:18654940 original size:15 final size:16
Alignment explanation
Indices: 18654920--18654950 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18654910 ATAAAAAGTA
18654920 TTTTTGA-GCATGATT
1 TTTTTGATGCATGATT
18654935 TTTTTGATGCATGATT
1 TTTTTGATGCATGATT
18654951 ATGTGCGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.19, C:0.06, G:0.19, T:0.55
Consensus pattern (16 bp):
TTTTTGATGCATGATT
Found at i:18665713 original size:45 final size:44
Alignment explanation
Indices: 18665612--18665732 Score: 124
Period size: 45 Copynumber: 2.8 Consensus size: 44
18665602 TTTTCTCAAA
* *
18665612 TCACCGGCATT-TCGCCTGTTAGGCTCG-AGGCCCGATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGATATCAGT
*
18665654 TCACCGGTATTATAGCCTGCTAGGCTCGAAGGCCCGGATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCC-GATA-TCAGT
** * *
18665698 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCC
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCC
18665733 TGAATAATCA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
42 10 0.15
43 14 0.21
44 7 0.11
45 34 0.52
46 1 0.02
ACGTcount: A:0.21, C:0.28, G:0.25, T:0.26
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGATATCAGT
Found at i:18666121 original size:43 final size:43
Alignment explanation
Indices: 18666068--18666286 Score: 334
Period size: 43 Copynumber: 5.1 Consensus size: 43
18666058 CCAGCATTAC
*
18666068 GCCTGTTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
18666111 GCCTGCTAGGCACGAATGCCCGAATACACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
18666154 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
18666197 GCCTGCTAGGCACAAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * * *
18666240 GCTTGCTAGGCATGAAGGCCCGAATATA-AT-ACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
18666281 GCCTGC
1 GCCTGC
18666287 AGGATTTAAC
Statistics
Matches: 162, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
41 14 0.09
42 2 0.01
43 146 0.90
ACGTcount: A:0.31, C:0.32, G:0.24, T:0.13
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:18670502 original size:31 final size:31
Alignment explanation
Indices: 18670464--18670525 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
18670454 TTTGAAACCG
18670464 TTAGTACTCGGCCCGAGAAGCACTTGTTTAT
1 TTAGTACTCGGCCCGAGAAGCACTTGTTTAT
*
18670495 TTAGTACTCGGCCCGAGAAGCTCTTGTTTAT
1 TTAGTACTCGGCCCGAGAAGCACTTGTTTAT
18670526 AGTCTAAGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (31 bp):
TTAGTACTCGGCCCGAGAAGCACTTGTTTAT
Found at i:18687540 original size:23 final size:25
Alignment explanation
Indices: 18687514--18687560 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
18687504 TATCATTCAT
*
18687514 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
18687537 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
18687561 TATATTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:18687881 original size:46 final size:46
Alignment explanation
Indices: 18687821--18688121 Score: 413
Period size: 46 Copynumber: 6.7 Consensus size: 46
18687811 TTGGACGTGA
* * * * * *
18687821 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
18687867 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
18687913 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
18687959 TGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
18688005 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
18688043 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
18688089 TGCCATGGTATCTTTCAACCATGGTCTTACACA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA
18688122 CAGGTTGTCA
Statistics
Matches: 232, Mismatches: 14, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
38 33 0.14
39 1 0.00
40 3 0.01
41 1 0.00
43 1 0.00
44 3 0.01
45 5 0.02
46 185 0.80
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:18688051 original size:38 final size:38
Alignment explanation
Indices: 18688000--18688159 Score: 239
Period size: 38 Copynumber: 4.0 Consensus size: 38
18687990 CATTTCATAT
18688000 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
18688038 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A
18688083 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
18688122 CAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
18688160 TTTCATATCA
Statistics
Matches: 113, Mismatches: 1, Indels: 16
0.87 0.01 0.12
Matches are distributed among these distances:
38 70 0.62
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 1 0.01
46 33 0.29
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:18688095 original size:84 final size:84
Alignment explanation
Indices: 18687954--18688170 Score: 416
Period size: 84 Copynumber: 2.6 Consensus size: 84
18687944 CATCTCATAT
*
18687954 CAGGTTGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
18688019 TCAACCATGGTCTTACACA
66 TCAACCATGGTCTTACACA
18688038 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
18688103 TCAACCATGGTCTTACACA
66 TCAACCATGGTCTTACACA
*
18688122 CAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
18688171 AGAGTACACT
Statistics
Matches: 131, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 131 1.00
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.35
Consensus pattern (84 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
TCAACCATGGTCTTACACA
Found at i:18690355 original size:31 final size:32
Alignment explanation
Indices: 18690298--18690380 Score: 93
Period size: 31 Copynumber: 2.7 Consensus size: 32
18690288 CTTTATATAC
*
18690298 TAATAAAATAATAAAATATCTTATTAAAGT-AT
1 TAATAAAATAATAAAATATCTAATTAAA-TAAT
**
18690330 TAATAAAATAAT-ATTTATCTAATTAAATAAT
1 TAATAAAATAATAAAATATCTAATTAAATAAT
18690361 T-ATAAAAT-ATCAAAATATCT
1 TAATAAAATAAT-AAAATATCT
18690381 CTAGCATCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
29 2 0.05
30 8 0.19
31 21 0.49
32 12 0.28
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (32 bp):
TAATAAAATAATAAAATATCTAATTAAATAAT
Found at i:18693622 original size:42 final size:42
Alignment explanation
Indices: 18693575--18693664 Score: 121
Period size: 42 Copynumber: 2.1 Consensus size: 42
18693565 CTTACATGGG
**
18693575 ATCTCATAT-GATGCCAATAGCCCAGCTATGGTCTTACACG-A
1 ATCTCATATCGATGCC-ATAGCCCAAATATGGTCTTACACGTA
*
18693616 AGTCTCATATCGATGCCATATCCCAAATATGGTCTTACACGTA
1 A-TCTCATATCGATGCCATAGCCCAAATATGGTCTTACACGTA
18693659 ATCTCA
1 ATCTCA
18693665 AATAACCTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
41 1 0.02
42 34 0.79
43 8 0.19
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (42 bp):
ATCTCATATCGATGCCATAGCCCAAATATGGTCTTACACGTA
Found at i:18702190 original size:9 final size:9
Alignment explanation
Indices: 18702169--18702225 Score: 51
Period size: 9 Copynumber: 6.3 Consensus size: 9
18702159 GGGAGCTTTT
*
18702169 TGATGGTGG
1 TGATGGTGA
*
18702178 TGGTGGTGA
1 TGATGGTGA
* * *
18702187 TGGTGATGC
1 TGATGGTGA
*
18702196 TGATGCTGA
1 TGATGGTGA
18702205 TGATGGTGA
1 TGATGGTGA
*
18702214 TGATGATGA
1 TGATGGTGA
18702223 TGA
1 TGA
18702226 AGCTGGTGGG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.19, C:0.04, G:0.44, T:0.33
Consensus pattern (9 bp):
TGATGGTGA
Found at i:18703319 original size:4 final size:4
Alignment explanation
Indices: 18703306--18703336 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
18703296 TGATCGGGCT
18703306 TAAA TAAAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA T-AAA TAAA TAAA TAAA TAAA TAAA TA
18703337 TTTATTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:18704720 original size:11 final size:12
Alignment explanation
Indices: 18704686--18704828 Score: 58
Period size: 12 Copynumber: 12.1 Consensus size: 12
18704676 GTTTTATTTT
*
18704686 TATTTTTATATCA
1 TATTATTATAT-A
18704699 TA-TATTATATA
1 TATTATTATATA
*
18704710 -ATTATTTTATA
1 TATTATTATATA
*
18704721 TATTACTCATAT-
1 TATTA-TTATATA
18704733 TA-T-TTATATA
1 TATTATTATATA
18704743 TATTA-TATAT-
1 TATTATTATATA
18704753 TATT-TTCACATATA
1 TATTATT---ATATA
*
18704767 TACTT-TTTTAT-
1 TA-TTATTATATA
*
18704778 TATATATTATATT
1 TAT-TATTATATA
18704791 TATT-TTATAT-
1 TATTATTATATA
*
18704801 TATTATGTCATTTTA
1 TATTAT-T-A-TATA
18704816 TATTATTATATA
1 TATTATTATATA
18704828 T
1 T
18704829 TTTTATCTAT
Statistics
Matches: 101, Mismatches: 9, Indels: 41
0.67 0.06 0.27
Matches are distributed among these distances:
9 5 0.05
10 13 0.13
11 26 0.26
12 27 0.27
13 15 0.15
14 5 0.05
15 10 0.10
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (12 bp):
TATTATTATATA
Found at i:18704765 original size:22 final size:21
Alignment explanation
Indices: 18704697--18704806 Score: 76
Period size: 20 Copynumber: 5.5 Consensus size: 21
18704687 ATTTTTATAT
18704697 CATATATTATATAATTATTTT-
1 CATATATTATAT-ATTATTTTA
18704718 -ATATATTACTCATATTA-TTTA
1 CATATATTA-T-ATATTATTTTA
*
18704739 TATATATTATATATTATTTT-
1 CATATATTATATATTATTTTA
* *
18704759 CACATA-TATA-CTT-TTTTA
1 CATATATTATATATTATTTTA
*
18704777 TTATATATTATAT-TTATTTTA
1 -CATATATTATATATTATTTTA
*
18704798 TAT-TATTAT
1 CATATATTAT
18704807 GTCATTTTAT
Statistics
Matches: 74, Mismatches: 5, Indels: 22
0.73 0.05 0.22
Matches are distributed among these distances:
17 4 0.05
18 2 0.03
19 14 0.19
20 30 0.41
21 14 0.19
22 10 0.14
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (21 bp):
CATATATTATATATTATTTTA
Found at i:18704793 original size:13 final size:13
Alignment explanation
Indices: 18704686--18704806 Score: 58
Period size: 13 Copynumber: 9.1 Consensus size: 13
18704676 GTTTTATTTT
* *
18704686 TATTTTTATATCA
1 TATTTATATATTA
18704699 TATATTATATAATTA
1 TAT-TTATAT-ATTA
18704714 T-TTTATATATTA
1 TATTTATATATTA
*
18704726 CTCATATTATTTA-TA
1 -T-AT-TTATATATTA
18704741 TATATTATATATTA
1 TAT-TTATATATTA
*
18704755 T-TTTCACATA-TA
1 TATTT-ATATATTA
*
18704767 TACTTT-TTTATTA
1 TA-TTTATATATTA
18704780 TATATTATAT-TTA
1 TAT-TTATATATTA
18704793 T-TTTATATTATTA
1 TATTTATA-TATTA
18704806 T
1 T
18704807 GTCATTTTAT
Statistics
Matches: 85, Mismatches: 8, Indels: 30
0.69 0.07 0.24
Matches are distributed among these distances:
11 5 0.06
12 14 0.16
13 38 0.45
14 15 0.18
15 7 0.08
16 6 0.07
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTTATATATTA
Found at i:18704832 original size:18 final size:18
Alignment explanation
Indices: 18704714--18704834 Score: 72
Period size: 18 Copynumber: 6.3 Consensus size: 18
18704704 TATATAATTA
18704714 TTTTATA-TATTACTCATAT
1 TTTTATATTATTA-T-ATAT
18704733 TATTTATATATATTATATAT
1 T-TTTATAT-TATTATATAT
*
18704753 TATTT-TCA-CA-TATATACTT
1 T-TTTAT-ATTATTATATA--T
*
18704772 TTTTATTATATATTATATTT
1 TTTTA-TAT-TATTATATAT
*
18704792 ATTTTATATTATTATGTCA-
1 -TTTTATATTATTATAT-AT
18704811 TTTTATATTATTATATAT
1 TTTTATATTATTATATAT
18704829 TTTTAT
1 TTTTAT
18704835 CTATGGCGAT
Statistics
Matches: 82, Mismatches: 6, Indels: 29
0.70 0.05 0.25
Matches are distributed among these distances:
17 7 0.09
18 25 0.30
19 12 0.15
20 21 0.26
21 7 0.09
22 10 0.12
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (18 bp):
TTTTATATTATTATATAT
Done.