Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 110 of 313
Found at i:36012143 original size:19 final size:19
Alignment explanation
Indices: 36012098--36012144 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
36012088 TAAATATTAA
*
36012098 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
36012117 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
36012136 AATAAAAAT
1 AATAAAAAT
36012145 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:36016963 original size:17 final size:18
Alignment explanation
Indices: 36016941--36016975 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
36016931 AAAGTTATAG
36016941 TTTAAGGTTTAG-GGTTT
1 TTTAAGGTTTAGAGGTTT
36016958 TTTAAGGTTTAGAGGTTT
1 TTTAAGGTTTAGAGGTTT
36016976 AGTGCATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (18 bp):
TTTAAGGTTTAGAGGTTT
Found at i:36017101 original size:41 final size:41
Alignment explanation
Indices: 36017044--36017262 Score: 311
Period size: 41 Copynumber: 5.4 Consensus size: 41
36017034 GTTATATGAC
36017044 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
36017085 TTTTAGCGGCGTTTTA-CAGAAAGCGCCGCTAATTCTCTGGT
1 TTTTAGCGGCGTTTTACCA-AAAGCGCCGCTAATGCTCTGGT
*
36017126 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * *
36017167 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGAC-CT-AT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATG-CTCTGGT
* * *
36017207 TTTTAGCGGCGTTTTAACAAAAAACGCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTGGT
36017248 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
36017263 TGGTAAAACG
Statistics
Matches: 164, Mismatches: 9, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
40 19 0.12
41 143 0.87
42 2 0.01
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:36017293 original size:41 final size:41
Alignment explanation
Indices: 36017044--36017292 Score: 303
Period size: 41 Copynumber: 6.1 Consensus size: 41
36017034 GTTATATGAC
*
36017044 TTTTAGCGGCGTTTTACC-AAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAA-CGCCGCTATTGCTCTGGT
* *
36017085 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATT-CTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAACGCCGCT-ATTGCTCTGGT
* *
36017126 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAACGCCGCTATTGCTCTGGT
* *
36017167 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGAC-CT-AT
1 TTTTAGCGGCGTTTTACCGAAAACGCCGCTATTG-CTCTGGT
**
36017207 TTTTAGCGGCGTTTTAACAAAAAACGCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTT-ACCGAAAACGCCGCTATTGCTCTGGT
**
36017248 TTTTAGCGGCGTTTT-TGGTAAAACGCCGCTATTGCTCTGTGT
1 TTTTAGCGGCGTTTTACCG-AAAACGCCGCTATTGCTCTG-GT
36017290 TTT
1 TTT
36017293 ACAATTTTTG
Statistics
Matches: 185, Mismatches: 14, Indels: 17
0.86 0.06 0.08
Matches are distributed among these distances:
40 38 0.21
41 136 0.74
42 11 0.06
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGAAAACGCCGCTATTGCTCTGGT
Found at i:36023689 original size:21 final size:21
Alignment explanation
Indices: 36023663--36023703 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
36023653 ATCTGCTCAA
* *
36023663 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
36023684 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
36023704 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:36025185 original size:37 final size:37
Alignment explanation
Indices: 36025135--36025209 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
36025125 GCCTTTCTCA
36025135 TGACAAAAAGCACATTCATCTTTCCCGAGTCTGGACT
1 TGACAAAAAGCACATTCATCTTTCCCGAGTCTGGACT
*
36025172 TGACAAAAGGCACATTCATCTTTCCCGAGTCTGGACT
1 TGACAAAAAGCACATTCATCTTTCCCGAGTCTGGACT
36025209 T
1 T
36025210 TGACTTTGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (37 bp):
TGACAAAAAGCACATTCATCTTTCCCGAGTCTGGACT
Found at i:36028618 original size:28 final size:28
Alignment explanation
Indices: 36028587--36028658 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 28
36028577 TGTGTTAACG
36028587 GAACAGAACAACACCAAT-GTGCTTATCA
1 GAACAGAA-AACACCAATAGTGCTTATCA
**
36028615 GAACAGAAAA-ACACTGTAGTGCTTATCA
1 GAACAGAAAACAC-CAATAGTGCTTATCA
*
36028643 GAATAGAAAAGCACCA
1 GAACAGAAAA-CACCA
36028659 GATTTCTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
26 2 0.06
27 4 0.11
28 27 0.75
29 1 0.03
30 2 0.06
ACGTcount: A:0.46, C:0.21, G:0.17, T:0.17
Consensus pattern (28 bp):
GAACAGAAAACACCAATAGTGCTTATCA
Found at i:36029151 original size:6 final size:5
Alignment explanation
Indices: 36029120--36029144 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
36029110 CTTCTCGTTC
36029120 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
36029145 TCATTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:36031167 original size:31 final size:30
Alignment explanation
Indices: 36031125--36031182 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 30
36031115 AGTAAGAAAC
*
36031125 AAAAAAAAACATA-AAGATAAAAAAAAGGA
1 AAAAAAAAACATATAAAATAAAAAAAAGGA
36031154 AAAAAAATTAACATATAAAATAAAAAAAA
1 AAAAAAA--AACATATAAAATAAAAAAAA
36031183 ATTCTTTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 7 0.28
31 6 0.24
32 12 0.48
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.12
Consensus pattern (30 bp):
AAAAAAAAACATATAAAATAAAAAAAAGGA
Found at i:36031173 original size:25 final size:23
Alignment explanation
Indices: 36031125--36031185 Score: 59
Period size: 25 Copynumber: 2.6 Consensus size: 23
36031115 AGTAAGAAAC
* * *
36031125 AAAAAAAAACATAAAGATAAAAA
1 AAAAAAAAAAATTAACATAAAAA
*
36031148 AAAGGAAAAAAAATTAACATATAAA
1 AAA--AAAAAAAATTAACATAAAAA
*
36031173 ATAAAAAAAAATT
1 AAAAAAAAAAATT
36031186 CTTTACATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
23 13 0.42
25 18 0.58
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (23 bp):
AAAAAAAAAAATTAACATAAAAA
Found at i:36031759 original size:20 final size:21
Alignment explanation
Indices: 36031720--36031761 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
36031710 AAATATATTT
*
36031720 AAAAATAAAAAAATATAAATA
1 AAAAATAAAAAAATACAAATA
36031741 AAAAATAAAAAAAT-CAAATA
1 AAAAATAAAAAAATACAAATA
36031761 A
1 A
36031762 CCCTAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAAATAAAAAAATACAAATA
Found at i:36033722 original size:16 final size:16
Alignment explanation
Indices: 36033701--36033733 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
36033691 CTTGCAATTC
*
36033701 GACAGGCTCTCACTTT
1 GACAGGCTCGCACTTT
36033717 GACAGGCTCGCACTTT
1 GACAGGCTCGCACTTT
36033733 G
1 G
36033734 CTTACTATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.30, G:0.24, T:0.27
Consensus pattern (16 bp):
GACAGGCTCGCACTTT
Found at i:36041615 original size:11 final size:11
Alignment explanation
Indices: 36041601--36041652 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
36041591 TCTTTCAATA
36041601 TTCTCTCAAAT
1 TTCTCTCAAAT
36041612 TTCTCTCAAA-
1 TTCTCTCAAAT
36041622 -TCTCTCAAAT
1 TTCTCTCAAAT
*
36041632 TTCTCTTAAAT
1 TTCTCTCAAAT
*
36041643 TCCTCTCAAA
1 TTCTCTCAAA
36041653 ACTCTCTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.25
11 27 0.75
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:36041627 original size:20 final size:21
Alignment explanation
Indices: 36041595--36041652 Score: 82
Period size: 20 Copynumber: 2.7 Consensus size: 21
36041585 CTTCAATCTT
36041595 TCAATATTCTCTCAAATTTCTC
1 TCAA-ATTCTCTCAAATTTCTC
36041617 TCAAA-TCTCTCAAATTTCTC
1 TCAAATTCTCTCAAATTTCTC
*
36041637 TTAAATTCCTCTCAAA
1 TCAAATT-CTCTCAAA
36041653 ACTCTCTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 19 0.58
21 2 0.06
22 12 0.36
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTTCTC
Found at i:36041658 original size:22 final size:22
Alignment explanation
Indices: 36041623--36041665 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
36041613 TCTCTCAAAT
**
36041623 CTCTCAAATTTCTCTTAAATTC
1 CTCTCAAAACTCTCTTAAATTC
*
36041645 CTCTCAAAACTCTCTTTAATT
1 CTCTCAAAACTCTCTTAAATT
36041666 TTTTCAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (22 bp):
CTCTCAAAACTCTCTTAAATTC
Found at i:36041659 original size:11 final size:11
Alignment explanation
Indices: 36041595--36041659 Score: 55
Period size: 11 Copynumber: 6.1 Consensus size: 11
36041585 CTTCAATCTT
*
36041595 TCAATATTCTC
1 TCAAAATTCTC
*
36041606 TCAAATTTCTC
1 TCAAAATTCTC
36041617 TC-AAA-TCTC
1 TCAAAATTCTC
*
36041626 TCAAATTTCTC
1 TCAAAATTCTC
*
36041637 T-TAAATTCCTC
1 TCAAAATT-CTC
*
36041648 TCAAAACTCTC
1 TCAAAATTCTC
36041659 T
1 T
36041660 TTAATTTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
9 6 0.14
10 8 0.19
11 24 0.57
12 4 0.10
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (11 bp):
TCAAAATTCTC
Found at i:36041708 original size:16 final size:15
Alignment explanation
Indices: 36041678--36041709 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
36041668 TTCAAAAAAG
*
36041678 TTCTAATTTTATTTT
1 TTCTAAATTTATTTT
36041693 TTCTAAATTTATTTT
1 TTCTAAATTTATTTT
36041708 TT
1 TT
36041710 AAAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (15 bp):
TTCTAAATTTATTTT
Found at i:36042826 original size:7 final size:7
Alignment explanation
Indices: 36042814--36042839 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
36042804 AGTGGATTCA
36042814 TATTTAG
1 TATTTAG
36042821 TATTTAG
1 TATTTAG
36042828 TATTTAG
1 TATTTAG
36042835 TATTT
1 TATTT
36042840 TTTATTTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.62
Consensus pattern (7 bp):
TATTTAG
Found at i:36043494 original size:18 final size:18
Alignment explanation
Indices: 36043457--36043499 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
36043447 TGCCAGGTAC
**
36043457 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTACAT
36043475 GTATCCTAGCCCTTACAT
1 GTATCCTAGCCCTTACAT
*
36043493 GTTTCCT
1 GTATCCT
36043500 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.16, C:0.30, G:0.12, T:0.42
Consensus pattern (18 bp):
GTATCCTAGCCCTTACAT
Found at i:36044092 original size:116 final size:116
Alignment explanation
Indices: 36043884--36044383 Score: 847
Period size: 116 Copynumber: 4.3 Consensus size: 116
36043874 TATTTGTACA
*
36043884 AACATTTTGAATCTTTTTATATTATTTCATGTAATTAGATAAAAAGGTTGTTTTAAATAAAGTAA
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAA-GTTGTTTTAAATAAAGTAA
*
36043949 TTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
65 TTATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
36044001 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAAGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAAGTTGTTTTAAATAAAGTAAT
* *
36044066 TATAATTTAATTTTATATTTTTAATAAAATGGAAACTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
36044117 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAATGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAAGTTGTTTTAAATAAAGTAAT
*
36044182 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* * * *
36044233 AACATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAAGTTGTTTTAAATAAAGTAAT
* * ***
36044298 AATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAATT
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
36044349 AATATTTTGAATATTTTTATATTATTTCATGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAAT
36044384 AAAATATAAA
Statistics
Matches: 363, Mismatches: 20, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
116 319 0.88
117 44 0.12
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAAGTTGTTTTAAATAAAGTAAT
TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
Found at i:36047696 original size:126 final size:126
Alignment explanation
Indices: 36047465--36048136 Score: 1089
Period size: 126 Copynumber: 5.3 Consensus size: 126
36047455 GCCCAAGTTA
* * *
36047465 TTTCAGAAACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAA
* * **
36047530 TGCATCCTGCTTGAAGT-GTTTTTGACACTATTTATGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAA-TCATTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
*
36047591 TTTCAGAGACTACAGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAA
*
36047656 TGCATCCTGCTTGAATCATTTTTTACACTATTTGCACAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAATCATTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* *
36047717 TTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAA
* * * *
36047782 TGCATCCTGCTTGAAGC-GTTTTTACCACTAATTGTGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAATCATTTTTTA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
*
36047843 TTTCAGAGACTACAGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAA
*
36047908 TGCATCCTGCTTGAATCATTTTTTACACTATTTGCACAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAATCATTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * *
36047969 TTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAA
* * *
36048034 TGCATCCTGCTTGAATCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAATTTATTT
66 TGCATCCTGCTTGAATCATTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
*
36048095 TTTCAGAGACTACTGTAGCAAAAGAGCG-CCACGTAGAAGCTT
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTT
36048137 TTTTAGATTA
Statistics
Matches: 507, Mismatches: 36, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
125 19 0.04
126 482 0.95
127 6 0.01
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (126 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAATCATTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:36047910 original size:252 final size:252
Alignment explanation
Indices: 36047465--36048136 Score: 1213
Period size: 252 Copynumber: 2.7 Consensus size: 252
36047455 GCCCAAGTTA
* * *
36047465 TTTCAGAAACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
1 TTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
* *
36047530 TGCATCCTGCTTGAAGTGTTTTTGACACTATTTATGCAGACACGTCTTCTCAAAATTATTTTTTC
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTGCAGACACGTCTTCTCAAAATTATTTTTTC
36047595 AGAGACTACAGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAATGCA
131 AGAGACTACAGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAATGCA
36047660 TCCTGCTTGAATCATTTTTTACACTATTTGCACAGACACGTCTTCTCAAAATTATTT
196 TCCTGCTTGAATCATTTTTTACACTATTTGCACAGACACGTCTTCTCAAAATTATTT
*
36047717 TTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
*
36047782 TGCATCCTGCTTGAAGCGTTTTT-ACCACTAATTGTGCAGACACGTCTTCTCAAAATTATTTTTT
66 TGCATCCTGCTTGAAGCGTTTTTGA-CACTATTTGTGCAGACACGTCTTCTCAAAATTATTTTTT
36047846 CAGAGACTACAGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAATGC
130 CAGAGACTACAGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAATGC
36047911 ATCCTGCTTGAATCATTTTTTACACTATTTGCACAGACACGTCTTCTCAAAATTATTT
195 ATCCTGCTTGAATCATTTTTTACACTATTTGCACAGACACGTCTTCTCAAAATTATTT
36047969 TTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
* * *
36048034 TGCATCCTGCTTGAATCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAATTTATTTTTTC
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTGCAGACACGTCTTCTCAAAATTATTTTTTC
* *
36048099 AGAGACTACTGTAGCAAAAGAGCG-CCACGTAGAAGCTT
131 AGAGACTACAGTAGCAAAAGAGCGTCCACGTGGAAGCTT
36048137 TTTTAGATTA
Statistics
Matches: 404, Mismatches: 14, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
251 14 0.03
252 389 0.96
253 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (252 bp):
TTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTGCAGACACGTCTTCTCAAAATTATTTTTTC
AGAGACTACAGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAATGCA
TCCTGCTTGAATCATTTTTTACACTATTTGCACAGACACGTCTTCTCAAAATTATTT
Found at i:36048384 original size:96 final size:97
Alignment explanation
Indices: 36048212--36048420 Score: 248
Period size: 96 Copynumber: 2.2 Consensus size: 97
36048202 TTCTTAAATA
* * *
36048212 CCTTAAAACTC-TAAACCCTAAAATCC-TAATCTAATTTTTTTTAAATATATAATTAATTTACTC
1 CCTTAAAAC-CATAAACACT-AAA-CCATAATCTAATTTTTTTAAAATATATAATTAATTTAATC
** ** *
36048275 AAGTAACCCTAAACCCTAATTTATTTGA-TTTTTT
63 AACAAACAATAAACCCTAATTTATTTAATTTTTTT
*
36048309 CCTTGAAAACCATAAACACTAAACCATAATCTAA-TTTTTTAAAAT-TAGTAATTAATTTAATTA
1 CCTT-AAAACCATAAACACTAAACCATAATCTAATTTTTTTAAAATATA-TAATTAATTTAATCA
36048372 ACAAACAATAAACCCTAATTTATTTAATTTTTTT
64 ACAAACAATAAACCCTAATTTATTTAATTTTTTT
*
36048406 CCTTAAAACCCTAAA
1 CCTTAAAACCATAAA
36048421 ATTTAAAAAC
Statistics
Matches: 97, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
95 2 0.02
96 57 0.59
97 26 0.27
98 12 0.12
ACGTcount: A:0.41, C:0.18, G:0.02, T:0.39
Consensus pattern (97 bp):
CCTTAAAACCATAAACACTAAACCATAATCTAATTTTTTTAAAATATATAATTAATTTAATCAAC
AAACAATAAACCCTAATTTATTTAATTTTTTT
Found at i:36059131 original size:19 final size:19
Alignment explanation
Indices: 36059109--36059148 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
36059099 CTCTTTTTTG
36059109 TTTCAACCTTCTGTTTCTT
1 TTTCAACCTTCTGTTTCTT
* * *
36059128 TTTCTATCTTTTGTTTCTT
1 TTTCAACCTTCTGTTTCTT
36059147 TT
1 TT
36059149 ATTTACTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.07, C:0.20, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTCAACCTTCTGTTTCTT
Found at i:36059228 original size:15 final size:15
Alignment explanation
Indices: 36059164--36059228 Score: 60
Period size: 15 Copynumber: 4.1 Consensus size: 15
36059154 CTTTAATTAT
* *
36059164 TATAATAATATTATA
1 TATATTAATATTTTA
36059179 TTATATT-ATATTCTTA
1 -TATATTAATATT-TTA
*
36059195 AATATTAAGTATTTATA
1 TATATTAA-TATTT-TA
36059212 TATATTAATATTTTA
1 TATATTAATATTTTA
36059227 TA
1 TA
36059229 CATATCTACA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
15 14 0.34
16 14 0.34
17 13 0.32
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (15 bp):
TATATTAATATTTTA
Found at i:36059233 original size:17 final size:17
Alignment explanation
Indices: 36059196--36059233 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
36059186 ATATTCTTAA
*
36059196 ATATTAAGTATTTATAT
1 ATATTAAGTATTTATAC
36059213 ATATTAA-TATTTTATAC
1 ATATTAAGTA-TTTATAC
36059230 ATAT
1 ATAT
36059234 CTACATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
ATATTAAGTATTTATAC
Found at i:36060272 original size:30 final size:30
Alignment explanation
Indices: 36060237--36060303 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
36060227 AACAACAATG
* ** *
36060237 ACCATCATATCTTGTTACACGCAATCGGCA
1 ACCATCACATCTTGTTACAAACAATCAGCA
*
36060267 GCCATCACATCTTGTTACAAACAATCAGCA
1 ACCATCACATCTTGTTACAAACAATCAGCA
36060297 ACCATCA
1 ACCATCA
36060304 AATTCTGTTG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.31, G:0.10, T:0.24
Consensus pattern (30 bp):
ACCATCACATCTTGTTACAAACAATCAGCA
Found at i:36063872 original size:43 final size:43
Alignment explanation
Indices: 36063822--36063972 Score: 162
Period size: 43 Copynumber: 3.5 Consensus size: 43
36063812 TATCCCATAT
* * *
36063822 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCTGGAC
1 ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCTAGAC
* * * *
36063865 AGGGTCTTACATGAAATCGA-TTAACGATGCCAATGTCCTAGAC
1 ATGGTCTTACATGTAATC-ACATATCGATGCCAATGTCCTAGAC
* * * * *
36063908 ATGGTCTTACACGTAATCTCA-ATACAATTCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATAT-CGATGCCAATGTCCTAGAC
36063951 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
36063973 CTCGTAACGT
Statistics
Matches: 86, Mismatches: 18, Indels: 7
0.77 0.16 0.06
Matches are distributed among these distances:
42 1 0.01
43 84 0.98
44 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCTAGAC
Found at i:36074283 original size:111 final size:111
Alignment explanation
Indices: 36074089--36074310 Score: 444
Period size: 111 Copynumber: 2.0 Consensus size: 111
36074079 CAATACCATG
36074089 CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATGTACAGACATTTAGAAAAAGTAGTGTAT
1 CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATGTACAGACATTTAGAAAAAGTAGTGTAT
36074154 GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
66 GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
36074200 CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATGTACAGACATTTAGAAAAAGTAGTGTAT
1 CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATGTACAGACATTTAGAAAAAGTAGTGTAT
36074265 GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
66 GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
36074311 TACTTCATCA
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 111 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (111 bp):
CATGTAGTTGTATTGTTGTATTAAAGTTTGTTAATATGTACAGACATTTAGAAAAAGTAGTGTAT
GTTTATATGGTATACATATATCACTACTCTCTCTCTTAGACAACAA
Found at i:36074728 original size:48 final size:51
Alignment explanation
Indices: 36074615--36074720 Score: 203
Period size: 51 Copynumber: 2.1 Consensus size: 51
36074605 TTTTTCCCAC
*
36074615 TAATAAGAATGCATTTTTTTTCAATTTATAACGATTAATATTGTAGTTTAA
1 TAATAAGAATGTATTTTTTTTCAATTTATAACGATTAATATTGTAGTTTAA
36074666 TAATAAGAATGTATTTTTTTTCAATTTATAACGATTAATATTGTAGTTTAA
1 TAATAAGAATGTATTTTTTTTCAATTTATAACGATTAATATTGTAGTTTAA
36074717 TAAT
1 TAAT
36074721 TGAGTATTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (51 bp):
TAATAAGAATGTATTTTTTTTCAATTTATAACGATTAATATTGTAGTTTAA
Found at i:36083407 original size:27 final size:27
Alignment explanation
Indices: 36083369--36083427 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
36083359 TTGAAATTTT
36083369 CACCTGTTAAGAGCCGCCGTCAAGAAC
1 CACCTGTTAAGAGCCGCCGTCAAGAAC
*
36083396 CACCTGTTAAGAGCCGTCGTCAAGAAC
1 CACCTGTTAAGAGCCGCCGTCAAGAAC
36083423 CACCT
1 CACCT
36083428 TCGATTTGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.29, C:0.34, G:0.20, T:0.17
Consensus pattern (27 bp):
CACCTGTTAAGAGCCGCCGTCAAGAAC
Found at i:36090074 original size:16 final size:16
Alignment explanation
Indices: 36090053--36090083 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36090043 ATAAATTTGA
36090053 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
36090069 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
36090084 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:36091971 original size:24 final size:24
Alignment explanation
Indices: 36091942--36091989 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
36091932 ATGGACTAAC
36091942 AATATTAAACTAAAAGGATTTCTA
1 AATATTAAACTAAAAGGATTTCTA
36091966 AATATTAAACTAAAAGGATTTCTA
1 AATATTAAACTAAAAGGATTTCTA
36091990 CATGTTGCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.33
Consensus pattern (24 bp):
AATATTAAACTAAAAGGATTTCTA
Found at i:36092642 original size:94 final size:93
Alignment explanation
Indices: 36092535--36092745 Score: 262
Period size: 94 Copynumber: 2.2 Consensus size: 93
36092525 GAATTAAAGT
* * *
36092535 TACAATTCATATACCCCTGAAGTTGTAATGGGTCGGAATGAAACTACT-AGGGCAAATCTTATCT
1 TACAAATCATATA-CCCTGAAGTTGCAATGGGTCGGAATGAAACTA-TGAGAGCAAATCTTATCT
* *
36092599 CCCTGAAGTTGCAGTGGAGCAAGATGAAAC
64 CCATGAAGTTGCAATGGAGCAAGATGAAAC
* * * * *
36092629 TACAAATCTTATACCCTCAAAGTTGCAGTGGGTTGGAATGAAACTATGATAGCAAATCTTATCTC
1 TACAAATCATATACCCT-GAAGTTGCAATGGGTCGGAATGAAACTATGAGAGCAAATCTTATCTC
* *
36092694 CATGAAGTTGCAATGGAGTAAGATGAAGC
65 CATGAAGTTGCAATGGAGCAAGATGAAAC
*
36092723 TACAAATCCTATATCCCTGAAGT
1 TACAAATCATATA-CCCTGAAGT
36092746 AGCGGTGGAT
Statistics
Matches: 100, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
93 5 0.05
94 91 0.91
95 4 0.04
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (93 bp):
TACAAATCATATACCCTGAAGTTGCAATGGGTCGGAATGAAACTATGAGAGCAAATCTTATCTCC
ATGAAGTTGCAATGGAGCAAGATGAAAC
Found at i:36092745 original size:44 final size:44
Alignment explanation
Indices: 36092449--36092891 Score: 162
Period size: 44 Copynumber: 9.7 Consensus size: 44
36092439 CCTACCATAG
* * * * *
36092449 CAAATATTATCTCCTTGAAGTTGCAGTGGAGCAAGATGAAGCTA
1 CAAATCTTATATCCCTGAAGTTGCAATGGAGTAAGATGAAGCTA
* * * * * * *
36092493 CAAATCCTATATCCCTGAAGTCGCAATTGATTGAA-TTAAAGTTA
1 CAAATCTTATATCCCTGAAGTTGCAATGGAGT-AAGATGAAGCTA
* * * * ** *
36092537 CAATTCATATACCCCTGAAGTTGTAATGG-GTCGGAATGAAACTACTA
1 CAAATCTTATATCCCTGAAGTTGCAATGGAGTAAG-ATG-AA--GCTA
* * * *
36092584 GGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAACTA
1 ---CAAATCTTATATCCCTGAAGTTGCAATGGAGTAAGATGAAGCTA
* * ** *
36092631 CAAATCTTATA-CCCTCAAAGTTGCAGTGG-GTTGGAATGAAACTATGATA
1 CAAATCTTATATCCCT-GAAGTTGCAATGGAGTAAG-ATG--A--A-GCTA
* *
36092680 GCAAATCTTATCTCCATGAAGTTGCAATGGAGTAAGATGAAGCTA
1 -CAAATCTTATATCCCTGAAGTTGCAATGGAGTAAGATGAAGCTA
* * ** *
36092725 CAAATCCTATATCCCTGAAGTAGCGGTGGA-TCAGATTGAAGCTA
1 CAAATCTTATATCCCTGAAGTTGCAATGGAGTAAGA-TGAAGCTA
* * * * * * ** * *
36092769 TAATTTTTATACCCCTGAAGTTGTAGTGG-GTTGGATTAATTCTA
1 CAAATCTTATATCCCTGAAGTTGCAATGGAGTAAGATGAA-GCTA
* * *
36092813 CTATAACGAATCTTATCTCCCTGAAGATGCAATGGAG-CAGATTGAAGCTA
1 C----A--AATCTTATATCCCTGAAGTTGCAATGGAGTAAGA-TGAAGCTA
* *
36092863 CAAATATTATATCCCTGAAGTTGTAATGG
1 CAAATCTTATATCCCTGAAGTTGCAATGG
36092892 GTTGGATTGA
Statistics
Matches: 285, Mismatches: 83, Indels: 62
0.66 0.19 0.14
Matches are distributed among these distances:
43 14 0.05
44 160 0.56
45 7 0.02
46 3 0.01
47 6 0.02
48 3 0.01
49 4 0.01
50 76 0.27
51 12 0.04
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (44 bp):
CAAATCTTATATCCCTGAAGTTGCAATGGAGTAAGATGAAGCTA
Found at i:36092827 original size:232 final size:231
Alignment explanation
Indices: 36092406--36092983 Score: 617
Period size: 232 Copynumber: 2.5 Consensus size: 231
36092396 TCATAGATCC
* * * *
36092406 TATACCCTTGAAGTTGCAGTGTGTTAGATTGAACCTACCATAGCAAATATTATCTCCTTGAAGTT
1 TATACCC-TGAAGTTGCAGTGGGTTGGATTGAAACTACCATAGCAAATATTATCTCCATGAAGTT
* * * * *
36092471 GCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTCGCAATTGATTGAATTAAAGTT
65 GCAATGGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTAGCAATGGATAGAATTAAAGCT
**
36092536 ACAATTCATATACCCCTGAAGTTGTAATGGGTCGGAATGAAACTACTAGGGCAAATCTTATCTCC
130 ACAATTCATATACCCCTGAAGTTGTAATGGGTCGGAATGAAACTACTAGAACAAATCTTATCTCC
* * *
36092601 CTGAAGTTGCAGTGGAGCAAGA-TGAAACTACAAATCT
195 CTGAAGATGCAATGGAGC-AGATTGAAACTACAAATAT
* * ** *
36092638 TATACCCTCAAAGTTGCAGTGGGTTGGAATGAAACTATGATAGCAAATCTTATCTCCATGAAGTT
1 TATACCCT-GAAGTTGCAGTGGGTTGGATTGAAACTACCATAGCAAATATTATCTCCATGAAGTT
* ** *
36092703 GCAATGGAGTAAGATGAAGCTACAAATCCTATATCCCTGAAGTAGCGGTGGATCAG-ATTGAAGC
65 GCAATGGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTAGCAATGGAT-AGAATTAAAGC
* ** * * * * * *
36092767 TATAATTTTTATACCCCTGAAGTTGTAGTGGGTTGG-ATTAATTCTACTATAACGAATCTTATCT
129 TACAATTCATATACCCCTGAAGTTGTAATGGGTCGGAATGAA-ACTACTAGAACAAATCTTATCT
*
36092831 CCCTGAAGATGCAATGGAGCAGATTGAAGCTACAAATAT
193 CCCTGAAGATGCAATGGAGCAGATTGAAACTACAAATAT
* * * * * ** **
36092870 TATATCCCTGAAGTTGTAATGGGTTGGATTGAAACTACAACAACAAATCCTATAC-CTTTGAAGT
1 TATA-CCCTGAAGTTGCAGTGGGTTGGATTGAAACTACCATAGCAAATATTAT-CTCCATGAAGT
* * * * * *
36092934 CGTAGTGGAGC-AGATTGAAGCTACAAATCCTATACCCCTAAAGTTGCAAT
64 TGCAATGGAGCAAGA-TGAAGCTACAAATCCTATATCCCTGAAGTAGCAAT
36092984 AGGTCGGATT
Statistics
Matches: 286, Mismatches: 53, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
231 11 0.04
232 269 0.94
233 6 0.02
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (231 bp):
TATACCCTGAAGTTGCAGTGGGTTGGATTGAAACTACCATAGCAAATATTATCTCCATGAAGTTG
CAATGGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTAGCAATGGATAGAATTAAAGCTA
CAATTCATATACCCCTGAAGTTGTAATGGGTCGGAATGAAACTACTAGAACAAATCTTATCTCCC
TGAAGATGCAATGGAGCAGATTGAAACTACAAATAT
Found at i:36092897 original size:94 final size:94
Alignment explanation
Indices: 36092751--36093227 Score: 431
Period size: 94 Copynumber: 5.1 Consensus size: 94
36092741 GAAGTAGCGG
* * * * *
36092751 TGGATCAGATTGAAGCTATAATTTTTATACCCCTGAAGTTGTAGTGGGTTGGATT-AATTCTACT
1 TGGAGCAGATTGAAGCTACAAATCTTATACCCCTGAAGTTGTAGTGGGTTGGATTGAA-TCTACA
36092815 ATAACGAATCTTATCTCCCTGAAGATGCAA
65 ATAACGAATCTTATCTCCCTGAAGATGCAA
* * * *
36092845 TGGAGCAGATTGAAGCTACAAATATTATATCCCTGAAGTTGTAATGGGTTGGATTGAAACTACAA
1 TGGAGCAGATTGAAGCTACAAATCTTATACCCCTGAAGTTGTAGTGGGTTGGATTGAATCTACAA
* * * ** * *
36092910 CAACAAATCCTATAC-CTTTGAAG-TCGTAG
66 TAACGAATCTTAT-CTCCCTGAAGAT-GCAA
* * * * * * *
36092939 TGGAGCAGATTGAAGCTACAAATCCTATACCCCTAAAGTTGCAATAGGTCGGATTGAATCTACCA
1 TGGAGCAGATTGAAGCTACAAATCTTATACCCCTGAAGTTGTAGTGGGTTGGATTGAATCTACAA
* *
36093004 TAGCGAATTTTATCTCCCTGAA-ATTGCAA
66 TAACGAATCTTATCTCCCTGAAGA-TGCAA
* * * * * * * * * *
36093033 TAGAGTAGATTGAAACTACAAATCTTAAACCCCTAAAGTTGCAGTGAGTCGGATTGATTCTACTA
1 TGGAGCAGATTGAAGCTACAAATCTTATACCCCTGAAGTTGTAGTGGGTTGGATTGAATCTACAA
** * * * *
36093098 TAGTGAATCTTATCTCCCTTAAGTTACAG
66 TAACGAATCTTATCTCCCTGAAGATGCAA
* * * *
36093127 TGAAGCAGATTGAAGCTACAAATCTTATATCCCTGAAGTTGTAGTGGATTGGATTGAAACTACAA
1 TGGAGCAGATTGAAGCTACAAATCTTATACCCCTGAAGTTGTAGTGGGTTGGATTGAATCTACAA
* * * * * *
36093192 CAACAAATCTTATCTCCTTAAAGTTACAA
66 TAACGAATCTTATCTCCCTGAAGATGCAA
36093221 TGGAGCA
1 TGGAGCA
36093228 AGATGAAATT
Statistics
Matches: 305, Mismatches: 71, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
93 2 0.01
94 299 0.98
95 4 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (94 bp):
TGGAGCAGATTGAAGCTACAAATCTTATACCCCTGAAGTTGTAGTGGGTTGGATTGAATCTACAA
TAACGAATCTTATCTCCCTGAAGATGCAA
Found at i:36092970 original size:188 final size:187
Alignment explanation
Indices: 36092724--36093235 Score: 485
Period size: 188 Copynumber: 2.7 Consensus size: 187
36092714 AGATGAAGCT
* * * * * *
36092724 ACAAATCCTATATCCCTGAAGTAGCGGTGGATCAGATTGAAGCTATAATTTTTATACCCCTGAAG
1 ACAAATCCTATA-CCTTGAAGTAGCAGTGGAGCAGATTGAAGCTACAAATCTTATACCCCTGAAG
*
36092789 TTGTAGTGGGTTGGATT-AATTCTACTATAACGAATCTTATCTCCCTGAAGATGCAATGGAGCAG
65 TTGTAGTGGGTTGGATTGAA-TCTACAATAACGAATCTTATCTCCCTGAAGATGCAATGGAGCAG
* * * * * * *
36092853 ATTGAAGCTACAAATATTATATCCCTGAAGTTGTAATGGGTTGGATTGAAACTACAACA
129 ATTGAAACTACAAATATTAAACCCCTAAAGTTGCAATGAGTCGGATTGAAACTACAACA
* * * *
36092912 ACAAATCCTATACCTTTGAAGTCGTAGTGGAGCAGATTGAAGCTACAAATCCTATACCCCTAAAG
1 ACAAATCCTATACC-TTGAAGTAGCAGTGGAGCAGATTGAAGCTACAAATCTTATACCCCTGAAG
* * * * * * * * *
36092977 TTGCAATAGGTCGGATTGAATCTACCATAGCGAATTTTATCTCCCTGAA-ATTGCAATAGAGTAG
65 TTGTAGTGGGTTGGATTGAATCTACAATAACGAATCTTATCTCCCTGAAGA-TGCAATGGAGCAG
* * ** * *
36093041 ATTGAAACTACAAATCTTAAACCCCTAAAGTTGCAGTGAGTCGGATTGATTCTACTATA
129 ATTGAAACTACAAATATTAAACCCCTAAAGTTGCAATGAGTCGGATTGAAACTACAACA
*** * * * *
36093100 GTGAATCTTATCTCCCTT-AAGTTA-CAGTGAAGCAGATTGAAGCTACAAATCTTATATCCCTGA
1 ACAAATCCTA--TACCTTGAAG-TAGCAGTGGAGCAGATTGAAGCTACAAATCTTATACCCCTGA
* * * * * * * *
36093163 AGTTGTAGTGGATTGGATTGAAACTACAACAACAAATCTTATCTCCTTAAAGTTACAATGGAGCA
63 AGTTGTAGTGGGTTGGATTGAATCTACAATAACGAATCTTATCTCCCTGAAGATGCAATGGAGC-
36093228 AGA-TGAAA
127 AGATTGAAA
36093236 TTATAACGCT
Statistics
Matches: 256, Mismatches: 60, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
187 3 0.01
188 242 0.95
189 8 0.03
190 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (187 bp):
ACAAATCCTATACCTTGAAGTAGCAGTGGAGCAGATTGAAGCTACAAATCTTATACCCCTGAAGT
TGTAGTGGGTTGGATTGAATCTACAATAACGAATCTTATCTCCCTGAAGATGCAATGGAGCAGAT
TGAAACTACAAATATTAAACCCCTAAAGTTGCAATGAGTCGGATTGAAACTACAACA
Found at i:36093188 original size:138 final size:138
Alignment explanation
Indices: 36092587--36093191 Score: 399
Period size: 138 Copynumber: 4.3 Consensus size: 138
36092577 ACTACTAGGG
* ** *
36092587 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGA-TGAAACTACAAATCTTATACCCTCAAAG
1 CAAATCTTATATCCCTGAAGTTGCAGTGGA-TTAGATTGAAACTACAAATCTTAAACCCT-AAAG
* * ** * * * *
36092651 TTGCAGTGGGTTGGAATGAAACTA-TGATAGCAAATCTTATCTCCATGAAGTTGCAATGGAGTAA
64 TTGCAGTGAGTTGGATTGATTCTACT-ATAGCGAATCTTATCTCCCTGAAGTTGCAATGAAGTCA
36092715 GA-TGAAGCTA
128 GATTGAAGCTA
* * * * * * * * * *
36092725 CAAATCCTATATCCCTGAAGTAGCGGTGGATCAGATTGAAGCTATAATTTTTATACCCCTGAAGT
1 CAAATCTTATATCCCTGAAGTTGCAGTGGATTAGATTGAAACTACAAATCTTA-AACCCTAAAGT
* * * * * *
36092790 TGTAGTGGGTTGGATTAATTCTACTATAACGAATCTTATCTCCCTGAAGATGCAATGGAG-CAGA
65 TGCAGTGAGTTGGATTGATTCTACTATAGCGAATCTTATCTCCCTGAAGTTGCAATGAAGTCAGA
36092854 TTGAAGCTA
130 TTGAAGCTA
* * * * * * * *
36092863 CAAATATTATATCCCTGAAGTTGTAATGGGTTGGATTGAAACTACAACAAC--AAATCCTATACC
1 CAAATCTTATATCCCTGAAGTTGCAGTGGATTAGATTGAAACTACAA-ATCTTAAACCCTA-A-A
* * ** ** * * *
36092926 TTTGAAGTCGTAG-TGGAGCAGATTGAAGC--TA-CAAATCCTATAC-CCCTAAAGTTGCAAT-A
63 GTTGCAGT-G-AGTTGGA-TTGATTCTA-CTATAGCGAATCTTAT-CTCCCTGAAGTTGCAATGA
* * *
36092985 GGTCGGATTGAATCTA
123 AGTCAGATTGAAGCTA
* * * * * *
36093001 CCATAGCGAATTTTATCTCCCTGAAATTGCAATAGAGTAGATTGAAACTACAAATCTTAAACCCC
1 -C--A---AATCTTATATCCCTGAAGTTGCAGTGGATTAGATTGAAACTACAAATCTTAAA-CCC
* * * * *
36093066 TAAAGTTGCAGTGAGTCGGATTGATTCTACTATAGTGAATCTTATCTCCCTTAAGTTACAGTGAA
59 TAAAGTTGCAGTGAGTTGGATTGATTCTACTATAGCGAATCTTATCTCCCTGAAGTTGCAATGAA
36093131 G-CAGATTGAAGCTA
124 GTCAGATTGAAGCTA
* *
36093145 CAAATCTTATATCCCTGAAGTTGTAGTGGATTGGATTGAAACTACAA
1 CAAATCTTATATCCCTGAAGTTGCAGTGGATTAGATTGAAACTACAA
36093192 CAACAAATCT
Statistics
Matches: 347, Mismatches: 92, Indels: 56
0.70 0.19 0.11
Matches are distributed among these distances:
136 4 0.01
137 9 0.03
138 211 0.61
139 14 0.04
140 5 0.01
141 4 0.01
142 7 0.02
143 10 0.03
144 73 0.21
145 6 0.02
146 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (138 bp):
CAAATCTTATATCCCTGAAGTTGCAGTGGATTAGATTGAAACTACAAATCTTAAACCCTAAAGTT
GCAGTGAGTTGGATTGATTCTACTATAGCGAATCTTATCTCCCTGAAGTTGCAATGAAGTCAGAT
TGAAGCTA
Found at i:36093759 original size:12 final size:14
Alignment explanation
Indices: 36093719--36093760 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
36093709 AAAAAAGTAT
*
36093719 AAACAAGAAGCAGAG
1 AAAC-AGAAGCAGAA
36093734 AAACAGAAGCAGAA
1 AAACAGAAGCAGAA
36093748 AAACA-AAG-AGAA
1 AAACAGAAGCAGAA
36093760 A
1 A
36093761 GAAAAGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 5 0.19
13 3 0.12
14 14 0.54
15 4 0.15
ACGTcount: A:0.67, C:0.12, G:0.21, T:0.00
Consensus pattern (14 bp):
AAACAGAAGCAGAA
Found at i:36095090 original size:9 final size:9
Alignment explanation
Indices: 36095078--36095106 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
36095068 TAATTGAATA
36095078 TTTTTTA-T
1 TTTTTTATT
36095086 TTTTTTATT
1 TTTTTTATT
36095095 TTTTTTATT
1 TTTTTTATT
36095104 TTT
1 TTT
36095107 ATTTGTACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.35
9 13 0.65
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTATT
Found at i:36095091 original size:8 final size:8
Alignment explanation
Indices: 36095078--36095110 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
36095068 TAATTGAATA
36095078 TTTTTTAT
1 TTTTTTAT
36095086 TTTTTTAT
1 TTTTTTAT
36095094 TTTTTT-T
1 TTTTTTAT
*
36095101 ATTTTTAT
1 TTTTTTAT
36095109 TT
1 TT
36095111 GTACTCATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTAT
Found at i:36095096 original size:15 final size:15
Alignment explanation
Indices: 36095076--36095110 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
36095066 ATTAATTGAA
36095076 TATTTTTTATT-TTTT
1 TATTTTTT-TTATTTT
36095091 TATTTTTTTTATTTT
1 TATTTTTTTTATTTT
36095106 TATTT
1 TATTT
36095111 GTACTCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (15 bp):
TATTTTTTTTATTTT
Found at i:36099752 original size:22 final size:22
Alignment explanation
Indices: 36099727--36099771 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
36099717 CACAAACTTT
36099727 TTACTAGCAATTTAACTACAAA
1 TTACTAGCAATTTAACTACAAA
* * * *
36099749 TTACTGGCAGTTTATCTGCAAA
1 TTACTAGCAATTTAACTACAAA
36099771 T
1 T
36099772 ATTTAATGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (22 bp):
TTACTAGCAATTTAACTACAAA
Found at i:36101218 original size:26 final size:26
Alignment explanation
Indices: 36101182--36101234 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
36101172 AACTGAGAAG
36101182 TTAGTTGATTAGGTAACCCTTTTCCA
1 TTAGTTGATTAGGTAACCCTTTTCCA
36101208 TTAGTTGATTAGGTAACCCTTTTCCA
1 TTAGTTGATTAGGTAACCCTTTTCCA
36101234 T
1 T
36101235 CAAATCGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.43
Consensus pattern (26 bp):
TTAGTTGATTAGGTAACCCTTTTCCA
Found at i:36103104 original size:28 final size:29
Alignment explanation
Indices: 36103057--36103123 Score: 100
Period size: 28 Copynumber: 2.3 Consensus size: 29
36103047 AAGAAATTGT
* *
36103057 TCAAAGTAAATTAAAAACTATTAAACATG
1 TCAAATTAAATTAAAAACTATTAAACATA
*
36103086 TCATATTAAA-TAAAAACTATTAAACATA
1 TCAAATTAAATTAAAAACTATTAAACATA
36103114 TCAAATTAAA
1 TCAAATTAAA
36103124 ATCTTGTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 26 0.76
29 8 0.24
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (29 bp):
TCAAATTAAATTAAAAACTATTAAACATA
Found at i:36103400 original size:20 final size:21
Alignment explanation
Indices: 36103380--36103434 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
36103370 ACTTTAAAAT
*
36103380 TTTTTAATAAATATT-TTAAT
1 TTTTTAATAAATATTCTGAAT
**
36103400 TTTTTGAAT-GTTATTCTGAAT
1 TTTTT-AATAAATATTCTGAAT
36103421 TTTTTAATAAATAT
1 TTTTTAATAAATAT
36103435 AATGGATATC
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (21 bp):
TTTTTAATAAATATTCTGAAT
Found at i:36103403 original size:21 final size:21
Alignment explanation
Indices: 36103377--36103434 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
36103367 AAAACTTTAA
*
36103377 AATTTTTTAATAAATATT-TT
1 AATTTTTTAATAAATATTCTG
**
36103397 AATTTTTTGAAT-GTTATTCTG
1 AATTTTTT-AATAAATATTCTG
36103418 AATTTTTTAATAAATAT
1 AATTTTTTAATAAATAT
36103435 AATGGATATC
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (21 bp):
AATTTTTTAATAAATATTCTG
Found at i:36109148 original size:13 final size:13
Alignment explanation
Indices: 36109130--36109154 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36109120 ATAATATTAA
36109130 AATTAATTTAATT
1 AATTAATTTAATT
36109143 AATTAATTTAAT
1 AATTAATTTAAT
36109155 CTCCTTCTAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTAATTTAATT
Found at i:36111203 original size:30 final size:30
Alignment explanation
Indices: 36111168--36111226 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
36111158 TATGGCAGAG
36111168 TTAATCTCTCATTCGAGGATGTGAAGAGTT
1 TTAATCTCTCATTCGAGGATGTGAAGAGTT
36111198 TTAATCTCTCATTCGAGGATGTGAAGAGT
1 TTAATCTCTCATTCGAGGATGTGAAGAGT
36111227 CATCTGTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.36
Consensus pattern (30 bp):
TTAATCTCTCATTCGAGGATGTGAAGAGTT
Found at i:36112444 original size:236 final size:237
Alignment explanation
Indices: 36112026--36112507 Score: 867
Period size: 236 Copynumber: 2.0 Consensus size: 237
36112016 GTCAGTTTTG
36112026 ATTTAATAGTGCACAAGTCGAAGACTAAAAGACTTCTAGCTTCTAAACACAACTTCAACTCAATT
1 ATTTAATAGTGCACAAGTCGAAGACTAAAAGACTTCTAGCTTCTAAACACAACTTCAACTCAATT
36112091 AATATCTTGCATAGTTCGAGATAAGCCCATGATGGGCTTTCGCAAAGAAGGTGCTGTGAAAATAC
66 AATATCTTGCATAGTTCGAGATAAGCCCATGATGGGCTTTCGCAAAGAAGGTGCTGTGAAAATAC
36112156 GAGTCAAGGTAGAGATTCGTGGAGTTATGCCTCGTATTTTTTAGTTTTTCTTCTCCCAATTAAAC
131 GAGTCAAGGTAGAGATTCGTGGAGTTATGCCTCGTATTTTTTAGTTTTTCTTCTCCCAATTAAAC
*
36112221 TCCG-TTTTAGTTTCCCACTCAAACTCTGATTAGTGTTGGTT
196 TCAGTTTTTAGTTTCCCACTCAAACTCTGATTAGTGTTGGTT
*
36112262 ATTTGATAGTGCACAAGTCGAAGACTAAAAGACTTCTAGCTTCTAAACACAACTTCAACTCAATT
1 ATTTAATAGTGCACAAGTCGAAGACTAAAAGACTTCTAGCTTCTAAACACAACTTCAACTCAATT
* * *
36112327 AATATCTTGCATAGTTTGAGATAAGCCCATGATTGGCTTTCGCAAAGAAGGTGCTGTGAAAATAT
66 AATATCTTGCATAGTTCGAGATAAGCCCATGATGGGCTTTCGCAAAGAAGGTGCTGTGAAAATAC
* *
36112392 GAGTCAAGGTGGAGATTTGTGGAGTTATGCCTCGTATTTTTTAGTTTTTCTTCTCCCAATTAAAC
131 GAGTCAAGGTAGAGATTCGTGGAGTTATGCCTCGTATTTTTTAGTTTTTCTTCTCCCAATTAAAC
* *
36112457 TCAGTTTTTAGTTTCCCACTTAAACTCTGATTATTGTTGGTT
196 TCAGTTTTTAGTTTCCCACTCAAACTCTGATTAGTGTTGGTT
36112499 ATTTTAATA
1 A-TTTAATA
36112508 TTATTTGACC
Statistics
Matches: 234, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
236 192 0.82
237 36 0.15
238 6 0.03
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (237 bp):
ATTTAATAGTGCACAAGTCGAAGACTAAAAGACTTCTAGCTTCTAAACACAACTTCAACTCAATT
AATATCTTGCATAGTTCGAGATAAGCCCATGATGGGCTTTCGCAAAGAAGGTGCTGTGAAAATAC
GAGTCAAGGTAGAGATTCGTGGAGTTATGCCTCGTATTTTTTAGTTTTTCTTCTCCCAATTAAAC
TCAGTTTTTAGTTTCCCACTCAAACTCTGATTAGTGTTGGTT
Found at i:36114343 original size:21 final size:21
Alignment explanation
Indices: 36114291--36114344 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
36114281 CATATTGGTG
*
36114291 TTTTGTTGAAAAGGAAACAAA
1 TTTTGTTGAAGAGGAAACAAA
36114312 TTTTGTTGAAGAGGAAACAAA
1 TTTTGTTGAAGAGGAAACAAA
36114333 TTTTGTTGAAGA
1 TTTTGTTGAAGA
36114345 TGAATAACCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.41, C:0.04, G:0.22, T:0.33
Consensus pattern (21 bp):
TTTTGTTGAAGAGGAAACAAA
Found at i:36116163 original size:42 final size:44
Alignment explanation
Indices: 36116111--36116330 Score: 196
Period size: 39 Copynumber: 5.3 Consensus size: 44
36116101 ATGTTCCTGT
*
36116111 TTTATTTTTAATCCTGTTTTTAAATTATTGGTATCTATTCATAA
1 TTTATTTTTAATCCTGTTTTTAAATTATTGGTATATATTCATAA
*
36116155 -TT-TTTTTAATCCTGTTTTTAAATTATTGGTATATGTTCATAA
1 TTTATTTTTAATCCTGTTTTTAAATTATTGGTATATATTCATAA
** * * *
36116197 TTTATTTTTAATATTGTTTTT-AA--ATT--TATCTGA-CCATAT
1 TTTATTTTTAATCCTGTTTTTAAATTATTGGTATAT-ATTCATAA
* * * * *
36116236 TTTATTTTTAATCTTGTTTCT-AA--ATT--TATCTGTTCATAT
1 TTTATTTTTAATCCTGTTTTTAAATTATTGGTATATATTCATAA
* * * *
36116275 TTTATTTTTTATCCTATTTTTAAATTATTGGTATTTGTTCATAA
1 TTTATTTTTAATCCTGTTTTTAAATTATTGGTATATATTCATAA
36116319 TTTATTTTTAAT
1 TTTATTTTTAAT
36116331 ATTGTTTCAA
Statistics
Matches: 148, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
39 59 0.40
40 2 0.01
41 3 0.02
42 41 0.28
43 6 0.04
44 37 0.25
ACGTcount: A:0.26, C:0.08, G:0.06, T:0.60
Consensus pattern (44 bp):
TTTATTTTTAATCCTGTTTTTAAATTATTGGTATATATTCATAA
Found at i:36117669 original size:12 final size:12
Alignment explanation
Indices: 36117652--36117676 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36117642 TTTACAAGTT
36117652 AAAAAAAGTTAC
1 AAAAAAAGTTAC
36117664 AAAAAAAGTTAC
1 AAAAAAAGTTAC
36117676 A
1 A
36117677 CATAAATCAA
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:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAAAAAGTTAC
Found at i:36118917 original size:20 final size:20
Alignment explanation
Indices: 36118892--36118944 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
36118882 AGATAGGGGC
* *
36118892 ACACGCCCGTGTGGCTTGGA
1 ACACGCCCGTGTGGCCTGAA
*
36118912 ACACGCCCATGTGGCCTGAA
1 ACACGCCCGTGTGGCCTGAA
*
36118932 ACATGCCCGTGTG
1 ACACGCCCGTGTG
36118945 CTTCAACCGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.19, C:0.32, G:0.30, T:0.19
Consensus pattern (20 bp):
ACACGCCCGTGTGGCCTGAA
Found at i:36119829 original size:52 final size:52
Alignment explanation
Indices: 36119760--36119906 Score: 156
Period size: 52 Copynumber: 2.8 Consensus size: 52
36119750 CACATATCAT
* * * * *
36119760 ACCGAAGCCATATCCCAGATATGATCTTATATGGAATCACATTTTCACA-T-C
1 ACCGATGCCATAGCCCAGCTATGGTCTTATATGGAATCACATATT-ACATTGC
* * *
36119811 ACACGATGCCATAGCCCAGCTATGGTCTTATACGGGAAT-ACAAATTACATTGT
1 AC-CGATGCCATAGCCCAGCTATGGTCTTATA-TGGAATCACATATTACATTGC
* *
36119864 ACCGATGCCATAGCCCTGCTATGGTCTTATATGGAAGCACATA
1 ACCGATGCCATAGCCCAGCTATGGTCTTATATGGAATCACATA
36119907 CCACATCTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
51 9 0.11
52 63 0.80
53 7 0.09
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (52 bp):
ACCGATGCCATAGCCCAGCTATGGTCTTATATGGAATCACATATTACATTGC
Found at i:36139842 original size:20 final size:20
Alignment explanation
Indices: 36139827--36139866 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
36139817 TTAAAAATAT
36139827 TAATT-AAAAATAAAAAAAA
1 TAATTAAAAAATAAAAAAAA
*
36139846 TATTTAAAAAATAAAATAAAA
1 TAATTAAAAAATAAAA-AAAA
36139867 AATATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (20 bp):
TAATTAAAAAATAAAAAAAA
Found at i:36139865 original size:12 final size:13
Alignment explanation
Indices: 36139834--36139876 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
36139824 TATTAATTAA
*
36139834 AAATAAAAAAAAT
1 AAATAAAAAATAT
**
36139847 ATTTAAAAAATA-
1 AAATAAAAAATAT
36139859 AAATAAAAAATAT
1 AAATAAAAAATAT
36139872 AAATA
1 AAATA
36139877 TGAGCAAAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATAAAAAATAT
Found at i:36139867 original size:22 final size:22
Alignment explanation
Indices: 36139818--36139874 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
36139808 GTTAATATAT
*
36139818 TAAAAATATTAATTAAAAATAAA
1 TAAAAATATT-ATAAAAAATAAA
36139841 -AAAAATATT-TAAAAAATAAAA
1 TAAAAATATTATAAAAAAT-AAA
36139862 TAAAAA-A-TATAAA
1 TAAAAATATTATAAA
36139875 TATGAGCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
20 8 0.27
21 8 0.27
22 14 0.47
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (22 bp):
TAAAAATATTATAAAAAATAAA
Found at i:36151989 original size:43 final size:43
Alignment explanation
Indices: 36151894--36152040 Score: 136
Period size: 43 Copynumber: 3.4 Consensus size: 43
36151884 ACCGAGATGT
* * * * * *
36151894 GATTACATATAAGACCATGTCTGGGAAATTGGCATTGTATTGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGC
*
36151937 GATTACGTGTGAGACCATGTCTGGGACATTGGCATCGTTAAT-C
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TAATGC
* * * * *
36151980 GATTTCGTGTAAGACCCTGTTTGGGACAGTGGCATCG-ATATGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTA-ATGC
* *
36152023 GATAACATGTAAGACCAT
1 GATTACGTGTAAGACCAT
36152041 ATCTAGGATA
Statistics
Matches: 84, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 78 0.93
44 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGC
Found at i:36154233 original size:27 final size:26
Alignment explanation
Indices: 36154202--36154261 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
36154192 ATCCAACCCA
*
36154202 ATATTTTTTTTATTTCCCAAAATAAAT
1 ATATTTTTTTAATTTCCC-AAATAAAT
** *
36154229 ATATTAATTTAATTTCCCAATTAAAT
1 ATATTTTTTTAATTTCCCAAATAAAT
36154255 A-ATTTTT
1 ATATTTTT
36154262 CAATCCAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
25 4 0.15
26 8 0.30
27 15 0.56
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (26 bp):
ATATTTTTTTAATTTCCCAAATAAAT
Found at i:36157154 original size:66 final size:66
Alignment explanation
Indices: 36157030--36157159 Score: 181
Period size: 66 Copynumber: 2.0 Consensus size: 66
36157020 CACCATGGCT
* * * * *
36157030 TTCAGAATTAGAAGTTTGATGAAAATAAGCCGTAGCATATTTGTCTCCCAAGCTCTTCACTTCTG
1 TTCAGAATCAGAAGTTTGATGAAAATAAGCCGTAGCATACTTGCCTCCCAAACCCTTCACTTCTG
36157095 A
66 A
* *
36157096 TTCAGAATCAGAAGTTTTG-TGAAAGTAAGCCGTAGCATACTTGCCTTCCAAACCCTTCACTTCT
1 TTCAGAATCAGAAG-TTTGATGAAAATAAGCCGTAGCATACTTGCCTCCCAAACCCTTCACTTCT
36157160 TTCCCTTCGT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 52 0.93
67 4 0.07
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.32
Consensus pattern (66 bp):
TTCAGAATCAGAAGTTTGATGAAAATAAGCCGTAGCATACTTGCCTCCCAAACCCTTCACTTCTG
A
Found at i:36157235 original size:147 final size:154
Alignment explanation
Indices: 36156964--36157391 Score: 428
Period size: 162 Copynumber: 2.8 Consensus size: 154
36156954 AATCAAACGC
* * * * *
36156964 TTTGTGAAAGTAAGCCGTGGAATATTTGTCTTCCAAACTCTTCA-TTGCTTTCCTTTCACCATGG
1 TTTGTGAAAGTAAGCCGTAGCATATTTGTCTTCCAAACCCTTCACTT-CTTTCCCTTCGCCATGG
* * * * *
36157028 CTTTCAGAATTAGAAG-TTTGATGAAAATAAGCCGTAGCATATTTGTCTCCCAAGCTCTTCA-C-
65 CTTTCAGAATCAGAAGTTTTG-TGAAAATAAGCAGTAGCATATTTATCTCCCAAACCCTTCATCT
36157090 TT-C-T-G-A-TTCAGAATCAGAAGT
129 TTCCGTCGCAGTTCAGAATCAGAAGT
* * *
36157111 TTTGTGAAAGTAAGCCGTAGCATACTTGCCTTCCAAACCCTTCACTTCTTTCCCTTCGTCATGGC
1 TTTGTGAAAGTAAGCCGTAGCATATTTGTCTTCCAAACCCTTCACTTCTTTCCCTTCGCCATGGC
* * * *
36157176 TTTCAGAATCAGAAGTTTTGTGGAAGTAAAG-ATTAGCATATTTATCTTCCAAACCCTTCACTTC
66 TTTCAGAATCAGAAGTTTTGTGAAAAT-AAGCAGTAGCATATTTATCTCCCAAACCCTTCA--TC
36157240 TTTCCCGTCGCCATGGCTTTCAGAATCAGAAGT
128 TTT-CCGTCG-CA--G--TTCAGAATCAGAAGT
* **** *
36157273 TTTGTGGAAGTAAATATTAGCATATTTATCTTCCAAACCCTTCACTTCTTTCCCTTCGCCATGGC
1 TTTGTGAAAGTAAGCCGTAGCATATTTGTCTTCCAAACCCTTCACTTCTTTCCCTTCGCCATGGC
* * * *
36157338 TTTCAGAATCAGAAGTTTTGT-AAAAGTAAGCCGTAGCATACTTGTCTTCCAAAC
66 TTTCAGAATCAGAAGTTTTGTGAAAA-TAAGCAGTAGCATATTTATCTCCCAAAC
36157392 TCGTCACCTC
Statistics
Matches: 229, Mismatches: 32, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
147 96 0.42
148 9 0.04
150 1 0.00
151 2 0.01
153 1 0.00
154 1 0.00
155 1 0.00
157 1 0.00
161 5 0.02
162 112 0.49
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (154 bp):
TTTGTGAAAGTAAGCCGTAGCATATTTGTCTTCCAAACCCTTCACTTCTTTCCCTTCGCCATGGC
TTTCAGAATCAGAAGTTTTGTGAAAATAAGCAGTAGCATATTTATCTCCCAAACCCTTCATCTTT
CCGTCGCAGTTCAGAATCAGAAGT
Found at i:36157365 original size:81 final size:81
Alignment explanation
Indices: 36157096--36157391 Score: 430
Period size: 81 Copynumber: 3.7 Consensus size: 81
36157086 TCACTTCTGA
* ** * **
36157096 TTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATACTTGCCTTCCAAACCCTTCACTTCTT
1 TTCAGAATCAGAAGTTTTGTGAAAGTAAACATTAGCATATTTATCTTCCAAACCCTTCACTTCTT
*
36157161 TCCCTTCGTCATGGCT
66 TCCCTTCGCCATGGCT
* *
36157177 TTCAGAATCAGAAGTTTTGTGGAAGTAAAGATTAGCATATTTATCTTCCAAACCCTTCACTTCTT
1 TTCAGAATCAGAAGTTTTGTGAAAGTAAACATTAGCATATTTATCTTCCAAACCCTTCACTTCTT
*
36157242 TCCCGTCGCCATGGCT
66 TCCCTTCGCCATGGCT
* *
36157258 TTCAGAATCAGAAGTTTTGTGGAAGTAAATATTAGCATATTTATCTTCCAAACCCTTCACTTCTT
1 TTCAGAATCAGAAGTTTTGTGAAAGTAAACATTAGCATATTTATCTTCCAAACCCTTCACTTCTT
36157323 TCCCTTCGCCATGGCT
66 TCCCTTCGCCATGGCT
* * ** * *
36157339 TTCAGAATCAGAAGTTTTGTAAAAGTAAGCCGTAGCATACTTGTCTTCCAAAC
1 TTCAGAATCAGAAGTTTTGTGAAAGTAAACATTAGCATATTTATCTTCCAAAC
36157392 TCGTCACCTC
Statistics
Matches: 195, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 195 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.34
Consensus pattern (81 bp):
TTCAGAATCAGAAGTTTTGTGAAAGTAAACATTAGCATATTTATCTTCCAAACCCTTCACTTCTT
TCCCTTCGCCATGGCT
Found at i:36157423 original size:81 final size:80
Alignment explanation
Indices: 36157096--36157552 Score: 241
Period size: 81 Copynumber: 5.7 Consensus size: 80
36157086 TCACTTCTGA
* * * * *
36157096 TTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATACTTGCCTTCCAAACCCTTCACTTCTT
1 TTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATATTTGTCTTCCAAACTCGTCACATC--
* * * * *
36157161 TCCCTTCGTC-ATGG-CT
64 -ACCTCCATCAAAGGATT
* ** * * * *
36157177 TTCAGAATCAGAAGTTTTGTGGAAGTAAAG-ATTAGCATATTTATCTTCCAAACCCTTCACTTC-
1 TTCAGAATCAGAAGTTTTGTGAAAGT-AAGCCGTAGCATATTTGTCTTCCAAACTCGTCACATCA
** * * * *
36157240 TTTCCCGTCGCCATGG-CT
65 CCT-CCAT--CAAAGGATT
* **** * * * *
36157258 TTCAGAATCAGAAGTTTTGTGGAAGTAAATATTAGCATATTTATCTTCCAAACCCTTCACTTCTT
1 TTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATATTTGTCTTCCAAACTCGTCACATC--
* * * * * *
36157323 TCCCTTC-GCCATGG-CT
64 -ACCTCCATCAAAGGATT
* * *
36157339 TTCAGAATCAGAAGTTTTGTAAAAGTAAGCCGTAGCATACTTGTCTTCCAAACTCGTCACCTC-C
1 TTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATATTTGTCTTCCAAACTCGTCACATCAC
*
36157403 TTTTCTCTATC-AA-GATT
66 ----CTCCATCAAAGGATT
* * * * * * *
36157420 TTCAGCATCAAAAGCTTTGTGGAAGTAAGCCGTAGAATATTTGTCTTCCAAATTCTTCACATCAC
1 TTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATATTTGTCTTCCAAACTCGTCACATCAC
36157485 CTCCATCAAAGTGATT
66 CTCCATCAAAG-GATT
* * *
36157501 TGCAGAATCAGAAGTTTTGTGAAAGTAAGCTGTAGCATATTTTTCTTCCAAA
1 TTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATATTTGTCTTCCAAA
36157553 TCCCTTCCTG
Statistics
Matches: 307, Mismatches: 49, Indels: 40
0.78 0.12 0.10
Matches are distributed among these distances:
77 2 0.01
78 9 0.03
79 2 0.01
80 4 0.01
81 283 0.92
82 5 0.02
84 1 0.00
85 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (80 bp):
TTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATATTTGTCTTCCAAACTCGTCACATCAC
CTCCATCAAAGGATT
Found at i:36157469 original size:162 final size:162
Alignment explanation
Indices: 36157096--36157471 Score: 452
Period size: 162 Copynumber: 2.3 Consensus size: 162
36157086 TCACTTCTGA
* * *
36157096 TTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATACTTGCCTTCCAAACCCTTCACTTCTT
1 TTCAGAATCAGAAGTTTTGTGGAAGTAAGCCGTAGCATATTTGTCTTCCAAACCCTTCACTTCTT
* ** * *
36157161 TCCCTTCGTCATGGCTTTCAGAATCAGAAGTTTTGTGGAAGTAAAGATTAGCATATTTATCTTCC
66 TCCCTTCGCCATGGCTTTCAGAATCAGAAGTTTTGTAAAAGTAAAGAGTAGCATACTTATCTTCC
* * * * *
36157226 AAACCCTTCACTTCTTTCCCGTCGCCATGGCT
131 AAACCCGTCACTCCTTTCCCGTCACCAAGACT
**** *
36157258 TTCAGAATCAGAAGTTTTGTGGAAGTAAATATTAGCATATTTATCTTCCAAACCCTTCACTTCTT
1 TTCAGAATCAGAAGTTTTGTGGAAGTAAGCCGTAGCATATTTGTCTTCCAAACCCTTCACTTCTT
* *
36157323 TCCCTTCGCCATGGCTTTCAGAATCAGAAGTTTTGTAAAAGT-AAGCCGTAGCATACTTGTCTTC
66 TCCCTTCGCCATGGCTTTCAGAATCAGAAGTTTTGTAAAAGTAAAG-AGTAGCATACTTATCTTC
* * * *
36157387 CAAACTCGTCACCTCCTTT-TC-TCTATCAAGATT
130 CAAACCCGTCA-CTCCTTTCCCGTC-ACCAAGACT
* * * *
36157420 TTCAGCATCAAAAGCTTTGTGGAAGTAAGCCGTAGAATATTTGTCTTCCAAA
1 TTCAGAATCAGAAGTTTTGTGGAAGTAAGCCGTAGCATATTTGTCTTCCAAA
36157472 TTCTTCACAT
Statistics
Matches: 178, Mismatches: 33, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
161 5 0.03
162 167 0.94
163 6 0.03
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.34
Consensus pattern (162 bp):
TTCAGAATCAGAAGTTTTGTGGAAGTAAGCCGTAGCATATTTGTCTTCCAAACCCTTCACTTCTT
TCCCTTCGCCATGGCTTTCAGAATCAGAAGTTTTGTAAAAGTAAAGAGTAGCATACTTATCTTCC
AAACCCGTCACTCCTTTCCCGTCACCAAGACT
Found at i:36161399 original size:16 final size:16
Alignment explanation
Indices: 36161378--36161409 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
36161368 TAATGTATAA
36161378 AAAAATTGACTCCAAG
1 AAAAATTGACTCCAAG
36161394 AAAAATTGACTCCAAG
1 AAAAATTGACTCCAAG
36161410 TCTTTGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.12, T:0.19
Consensus pattern (16 bp):
AAAAATTGACTCCAAG
Found at i:36161963 original size:17 final size:17
Alignment explanation
Indices: 36161941--36161984 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 17
36161931 TCATGTATGG
36161941 TATTATGAATTTAAATT
1 TATTATGAATTTAAATT
36161958 TATTATG-A-TTAAATT
1 TATTATGAATTTAAATT
*
36161973 T-TTATTAATTTA
1 TATTATGAATTTA
36161985 GTATATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 4 0.17
15 9 0.38
16 4 0.17
17 7 0.29
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (17 bp):
TATTATGAATTTAAATT
Found at i:36162138 original size:20 final size:19
Alignment explanation
Indices: 36162110--36162161 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
36162100 AATACACTTA
* *
36162110 AAATAAATATATAAATATAT
1 AAATTAATATATAAA-AAAT
36162130 AAATTAATA-ATAAAAAAT
1 AAATTAATATATAAAAAAT
36162148 AATATTTAATATAT
1 AA-A-TTAATATAT
36162162 CATACATTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 5 0.19
19 6 0.22
20 14 0.52
21 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATTAATATATAAAAAAT
Found at i:36163587 original size:29 final size:30
Alignment explanation
Indices: 36163554--36163615 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
36163544 AAAAAAACTC
36163554 AAAAAATAAATGT-TGGAAAAA-TAAATATT
1 AAAAAATAAA-GTATGGAAAAATTAAATATT
* * *
36163583 AAAAAATTAAGTATTGAAAAATTAAGTATT
1 AAAAAATAAAGTATGGAAAAATTAAATATT
36163613 AAA
1 AAA
36163616 TTTAAGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 2 0.07
29 16 0.57
30 10 0.36
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (30 bp):
AAAAAATAAAGTATGGAAAAATTAAATATT
Found at i:36163588 original size:15 final size:15
Alignment explanation
Indices: 36163554--36163615 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 15
36163544 AAAAAAACTC
* *
36163554 AAAAAATAAATGTTG
1 AAAAAATAAATATTA
*
36163569 GAAAAATAAATATTA
1 AAAAAATAAATATTA
* * *
36163584 AAAAATTAAGTATTG
1 AAAAAATAAATATTA
* *
36163599 AAAAATTAAGTATTA
1 AAAAAATAAATATTA
36163614 AA
1 AA
36163616 TTTAAGTTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (15 bp):
AAAAAATAAATATTA
Found at i:36165268 original size:20 final size:22
Alignment explanation
Indices: 36165243--36165284 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
36165233 TTATTAAAGA
36165243 GAAATTGATA-A-ATTAAGTTT
1 GAAATTGATAGATATTAAGTTT
36165263 GAAATTGATAGATATTAAGTTT
1 GAAATTGATAGATATTAAGTTT
36165285 AGATCACGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 10 0.50
21 1 0.05
22 9 0.45
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (22 bp):
GAAATTGATAGATATTAAGTTT
Found at i:36166216 original size:113 final size:113
Alignment explanation
Indices: 36166000--36166216 Score: 278
Period size: 113 Copynumber: 1.9 Consensus size: 113
36165990 CCGGGTCACT
** * *
36166000 CGAGATGGTAAAATATGCAAAAAATGAAAGCCATCGTTGTCGGGTCATCTGGGATGGTAGAATAT
1 CGAGATGGTAAAATAAACAAAAAATGAAAGCCATCATTGTCGGGTCATCTGGGATAGTAGAATAT
** *
36166065 GTAAATAGTGGAAACCATCATTGTTGCGCCATTCGGGATAAGGCCATC
66 CAAAATAGTGGAAACCATCATTGTCGCGCCATTCGGGATAAGGCCATC
* * * *
36166113 CGAGATGGTAGAATAAACAAATAGTGAAAGCCATCATTGTTGGGTCAT-TCGGGATAGTAGAATA
1 CGAGATGGTAAAATAAACAAAAAATGAAAGCCATCATTGTCGGGTCATCT-GGGATAGTAGAATA
*
36166177 TCAAAATAGTGTG-AACCATCATTGTCGGGCCACTT-GGGAT
65 TCAAAATAGTG-GAAACCATCATTGTCGCGCCA-TTCGGGAT
36166217 GGTAAAGTGT
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
112 1 0.01
113 85 0.96
114 3 0.03
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.25
Consensus pattern (113 bp):
CGAGATGGTAAAATAAACAAAAAATGAAAGCCATCATTGTCGGGTCATCTGGGATAGTAGAATAT
CAAAATAGTGGAAACCATCATTGTCGCGCCATTCGGGATAAGGCCATC
Found at i:36166321 original size:49 final size:48
Alignment explanation
Indices: 36166260--36166370 Score: 143
Period size: 49 Copynumber: 2.3 Consensus size: 48
36166250 CCAGATTATC
* *
36166260 TGAGATGATAGAAAAAGCAGTTGGTAAAAGCCATCCTTG-CTGGGCCAT
1 TGAGATGGTAGAAAAAGCAGTTGGTAAAAGCCATCATTGAC-GGGCCAT
* *
36166308 TCGAGATGGTAGAATAAGTAGTTGGTAAAAGCCATCATTGACGGGCCAT
1 T-GAGATGGTAGAAAAAGCAGTTGGTAAAAGCCATCATTGACGGGCCAT
*
36166357 TTAGGATGGTAGAA
1 TGA-GATGGTAGAA
36166371 CATTCGAATT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
48 2 0.04
49 52 0.95
50 1 0.02
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (48 bp):
TGAGATGGTAGAAAAAGCAGTTGGTAAAAGCCATCATTGACGGGCCAT
Found at i:36178953 original size:50 final size:50
Alignment explanation
Indices: 36178887--36178982 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 50
36178877 ACGAGTTGTA
*
36178887 AACGAGAAGCTCATGTGAGCTGAATAACGAGAAGCTCATGCGAGCTAAAT
1 AACGAGAAGCTCATGTGAGCTGAATAACGAGAAGCTCATACGAGCTAAAT
* * *
36178937 AACGGGAAGCTTATGTGAGCTGAATAACGAGAAGCTTATACGAGCT
1 AACGAGAAGCTCATGTGAGCTGAATAACGAGAAGCTCATACGAGCT
36178983 GTTGTGTGTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.20
Consensus pattern (50 bp):
AACGAGAAGCTCATGTGAGCTGAATAACGAGAAGCTCATACGAGCTAAAT
Found at i:36178975 original size:25 final size:25
Alignment explanation
Indices: 36178887--36178972 Score: 136
Period size: 25 Copynumber: 3.4 Consensus size: 25
36178877 ACGAGTTGTA
36178887 AACGAGAAGCTCATGTGAGCTGAAT
1 AACGAGAAGCTCATGTGAGCTGAAT
* *
36178912 AACGAGAAGCTCATGCGAGCTAAAT
1 AACGAGAAGCTCATGTGAGCTGAAT
* *
36178937 AACGGGAAGCTTATGTGAGCTGAAT
1 AACGAGAAGCTCATGTGAGCTGAAT
36178962 AACGAGAAGCT
1 AACGAGAAGCT
36178973 TATACGAGCT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (25 bp):
AACGAGAAGCTCATGTGAGCTGAAT
Found at i:36178981 original size:25 final size:25
Alignment explanation
Indices: 36178887--36178983 Score: 131
Period size: 25 Copynumber: 3.9 Consensus size: 25
36178877 ACGAGTTGTA
*
36178887 AACGAGAAGCTCATGTGAGCTGAAT
1 AACGAGAAGCTCATGCGAGCTGAAT
*
36178912 AACGAGAAGCTCATGCGAGCTAAAT
1 AACGAGAAGCTCATGCGAGCTGAAT
* * *
36178937 AACGGGAAGCTTATGTGAGCTGAAT
1 AACGAGAAGCTCATGCGAGCTGAAT
* *
36178962 AACGAGAAGCTTATACGAGCTG
1 AACGAGAAGCTCATGCGAGCTG
36178984 TTGTGTGTCC
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (25 bp):
AACGAGAAGCTCATGCGAGCTGAAT
Found at i:36181879 original size:79 final size:78
Alignment explanation
Indices: 36181717--36181946 Score: 302
Period size: 79 Copynumber: 2.9 Consensus size: 78
36181707 GAGTCACATC
** * *
36181717 TCATGTAACTATAGTGAATCAGGATTA-CCTTTTCAGGTCAAATCCTA-CCCCTTAAGTTATCAT
1 TCATGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCCCTTAAGTTACCAT
* *
36181780 AAGGAATCATGTA
66 AATGAATCATATA
* * *
36181793 TCGTGTAATCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCA
1 TCATGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCC-CCTTAAGTTACCA
36181858 TAATGAATCATATA
65 TAATGAATCATATA
* * * *
36181872 TCATGTAACCGTAGTGAATCAGGATTACCCTTTTCAGGTCAAATCTTATCCGCTTTAAGTTACCT
1 TCATGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCC-CCTTAAGTTACCA
*
36181937 TAGTGAATCA
65 TAATGAATCA
36181947 GGAATAAATC
Statistics
Matches: 133, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
76 22 0.17
77 20 0.15
78 2 0.02
79 89 0.67
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.33
Consensus pattern (78 bp):
TCATGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCCCTTAAGTTACCAT
AATGAATCATATA
Found at i:36181968 original size:40 final size:40
Alignment explanation
Indices: 36181911--36182048 Score: 161
Period size: 40 Copynumber: 3.5 Consensus size: 40
36181901 CTTTTCAGGT
* *
36181911 CAAATCTTATCCGCTTTAAGTTACCTTAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCTTAGTGAATCAGGAA
* * * * *
36181951 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAAGAA
1 CAAATCCTATCCACTTTAAGTTACCTTAGTGAATCAGGAA
* * *
36181991 CAAATTCTATCCACTTTAAGGTA-TTATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCT-TAGTGAATCAGGAA
*
36182031 CGAATCCTATCCACTTTA
1 CAAATCCTATCCACTTTA
36182049 TATTCTTGAG
Statistics
Matches: 80, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.33
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAGTTACCTTAGTGAATCAGGAA
Found at i:36183683 original size:11 final size:10
Alignment explanation
Indices: 36183667--36183700 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
36183657 TTATATATTA
36183667 AATAAATTAAT
1 AATAAA-TAAT
36183678 AATAAAATAAT
1 AAT-AAATAAT
36183689 AATAAATAAT
1 AATAAATAAT
36183699 AA
1 AA
36183701 AATATCCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.41
11 10 0.45
12 3 0.14
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AATAAATAAT
Found at i:36187221 original size:48 final size:48
Alignment explanation
Indices: 36187077--36187221 Score: 202
Period size: 48 Copynumber: 3.0 Consensus size: 48
36187067 CAATTAATGA
* * * *
36187077 GAGCCAGTGTAAGACCATGTCTTGAACATGGCATCAGTGTTGATATGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATG-T
* *
36187126 -AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGT
* *
36187173 GAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCGTTGACATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGT
36187221 G
1 G
36187222 GGACATGGCA
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
47 1 0.01
48 84 0.99
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGT
Found at i:36187226 original size:26 final size:26
Alignment explanation
Indices: 36187194--36187247 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
36187184 AAACCATGTC
*
36187194 TGGGACATGGCATCGGCGTTGACATG
1 TGGGACATGGCATCGACGTTGACATG
* *
36187220 TGGGACATGGCATTGACGTTGATATG
1 TGGGACATGGCATCGACGTTGACATG
36187246 TG
1 TG
36187248 TGCTAGTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.20, C:0.15, G:0.37, T:0.28
Consensus pattern (26 bp):
TGGGACATGGCATCGACGTTGACATG
Found at i:36187291 original size:74 final size:74
Alignment explanation
Indices: 36187146--36187293 Score: 224
Period size: 74 Copynumber: 2.0 Consensus size: 74
36187136 AGACCATGTC
36187146 TGGGACATGGCATCGACGTTGATATGTGAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGC
1 TGGGACATGGCATCGACGTTGATATGTGAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGC
**
36187211 GTTGACATG
66 ACTGACATG
* * * * * *
36187220 TGGGACATGGCATTGACGTTGATATGTGTGCTAGTGTAAGACTATGTCTGGGACATGGCATTGGC
1 TGGGACATGGCATCGACGTTGATATGTGAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGC
36187285 ACTGACATG
66 ACTGACATG
36187294 AGATTTCATA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 66 1.00
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (74 bp):
TGGGACATGGCATCGACGTTGATATGTGAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGC
ACTGACATG
Found at i:36194550 original size:44 final size:44
Alignment explanation
Indices: 36194501--36194592 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
36194491 TGTTCAGGGA
*
36194501 TACTTCGACCTTGAGTCGATGAGGCACTATAAGTGTCGTACTGT
1 TACTTCGACCTTGAGTCGATGAGGCACTATAAGTGTCGTACTGC
* ** *
36194545 TACTTCGACTTTGAGTCGATGAGGCACTATGTGTGTTGTACTGC
1 TACTTCGACCTTGAGTCGATGAGGCACTATAAGTGTCGTACTGC
36194589 TACT
1 TACT
36194593 GTTACATCGG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.35
Consensus pattern (44 bp):
TACTTCGACCTTGAGTCGATGAGGCACTATAAGTGTCGTACTGC
Found at i:36196600 original size:73 final size:73
Alignment explanation
Indices: 36196481--36196624 Score: 252
Period size: 73 Copynumber: 2.0 Consensus size: 73
36196471 TAGTCTTTAA
* *
36196481 ACACATAACTTAACAAAATCATCACATGGTAAGATAGATTTCATGTACATAGCACATTTGAATTC
1 ACACATAACTTAACAAAATCATCACATGGTAAGATAAATTTCATGTACATAGCACATTTGAAATC
36196546 ATACTTAC
66 ATACTTAC
* *
36196554 ACACATAATTTAACAAAATTATCACATGGTAAGATAAATTTCATGTACATAGCACATTTGAAATC
1 ACACATAACTTAACAAAATCATCACATGGTAAGATAAATTTCATGTACATAGCACATTTGAAATC
36196619 ATACTT
66 ATACTT
36196625 TCCATAAACA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 67 1.00
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.31
Consensus pattern (73 bp):
ACACATAACTTAACAAAATCATCACATGGTAAGATAAATTTCATGTACATAGCACATTTGAAATC
ATACTTAC
Found at i:36206002 original size:12 final size:12
Alignment explanation
Indices: 36205987--36206036 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
36205977 CAAAGTTGTT
*
36205987 GATGAAGAGGAA
1 GATGAAGACGAA
* *
36205999 GATGGAGAGGAA
1 GATGAAGACGAA
*
36206011 GACGAAGACGAA
1 GATGAAGACGAA
36206023 GATGAAGACGAA
1 GATGAAGACGAA
36206035 GA
1 GA
36206037 GGATGATGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.48, C:0.06, G:0.40, T:0.06
Consensus pattern (12 bp):
GATGAAGACGAA
Found at i:36206044 original size:18 final size:18
Alignment explanation
Indices: 36205986--36206045 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
36205976 ACAAAGTTGT
*
36205986 TGATGAAGAGGAAGATGGA
1 TGATGAAGACGAAGA-GGA
* *
36206005 -GAGGAAGACGAAGACGA
1 TGATGAAGACGAAGAGGA
*
36206022 AGATGAAGACGAAGAGGA
1 TGATGAAGACGAAGAGGA
36206040 TGATGA
1 TGATGA
36206046 TGATGATGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
17 2 0.06
18 32 0.94
ACGTcount: A:0.45, C:0.05, G:0.40, T:0.10
Consensus pattern (18 bp):
TGATGAAGACGAAGAGGA
Found at i:36208493 original size:17 final size:17
Alignment explanation
Indices: 36208454--36208507 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
36208444 CTATGTTTTT
*
36208454 TTTTTCAAACATTTAATAA
1 TTTTT-AAAAATTTAA-AA
**
36208473 TTTTT-AATTTTTAAAA
1 TTTTTAAAAATTTAAAA
36208489 TTTTTAAAAATTTAAAA
1 TTTTTAAAAATTTAAAA
36208506 TT
1 TT
36208508 AAGATAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
16 7 0.23
17 18 0.60
19 5 0.17
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTTAAAAATTTAAAA
Found at i:36208780 original size:23 final size:23
Alignment explanation
Indices: 36208737--36208780 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
36208727 TCCTAACGTT
* *
36208737 CCTTTTCTTCTTAACATTCTCTA
1 CCTTATCTTCTTAACACTCTCTA
36208760 CCTTATCTTCTTCAAC-CTCTC
1 CCTTATCTTCTT-AACACTCTC
36208781 CCTTCTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (23 bp):
CCTTATCTTCTTAACACTCTCTA
Found at i:36215624 original size:19 final size:20
Alignment explanation
Indices: 36215588--36215638 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
36215578 AATTACAAAA
*
36215588 AAAAATTCAAAACAATTT-T
1 AAAAATTTAAAACAATTTAT
*
36215607 CAAAAATTTAAAA-TATTTAT
1 -AAAAATTTAAAACAATTTAT
36215627 AAAAATTTAAAA
1 AAAAATTTAAAA
36215639 AATATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATTTAAAACAATTTAT
Found at i:36215640 original size:28 final size:28
Alignment explanation
Indices: 36215608--36215672 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
36215598 AACAATTTTC
*
36215608 AAAAATTTAAA-ATATTTATAAAAATT-TA
1 AAAAATATAAATAT-TTTA-AAAAATTCTA
*
36215636 AAAAATATATATATTTTAAAAAATTCTA
1 AAAAATATAAATATTTTAAAAAATTCTA
36215664 AAAAATATA
1 AAAAATATA
36215673 TAAACAAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 7 0.21
28 24 0.73
29 2 0.06
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (28 bp):
AAAAATATAAATATTTTAAAAAATTCTA
Found at i:36215646 original size:19 final size:19
Alignment explanation
Indices: 36215608--36215659 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
36215598 AACAATTTTC
* *
36215608 AAAAATTTAAAATATTTAT
1 AAAAATTTAAAAAATATAT
36215627 AAAAATTTAAAAAATATAT
1 AAAAATTTAAAAAATATAT
* *
36215646 -ATATTTTAAAAAAT
1 AAAAATTTAAAAAAT
36215660 TCTAAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 12 0.41
19 17 0.59
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTTAAAAAATATAT
Found at i:36215655 original size:26 final size:29
Alignment explanation
Indices: 36215619--36215674 Score: 91
Period size: 27 Copynumber: 2.0 Consensus size: 29
36215609 AAAATTTAAA
36215619 ATATTTAT-AAAAATT-TAAAAAATATAT
1 ATATTTATAAAAAATTCTAAAAAATATAT
36215646 ATATTT-TAAAAAATTCTAAAAAATATAT
1 ATATTTATAAAAAATTCTAAAAAATATAT
36215674 A
1 A
36215675 AACAAAGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 1 0.04
27 13 0.48
28 13 0.48
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (29 bp):
ATATTTATAAAAAATTCTAAAAAATATAT
Found at i:36220569 original size:23 final size:23
Alignment explanation
Indices: 36220515--36220561 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
36220505 CTGTTAGATA
36220515 TTATAATTATTTAACTTTACTTT
1 TTATAATTATTTAACTTTACTTT
36220538 TTATAATTATTT-ACTTTA-TTT
1 TTATAATTATTTAACTTTACTTT
36220559 TTA
1 TTA
36220562 CTAAATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 6 0.25
22 6 0.25
23 12 0.50
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (23 bp):
TTATAATTATTTAACTTTACTTT
Found at i:36227990 original size:81 final size:81
Alignment explanation
Indices: 36227855--36228020 Score: 251
Period size: 81 Copynumber: 2.0 Consensus size: 81
36227845 TTTTATTTAA
*
36227855 TTAAAAACCTATTTTCATCCCAGCATCTAGATATCCTAGTTGGCATTTAAAACTCATTTAGACGG
1 TTAAAAACCTATTTTCATCCCAGCATCTAGATATCCAAGTTGGCATTTAAAACTCATTTAGACGG
* *
36227920 CCATGTAGGACCGCTG
66 CCACGTAGGACCGATG
* * * * * *
36227936 TTAAAAACCTATTTTCATCCCATCATTTGGATATCCAAGTTGGTATTTAAAACTCATTTGGACTG
1 TTAAAAACCTATTTTCATCCCAGCATCTAGATATCCAAGTTGGCATTTAAAACTCATTTAGACGG
36228001 CCACGTAGGACCGATG
66 CCACGTAGGACCGATG
36228017 TTAA
1 TTAA
36228021 GGAGGTAACG
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.33
Consensus pattern (81 bp):
TTAAAAACCTATTTTCATCCCAGCATCTAGATATCCAAGTTGGCATTTAAAACTCATTTAGACGG
CCACGTAGGACCGATG
Found at i:36228990 original size:81 final size:81
Alignment explanation
Indices: 36228855--36229020 Score: 251
Period size: 81 Copynumber: 2.0 Consensus size: 81
36228845 TATTCTATTA
*
36228855 TTAAAAACCTATTTTCATCCCAGCATCTAGATATCCTAGTTGGCATTTAAAACTCATTTAGACGG
1 TTAAAAACCTATTTTCATCCCAGCATCTAGATATCCAAGTTGGCATTTAAAACTCATTTAGACGG
* *
36228920 CCATGTAGGACCGCTG
66 CCACGTAGGACCGATG
* * * * * *
36228936 TTAAAAACCTATTTTCATCCCATCATTTGGATATCCAAGTTGGTATTTAAAACTCATTTGGACTG
1 TTAAAAACCTATTTTCATCCCAGCATCTAGATATCCAAGTTGGCATTTAAAACTCATTTAGACGG
36229001 CCACGTAGGACCGATG
66 CCACGTAGGACCGATG
36229017 TTAA
1 TTAA
36229021 GGAGGTAACG
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.33
Consensus pattern (81 bp):
TTAAAAACCTATTTTCATCCCAGCATCTAGATATCCAAGTTGGCATTTAAAACTCATTTAGACGG
CCACGTAGGACCGATG
Found at i:36229793 original size:1000 final size:1000
Alignment explanation
Indices: 36227854--36229853 Score: 4000
Period size: 1000 Copynumber: 2.0 Consensus size: 1000
36227844 ATTTTATTTA
36227854 ATTAAAAACCTATTTTCATCCCAGCATCTAGATATCCTAGTTGGCATTTAAAACTCATTTAGACG
1 ATTAAAAACCTATTTTCATCCCAGCATCTAGATATCCTAGTTGGCATTTAAAACTCATTTAGACG
36227919 GCCATGTAGGACCGCTGTTAAAAACCTATTTTCATCCCATCATTTGGATATCCAAGTTGGTATTT
66 GCCATGTAGGACCGCTGTTAAAAACCTATTTTCATCCCATCATTTGGATATCCAAGTTGGTATTT
36227984 AAAACTCATTTGGACTGCCACGTAGGACCGATGTTAAGGAGGTAACGGAACTTAATGATAGAGTG
131 AAAACTCATTTGGACTGCCACGTAGGACCGATGTTAAGGAGGTAACGGAACTTAATGATAGAGTG
36228049 ACCACTTCGTAACAAAATGATAATGTAGTGACTAAAACGTAACATTTTAAACATAAGTGATTTAA
196 ACCACTTCGTAACAAAATGATAATGTAGTGACTAAAACGTAACATTTTAAACATAAGTGATTTAA
36228114 AATGTAATCTAAAACAAACAAAAGTAATTATTTTTATAGTTTATCCTAGAATCAATATAAAATAT
261 AATGTAATCTAAAACAAACAAAAGTAATTATTTTTATAGTTTATCCTAGAATCAATATAAAATAT
36228179 AGCGAATGAAAAATTTGAAATAACTCACACATAACACATATATAAAGTACTTGTCACGTACGCAT
326 AGCGAATGAAAAATTTGAAATAACTCACACATAACACATATATAAAGTACTTGTCACGTACGCAT
36228244 AATAAAATTTAAACTTAAATATCAAAGATTTAAGTCCTATGTTCGTAATTAAACTCATGTATTTT
391 AATAAAATTTAAACTTAAATATCAAAGATTTAAGTCCTATGTTCGTAATTAAACTCATGTATTTT
36228309 ATATTCATAACCTAATATGAGAAAGCCCTTGCTATTTGAATTTAAAGTAAACCAAAACAAAAAAG
456 ATATTCATAACCTAATATGAGAAAGCCCTTGCTATTTGAATTTAAAGTAAACCAAAACAAAAAAG
36228374 AGGTAAACATGAAAAATTAAAATTTGGTTAAAACACGGAAAAGTGGAAATTTAAAAACAAATAAT
521 AGGTAAACATGAAAAATTAAAATTTGGTTAAAACACGGAAAAGTGGAAATTTAAAAACAAATAAT
36228439 ACAAAAAGAAAAAACACATTGAAAATCCCGCAAGATTGAGGATAATGTTGTGGCATGCCATCATC
586 ACAAAAAGAAAAAACACATTGAAAATCCCGCAAGATTGAGGATAATGTTGTGGCATGCCATCATC
36228504 CAATTTATAATCATAGAGGCGGGATATCTCTTCTAATATAATATTTGTTCTTTTCCACTTGTTCA
651 CAATTTATAATCATAGAGGCGGGATATCTCTTCTAATATAATATTTGTTCTTTTCCACTTGTTCA
36228569 CGTCTGTATTTTTACCCTCTTTTTTGGTTGAAAAGTAAGAGCGATTAGATCTTCAAAAACATAAA
716 CGTCTGTATTTTTACCCTCTTTTTTGGTTGAAAAGTAAGAGCGATTAGATCTTCAAAAACATAAA
36228634 TATGAAATGTGCATAACTCTATTTCTCATCAAAATGTATATGGTTTATTGATTTATAGATATTTT
781 TATGAAATGTGCATAACTCTATTTCTCATCAAAATGTATATGGTTTATTGATTTATAGATATTTT
36228699 ATTTAATATTTACATTTTTTTTTTATCCCGTGCATAACAAATCTGAGATTTACAGTCGTTTCCTA
846 ATTTAATATTTACATTTTTTTTTTATCCCGTGCATAACAAATCTGAGATTTACAGTCGTTTCCTA
36228764 TGTATATTACATTAATTTATTCATTTAATATTTTACTGTGGTTAATCATTATTCTTTTATAATGT
911 TGTATATTACATTAATTTATTCATTTAATATTTTACTGTGGTTAATCATTATTCTTTTATAATGT
36228829 GAATATTGTCGATTGGTATTCTATT
976 GAATATTGTCGATTGGTATTCTATT
36228854 ATTAAAAACCTATTTTCATCCCAGCATCTAGATATCCTAGTTGGCATTTAAAACTCATTTAGACG
1 ATTAAAAACCTATTTTCATCCCAGCATCTAGATATCCTAGTTGGCATTTAAAACTCATTTAGACG
36228919 GCCATGTAGGACCGCTGTTAAAAACCTATTTTCATCCCATCATTTGGATATCCAAGTTGGTATTT
66 GCCATGTAGGACCGCTGTTAAAAACCTATTTTCATCCCATCATTTGGATATCCAAGTTGGTATTT
36228984 AAAACTCATTTGGACTGCCACGTAGGACCGATGTTAAGGAGGTAACGGAACTTAATGATAGAGTG
131 AAAACTCATTTGGACTGCCACGTAGGACCGATGTTAAGGAGGTAACGGAACTTAATGATAGAGTG
36229049 ACCACTTCGTAACAAAATGATAATGTAGTGACTAAAACGTAACATTTTAAACATAAGTGATTTAA
196 ACCACTTCGTAACAAAATGATAATGTAGTGACTAAAACGTAACATTTTAAACATAAGTGATTTAA
36229114 AATGTAATCTAAAACAAACAAAAGTAATTATTTTTATAGTTTATCCTAGAATCAATATAAAATAT
261 AATGTAATCTAAAACAAACAAAAGTAATTATTTTTATAGTTTATCCTAGAATCAATATAAAATAT
36229179 AGCGAATGAAAAATTTGAAATAACTCACACATAACACATATATAAAGTACTTGTCACGTACGCAT
326 AGCGAATGAAAAATTTGAAATAACTCACACATAACACATATATAAAGTACTTGTCACGTACGCAT
36229244 AATAAAATTTAAACTTAAATATCAAAGATTTAAGTCCTATGTTCGTAATTAAACTCATGTATTTT
391 AATAAAATTTAAACTTAAATATCAAAGATTTAAGTCCTATGTTCGTAATTAAACTCATGTATTTT
36229309 ATATTCATAACCTAATATGAGAAAGCCCTTGCTATTTGAATTTAAAGTAAACCAAAACAAAAAAG
456 ATATTCATAACCTAATATGAGAAAGCCCTTGCTATTTGAATTTAAAGTAAACCAAAACAAAAAAG
36229374 AGGTAAACATGAAAAATTAAAATTTGGTTAAAACACGGAAAAGTGGAAATTTAAAAACAAATAAT
521 AGGTAAACATGAAAAATTAAAATTTGGTTAAAACACGGAAAAGTGGAAATTTAAAAACAAATAAT
36229439 ACAAAAAGAAAAAACACATTGAAAATCCCGCAAGATTGAGGATAATGTTGTGGCATGCCATCATC
586 ACAAAAAGAAAAAACACATTGAAAATCCCGCAAGATTGAGGATAATGTTGTGGCATGCCATCATC
36229504 CAATTTATAATCATAGAGGCGGGATATCTCTTCTAATATAATATTTGTTCTTTTCCACTTGTTCA
651 CAATTTATAATCATAGAGGCGGGATATCTCTTCTAATATAATATTTGTTCTTTTCCACTTGTTCA
36229569 CGTCTGTATTTTTACCCTCTTTTTTGGTTGAAAAGTAAGAGCGATTAGATCTTCAAAAACATAAA
716 CGTCTGTATTTTTACCCTCTTTTTTGGTTGAAAAGTAAGAGCGATTAGATCTTCAAAAACATAAA
36229634 TATGAAATGTGCATAACTCTATTTCTCATCAAAATGTATATGGTTTATTGATTTATAGATATTTT
781 TATGAAATGTGCATAACTCTATTTCTCATCAAAATGTATATGGTTTATTGATTTATAGATATTTT
36229699 ATTTAATATTTACATTTTTTTTTTATCCCGTGCATAACAAATCTGAGATTTACAGTCGTTTCCTA
846 ATTTAATATTTACATTTTTTTTTTATCCCGTGCATAACAAATCTGAGATTTACAGTCGTTTCCTA
36229764 TGTATATTACATTAATTTATTCATTTAATATTTTACTGTGGTTAATCATTATTCTTTTATAATGT
911 TGTATATTACATTAATTTATTCATTTAATATTTTACTGTGGTTAATCATTATTCTTTTATAATGT
36229829 GAATATTGTCGATTGGTATTCTATT
976 GAATATTGTCGATTGGTATTCTATT
36229854 TAAAATCTAG
Statistics
Matches: 1000, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1000 1000 1.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (1000 bp):
ATTAAAAACCTATTTTCATCCCAGCATCTAGATATCCTAGTTGGCATTTAAAACTCATTTAGACG
GCCATGTAGGACCGCTGTTAAAAACCTATTTTCATCCCATCATTTGGATATCCAAGTTGGTATTT
AAAACTCATTTGGACTGCCACGTAGGACCGATGTTAAGGAGGTAACGGAACTTAATGATAGAGTG
ACCACTTCGTAACAAAATGATAATGTAGTGACTAAAACGTAACATTTTAAACATAAGTGATTTAA
AATGTAATCTAAAACAAACAAAAGTAATTATTTTTATAGTTTATCCTAGAATCAATATAAAATAT
AGCGAATGAAAAATTTGAAATAACTCACACATAACACATATATAAAGTACTTGTCACGTACGCAT
AATAAAATTTAAACTTAAATATCAAAGATTTAAGTCCTATGTTCGTAATTAAACTCATGTATTTT
ATATTCATAACCTAATATGAGAAAGCCCTTGCTATTTGAATTTAAAGTAAACCAAAACAAAAAAG
AGGTAAACATGAAAAATTAAAATTTGGTTAAAACACGGAAAAGTGGAAATTTAAAAACAAATAAT
ACAAAAAGAAAAAACACATTGAAAATCCCGCAAGATTGAGGATAATGTTGTGGCATGCCATCATC
CAATTTATAATCATAGAGGCGGGATATCTCTTCTAATATAATATTTGTTCTTTTCCACTTGTTCA
CGTCTGTATTTTTACCCTCTTTTTTGGTTGAAAAGTAAGAGCGATTAGATCTTCAAAAACATAAA
TATGAAATGTGCATAACTCTATTTCTCATCAAAATGTATATGGTTTATTGATTTATAGATATTTT
ATTTAATATTTACATTTTTTTTTTATCCCGTGCATAACAAATCTGAGATTTACAGTCGTTTCCTA
TGTATATTACATTAATTTATTCATTTAATATTTTACTGTGGTTAATCATTATTCTTTTATAATGT
GAATATTGTCGATTGGTATTCTATT
Found at i:36232871 original size:19 final size:19
Alignment explanation
Indices: 36232833--36232874 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
36232823 ATTAAATACA
* * *
36232833 TAAAGTTTAACTTCATAAT
1 TAAAGTTTAAATTAAAAAT
36232852 TAAAGTTTAAATTAAAAAT
1 TAAAGTTTAAATTAAAAAT
36232871 TAAA
1 TAAA
36232875 TGAATTTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (19 bp):
TAAAGTTTAAATTAAAAAT
Found at i:36234986 original size:27 final size:27
Alignment explanation
Indices: 36234954--36235008 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
36234944 CGTAATCGAG
*
36234954 TTCCACCATTCGGGAACATAGAATCTA
1 TTCCACCATTCGGGAACACAGAATCTA
36234981 TTCCACCATTCGGGAACACAGAATCTA
1 TTCCACCATTCGGGAACACAGAATCTA
36235008 T
1 T
36235009 CTCAAACCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (27 bp):
TTCCACCATTCGGGAACACAGAATCTA
Found at i:36235722 original size:90 final size:90
Alignment explanation
Indices: 36235553--36235850 Score: 264
Period size: 90 Copynumber: 3.3 Consensus size: 90
36235543 CCCCAAAAAA
* * ** * * * * *
36235553 TTACATATACAAAAA-AATACAAATATCCTAGAAAACTAATATACAAAAATATATAA-TTGACTA
1 TTACAGATACAAAAATAATACAAACATTTTACAAAACTGATATACGAAAATATAAAATTTGACCA
* * *
36235616 ACAAATAATACTGACT-AATTTTTAT
66 ACAAATAATACAGACTAAAATATT-T
* * * *
36235641 TTACATATACAAAATTAATACGAACATTTTA-AAAATTTGATATACGAAAATATAAAATTTGACC
1 TTACAGATACAAAAATAATACAAACATTTTACAAAA-CTGATATACGAAAATATAAAATTTGACC
**
36235705 GGCAAATAATACAGACTAAAATATTT
65 AACAAATAATACAGACTAAAATATTT
* * * * *
36235731 TTACGGATCCAAAAATAATACAAACATTTTACAAAACTGATATATGAAAATATAAATTTTGAGCA
1 TTACAGATACAAAAATAATACAAACATTTTACAAAACTGATATACGAAAATATAAAATTTGACCA
* * *
36235796 ATAAATAAAACAGACTAAAAT-TGAT
66 ACAAATAATACAGACTAAAATAT-TT
** * *
36235821 TTATGGATACCAAAATAATACAAATATTTT
1 TTACAGATACAAAAATAATACAAACATTTT
36235851 GAATAGTAGT
Statistics
Matches: 171, Mismatches: 33, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
88 18 0.11
89 29 0.17
90 115 0.67
91 9 0.05
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (90 bp):
TTACAGATACAAAAATAATACAAACATTTTACAAAACTGATATACGAAAATATAAAATTTGACCA
ACAAATAATACAGACTAAAATATTT
Found at i:36239052 original size:25 final size:25
Alignment explanation
Indices: 36239018--36239066 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
36239008 ACTATTTCAT
36239018 GTTCCAACTTCCACCTTTCAACTAC
1 GTTCCAACTTCCACCTTTCAACTAC
* *
36239043 GTTCTAACTTCCATCTTTCAACTA
1 GTTCCAACTTCCACCTTTCAACTA
36239067 GGTGTCATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.24, C:0.35, G:0.04, T:0.37
Consensus pattern (25 bp):
GTTCCAACTTCCACCTTTCAACTAC
Found at i:36240806 original size:15 final size:15
Alignment explanation
Indices: 36240788--36240843 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
36240778 AGCACATGTT
36240788 GGGTTCACACATACA
1 GGGTTCACACATACA
*
36240803 GGGTTCACACAT-CTG
1 GGGTTCACACATAC-A
**
36240818 GGGTTTGCACATACA
1 GGGTTCACACATACA
*
36240833 GGGTTCGCACA
1 GGGTTCACACA
36240844 ATTAAATACA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
14 1 0.03
15 32 0.94
16 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (15 bp):
GGGTTCACACATACA
Found at i:36240903 original size:23 final size:22
Alignment explanation
Indices: 36240877--36241046 Score: 114
Period size: 22 Copynumber: 7.6 Consensus size: 22
36240867 TTACTACTTG
*
36240877 TAGGGTTCACATAAATACATATA
1 TAGGGTTCGCAT-AATACATATA
* * * *
36240900 TAGGGCTCGCATGATAAACATA
1 TAGGGTTCGCATAATACATATA
* * *
36240922 TAGGGTTCACATATTACAATATG
1 TAGGGTTCGCATAATAC-ATATA
* *
36240945 TAGGGTTCGCATATTACAATATG
1 TAGGGTTCGCATAATAC-ATATA
* *
36240968 TAGTGTTCGCAT-ATACATATG
1 TAGGGTTCGCATAATACATATA
* *
36240989 TAGGGTTTGCATAATTA-ACATA
1 TAGGGTTCGCATAA-TACATATA
*
36241011 TAGGGTTCGCA-AGATA-TTCATA
1 TAGGGTTCGCATA-ATACAT-ATA
*
36241033 TGGGGTTCGCATAA
1 TAGGGTTCGCATAA
36241047 ATATACAAAG
Statistics
Matches: 118, Mismatches: 23, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
21 18 0.15
22 51 0.43
23 49 0.42
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.32
Consensus pattern (22 bp):
TAGGGTTCGCATAATACATATA
Found at i:36240929 original size:45 final size:43
Alignment explanation
Indices: 36240877--36241018 Score: 142
Period size: 45 Copynumber: 3.2 Consensus size: 43
36240867 TTACTACTTG
* *
36240877 TAGGGTTCACATAAATACATATATAGGGCTCGCATGATAAACATA
1 TAGGGTTCACAT-AATACATATGTAGGGTTCGCAT-ATAAACATA
* * *
36240922 TAGGGTTCACATATTACAATATGTAGGGTTCGCATATTACAATATG
1 TAGGGTTCACATAATAC-ATATGTAGGGTTCGCATA-TA-AACATA
* * * *
36240968 TAGTGTTCGCAT-ATACATATGTAGGGTTTGCATAATTAACATA
1 TAGGGTTCACATAATACATATGTAGGGTTCGCAT-ATAAACATA
36241011 TAGGGTTC
1 TAGGGTTC
36241019 GCAAGATATT
Statistics
Matches: 80, Mismatches: 13, Indels: 10
0.78 0.13 0.10
Matches are distributed among these distances:
43 11 0.14
44 22 0.28
45 33 0.41
46 14 0.17
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (43 bp):
TAGGGTTCACATAATACATATGTAGGGTTCGCATATAAACATA
Found at i:36240989 original size:21 final size:23
Alignment explanation
Indices: 36240875--36241021 Score: 121
Period size: 23 Copynumber: 6.6 Consensus size: 23
36240865 TATTACTACT
* *
36240875 TGTAGGGTTCACATAAATAC-ATA
1 TGTAGGGTTCGCAT-ATTACAATA
* * *
36240898 TATAGGGCTCGCATGA-TA-AACA
1 TGTAGGGTTCGCAT-ATTACAATA
* *
36240920 TATAGGGTTCACATATTACAATA
1 TGTAGGGTTCGCATATTACAATA
36240943 TGTAGGGTTCGCATATTACAATA
1 TGTAGGGTTCGCATATTACAATA
*
36240966 TGTAGTGTTCGCATA-TAC-ATA
1 TGTAGGGTTCGCATATTACAATA
*
36240987 TGTAGGGTTTGCATAATTA-ACATA
1 TGTAGGGTTCGCAT-ATTACA-ATA
36241011 --TAGGGTTCGCA
1 TGTAGGGTTCGCA
36241022 AGATATTCAT
Statistics
Matches: 103, Mismatches: 14, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
21 16 0.16
22 32 0.31
23 52 0.50
24 3 0.03
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (23 bp):
TGTAGGGTTCGCATATTACAATA
Found at i:36241241 original size:29 final size:29
Alignment explanation
Indices: 36241209--36241292 Score: 98
Period size: 29 Copynumber: 2.9 Consensus size: 29
36241199 TCGCACATGT
36241209 AGGGGGTTCGCATATAGGGGTTCGCATAC
1 AGGGGGTTCGCATATAGGGGTTCGCATAC
* * * *
36241238 AGGGTGTTCGCATACAAGGGCTCGCATAC
1 AGGGGGTTCGCATATAGGGGTTCGCATAC
* * *
36241267 AAGGGCTT-GCCTATAGGGGTTCGCAT
1 AGGGGGTTCGCATATAGGGGTTCGCAT
36241293 GAGGGTTCAC
Statistics
Matches: 44, Mismatches: 11, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
28 14 0.32
29 30 0.68
ACGTcount: A:0.21, C:0.20, G:0.35, T:0.24
Consensus pattern (29 bp):
AGGGGGTTCGCATATAGGGGTTCGCATAC
Found at i:36241252 original size:15 final size:14
Alignment explanation
Indices: 36241211--36241292 Score: 85
Period size: 14 Copynumber: 5.8 Consensus size: 14
36241201 GCACATGTAG
*
36241211 GGGGTTCGCATATA
1 GGGGTTCGCATACA
36241225 GGGGTTCGCATACA
1 GGGGTTCGCATACA
36241239 GGGTGTTCGCATACA
1 GGG-GTTCGCATACA
* *
36241254 AGGGCTCGCATACAA
1 GGGGTTCGCATAC-A
* * *
36241269 GGGCTT-GCCTATA
1 GGGGTTCGCATACA
36241282 GGGGTTCGCAT
1 GGGGTTCGCAT
36241293 GAGGGTTCAC
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
13 6 0.11
14 32 0.58
15 17 0.31
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (14 bp):
GGGGTTCGCATACA
Found at i:36243473 original size:18 final size:19
Alignment explanation
Indices: 36243445--36243483 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
36243435 ATAATTTGCA
36243445 ATTACTATTTAACATAAAT
1 ATTACTATTTAACATAAAT
*
36243464 ATTA-TATTTAATATAAAT
1 ATTACTATTTAACATAAAT
36243482 AT
1 AT
36243484 AATTTCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTACTATTTAACATAAAT
Found at i:36244125 original size:20 final size:18
Alignment explanation
Indices: 36244096--36244147 Score: 50
Period size: 20 Copynumber: 2.8 Consensus size: 18
36244086 TATTATAATT
* *
36244096 TTTTTTAATTTTTTATGA
1 TTTTATAATTTTTTATAA
* *
36244114 TTTTAATCAATTTCTAATAA
1 TTTT-AT-AATTTTTTATAA
36244134 TTTTATAATTTTTT
1 TTTTATAATTTTTT
36244148 TATGTTCTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
18 10 0.38
19 3 0.12
20 13 0.50
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTATAATTTTTTATAA
Found at i:36244743 original size:21 final size:21
Alignment explanation
Indices: 36244719--36244760 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
36244709 TAATTCTAAA
*
36244719 TTTTGGAA-ATTTTTAAATTT
1 TTTTTGAATATTTTTAAATTT
* *
36244739 TTTTTTAATATTTTTAAGTTT
1 TTTTTGAATATTTTTAAATTT
36244760 T
1 T
36244761 AGTTTAACTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (21 bp):
TTTTTGAATATTTTTAAATTT
Found at i:36244766 original size:21 final size:22
Alignment explanation
Indices: 36244727--36244775 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
36244717 AATTTTGGAA
**
36244727 ATTTTTAAATTTTTTTTTAA-T
1 ATTTTTAAATTTTAGTTTAACT
*
36244748 ATTTTTAAGTTTTAGTTTAACT
1 ATTTTTAAATTTTAGTTTAACT
36244770 ATTTTT
1 ATTTTT
36244776 TTTAATCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (22 bp):
ATTTTTAAATTTTAGTTTAACT
Found at i:36250249 original size:28 final size:28
Alignment explanation
Indices: 36250217--36250273 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
36250207 TAAGCCTTAC
36250217 TTCTATAAACAATATTCGAATATTTTGA
1 TTCTATAAACAATATTCGAATATTTTGA
36250245 TTCTATAAACAATATTCGAATATTTTGA
1 TTCTATAAACAATATTCGAATATTTTGA
36250273 T
1 T
36250274 AGTTCAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.44
Consensus pattern (28 bp):
TTCTATAAACAATATTCGAATATTTTGA
Found at i:36254278 original size:24 final size:24
Alignment explanation
Indices: 36254212--36254306 Score: 84
Period size: 24 Copynumber: 3.9 Consensus size: 24
36254202 GGAAGCTCAT
*
36254212 AAGAGCCATAATCGGGAAGTTCACA
1 AAGAACCAT-ATCGGGAAGTTCACA
* *
36254237 AAGAACCTTGTCGGGAAGTTCACA
1 AAGAACCATATCGGGAAGTTCACA
* * * *
36254261 AAGAATCATATCGAGAAGCTC-CG
1 AAGAACCATATCGGGAAGTTCACA
* *
36254284 AATAGCCAATATCGGGAAGTTCA
1 AAGAACC-ATATCGGGAAGTTCA
36254307 AGCGAGCATT
Statistics
Matches: 54, Mismatches: 14, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
23 5 0.09
24 42 0.78
25 7 0.13
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (24 bp):
AAGAACCATATCGGGAAGTTCACA
Found at i:36258637 original size:20 final size:19
Alignment explanation
Indices: 36258614--36258674 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 19
36258604 TTAAATATAT
36258614 ATTTGAAATTATTTTTTAAA
1 ATTT-AAATTATTTTTTAAA
36258634 ATTTTAAATATTATTTTTT-AA
1 A-TTT-AA-ATTATTTTTTAAA
36258655 ATATTAAATATATTTTTTAA
1 AT-TTAAAT-TATTTTTTAA
36258675 TAATATAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
19 2 0.06
20 12 0.34
21 11 0.31
22 10 0.29
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
ATTTAAATTATTTTTTAAA
Found at i:36258649 original size:22 final size:22
Alignment explanation
Indices: 36258621--36258680 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
36258611 TATATTTGAA
*
36258621 ATTATTTTTTAAAATTTTAAAT
1 ATTATTTTTTAAAATATTAAAT
36258643 ATTATTTTTT-AAATATTAAAT
1 ATTATTTTTTAAAATATTAAAT
36258664 A-TATTTTTTAATAATAT
1 ATTATTTTTTAA-AATAT
36258681 AAAACATTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
20 8 0.23
21 12 0.34
22 15 0.43
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTATTTTTTAAAATATTAAAT
Found at i:36258656 original size:21 final size:21
Alignment explanation
Indices: 36258621--36258674 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
36258611 TATATTTGAA
*
36258621 ATTATTTTTTAAAATTTTAAAT
1 ATTATTTTTT-AAATATTAAAT
36258643 ATTATTTTTTAAATATTAAAT
1 ATTATTTTTTAAATATTAAAT
36258664 A-TATTTTTTAA
1 ATTATTTTTTAA
36258675 TAATATAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 10 0.32
21 11 0.35
22 10 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTATTTTTTAAATATTAAAT
Found at i:36258683 original size:21 final size:20
Alignment explanation
Indices: 36258619--36258683 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 20
36258609 TATATATTTG
*
36258619 AAAT-TATTTTTTAAAATTTT
1 AAATATATTTTTTAAAA-TAT
36258639 AAATATTATTTTTT-AAATATT
1 AAATA-TATTTTTTAAAATA-T
36258660 AAATATATTTTTTAATAATAT
1 AAATATATTTTTTAA-AATAT
36258681 AAA
1 AAA
36258684 ACATTTAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
20 13 0.33
21 14 0.36
22 12 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
AAATATATTTTTTAAAATAT
Found at i:36258778 original size:21 final size:21
Alignment explanation
Indices: 36258739--36258801 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 21
36258729 TTTTATAATA
*
36258739 TTTTAAATATTTTTTAATTTG
1 TTTTAAATATTTTTAAATTTG
36258760 TTTTATAATA-TTTTAAATTATG
1 TTTTA-AATATTTTTAAATT-TG
36258782 ATTTTTAAATTATTTTTAAA
1 --TTTTAAA-TATTTTTAAA
36258802 GATATTCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
21 13 0.37
22 6 0.17
23 2 0.06
24 7 0.20
25 7 0.20
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TTTTAAATATTTTTAAATTTG
Found at i:36258858 original size:18 final size:18
Alignment explanation
Indices: 36258837--36258871 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
36258827 TATTTAAAAG
36258837 TTAAAAAA-TAATATTTAT
1 TTAAAAAAGTAA-ATTTAT
36258855 TTAAAAAAGTAAATTTA
1 TTAAAAAAGTAAATTTA
36258872 AATTAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
TTAAAAAAGTAAATTTAT
Found at i:36258931 original size:20 final size:18
Alignment explanation
Indices: 36258893--36258936 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
36258883 AAATAAAAAA
*
36258893 TATTTGTTAAAAAATATT
1 TATTTATTAAAAAATATT
*
36258911 TTTTTATTAAAAAATGAATT
1 TATTTATTAAAAAAT--ATT
36258931 TATTTA
1 TATTTA
36258937 AAAATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 13 0.62
20 8 0.38
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (18 bp):
TATTTATTAAAAAATATT
Done.