Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, whole genome shotgun sequence
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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 99 of 131
Found at i:17713818 original size:32 final size:32
Alignment explanation
Indices: 17713781--17713848 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
17713771 TATGTACTAG
* *
17713781 CTAAATTGGGTTTTAATTTTCATAGGTCCCTA
1 CTAAATTGGGTTTAAATTTTCATAGGTCCATA
17713813 CTAAATTGGGTTTAAATTTTCATAGGTCCATA
1 CTAAATTGGGTTTAAATTTTCATAGGTCCATA
17713845 CTAA
1 CTAA
17713849 TCTAGGCTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (32 bp):
CTAAATTGGGTTTAAATTTTCATAGGTCCATA
Found at i:17714199 original size:33 final size:33
Alignment explanation
Indices: 17713948--17714339 Score: 193
Period size: 33 Copynumber: 11.8 Consensus size: 33
17713938 TTAAAATCTG
* * * *
17713948 GGTGCCAACTAAACTGGGCCTAAATTTTTATT-
1 GGTGCCAGCTAAATTGGGCTTAAATTTTCATTA
* * * *
17713980 GATGTCAGTTAAATTGGGCGTAAATTTTCATT-
1 GGTGCCAGCTAAATTGGGCTTAAATTTTCATTA
* * * * *
17714012 GCGTGCCAACTAAACTGTGTTTAAATTTTTTTCATTT
1 G-GTGCCAGCTAAATTGGGCTTAAA---TTTTCATTA
* * * * * *
17714049 GGTGCCAGTTATAGTAGGCTTAAATTTTTATTG
1 GGTGCCAGCTAAATTGGGCTTAAATTTTCATTA
* ** * ** * * *
17714082 GGTACCAAATAAACTATGTTTAAAATTTGATT-
1 GGTGCCAGCTAAATTGGGCTTAAATTTTCATTA
* *
17714114 GAATGCCAGCTAAATTGGGCTTAAATTTTCA-TG
1 G-GTGCCAGCTAAATTGGGCTTAAATTTTCATTA
* *
17714147 GGATGCTAGAT-AATATGGGCTTAAATTTTCATTA
1 GG-TGCCAGCTAAAT-TGGGCTTAAATTTTCATTA
* * * * *
17714181 GTTGCCAGCCAAATTGGGCTTAAAATTTGATTG
1 GGTGCCAGCTAAATTGGGCTTAAATTTTCATTA
** *
17714214 GGCACCAGCTAAATTGGGCTTAAATTTTCGTTA
1 GGTGCCAGCTAAATTGGGCTTAAATTTTCATTA
* ** *
17714247 GATGCCAAAT-AATCTAGGCTTAAATTTTCATTA
1 GGTGCCAGCTAAAT-TGGGCTTAAATTTTCATTA
* * * * * *
17714280 GGTGGCAACTAAACTGCGCTTAAATTTGCATTG
1 GGTGCCAGCTAAATTGGGCTTAAATTTTCATTA
* * *
17714313 GGTGCTAGCTAAACTGAGCTTAAATTT
1 GGTGCCAGCTAAATTGGGCTTAAATTT
17714340 GTATTAGTAC
Statistics
Matches: 266, Mismatches: 81, Indels: 25
0.72 0.22 0.07
Matches are distributed among these distances:
32 34 0.13
33 200 0.75
34 7 0.03
36 24 0.09
37 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.37
Consensus pattern (33 bp):
GGTGCCAGCTAAATTGGGCTTAAATTTTCATTA
Found at i:17714301 original size:99 final size:99
Alignment explanation
Indices: 17714063--17714339 Score: 295
Period size: 99 Copynumber: 2.8 Consensus size: 99
17714053 CCAGTTATAG
* * * * ** * **
17714063 TAGGCTTAAATTTTTATTGGGTACCAAATAAACTATGTTTAAAATTTGATTGAATGCCAGCTAAA
1 TAGGCTTAAATTTTCATTAGGTGCCAACTAAACTGCGCTTAAAATTTGATTGGGTGCCAGCTAAA
* * *
17714128 TTGGGCTTAAATTTTCATGGGATGCTAGATAATA
66 TTGGGCTTAAATTTTCATGAGATGCCAAATAATA
* * * * * * **
17714162 TGGGCTTAAATTTTCATTAGTTGCCAGCCAAATTGGGCTTAAAATTTGATTGGGCACCAGCTAAA
1 TAGGCTTAAATTTTCATTAGGTGCCAACTAAACTGCGCTTAAAATTTGATTGGGTGCCAGCTAAA
* * *
17714227 TTGGGCTTAAATTTTCGTTAGATGCCAAATAATC
66 TTGGGCTTAAATTTTCATGAGATGCCAAATAATA
* *
17714261 TAGGCTTAAATTTTCATTAGGTGGCAACTAAACTGCGCTT-AAATTTGCATTGGGTGCTAGCTAA
1 TAGGCTTAAATTTTCATTAGGTGCCAACTAAACTGCGCTTAAAATTTG-ATTGGGTGCCAGCTAA
* *
17714325 ACTGAGCTTAAATTT
65 ATTGGGCTTAAATTT
17714340 GTATTAGTAC
Statistics
Matches: 143, Mismatches: 34, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
98 7 0.05
99 136 0.95
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (99 bp):
TAGGCTTAAATTTTCATTAGGTGCCAACTAAACTGCGCTTAAAATTTGATTGGGTGCCAGCTAAA
TTGGGCTTAAATTTTCATGAGATGCCAAATAATA
Found at i:17714369 original size:99 final size:99
Alignment explanation
Indices: 17714065--17714371 Score: 251
Period size: 99 Copynumber: 3.1 Consensus size: 99
17714055 AGTTATAGTA
* * * ** ** * **** *
17714065 GGCTTAAATTTTTATTGGGTACCAAATAAACTATGTTTAAAATTTGATTGAATGCCAGCTAAATT
1 GGCTTAAATTTTCATTAGGTGCCAACCAAACTGCGCTTAAAATTTGATTGGGCACCAGCTAAACT
* ** *
17714130 GGGCTTAAATTTTCATGGGATGCTAGATAATATG
66 GAGCTTAAATTTTCATTAGATACTAGATAATATG
* * * * *
17714164 GGCTTAAATTTTCATTAGTTGCCAGCCAAATTGGGCTTAAAATTTGATTGGGCACCAGCTAAATT
1 GGCTTAAATTTTCATTAGGTGCCAACCAAACTGCGCTTAAAATTTGATTGGGCACCAGCTAAACT
* * * * * * *
17714229 GGGCTTAAATTTTCGTTAGATGCCAAATAATCTA
66 GAGCTTAAATTTTCATTAGATACTAGATAATATG
* * ** *
17714263 GGCTTAAATTTTCATTAGGTGGCAACTAAACTGCGCTT-AAATTTGCATTGGGTGCTAGCTAAAC
1 GGCTTAAATTTTCATTAGGTGCCAACCAAACTGCGCTTAAAATTTG-ATTGGGCACCAGCTAAAC
*
17714327 TGAGCTTAAATTTGT-ATTAG-TACTAGATAATTTG
65 TGAGCTTAAATTT-TCATTAGATACTAGATAATATG
17714361 GGCTTTAAATT
1 GGC-TTAAATT
17714372 CTTTCTCAGG
Statistics
Matches: 166, Mismatches: 39, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
98 19 0.11
99 146 0.88
100 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (99 bp):
GGCTTAAATTTTCATTAGGTGCCAACCAAACTGCGCTTAAAATTTGATTGGGCACCAGCTAAACT
GAGCTTAAATTTTCATTAGATACTAGATAATATG
Found at i:17714726 original size:33 final size:33
Alignment explanation
Indices: 17714593--17714730 Score: 138
Period size: 33 Copynumber: 4.3 Consensus size: 33
17714583 TAATTTGAGC
** *
17714593 TTAAATTTTCATCGGGTGCCAGCTAGACTAGGT
1 TTAAATTTTCATTTGGTGCCAGCTAAACTAGGT
* * * *
17714626 TTAAA-TTT-ATTAGATGTCAGTTAAACTAGGT
1 TTAAATTTTCATTTGGTGCCAGCTAAACTAGGT
* ** * * *
17714657 TTAAATTTTCA-TTGGTGCTAAATAATCTGGGA
1 TTAAATTTTCATTTGGTGCCAGCTAAACTAGGT
17714689 TTAAATTTTCATTTGGTGCCAGCTAAACTAGGT
1 TTAAATTTTCATTTGGTGCCAGCTAAACTAGGT
17714722 TTAAATTTT
1 TTAAATTTT
17714731 TATTGAATGC
Statistics
Matches: 81, Mismatches: 21, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
31 22 0.27
32 29 0.36
33 30 0.37
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.41
Consensus pattern (33 bp):
TTAAATTTTCATTTGGTGCCAGCTAAACTAGGT
Found at i:17714742 original size:33 final size:32
Alignment explanation
Indices: 17714593--17714792 Score: 125
Period size: 33 Copynumber: 6.2 Consensus size: 32
17714583 TAATTTGAGC
* * *
17714593 TTAAATTTTCATCGGGTGCCAGCTAGACTAGGT
1 TTAAATTTTCAT-TGATGCCAGCTAAACTAGGT
* *
17714626 TTAAA-TTT-ATTAGATGTCAGTTAAACTAGGT
1 TTAAATTTTCATT-GATGCCAGCTAAACTAGGT
* * ** * * *
17714657 TTAAATTTTCATTGGTGCTAAATAATCTGGGA
1 TTAAATTTTCATTGATGCCAGCTAAACTAGGT
*
17714689 TTAAATTTTCATTTGGTGCCAGCTAAACTAGGT
1 TTAAATTTTCA-TTGATGCCAGCTAAACTAGGT
* *** * **
17714722 TTAAATTTTTATTGAATGCCAAAGAAATTAGAC
1 TTAAATTTTCATTG-ATGCCAGCTAAACTAGGT
* * * * *
17714755 TTAGATTTTCACTGGTGCCAACTAAACTAGGC
1 TTAAATTTTCATTGATGCCAGCTAAACTAGGT
17714787 TTAAAT
1 TTAAAT
17714793 CCTAGGTGCA
Statistics
Matches: 126, Mismatches: 36, Indels: 11
0.73 0.21 0.06
Matches are distributed among these distances:
31 22 0.17
32 49 0.39
33 55 0.44
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (32 bp):
TTAAATTTTCATTGATGCCAGCTAAACTAGGT
Found at i:17715709 original size:19 final size:20
Alignment explanation
Indices: 17715685--17715730 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
17715675 CTCATTTCTT
*
17715685 TTTCTTTTTTTA-TTTTATC
1 TTTCTTTTCTTATTTTTATC
17715704 TTTC-TTTCTTATTTTTATC
1 TTTCTTTTCTTATTTTTATC
17715723 TTT-TTTTC
1 TTTCTTTTC
17715731 ACTTTTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTCTTTTCTTATTTTTATC
Found at i:17721686 original size:17 final size:17
Alignment explanation
Indices: 17721631--17721693 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
17721621 TTTCGTTCAG
17721631 TTTCTGCTTCTTTTTTT
1 TTTCTGCTTCTTTTTTT
* * *
17721648 CTT-TGCGTGGCTTTCTTCT
1 TTTCTGC-T-TCTTT-TTTT
17721667 TTTCTGCTTCTTTTTTT
1 TTTCTGCTTCTTTTTTT
*
17721684 TTTTTGCTTC
1 TTTCTGCTTC
17721694 CTAGTTTTCT
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
16 3 0.09
17 15 0.43
18 8 0.23
19 6 0.17
20 3 0.09
ACGTcount: A:0.00, C:0.21, G:0.11, T:0.68
Consensus pattern (17 bp):
TTTCTGCTTCTTTTTTT
Found at i:17722569 original size:13 final size:16
Alignment explanation
Indices: 17722553--17722645 Score: 55
Period size: 14 Copynumber: 6.3 Consensus size: 16
17722543 TTCTTATATG
17722553 TTTTTATTTT-TATT-
1 TTTTTATTTTATATTA
17722567 TTTTTATTTTATA-TA
1 TTTTTATTTTATATTA
* *
17722582 -TTTT-TTCTAAATT-
1 TTTTTATTTTATATTA
*
17722595 TTTTTAATATTT-TAATA
1 TTTTT-AT-TTTATATTA
17722612 -TTTTATTTTATA-TA
1 TTTTTATTTTATATTA
17722626 TTTTTATCTTT-T-TTA
1 TTTTTAT-TTTATATTA
17722641 TTTTT
1 TTTTT
17722646 CGTTGAATGG
Statistics
Matches: 62, Mismatches: 5, Indels: 23
0.69 0.06 0.26
Matches are distributed among these distances:
13 5 0.08
14 25 0.40
15 20 0.32
16 10 0.16
17 2 0.03
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTATTTTATATTA
Found at i:17722630 original size:31 final size:30
Alignment explanation
Indices: 17722554--17722645 Score: 86
Period size: 31 Copynumber: 3.1 Consensus size: 30
17722544 TCTTATATGT
17722554 TTTTATTTT-TATTTTTT-TATTTTATATA
1 TTTTATTTTATATTTTTTATATTTTATATA
* *
17722582 TTTT-TTCTAAATTTTTTTAATATTTTA-ATA
1 TTTTATTTTATA-TTTTTT-ATATTTTATATA
* *
17722612 TTTTATTTTATATATTTTTATCTTTTTTAT-
1 TTTTATTTTATAT-TTTTTATATTTTATATA
17722642 TTTT
1 TTTT
17722646 CGTTGAATGG
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
27 3 0.06
28 5 0.10
29 6 0.12
30 18 0.35
31 19 0.37
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (30 bp):
TTTTATTTTATATTTTTTATATTTTATATA
Found at i:17722637 original size:22 final size:22
Alignment explanation
Indices: 17722557--17722637 Score: 78
Period size: 22 Copynumber: 3.6 Consensus size: 22
17722547 TATATGTTTT
*
17722557 TATTTTTATTTTTTTATTTTATA
1 TATTTTTA-TCTTTTATTTTATA
17722580 TATTTTT-TCTAAATTT-TTTTA-A
1 TATTTTTATCT---TTTATTTTATA
* *
17722602 TATTTTAATATTTTATTTTATA
1 TATTTTTATCTTTTATTTTATA
17722624 TATTTTTATCTTTT
1 TATTTTTATCTTTT
17722638 TTATTTTTCG
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
20 3 0.06
21 7 0.15
22 20 0.43
23 14 0.30
24 3 0.06
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (22 bp):
TATTTTTATCTTTTATTTTATA
Found at i:17722638 original size:9 final size:8
Alignment explanation
Indices: 17722559--17722645 Score: 59
Period size: 8 Copynumber: 10.4 Consensus size: 8
17722549 TATGTTTTTA
17722559 TTTTTATT
1 TTTTTATT
17722567 TTTTTATT
1 TTTTTATT
*
17722575 TTATATATT
1 TT-TTTATT
17722584 TTTTCTAAATT
1 TTTT-T--ATT
*
17722595 TTTTTAAT
1 TTTTTATT
* *
17722603 ATTTTAAT
1 TTTTTATT
*
17722611 ATTTTA-T
1 TTTTTATT
* *
17722618 TTTATATA
1 TTTTTATT
17722626 TTTTTATCT
1 TTTTTAT-T
17722635 TTTTTATT
1 TTTTTATT
17722643 TTT
1 TTT
17722646 CGTTGAATGG
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
7 5 0.08
8 36 0.56
9 15 0.23
10 1 0.02
11 7 0.11
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTATT
Found at i:17728389 original size:127 final size:127
Alignment explanation
Indices: 17728242--17728642 Score: 358
Period size: 127 Copynumber: 3.2 Consensus size: 127
17728232 AAATTGGATG
* ** * *
17728242 GGATTATTGAAGGTGGTTTTGGCCAGAAACACCTTCAATAA-CCACATTCAATATTTTGTTACGG
1 GGATTATTCAAGGTATTTTTGGCCAGAAACGCCTTCAATAATCC-CATTCAATATTTTGTTATGG
17728306 ATTATTCAAGGCATTTTCTGAACAAAAATGCCTTCAATAACCCTATTCAATAAAAATTGAAGA
65 ATTATTCAAGGCATTTTCTGAACAAAAATGCCTTCAATAACCCTATTCAATAAAAATTGAAGA
* * * * ** *
17728369 GGATTATTCAAGGTATTTTTGGCCATAAATGCCTTGAATAATCCC-CTCTAATTGAATAAT-TCA
1 GGATTATTCAAGGTATTTTTGGCCAGAAACGCCTTCAATAATCCCATTC-AA-T--ATTTTGTTA
* * * * * *
17728432 TGGGTTATTAAAGGCGTTTT-TG-ACATAAAACGCCTTCAATAATCGC---GC--TAAAAATTTG
62 TGGATTATTCAAGGCATTTTCTGAACA-AAAATGCCTTCAATAA-CCCTATTCAATAAAAA-TT-
*
17728490 GATG-
123 GAAGA
* * * * * *
17728494 GGATTATTGAAGGTGTTTTTAGCTAGAAACGCCTTTAATAATCCTATTCAATATTTTGTTATGGA
1 GGATTATTCAAGGTATTTTTGGCCAGAAACGCCTTCAATAATCCCATTCAATATTTTGTTATGGA
* * * *
17728559 TTATTCAAGGTATTTTCTAAACAAAAATTCCTTCAATAGCCCTATTCAATAAAAATTGAA-A
66 TTATTCAAGGCATTTTCTGAACAAAAATGCCTTCAATAACCCTATTCAATAAAAATTGAAGA
*
17728620 GGGATTATTCTAGGTATTTTTGG
1 -GGATTATTCAAGGTATTTTTGG
17728643 TTATAACCAC
Statistics
Matches: 208, Mismatches: 46, Indels: 40
0.71 0.16 0.14
Matches are distributed among these distances:
122 3 0.01
123 20 0.10
124 21 0.10
125 44 0.21
126 11 0.05
127 60 0.29
128 26 0.12
129 20 0.10
130 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (127 bp):
GGATTATTCAAGGTATTTTTGGCCAGAAACGCCTTCAATAATCCCATTCAATATTTTGTTATGGA
TTATTCAAGGCATTTTCTGAACAAAAATGCCTTCAATAACCCTATTCAATAAAAATTGAAGA
Found at i:17728680 original size:252 final size:252
Alignment explanation
Indices: 17728183--17728727 Score: 745
Period size: 252 Copynumber: 2.2 Consensus size: 252
17728173 AAATCACGAA
* * * * *
17728183 TTATTGAAGGTGTTTTTGATAGAAAACGCTTTCAATAATTCGTGCAAAAAAATTGGATGGGATTA
1 TTATTGAAGGCGTTTTTGACATAAAACGCCTTCAATAA-TCGCGCAAAAAAATTGGATGGGATTA
*
17728248 TTGAAGGTGGTTTTGGCCAGAAACACCTTCAATAACCACATTCAATATTTTGTTACGGATTATTC
65 TTGAAGGTGGTTTTAGCCAGAAACACCTTCAATAACCACATTCAATATTTTGTTACGGATTATTC
*
17728313 AAGGCATTTTCTGAACAAAAATGCCTTCAATAACCCTATTCAATAAAAATTGAAGAGGATTATTC
130 AAGGCATTTTCTAAACAAAAATGCCTTCAATAACCCTATTCAATAAAAATTGAAGAGGATTATTC
** *
17728378 AAGGTATTTTTGGCCATAAATGCCTTGAATAATCCCCTCTAATTGAATAATTCATGGG
195 AAGGTATTTTTGGCCATAAACACCTTGAATAATCCCCTCTAAATGAATAATTCATGGG
* * *
17728436 TTATTAAAGGCGTTTTTGACATAAAACGCCTTCAATAATCGCGCTAAAAATTTGGATGGGATTAT
1 TTATTGAAGGCGTTTTTGACATAAAACGCCTTCAATAATCGCGCAAAAAAATTGGATGGGATTAT
* * * * * *
17728501 TGAAGGTGTTTTTAGCTAGAAACGCCTTTAATAATCC-TATTCAATATTTTGTTATGGATTATTC
66 TGAAGGTGGTTTTAGCCAGAAACACCTTCAATAA-CCACATTCAATATTTTGTTACGGATTATTC
* * *
17728565 AAGGTATTTTCTAAACAAAAATTCCTTCAATAGCCCTATTCAATAAAAATTGAA-AGGGATTATT
130 AAGGCATTTTCTAAACAAAAATGCCTTCAATAACCCTATTCAATAAAAATTGAAGA-GGATTATT
* ** * * *
17728629 CTAGGTATTTTTGGTTATAACCACCTTGAATAATCCCTTCTAAATGAATAATTCATTGG
194 CAAGGTATTTTTGGCCATAAACACCTTGAATAATCCCCTCTAAATGAATAATTCATGGG
* ** *
17728688 TTATTGAAGGCATTTTTGGTGAT-AAATGCCTTCAATAATC
1 TTATTGAAGGCGTTTTT-GACATAAAACGCCTTCAATAATC
17728728 CATGAATTAT
Statistics
Matches: 256, Mismatches: 33, Indels: 7
0.86 0.11 0.02
Matches are distributed among these distances:
251 1 0.00
252 217 0.85
253 38 0.15
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (252 bp):
TTATTGAAGGCGTTTTTGACATAAAACGCCTTCAATAATCGCGCAAAAAAATTGGATGGGATTAT
TGAAGGTGGTTTTAGCCAGAAACACCTTCAATAACCACATTCAATATTTTGTTACGGATTATTCA
AGGCATTTTCTAAACAAAAATGCCTTCAATAACCCTATTCAATAAAAATTGAAGAGGATTATTCA
AGGTATTTTTGGCCATAAACACCTTGAATAATCCCCTCTAAATGAATAATTCATGGG
Found at i:17737973 original size:42 final size:42
Alignment explanation
Indices: 17737927--17738074 Score: 162
Period size: 42 Copynumber: 3.6 Consensus size: 42
17737917 ATGTTTCTTA
* * *
17737927 ATGGATCAACTTGCCCAAAGTAATCATTTATCATACTTTTTC
1 ATGGATTAACTTGTCCAAAGTAATCATTTATCATACTTTTCC
* *
17737969 ATGGATTAACTTGTCCAAAGTAATCCTTTATCATCCTTTTCC
1 ATGGATTAACTTGTCCAAAGTAATCATTTATCATACTTTTCC
* *
17738011 ATGGATTAAC-TGATCCAAAGTAATC--TT-CCA-ACATTTTTC
1 ATGGATTAACTTG-TCCAAAGTAATCATTTATCATAC-TTTTCC
* *
17738050 ATGGATTAACTTATGCAAAGTAATC
1 ATGGATTAACTTGTCCAAAGTAATC
17738075 TTCCATCTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
38 1 0.01
39 28 0.30
40 3 0.03
41 2 0.02
42 59 0.63
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (42 bp):
ATGGATTAACTTGTCCAAAGTAATCATTTATCATACTTTTCC
Found at i:17738069 original size:39 final size:39
Alignment explanation
Indices: 17737963--17738079 Score: 146
Period size: 39 Copynumber: 2.9 Consensus size: 39
17737953 TTTATCATAC
* * *
17737963 TTTTTCATGGATTAACTTGTCCAAAGTAATCCTT-TATCA
1 TTTTTCATGGATTAACTTATCCAAAGTAAT-CTTCCAACA
*
17738002 TCCTTTTCCATGGATTAACTGATCCAAAGTAATCTTCCAACA
1 T--TTTT-CATGGATTAACTTATCCAAAGTAATCTTCCAACA
*
17738044 TTTTTCATGGATTAACTTATGCAAAGTAATCTTCCA
1 TTTTTCATGGATTAACTTATCCAAAGTAATCTTCCA
17738080 TCTTTCTCCT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
39 30 0.44
40 4 0.06
41 7 0.10
42 27 0.40
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (39 bp):
TTTTTCATGGATTAACTTATCCAAAGTAATCTTCCAACA
Found at i:17756263 original size:5 final size:5
Alignment explanation
Indices: 17756253--17756279 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
17756243 GAAAACAGAG
17756253 AAGGA AAGGA AAGGA AAGGA AAGGA AA
1 AAGGA AAGGA AAGGA AAGGA AAGGA AA
17756280 AACTAGGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (5 bp):
AAGGA
Found at i:17757519 original size:128 final size:128
Alignment explanation
Indices: 17757374--17757622 Score: 480
Period size: 128 Copynumber: 1.9 Consensus size: 128
17757364 ATATTTTGAA
*
17757374 TTATTTGAATTCCAATTATTTTAATTTAGGATTATTTTATGATTGGGTTATATAGATTTTACGGT
1 TTATTTGAATTCCAATTATTTTAATTTAGGATTATTTTATGATTGGGTTATATAAATTTTACGGT
17757439 GGACAATTTGAATTGTTAATTTTTTTATCAGATTAAGTCAAATTTAAAATTTGAAAATTTAAG
66 GGACAATTTGAATTGTTAATTTTTTTATCAGATTAAGTCAAATTTAAAATTTGAAAATTTAAG
*
17757502 TTATTTGAATTCTAATTATTTTAATTTAGGATTATTTTATGATTGGGTTATATAAATTTTACGGT
1 TTATTTGAATTCCAATTATTTTAATTTAGGATTATTTTATGATTGGGTTATATAAATTTTACGGT
17757567 GGACAATTTGAATTGTTAATTTTTTTATCAGATTAAGTCAAATTTAAAATTTGAAA
66 GGACAATTTGAATTGTTAATTTTTTTATCAGATTAAGTCAAATTTAAAATTTGAAA
17757623 TTTTGAATTG
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 119 1.00
ACGTcount: A:0.34, C:0.04, G:0.14, T:0.48
Consensus pattern (128 bp):
TTATTTGAATTCCAATTATTTTAATTTAGGATTATTTTATGATTGGGTTATATAAATTTTACGGT
GGACAATTTGAATTGTTAATTTTTTTATCAGATTAAGTCAAATTTAAAATTTGAAAATTTAAG
Found at i:17757714 original size:15 final size:15
Alignment explanation
Indices: 17757660--17757707 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
17757650 CAAGCATTTA
*
17757660 TTAATATTTAATAAAT
1 TTAATATTTAAT-ATT
*
17757676 ATAA-ATTTTAATATT
1 TTAATA-TTTAATATT
17757691 TTAATATTTAATATT
1 TTAATATTTAATATT
17757706 TT
1 TT
17757708 TTTATTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 17 0.63
16 10 0.37
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTAATATTTAATATT
Found at i:17758131 original size:20 final size:20
Alignment explanation
Indices: 17758108--17758146 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17758098 AAGAAAAGTT
* *
17758108 AAAAATTTTTATTTTTATAA
1 AAAAATTATTATATTTATAA
17758128 AAAAATTATTATATTTATA
1 AAAAATTATTATATTTATA
17758147 TTTTCATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AAAAATTATTATATTTATAA
Found at i:17760012 original size:15 final size:15
Alignment explanation
Indices: 17759992--17760022 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
17759982 TGTATGGAGC
17759992 TTGGTGAGAGGATGT
1 TTGGTGAGAGGATGT
17760007 TTGGTGAGAGGATGT
1 TTGGTGAGAGGATGT
17760022 T
1 T
17760023 GTTATCTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.45, T:0.35
Consensus pattern (15 bp):
TTGGTGAGAGGATGT
Found at i:17761343 original size:2 final size:2
Alignment explanation
Indices: 17761338--17761375 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
17761328 TCTCTCTCTC
* *
17761338 TA TA TA TA TA TA TA TA TA TA TA TA GA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17761376 ACAATTATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (2 bp):
TA
Found at i:17761395 original size:9 final size:9
Alignment explanation
Indices: 17761381--17761409 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
17761371 ATATAACAAT
17761381 TATCTATAA
1 TATCTATAA
17761390 TATCTAT-A
1 TATCTATAA
17761398 TATCTATAA
1 TATCTATAA
17761407 TAT
1 TAT
17761410 ACATACATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (9 bp):
TATCTATAA
Found at i:17762339 original size:14 final size:14
Alignment explanation
Indices: 17762320--17762410 Score: 67
Period size: 14 Copynumber: 6.3 Consensus size: 14
17762310 AAAAGTTTAA
17762320 AATAATAATATTTT
1 AATAATAATATTTT
17762334 AATAATAATATTTT
1 AATAATAATATTTT
* * *
17762348 CAAATAGTTATACTTT
1 --AATAATAATATTTT
* *
17762364 AATGACAATATTTT
1 AATAATAATATTTT
*
17762378 CAAATAGTAATATTTT
1 --AATAATAATATTTT
* *
17762394 AATGATAGTA-TTT
1 AATAATAATATTTT
17762407 AATA
1 AATA
17762411 TTAAAAAAAT
Statistics
Matches: 58, Mismatches: 15, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
13 6 0.10
14 30 0.52
16 22 0.38
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (14 bp):
AATAATAATATTTT
Found at i:17762353 original size:16 final size:15
Alignment explanation
Indices: 17762319--17762395 Score: 68
Period size: 14 Copynumber: 5.1 Consensus size: 15
17762309 AAAAAGTTTA
17762319 AAATAATAATATTTT
1 AAATAATAATATTTT
17762334 -AATAATAATATTTT
1 AAATAATAATATTTT
* * *
17762348 CAAATAGTTATACTTT
1 -AAATAATAATATTTT
* *
17762364 -AATGACAATATTTT
1 AAATAATAATATTTT
*
17762378 CAAATAGTAATATTTT
1 -AAATAATAATATTTT
17762394 AA
1 AA
17762396 TGATAGTATT
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
14 23 0.49
15 2 0.04
16 22 0.47
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (15 bp):
AAATAATAATATTTT
Found at i:17762365 original size:30 final size:30
Alignment explanation
Indices: 17762319--17762406 Score: 113
Period size: 30 Copynumber: 2.9 Consensus size: 30
17762309 AAAAAGTTTA
* * *
17762319 AAATAATAATATTTTAATAATAATATTTTC
1 AAATAGTAATACTTTAATGATAATATTTTC
* *
17762349 AAATAGTTATACTTTAATGACAATATTTTC
1 AAATAGTAATACTTTAATGATAATATTTTC
* *
17762379 AAATAGTAATATTTTAATGATAGTATTT
1 AAATAGTAATACTTTAATGATAATATTT
17762407 AATATTAAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (30 bp):
AAATAGTAATACTTTAATGATAATATTTTC
Found at i:17762490 original size:20 final size:21
Alignment explanation
Indices: 17762454--17762493 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
17762444 AATATTAAGA
*
17762454 ACAATATTATTTATTATTAAC
1 ACAATATTATATATTATTAAC
17762475 ACAATATT-TATATTATTAA
1 ACAATATTATATATTATTAA
17762494 TTTAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (21 bp):
ACAATATTATATATTATTAAC
Found at i:17772878 original size:24 final size:24
Alignment explanation
Indices: 17772824--17772878 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 24
17772814 GTCTTTCTCC
*
17772824 TTTTTCTT-CTTTCCTTCTTTTTT
1 TTTTTTTTACTTTCCTTCTTTTTT
17772847 TTTTTTTTACTTT-CTTCTTTTTT
1 TTTTTTTTACTTTCCTTCTTTTTT
17772870 TTTTCTTTT
1 TTTT-TTTT
17772879 GTTCTTTTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 21 0.72
24 8 0.28
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (24 bp):
TTTTTTTTACTTTCCTTCTTTTTT
Found at i:17774528 original size:3 final size:3
Alignment explanation
Indices: 17774520--17774548 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
17774510 GCTTAATTGT
17774520 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
17774549 TAATAATAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:17778115 original size:20 final size:21
Alignment explanation
Indices: 17778081--17778137 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
17778071 GCATGAACAT
* *
17778081 AATAAAATGATGAATGCTTGA-
1 AATATAAT-ATGAATGCATGAC
*
17778102 GATATAATATGAATGCATGAC
1 AATATAATATGAATGCATGAC
17778123 AATATAATATGAATG
1 AATATAATATGAATG
17778138 ATAGAGAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.35
21 20 0.65
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.30
Consensus pattern (21 bp):
AATATAATATGAATGCATGAC
Found at i:17780360 original size:19 final size:20
Alignment explanation
Indices: 17780318--17780363 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
17780308 TTTGTGCAAT
*
17780318 TTTGACTTTGTTTGACTAAT
1 TTTGACTTTGTTTGACTAAG
17780338 TTTGACTTTG-TTGA-TCAAG
1 TTTGACTTTGTTTGACT-AAG
17780357 TTTGACT
1 TTTGACT
17780364 AGAGTTGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 1 0.04
19 13 0.54
20 10 0.42
ACGTcount: A:0.20, C:0.11, G:0.17, T:0.52
Consensus pattern (20 bp):
TTTGACTTTGTTTGACTAAG
Found at i:17789023 original size:8 final size:9
Alignment explanation
Indices: 17788997--17789063 Score: 53
Period size: 10 Copynumber: 6.7 Consensus size: 9
17788987 GGGAAAAGTG
17788997 TGAAAAAAA
1 TGAAAAAAA
17789006 GTGCAAAAAAAA
1 -TG--AAAAAAA
17789018 TGAAAAAAA
1 TGAAAAAAA
17789027 TGAAAAAAAA
1 TG-AAAAAAA
**
17789037 AAAACAAAAA
1 TGAA-AAAAA
17789047 TGAAGGAAAAA
1 TGAA--AAAAA
17789058 TGAAAA
1 TGAAAA
17789064 TTTAAAATGA
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
9 13 0.28
10 16 0.34
11 11 0.23
12 7 0.15
ACGTcount: A:0.75, C:0.03, G:0.13, T:0.09
Consensus pattern (9 bp):
TGAAAAAAA
Found at i:17789037 original size:20 final size:20
Alignment explanation
Indices: 17788997--17789063 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
17788987 GGGAAAAGTG
*
17788997 TGAAAAAAAGTGCAAAAAAAA
1 TGAAAAAAA-TGAAAAAAAAA
17789018 TGAAAAAAATGAAAAAAAAA
1 TGAAAAAAATGAAAAAAAAA
* **
17789038 -AAACAAAAATGAAGGAAAAA
1 TGAA-AAAAATGAAAAAAAAA
17789058 TGAAAA
1 TGAAAA
17789064 TTTAAAATGA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.05
20 26 0.67
21 11 0.28
ACGTcount: A:0.75, C:0.03, G:0.13, T:0.09
Consensus pattern (20 bp):
TGAAAAAAATGAAAAAAAAA
Found at i:17789778 original size:18 final size:18
Alignment explanation
Indices: 17789755--17789839 Score: 81
Period size: 18 Copynumber: 5.0 Consensus size: 18
17789745 TTGACTTTTG
17789755 CATTACATTCACTGCATT
1 CATTACATTCACTGCATT
* *
17789773 CATTACAATCACTACATT
1 CATTACATTCACTGCATT
17789791 CATTACA-T---TGCATT
1 CATTACATTCACTGCATT
* *
17789805 CATTACATTCATTACATT
1 CATTACATTCACTGCATT
* *
17789823 CACTACACTCAC-GCATT
1 CATTACATTCACTGCATT
17789840 GCAAGAAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
14 12 0.22
15 1 0.02
17 5 0.09
18 37 0.67
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (18 bp):
CATTACATTCACTGCATT
Found at i:17789797 original size:9 final size:9
Alignment explanation
Indices: 17789755--17789829 Score: 68
Period size: 9 Copynumber: 8.8 Consensus size: 9
17789745 TTGACTTTTG
17789755 CATTACATT
1 CATTACATT
* *
17789764 CACTGCATT
1 CATTACATT
*
17789773 CATTACAAT
1 CATTACATT
*
17789782 CACTACATT
1 CATTACATT
17789791 CATT--A--
1 CATTACATT
*
17789796 CATTGCATT
1 CATTACATT
17789805 CATTACATT
1 CATTACATT
17789814 CATTACATT
1 CATTACATT
*
17789823 CACTACA
1 CATTACA
17789830 CTCACGCATT
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
5 4 0.08
7 2 0.04
9 46 0.88
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (9 bp):
CATTACATT
Found at i:17789799 original size:23 final size:23
Alignment explanation
Indices: 17789769--17789822 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
17789759 ACATTCACTG
17789769 CATT-CATTACAATCACTACATT
1 CATTACATTACAATCACTACATT
* * *
17789791 CATTACATTGCATTCATTACATT
1 CATTACATTACAATCACTACATT
17789814 CATTACATT
1 CATTACATT
17789823 CACTACACTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.41
Consensus pattern (23 bp):
CATTACATTACAATCACTACATT
Found at i:17789804 original size:14 final size:13
Alignment explanation
Indices: 17789787--17789822 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
17789777 ACAATCACTA
17789787 CATTCATTACATT
1 CATTCATTACATT
17789800 GCATTCATTACATT
1 -CATTCATTACATT
17789814 CATTACATT
1 CATT-CATT
17789823 CACTACACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.44
Consensus pattern (13 bp):
CATTCATTACATT
Found at i:17789807 original size:32 final size:32
Alignment explanation
Indices: 17789767--17789829 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
17789757 TTACATTCAC
*
17789767 TGCATTCATTACAATCACTACATTCATTACAT
1 TGCATTCATTACAATCACTACATTCACTACAT
* *
17789799 TGCATTCATTACATTCATTACATTCACTACA
1 TGCATTCATTACAATCACTACATTCACTACA
17789830 CTCACGCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.38
Consensus pattern (32 bp):
TGCATTCATTACAATCACTACATTCACTACAT
Found at i:17791771 original size:31 final size:31
Alignment explanation
Indices: 17791704--17791771 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
17791694 CTCTAGGTTT
*
17791704 TTTTAATTTTATTTTTTTGTGTACTTTAGTTA
1 TTTT-ATTTTATTTTTTTGTGTACTTCAGTTA
*
17791736 TTTTATTTTATTTTTATTTTGT-CTTCA-TTA
1 TTTTATTTTATTTTT-TTGTGTACTTCAGTTA
17791766 GTTTTA
1 -TTTTA
17791772 AGTAGACAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 3 0.09
31 20 0.62
32 9 0.28
ACGTcount: A:0.18, C:0.04, G:0.07, T:0.71
Consensus pattern (31 bp):
TTTTATTTTATTTTTTTGTGTACTTCAGTTA
Found at i:17791943 original size:20 final size:19
Alignment explanation
Indices: 17791913--17791963 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
17791903 TGTGTGCTTT
17791913 ATTAATTGCATGATTATTA
1 ATTAATTGCATGATTATTA
* *
17791932 ATATATTTGCATGATTATTT
1 AT-TAATTGCATGATTATTA
17791952 ATTAATTGCATG
1 ATTAATTGCATG
17791964 GTTTTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.49
Consensus pattern (19 bp):
ATTAATTGCATGATTATTA
Found at i:17792719 original size:21 final size:21
Alignment explanation
Indices: 17792687--17792732 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
17792677 GGTGGAGGTA
17792687 AGATTAATTACTATAGTAGTG
1 AGATTAATTACTATAGTAGTG
* *
17792708 AGATTGAA-TACTGTAGTGGTG
1 AGATT-AATTACTATAGTAGTG
17792729 AGAT
1 AGAT
17792733 AAGTATTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (21 bp):
AGATTAATTACTATAGTAGTG
Found at i:17792895 original size:10 final size:10
Alignment explanation
Indices: 17792860--17792889 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
17792850 ATATTTTTAA
17792860 ATTAATAAATT
1 ATTAA-AAATT
17792871 ATTAAAAATT
1 ATTAAAAATT
17792881 ATTAAAAAT
1 ATTAAAAAT
17792890 ATTTAATATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 14 0.74
11 5 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
ATTAAAAATT
Found at i:17793999 original size:145 final size:142
Alignment explanation
Indices: 17793627--17793989 Score: 372
Period size: 145 Copynumber: 2.5 Consensus size: 142
17793617 AATTTTTTAA
* * * ** * * * *
17793627 ATCTCAATTTTATAATATTTCATAATTTTTGGTGCATTTGAAATCATAACAATGCCTTAGGGGGT
1 ATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCATAGTAATACCCTAAGAGGT
** *
17793692 GTGAAATTACTAAAATATCCCAAAGGGTATTTTCATAATTTATCCTTTCTTAGCTTAGATTTTTA
66 GTGAAATTACTAAAATA-CCCAAAGGGTATTTTCATAATTTATCCTTTCTTAGAATAGATTTTCA
* * *
17793757 TGAAACTTTTCAT
130 TAAAACTCTTCAG
* * ** * * * *
17793770 ATCTTAATTTCCTAACATTTCATGATTTTTTATACATTTGAAATCATAGTAGTA-TCTCGAGAGG
1 ATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCATAGTAATACCCT-AAGAGG
* ** * *
17793834 TGTGAAATTATTAAAATACCCTTCTAGGGATATTTTCATAA-TT-TCCTTTTTTTGAATACGAAT
65 TGTGAAATTACTAAAATACCC--AAAGGG-TATTTTCATAATTTATCCTTTCTTAGAATA-G-AT
17793897 TTTCATAAAACTCTTCAG
125 TTTCATAAAACTCTTCAG
* *
17793915 ATCTTAATTTCATAATATTTTATGATTTTTGGTGTATTTGAAATCATAGTAATACCCTAAGAGGT
1 ATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCATAGTAATACCCTAAGAGGT
17793980 GTGAAATTAC
66 GTGAAATTAC
17793990 CTATATACCC
Statistics
Matches: 174, Mismatches: 39, Indels: 12
0.77 0.17 0.05
Matches are distributed among these distances:
142 4 0.02
143 73 0.42
144 7 0.04
145 88 0.51
146 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (142 bp):
ATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCATAGTAATACCCTAAGAGGT
GTGAAATTACTAAAATACCCAAAGGGTATTTTCATAATTTATCCTTTCTTAGAATAGATTTTCAT
AAAACTCTTCAG
Found at i:17795954 original size:24 final size:25
Alignment explanation
Indices: 17795922--17795969 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
17795912 TCATCAATGA
* *
17795922 TTATTA-TTTATAAAGAGTGTTATT
1 TTATTATTTTAAAAAGAATGTTATT
17795946 TTATTATTTTAAAAAGAATGTTAT
1 TTATTATTTTAAAAAGAATGTTAT
17795970 GATATATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (25 bp):
TTATTATTTTAAAAAGAATGTTATT
Found at i:17797036 original size:4 final size:4
Alignment explanation
Indices: 17797027--17797056 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
17797017 CTATGCCTGA
*
17797027 TTAT TTAT TTAT TTAT TTGT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
17797057 GTTAACATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:17797057 original size:12 final size:12
Alignment explanation
Indices: 17797027--17797059 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
17797017 CTATGCCTGA
*
17797027 TTATTTATTTAT
1 TTATTTGTTTAT
17797039 TTATTTGTTTAT
1 TTATTTGTTTAT
17797051 TTATTTGTT
1 TTATTTGTT
17797060 AACATTACTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (12 bp):
TTATTTGTTTAT
Found at i:17802715 original size:40 final size:39
Alignment explanation
Indices: 17802671--17802752 Score: 110
Period size: 39 Copynumber: 2.1 Consensus size: 39
17802661 ACAAGCATGG
* *
17802671 TAGCTAAGCAGACCATTGTTAGATAGAAGAAAAATGATGT
1 TAGCTAAGCAGACCACT-ATAGATAGAAGAAAAATGATGT
** *
17802711 TAGCTAAGCCTACTACTATAGATAGAAGAAAAATGATGT
1 TAGCTAAGCAGACCACTATAGATAGAAGAAAAATGATGT
17802750 TAG
1 TAG
17802753 AAAAAAAAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 24 0.65
40 13 0.35
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.26
Consensus pattern (39 bp):
TAGCTAAGCAGACCACTATAGATAGAAGAAAAATGATGT
Found at i:17808203 original size:14 final size:14
Alignment explanation
Indices: 17808184--17808210 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17808174 CCATAAAAAG
17808184 ATATATATACATAT
1 ATATATATACATAT
17808198 ATATATATACATA
1 ATATATATACATA
17808211 AAATTTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATATATACATAT
Found at i:17809984 original size:144 final size:143
Alignment explanation
Indices: 17809649--17810477 Score: 747
Period size: 144 Copynumber: 5.7 Consensus size: 143
17809639 TTAAAACATA
* * * **
17809649 AAAAATTATGAAATATTATGAAATTGAGATTTGAAAACTTTCATGAAAAT-TAGAGCTTAAAAAA
1 AAAAATCATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAATCTA-AGCTT-GGAAA
** * * * * * ** * *
17809713 GTCAAATTATGAAAATACACTTTTAGCAGTACTTTGGTAATTTCACAC-TTCTTGGGTTACTACT
64 GAAAAATTACGAAAATACCCTTATAG-GGTATTTTGGTAATTTCACACTTTCTAAGG-TATTGCT
* *
17809777 ATGATTTTAAATACACA
127 ATGATTTTAAATGCACC
* * * *
17809794 AAAAATCATAAAATGTTATGAAATTGAGATCTGAAAAGTTTCATGACAATCCAAGCTTGGGAAAG
1 AAAAATCATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAATCTAAGCTT-GGAAAG
* *
17809859 AAAAATTACGAGAATACCCTTATATGGGTATTTTGGTTATTTCACACTTTCTAAGGTATTGCTAT
65 AAAAATTACGAAAATACCCTTATA-GGGTATTTTGGTAATTTCACACTTTCTAAGGTATTGCTAT
17809924 GA-TTTAAATGCACC
129 GATTTTAAATGCACC
* *
17809938 AAAAATCATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGACAATCTGAGCTTGGAAAGG
1 AAAAATCATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAATCTAAGCTTGGAAA-G
** * * * * * *
17810003 TCAAATTACAAAAATACCCTAATAGGATATTTTGGTAATTTTATACTTT-TCAAGGTATTGCTGT
65 AAAAATTACGAAAATACCCTTATAGGGTATTTTGGTAATTTCACACTTTCT-AAGGTATTGCTAT
*
17810067 GATTTTAAATGCA-T
129 GATTTTAAATGCACC
* * * * * * * *
17810081 AAAAAACTATGAAATGTTATGAAAATAAGATCTGAAAAGTTTCATAAAAATTTAAGC-TCGAAAA
1 AAAAATC-ATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAATCTAAGCTTGGAAAG
** ** * * * * *
17810145 AATTAAATTATAAAAATACCCTTATAGGGGTATTTTAATAATTTTACACTTTTTGAGGTACTGTT
65 AA--AAATTACGAAAATACCCTTATA-GGGTATTTTGGTAATTTCACACTTTCTAAGGTATTGCT
* *
17810210 ATGATTTCAAATGTACC
127 ATGATTTTAAATGCACC
* * * * * *
17810227 AAAAATCATGAAATATTATGAAATTGAGATCTGAAAAGTTTTATAAAAATATGATCTTTGAAAGA
1 AAAAATCATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAATCTAAGCTTGGAAAGA
* * * * ** *
17810292 CTAAATGACGAATATACCCTTATAGGGGTATTTTGGTAATTTCACA-TTTTTGGGGTATTGTTAT
66 -AAAATTACGAAAATACCCTTATA-GGGTATTTTGGTAATTTCACACTTTCTAAGGTATTGCTAT
*
17810356 GATTTTAAATGTACC
129 GATTTTAAATGCACC
* * * * * *
17810371 AAAAATCATGAAATATTATAAAATTAAGATTTGAAAAGTTTCATGAAAATCTGAGCTCGAAAAGG
1 AAAAATCATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAATCTAAGCTTGGAAA-G
** * *
17810436 TCAAATTAC-AAAAGTATCCCTTAAAGGGTATTTTAGTAATTT
65 AAAAATTACGAAAA-TA-CCCTTATAGGGTATTTTGGTAATTT
17810478 TGTACTTTCC
Statistics
Matches: 565, Mismatches: 102, Indels: 35
0.80 0.15 0.05
Matches are distributed among these distances:
142 1 0.00
143 54 0.10
144 263 0.47
145 226 0.40
146 21 0.04
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (143 bp):
AAAAATCATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAATCTAAGCTTGGAAAGA
AAAATTACGAAAATACCCTTATAGGGTATTTTGGTAATTTCACACTTTCTAAGGTATTGCTATGA
TTTTAAATGCACC
Found at i:17810364 original size:289 final size:288
Alignment explanation
Indices: 17809649--17810478 Score: 904
Period size: 289 Copynumber: 2.9 Consensus size: 288
17809639 TTAAAACATA
* * * * *
17809649 AAAAATTATGAAATATTATGAAATTGAGATTTGAAAACTTTCATGAAAATTAGAGC-TTAAAAAA
1 AAAAATCATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAATT-GAGCTTTGAAAGA
* * * ** * * * * *
17809713 GTCAAATTATGAAAATACACTTTTAGCAGTACTTTGGTAATTTCACACTTCTTGGGTTACTACTA
65 GTCAAATTACGAAAATACCCTTATAGGGGTATTTTGGTAATTTCACACTTTTTGGGGTATTGCTA
* * * * *
17809778 TGATTTTAAATACACAAAAAATCATAAAATGTTATGAAATTGAGATCTGAAAAGTTTCATGACAA
130 TGATTTTAAATGCACAAAAAATCATGAAATGTTATGAAAATAAGATCTGAAAAGTTTCATGAAAA
* * * * * * * * *
17809843 TCCAAGCTTGGGAAAGAA-AAATTACGAGAATACCCTTATATGGGTATTTTGGTTATTTCACACT
195 TCTAAGC-T-CGAAAAAATAAATTACAAAAATACCCTTATAAGGGTATTTTAGTAATTTTACACT
*
17809907 TTCTAAGGTATTGCTATGATTTAAATGCACC
258 TTCTAAGGTACTGCTATGATTTAAATGCACC
* *
17809938 AAAAATCATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGACAATCTGAGCTTGGAAAG-
1 AAAAATCATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAAT-TGAGCTTTGAAAGA
* * * * * *** *
17810002 GTCAAATTACAAAAATACCCTAATA-GGATATTTTGGTAATTTTATACTTTTCAAGGTATTGCTG
65 GTCAAATTACGAAAATACCCTTATAGGGGTATTTTGGTAATTTCACACTTTTTGGGGTATTGCTA
* *
17810066 TGATTTTAAATGCATAAAAAA-CTATGAAATGTTATGAAAATAAGATCTGAAAAGTTTCATAAAA
130 TGATTTTAAATGCACAAAAAATC-ATGAAATGTTATGAAAATAAGATCTGAAAAGTTTCATGAAA
* * * *
17810130 ATTTAAGCTCGAAAAAATTAAATTATAAAAATACCCTTATAGGGGTATTTTAATAATTTTACACT
194 ATCTAAGCTCGAAAAAA-TAAATTACAAAAATACCCTTATAAGGGTATTTTAGTAATTTTACACT
* * * *
17810195 TTTTGAGGTACTGTTATGATTTCAAATGTACC
258 TTCTAAGGTACTGCTATGATTT-AAATGCACC
* * *
17810227 AAAAATCATGAAATATTATGAAATTGAGATCTGAAAAGTTTTATAAAAATATGATCTTTGAAAGA
1 AAAAATCATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAAT-TGAGCTTTGAAAGA
* * * *
17810292 CT-AAATGACGAATATACCCTTATAGGGGTATTTTGGTAATTTCACA-TTTTTGGGGTATTGTTA
65 GTCAAATTACGAAAATACCCTTATAGGGGTATTTTGGTAATTTCACACTTTTTGGGGTATTGCTA
* * * *
17810355 TGATTTTAAATGTACCAAAAATCATGAAATATTAT-AAAATTAAGATTTGAAAAGTTTCATGAAA
130 TGATTTTAAATGCACAAAAAATCATGAAATGTTATGAAAA-TAAGATCTGAAAAGTTTCATGAAA
* ** *
17810419 ATCTGAGCTCGAAAAGGTCAAATTACAAAAGTATCCCTTA-AAGGGTATTTTAGTAATTTT
194 ATCTAAGCTCGAAAAAAT-AAATTACAAAAATA-CCCTTATAAGGGTATTTTAGTAATTTT
17810479 GTACTTTCCC
Statistics
Matches: 446, Mismatches: 83, Indels: 24
0.81 0.15 0.04
Matches are distributed among these distances:
286 6 0.01
287 2 0.00
288 147 0.33
289 260 0.58
290 31 0.07
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (288 bp):
AAAAATCATGAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAATTGAGCTTTGAAAGAG
TCAAATTACGAAAATACCCTTATAGGGGTATTTTGGTAATTTCACACTTTTTGGGGTATTGCTAT
GATTTTAAATGCACAAAAAATCATGAAATGTTATGAAAATAAGATCTGAAAAGTTTCATGAAAAT
CTAAGCTCGAAAAAATAAATTACAAAAATACCCTTATAAGGGTATTTTAGTAATTTTACACTTTC
TAAGGTACTGCTATGATTTAAATGCACC
Found at i:17811074 original size:37 final size:37
Alignment explanation
Indices: 17810980--17811081 Score: 143
Period size: 37 Copynumber: 2.8 Consensus size: 37
17810970 TGTTAATAGT
17810980 TTTCCCTAAACAGAGGCTTTGAAACTTTGAAAATGGC
1 TTTCCCTAAACAGAGGCTTTGAAACTTTGAAAATGGC
* * **
17811017 -TCCCCTTAAACAAAAACTTTGAAACTTTGAAAATGGC
1 TTTCCC-TAAACAGAGGCTTTGAAACTTTGAAAATGGC
*
17811054 TTTCCCTAAATAGAGGCTTTGAAACTTT
1 TTTCCCTAAACAGAGGCTTTGAAACTTT
17811082 TTGAAAAAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
36 4 0.07
37 46 0.85
38 4 0.07
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (37 bp):
TTTCCCTAAACAGAGGCTTTGAAACTTTGAAAATGGC
Found at i:17811283 original size:37 final size:37
Alignment explanation
Indices: 17811228--17811342 Score: 158
Period size: 37 Copynumber: 3.1 Consensus size: 37
17811218 ATCTTGTTTG
* *
17811228 AAAATTGCTCCTCCTAAACAGAGGTTTTGAAACTTTT
1 AAAATAGCTCCCCCTAAACAGAGGTTTTGAAACTTTT
* * * * *
17811265 AAAATGGTTCCCCTTAAACAGAGGCTTTCAAACTTTT
1 AAAATAGCTCCCCCTAAACAGAGGTTTTGAAACTTTT
*
17811302 AAAATAGCTCCCCCTAAATAGAGGTTTTGAAACTTTT
1 AAAATAGCTCCCCCTAAACAGAGGTTTTGAAACTTTT
17811339 AAAA
1 AAAA
17811343 AATCTTGTTT
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (37 bp):
AAAATAGCTCCCCCTAAACAGAGGTTTTGAAACTTTT
Found at i:17811306 original size:127 final size:127
Alignment explanation
Indices: 17810984--17811431 Score: 519
Period size: 126 Copynumber: 3.5 Consensus size: 127
17810974 AATAGTTTTC
* * * *
17810984 CCTAAACAGAGGCTTTGAAACTTTGAAAATGGCTCCCCTTAAACAAAAACTTTGAAACTTTGAAA
1 CCTAAACAGAGGTTTTGAAACTTTTAAAATGGCTCCCCTTAAACAGAGACTTTGAAACTTTGAAA
** * * *
17811049 ATGGCTTTCCCTAAATAGAGGCTTTGAAACTTTTTGAAAAAAATCTTATTTG-AAATTGTTGCCT
66 ATGGCTCCCCCTAAATAGAGGCTTTGAAACCTTTT--AAAAAATCTTGTTTGAAAATTGCT-CCT
* * * * * **
17811113 -CTAAATAGAGGTTTTTGAAATTTTGTAAAA-GGCTACCTTTAAATAGAGGTTTTGAAACTTTGA
1 CCTAAACAGAGG-TTTTGAAACTTT-TAAAATGGCTCCCCTTAAACAGAGACTTTGAAACTTTGA
* * *
17811176 AAATGGCTCCCCCTAAACAAAAGCTTTGAAACCTTTTAAAAAATCTTGTTTGAAAATTGCTCCT
64 AAATGGCTCCCCCTAAATAGAGGCTTTGAAACCTTTTAAAAAATCTTGTTTGAAAATTGCTCCT
* * * *
17811240 CCTAAACAGAGGTTTTGAAACTTTTAAAATGGTTCCCCTTAAACAGAGGCTTTCAAACTTTTAAA
1 CCTAAACAGAGGTTTTGAAACTTTTAAAATGGCTCCCCTTAAACAGAGACTTTGAAACTTTGAAA
* * *
17811305 ATAGCTCCCCCTAAATAGAGGTTTTGAAA-CTTTTAAAAAATCTTGTTTAAAAATTGCTCC-
66 ATGGCTCCCCCTAAATAGAGGCTTTGAAACCTTTTAAAAAATCTTGTTTGAAAATTGCTCCT
* * * * * *
17811365 CTATAAATAGAGGTTTTAAAACTTTTAAAATGGCTCCCCCTAAAGAGAGACTTTGAAACTTTAAA
1 C-CTAAACAGAGGTTTTGAAACTTTTAAAATGGCTCCCCTTAAACAGAGACTTTGAAACTTTGAA
17811430 AA
65 AA
17811432 AAAATCTTGT
Statistics
Matches: 270, Mismatches: 43, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
125 1 0.00
126 91 0.34
127 80 0.30
128 27 0.10
129 67 0.25
130 4 0.01
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (127 bp):
CCTAAACAGAGGTTTTGAAACTTTTAAAATGGCTCCCCTTAAACAGAGACTTTGAAACTTTGAAA
ATGGCTCCCCCTAAATAGAGGCTTTGAAACCTTTTAAAAAATCTTGTTTGAAAATTGCTCCT
Found at i:17811565 original size:92 final size:91
Alignment explanation
Indices: 17811275--17811612 Score: 421
Period size: 91 Copynumber: 3.7 Consensus size: 91
17811265 AAAATGGTTC
* * * * * *
17811275 CCCT-TAAACAGAGGCTTTCAAACTTTTAAAATAGCTCCCCCTAAATAGAGGTTTTGAAAC--TT
1 CCCTCTAAATAGAGGTTTTGAAACTTTTAAAATGGCTCCCCCTAAACAGAGGCTTTGAAACTTTT
*
17811337 TTAAAAAATCTTGTTTAAAAATTGCT
66 TTAAAAAATCTTGTTTGAAAATTGCT
* * * * *
17811363 CCCTATAAATAGAGGTTTTAAAACTTTTAAAATGGCTCCCCCTAAAGAGAGACTTTGAAACTTTA
1 CCCTCTAAATAGAGGTTTTGAAACTTTTAAAATGGCTCCCCCTAAACAGAGGCTTTGAAACTTTT
**
17811428 AAAAAAAATCTTGTTTGAAAATTGCT
66 TTAAAAAATCTTGTTTGAAAATTGCT
* *
17811454 CCCTCTAAATAGAGGTTTTGAAACTTTTAAAATGGCTCCCCTTAAACGGAGGCTTTGAAACTTTT
1 CCCTCTAAATAGAGGTTTTGAAACTTTTAAAATGGCTCCCCCTAAACAGAGGCTTTGAAAC-TTT
*
17811519 TTTAAAAAATCTTGTTTGAAAATTGTT
65 TTTAAAAAATCTTGTTTGAAAATTGCT
* * * * * * * *
17811546 CCTTCTAAAAAGAGGTTTTGAAGCTTTTAAAACGGCACCCCCTCAACAGAGGGTTTTAAACTTTT
1 CCCTCTAAATAGAGGTTTTGAAACTTTTAAAATGGCTCCCCCTAAACAGAGGCTTTGAAACTTTT
17811611 TT
66 TT
17811613 TTGCCCTCTT
Statistics
Matches: 215, Mismatches: 31, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
88 4 0.02
89 49 0.23
91 85 0.40
92 77 0.36
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (91 bp):
CCCTCTAAATAGAGGTTTTGAAACTTTTAAAATGGCTCCCCCTAAACAGAGGCTTTGAAACTTTT
TTAAAAAATCTTGTTTGAAAATTGCT
Found at i:17811613 original size:92 final size:92
Alignment explanation
Indices: 17811275--17811613 Score: 418
Period size: 92 Copynumber: 3.7 Consensus size: 92
17811265 AAAATGGTTC
* * * * * *
17811275 CCCT-TAAACAGAGGCTTTCAAACTTTTAAAATAGCTCCCCCTAAATAGAGGTTTTGAAAC---T
1 CCCTCTAAATAGAGGTTTTGAAACTTTTAAAATGGCTCCCCCTAAACAGAGGCTTTGAAACTTTT
*
17811336 TTTAAAAAATCTTGTTTAAAAATTGCT
66 TTTAAAAAATCTTGTTTGAAAATTGCT
* * * *
17811363 CCCTATAAATAGAGGTTTTAAAACTTTTAAAATGGCTCCCCCTAAAGAGAGACTTTGAAAC-TTT
1 CCCTCTAAATAGAGGTTTTGAAACTTTTAAAATGGCTCCCCCTAAACAGAGGCTTTGAAACTTTT
***
17811427 AAAAAAAAATCTTGTTTGAAAATTGCT
66 TTTAAAAAATCTTGTTTGAAAATTGCT
* *
17811454 CCCTCTAAATAGAGGTTTTGAAACTTTTAAAATGGCTCCCCTTAAACGGAGGCTTTGAAACTTTT
1 CCCTCTAAATAGAGGTTTTGAAACTTTTAAAATGGCTCCCCCTAAACAGAGGCTTTGAAACTTTT
*
17811519 TTTAAAAAATCTTGTTTGAAAATTGTT
66 TTTAAAAAATCTTGTTTGAAAATTGCT
* * * * * * * *
17811546 CCTTCTAAAAAGAGGTTTTGAAGCTTTTAAAACGGCACCCCCTCAACAGAGGGTTTTAAACTTTT
1 CCCTCTAAATAGAGGTTTTGAAACTTTTAAAATGGCTCCCCCTAAACAGAGGCTTTGAAACTTTT
17811611 TTT
66 TTT
17811614 TGCCCTCTTT
Statistics
Matches: 216, Mismatches: 31, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
88 4 0.02
89 49 0.23
91 79 0.37
92 84 0.39
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.35
Consensus pattern (92 bp):
CCCTCTAAATAGAGGTTTTGAAACTTTTAAAATGGCTCCCCCTAAACAGAGGCTTTGAAACTTTT
TTTAAAAAATCTTGTTTGAAAATTGCT
Found at i:17812046 original size:32 final size:32
Alignment explanation
Indices: 17811977--17812039 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
17811967 TGAAAATGCA
* * ** *
17811977 AAATGTCTTTTTTATGATGTAGATGTGAATGC
1 AAATGTCTTTCTTATGATGTACATGCAAATAC
17812009 AAATGTCTTTCTTATGATGTACATGCAAATA
1 AAATGTCTTTCTTATGATGTACATGCAAATA
17812040 TGAATGTGAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (32 bp):
AAATGTCTTTCTTATGATGTACATGCAAATAC
Found at i:17812432 original size:36 final size:37
Alignment explanation
Indices: 17812365--17812441 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
17812355 ATAACACTGT
***
17812365 AAGTCAAAAAATAAGAAAATAATTGGGACAACA-TCAC
1 AAGTCAAAAAATAAGAAAATAATTCAAACAACACT-AC
*
17812402 AAGTCAAAAAATAAGAAAATGA-TCAAACAACACTAC
1 AAGTCAAAAAATAAGAAAATAATTCAAACAACACTAC
17812438 AAGT
1 AAGT
17812442 TAGATAAAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.58, C:0.14, G:0.12, T:0.16
Consensus pattern (37 bp):
AAGTCAAAAAATAAGAAAATAATTCAAACAACACTAC
Found at i:17812735 original size:34 final size:35
Alignment explanation
Indices: 17812686--17813005 Score: 188
Period size: 34 Copynumber: 9.5 Consensus size: 35
17812676 CATTGGGGCT
17812686 AGATAAAC-AGAGCTTAAAATTTTCATCAAGG-GCC
1 AGATAAACTAG-GCTTAAAATTTTCATCAAGGTGCC
* * *** *
17812720 AAATAAACTAGGCTTAAAATTTT-TTTTTGGTACC
1 AGATAAACTAGGCTTAAAATTTTCATCAAGGTGCC
* * **
17812754 AAATAAA-TTGTGCTTAAAA-TTTCAT-TGGGTGCC
1 AGATAAACTAG-GCTTAAAATTTTCATCAAGGTGCC
* * * *
17812787 AGCTAAGCTAGG-TTTAAACTTTCAT--AGGTGCC
1 AGATAAACTAGGCTTAAAATTTTCATCAAGGTGCC
*
17812819 AGATAAACTAGGCTTAAAATTTTCATCAAAG-GCC
1 AGATAAACTAGGCTTAAAATTTTCATCAAGGTGCC
* * **
17812853 AAATAAACTAGGCTT-AAATTTTCA-CTAGGAACC
1 AGATAAACTAGGCTTAAAATTTTCATCAAGGTGCC
* * * *
17812886 AGCTAAGCTAGGCTTTAAAATCTTCATCAA-GTGCT
1 AGATAAACTAGGC-TTAAAATTTTCATCAAGGTGCC
* * * ** *
17812921 AGGTAAACTGGGTTTAAAATCTTTC-T-TTGGTGCT
1 AGATAAACTAGGCTTAAAAT-TTTCATCAAGGTGCC
* *
17812955 AGATAAACTGGGCTTAAAATTGT-ATCAAGG-GCC
1 AGATAAACTAGGCTTAAAATTTTCATCAAGGTGCC
* *
17812988 AGATAAATTGGGCTTAAA
1 AGATAAACTAGGCTTAAA
17813006 TTGCGTGCTA
Statistics
Matches: 222, Mismatches: 47, Indels: 35
0.73 0.15 0.12
Matches are distributed among these distances:
32 24 0.11
33 79 0.36
34 91 0.41
35 26 0.12
36 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (35 bp):
AGATAAACTAGGCTTAAAATTTTCATCAAGGTGCC
Found at i:17812855 original size:99 final size:103
Alignment explanation
Indices: 17812699--17812945 Score: 240
Period size: 99 Copynumber: 2.4 Consensus size: 103
17812689 TAAACAGAGC
* * * ****
17812699 TTAAAATTTTCATCAAGGGCCAAATAAACTAGGCTTAAAAT-TTT--TTTTTGGTACCAAATAAA
1 TTAAAATCTTCATCAAGTGCCAGATAAACTAGGCTTAAAATCTTTCATCAAAGG--CCAAATAAA
* * * **
17812761 -TTGTGCTTAAAATTTCATTGGGTGCCAGCTAAGCTAGG-T
64 CTAG-GCTTAAAATTTCACTAGGAACCAGCTAAGCTAGGCT
* *
17812800 TTAAACT-TTCAT-AGGTGCCAGATAAACTAGGCTTAAAAT-TTTCATCAAAGGCCAAATAAACT
1 TTAAAATCTTCATCAAGTGCCAGATAAACTAGGCTTAAAATCTTTCATCAAAGGCCAAATAAACT
*
17812862 AGGCTTAAATTTTCACTAGGAACCAGCTAAGCTAGGCT
66 AGGCTTAAAATTTCACTAGGAACCAGCTAAGCTAGGCT
* * * *
17812900 TTAAAATCTTCATCAAGTGCTAGGTAAACTGGGTTTAAAATCTTTC
1 TTAAAATCTTCATCAAGTGCCAGATAAACTAGGCTTAAAATCTTTC
17812946 TTTGGTGCTA
Statistics
Matches: 119, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
99 65 0.55
100 14 0.12
101 14 0.12
102 22 0.18
103 4 0.03
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (103 bp):
TTAAAATCTTCATCAAGTGCCAGATAAACTAGGCTTAAAATCTTTCATCAAAGGCCAAATAAACT
AGGCTTAAAATTTCACTAGGAACCAGCTAAGCTAGGCT
Found at i:17813231 original size:34 final size:33
Alignment explanation
Indices: 17813148--17813304 Score: 122
Period size: 34 Copynumber: 4.7 Consensus size: 33
17813138 AATCTGGCGT
*
17813148 TAGGTAAACTGGGCTTAAAATTTTCTTTGGTGC
1 TAGGTAAACTGGGCTTAAAATTTTCATTGGTGC
* * *
17813181 TAGATAAACCGAGCTTAAAATCTTT-ATTGAGTG-
1 TAGGTAAACTGGGCTTAAAAT-TTTCATTG-GTGC
* * * *
17813214 TCGGGTAAACTGGGCTT-AAACTTTCACTAGTGC
1 T-AGGTAAACTGGGCTTAAAATTTTCATTGGTGC
* * * **
17813247 CATGTAAACTAGGCTTAAAATTTTCATCAAGTGC
1 TAGGTAAACTGGGCTTAAAATTTTCAT-TGGTGC
* *
17813281 TAGGTAAATTGGGCTTAAATTTTT
1 TAGGTAAACTGGGCTTAAAATTTT
17813305 ATAAAGAACT
Statistics
Matches: 94, Mismatches: 23, Indels: 13
0.72 0.18 0.10
Matches are distributed among these distances:
32 18 0.19
33 35 0.37
34 41 0.44
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (33 bp):
TAGGTAAACTGGGCTTAAAATTTTCATTGGTGC
Found at i:17813472 original size:22 final size:22
Alignment explanation
Indices: 17813460--17813528 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
17813450 TAATTTTGGT
17813460 TTATATGCCAACTAATCTAGGC
1 TTATATGCCAACTAATCTAGGC
* * *
17813482 TTATATGCCAGCTAAACTGGGC
1 TTATATGCCAACTAATCTAGGC
* * *
17813504 TTATGTACCAGCTAATCTAGGC
1 TTATATGCCAACTAATCTAGGC
17813526 TTA
1 TTA
17813529 AGACTTCATT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (22 bp):
TTATATGCCAACTAATCTAGGC
Found at i:17813613 original size:31 final size:31
Alignment explanation
Indices: 17813575--17813643 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
17813565 CTAGTTACAT
* *
17813575 TAGGCTTAAATTTCATCGATGCT-AGATAATC
1 TAGGCTTAAATTTCATCGATACTAAG-TAAAC
* *
17813606 TAGGCTTAACTTTCATTGATACTAAGTAAAC
1 TAGGCTTAAATTTCATCGATACTAAGTAAAC
17813637 TAGGCTT
1 TAGGCTT
17813644 GCATGCTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 31 0.94
32 2 0.06
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (31 bp):
TAGGCTTAAATTTCATCGATACTAAGTAAAC
Found at i:17819050 original size:30 final size:30
Alignment explanation
Indices: 17819013--17819079 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
17819003 GCATAAAATA
17819013 GGATGCATGTACTACCCATTGAAATGGATG
1 GGATGCATGTACTACCCATTGAAATGGATG
* * **
17819043 TGATGCATGTACTATCCATTGATGTGGATG
1 GGATGCATGTACTACCCATTGAAATGGATG
17819073 GGATGCA
1 GGATGCA
17819080 ATTTATATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (30 bp):
GGATGCATGTACTACCCATTGAAATGGATG
Found at i:17823112 original size:28 final size:27
Alignment explanation
Indices: 17823055--17823115 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
17823045 ATTTCTTCTT
* * * * *
17823055 TTTCTTCTCTTTTTTTTTAATAGTTTC
1 TTTCTTATCCTTTTTTTTAACAGCTCC
17823082 TTTCTTATCCTTTTTTTTAACATGCTCC
1 TTTCTTATCCTTTTTTTTAACA-GCTCC
17823110 TTTCTT
1 TTTCTT
17823116 CTCTTCCCCC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 19 0.68
28 9 0.32
ACGTcount: A:0.11, C:0.20, G:0.03, T:0.66
Consensus pattern (27 bp):
TTTCTTATCCTTTTTTTTAACAGCTCC
Found at i:17823760 original size:144 final size:143
Alignment explanation
Indices: 17823446--17823807 Score: 426
Period size: 144 Copynumber: 2.5 Consensus size: 143
17823436 TTAAAACATA
* * * * * * *
17823446 AAAAATAATGAAATATTATTAAATTAAGATCTGAAAAGTTTCATGATAATCTGAGCTCTGGAAGG
1 AAAAATCATGAAATATTATGAAATTGAGATATGAAAAGTTTCATAAAAATCTAAGCTC-GGAAGG
* * **
17823511 CCAAATTACAAAAATACCTTTATAAGGTTATTTCAGTAATTTCACACTTTCAAGGGTGCTGCTAT
65 CCAAATTACAAAAATACCTTTATAAGATTATTTCAGTAATTTCACACTTT-AAGGGTACCACTAT
* *
17823576 GATTTCAAATGTATC
129 AATTTCAAATGTACC
* *
17823591 AAAAATCATGAAATATTATGAAATTGATATATGAAAAGTTTCATAAAAATCCAAGCTCAGGAAGG
1 AAAAATCATGAAATATTATGAAATTGAGATATGAAAAGTTTCATAAAAATCTAAGCTC-GGAAGG
* * *
17823656 CCAAATTACAAAAAATAACCTTTATAGAGA-TATTT-TGATAATTTCACA-TTT-TGGGTACCAT
65 CCAAATTAC-AAAAAT-ACCTTTATA-AGATTATTTCAG-TAATTTCACACTTTAAGGGTACCAC
*
17823717 TGTAATTTCAAATGTACC
126 TATAATTTCAAATGTACC
* *
17823735 AAAAATCATGAAATATTATGAAATTGAGATTTTAAAAGTTTCATAAAAATCTAAGCTCGGAAAGG
1 AAAAATCATGAAATATTATGAAATTGAGATATGAAAAGTTTCATAAAAATCTAAGCTCGG-AAGG
*
17823800 TCAAATTA
65 CCAAATTA
17823808 TGAAAATATC
Statistics
Matches: 187, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
143 2 0.01
144 85 0.45
145 64 0.34
146 10 0.05
147 24 0.13
148 2 0.01
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (143 bp):
AAAAATCATGAAATATTATGAAATTGAGATATGAAAAGTTTCATAAAAATCTAAGCTCGGAAGGC
CAAATTACAAAAATACCTTTATAAGATTATTTCAGTAATTTCACACTTTAAGGGTACCACTATAA
TTTCAAATGTACC
Found at i:17824647 original size:21 final size:21
Alignment explanation
Indices: 17824617--17824697 Score: 60
Period size: 19 Copynumber: 3.9 Consensus size: 21
17824607 TTTCCTTGAA
*
17824617 AAAATAATAATAA-TAAAATC
1 AAAATAATAAAAATTAAAATC
*
17824637 AAAATATATAAAAATTAAAAATT
1 AAAATA-ATAAAAATT-AAAATC
* **
17824660 AAAAAAATTCAAATTAAAA-C
1 AAAATAATAAAAATTAAAATC
* *
17824680 AAAA-AATCAAAATAAAAA
1 AAAATAATAAAAATTAAAA
17824698 AATTAAATCA
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
19 11 0.22
20 10 0.20
21 10 0.20
22 8 0.16
23 10 0.20
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAATAATAAAAATTAAAATC
Found at i:17824665 original size:16 final size:15
Alignment explanation
Indices: 17824631--17824678 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
17824621 TAATAATAAT
* *
17824631 AAAATCAAAATATATA
1 AAAATTAAAAT-TAAA
17824647 AAAATTAAAAATTAAA
1 AAAATT-AAAATTAAA
*
17824663 AAAATTCAAATTAAA
1 AAAATTAAAATTAAA
17824678 A
1 A
17824679 CAAAAAATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 9 0.32
16 14 0.50
17 5 0.18
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAATTAAAATTAAA
Found at i:17824689 original size:18 final size:19
Alignment explanation
Indices: 17824661--17824696 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
17824651 TTAAAAATTA
*
17824661 AAAAAATTCAAATTAAAAC
1 AAAAAATTCAAAATAAAAC
17824680 AAAAAA-TCAAAATAAAA
1 AAAAAATTCAAAATAAAA
17824697 AAATTAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (19 bp):
AAAAAATTCAAAATAAAAC
Found at i:17824732 original size:49 final size:50
Alignment explanation
Indices: 17824631--17824732 Score: 113
Period size: 51 Copynumber: 2.0 Consensus size: 50
17824621 TAATAATAAT
* *
17824631 AAAATCAAAATATATAAAAATTAAAAATTAAAAAAATTCAAATTAAAACAA
1 AAAATCAAAATATATAAAAATTAAAAATCAAAAAAATT-AAATCAAAACAA
*
17824682 AAAATCAAAATA-A-AAAAATTAAATCAATCAGAAAAA-T-AATCAAAATCAA
1 AAAATCAAAATATATAAAAATTAAA--AATCAAAAAAATTAAATCAAAA-CAA
17824731 AA
1 AA
17824733 TAAAAAAATC
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
48 7 0.16
49 15 0.33
50 2 0.04
51 21 0.47
ACGTcount: A:0.71, C:0.08, G:0.01, T:0.21
Consensus pattern (50 bp):
AAAATCAAAATATATAAAAATTAAAAATCAAAAAAATTAAATCAAAACAA
Found at i:17824751 original size:14 final size:14
Alignment explanation
Indices: 17824615--17824744 Score: 52
Period size: 14 Copynumber: 8.7 Consensus size: 14
17824605 ATTTTCCTTG
17824615 AAAAAAT-AATAATA
1 AAAAAATCAA-AATA
*
17824629 ATAAAATCAAAATA
1 AAAAAATCAAAATA
*
17824643 TATAAAAATTAAAAATTA
1 -A-AAAAA-TCAAAA-TA
*
17824661 AAAAAATTCAAATTAAAA
1 AAAAAA-TC-AA--AATA
17824679 CAAAAAATCAAAATA
1 -AAAAAATCAAAATA
*
17824694 AAAAAAT-TAAATCA
1 AAAAAATCAAAAT-A
** *
17824708 ATCAGA--AAAATA
1 AAAAAATCAAAATA
*
17824720 ATCAAAATCAAAATA
1 A-AAAAATCAAAATA
17824735 AAAAAATCAA
1 AAAAAATCAA
17824745 TAAAAAAGAA
Statistics
Matches: 88, Mismatches: 15, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
12 2 0.02
13 10 0.11
14 29 0.33
15 13 0.15
16 11 0.12
17 10 0.11
18 5 0.06
19 8 0.09
ACGTcount: A:0.72, C:0.07, G:0.01, T:0.21
Consensus pattern (14 bp):
AAAAAATCAAAATA
Found at i:17825856 original size:70 final size:71
Alignment explanation
Indices: 17825740--17825890 Score: 178
Period size: 70 Copynumber: 2.1 Consensus size: 71
17825730 AAAACTTTAT
* ** * *
17825740 TATTTGTTTTCTTAACCATCGACGTTGTCTCGGTCATCTTTA-TTTTTGACCTGCGATGTTGTCC
1 TATTTGTTTTCTCAACCATCGACGTTGTCTCAATCATCTTTATTTTTTGACCTACGATATTGTCC
*
17825804 CAGTGA
66 CAGTCA
* ** * *
17825810 TATTTGTTTTCTCAACCATTGGTGTTGTCTCAATCATCTTTGTTTTTTGACCTATGATATTGTCC
1 TATTTGTTTTCTCAACCATCGACGTTGTCTCAATCATCTTTATTTTTTGACCTACGATATTGTCC
*
17825875 TAGTCA
66 CAGTCA
*
17825881 TATTTATTTT
1 TATTTGTTTT
17825891 TTTTATCATT
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
70 35 0.52
71 32 0.48
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.49
Consensus pattern (71 bp):
TATTTGTTTTCTCAACCATCGACGTTGTCTCAATCATCTTTATTTTTTGACCTACGATATTGTCC
CAGTCA
Found at i:17826334 original size:106 final size:104
Alignment explanation
Indices: 17826203--17826444 Score: 292
Period size: 106 Copynumber: 2.3 Consensus size: 104
17826193 TTGTTCCAGC
* *
17826203 CATTTTTATTTTTTGACTTGTGGTGTTGTCCCCATCATATTTATTTTTTCAATC-GTTGGTGTTA
1 CATTTTTATTTTTTGACTTGCGGTGTTGTCCCAATCATATTT-TTTTTT-AA-CAGTTGGTGTTA
*
17826267 TCCTAG-TCATCTTTATTTTTTAACTT-TTAGTGTTATCTTGAT
63 TCC-AGATCATCTTTATTTTTTAACTTGTT-GTATTATCTTGAT
* * * *
17826309 CATTTTTAATTTTTAACTTGCGGTGTTATCCCAATCATATTTTTTTTTAACAGTTGGTGTTGTCC
1 CATTTTTATTTTTTGACTTGCGGTGTTGTCCCAATCATATTTTTTTTTAACAGTTGGTGTTATCC
* * * *
17826374 CGATCATCTTTATTTTTTGACTTGTTGTATTGTCTTGGT
66 AGATCATCTTTATTTTTTAACTTGTTGTATTATCTTGAT
*
17826413 CTTTTTTATTTTTTTTGACTTGCGGTGTTGTC
1 CATTTTTA--TTTTTTGACTTGCGGTGTTGTC
17826445 TTTGTCTTAT
Statistics
Matches: 116, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
103 2 0.02
104 50 0.43
105 8 0.07
106 56 0.48
ACGTcount: A:0.16, C:0.14, G:0.15, T:0.55
Consensus pattern (104 bp):
CATTTTTATTTTTTGACTTGCGGTGTTGTCCCAATCATATTTTTTTTTAACAGTTGGTGTTATCC
AGATCATCTTTATTTTTTAACTTGTTGTATTATCTTGAT
Found at i:17826379 original size:69 final size:69
Alignment explanation
Indices: 17826223--17826397 Score: 174
Period size: 69 Copynumber: 2.5 Consensus size: 69
17826213 TTTTGACTTG
* * * *
17826223 TGGTGTTGTCCCCATCATATTTATTTTTTCAATCGTT-GGTGTTATCCTAGTCATCTTTATTTTT
1 TGGTGTTGTCCCGATCATATTTATTTTTT-AA-C-TTGGGTGTTATCCCAATCATATTTATTTTT
**
17826287 TAACTTT
63 TAACAGT
* * ** * *
17826294 TAGTGTTATCTTGATCATTTTTAATTTTTAACTTGCGGTGTTATCCCAATCATATTT-TTTTTTA
1 TGGTGTTGTCCCGATCATATTTATTTTTTAACTTG-GGTGTTATCCCAATCATATTTATTTTTTA
17826358 ACAGT
65 ACAGT
* *
17826363 TGGTGTTGTCCCGATCATCTTTATTTTTTGACTTG
1 TGGTGTTGTCCCGATCATATTTATTTTTTAACTTG
17826398 TTGTATTGTC
Statistics
Matches: 83, Mismatches: 19, Indels: 6
0.77 0.18 0.06
Matches are distributed among these distances:
68 2 0.02
69 39 0.47
70 20 0.24
71 22 0.27
ACGTcount: A:0.18, C:0.15, G:0.14, T:0.53
Consensus pattern (69 bp):
TGGTGTTGTCCCGATCATATTTATTTTTTAACTTGGGTGTTATCCCAATCATATTTATTTTTTAA
CAGT
Found at i:17826407 original size:35 final size:36
Alignment explanation
Indices: 17826207--17826400 Score: 168
Period size: 35 Copynumber: 5.5 Consensus size: 36
17826197 TCCAGCCATT
* * *
17826207 TTTATTTTTTGACTTG-TGGTGTTGTCCCCATCATA
1 TTTATTTTTTAACTTGTTGGTGTTATCCCGATCATA
* * *
17826242 TTTATTTTTTCAA-TCGTTGGTGTTAT-CCTAGTCATC
1 TTTATTTTTT-AACTTGTTGGTGTTATCCCGA-TCATA
* ** *
17826278 TTTATTTTTTAACTT-TTAGTGTTATCTTGATCATT
1 TTTATTTTTTAACTTGTTGGTGTTATCCCGATCATA
* * *
17826313 TTTAATTTTTAACTTG-CGGTGTTATCCCAATCATA
1 TTTATTTTTTAACTTGTTGGTGTTATCCCGATCATA
* * *
17826348 TTT-TTTTTTAAC-AGTTGGTGTTGTCCCGATCATC
1 TTTATTTTTTAACTTGTTGGTGTTATCCCGATCATA
*
17826382 TTTATTTTTTGACTTGTTG
1 TTTATTTTTTAACTTGTTG
17826401 TATTGTCTTG
Statistics
Matches: 124, Mismatches: 26, Indels: 17
0.74 0.16 0.10
Matches are distributed among these distances:
33 1 0.01
34 26 0.21
35 68 0.55
36 29 0.23
ACGTcount: A:0.18, C:0.14, G:0.14, T:0.54
Consensus pattern (36 bp):
TTTATTTTTTAACTTGTTGGTGTTATCCCGATCATA
Found at i:17826464 original size:37 final size:37
Alignment explanation
Indices: 17826386--17826465 Score: 97
Period size: 37 Copynumber: 2.2 Consensus size: 37
17826376 ATCATCTTTA
** * *
17826386 TTTTTTGACTTGTTGTATTGTCTTGGTCTTTTTTATT
1 TTTTTTGACTTGCGGTATTGTCTTGGTCTTATTTATG
* * *
17826423 TTTTTTGACTTGCGGTGTTGTCTTTGTCTTATTTGTG
1 TTTTTTGACTTGCGGTATTGTCTTGGTCTTATTTATG
17826460 TTTTTT
1 TTTTTT
17826466 ATCTAAGGAG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.06, C:0.09, G:0.19, T:0.66
Consensus pattern (37 bp):
TTTTTTGACTTGCGGTATTGTCTTGGTCTTATTTATG
Found at i:17826735 original size:35 final size:35
Alignment explanation
Indices: 17826651--17827207 Score: 126
Period size: 35 Copynumber: 15.9 Consensus size: 35
17826641 CAACTACCAG
* * * **
17826651 TGTTGTCTTGATCATCTTTATATTTTTGACTTATG
1 TGTTGTCTTGGTCATCTTTATTTTTTTGACCTACA
**
17826686 TGTTGTCTCAGTCATCTTTATTTTTTTGACCTACA
1 TGTTGTCTTGGTCATCTTTATTTTTTTGACCTACA
* * * * * * *
17826721 TGTTGGCTTGGTCATTTTTAATTTTTTAATCTGCGG
1 TGTTGTCTTGGTCATCTTTATTTTTTTGACCTAC-A
* * * *
17826757 TGTTGTCCTGGTCATATTT-TTTCTTT-A--T--T
1 TGTTGTCTTGGTCATCTTTATTTTTTTGACCTACA
* * * **
17826786 TGTGGTATT-GTCCAGTCATT-TTTTTTT-A-CTATTGG
1 TGTTGTCTTGGT-CA-TCTTTATTTTTTTGACCTA--CA
* * **
17826821 TGTTGTCCTGGTCATCTTTATTTTTTTAACCTATGG
1 TGTTGTCTTGGTCATCTTTATTTTTTTGACCTA-CA
**** *
17826857 TGTTGTCCCAATCATCTTTA-TTTTTTGACTTACGA
1 TGTTGTCTTGGTCATCTTTATTTTTTTGACCTAC-A
* * * *
17826892 TGTTGTTTTAGTCATTTTTA-TTTTTTAACCTACAA
1 TGTTGTCTTGGTCATCTTTATTTTTTTGACCTAC-A
* **** * * *
17826927 TGTTATCCCAATCATATTTATTTTTCTGACTTACAA
1 TGTTGTCTTGGTCATCTTTATTTTTTTGACCTAC-A
* * * **
17826963 TGCTATCCTT-GTCATATTTATTTTTTTGA-CTATTGG
1 TGTTGT-CTTGGTCATCTTTATTTTTTTGACCTA--CA
* ** * * * * * ***
17826999 TGTTATCCCGATCATTTTTGTTTTCTTGACGATTGG
1 TGTTGTCTTGGTCATCTTTATTTTTTTGAC-CTACA
*
17827035 TGTTGT-TTAAGTCATCTTTATTTTTTTGACCTACA
1 TGTTGTCTT-GGTCATCTTTATTTTTTTGACCTACA
* * * *
17827070 GAGTTGT-TTCGATCATCTTTA-TTTTTTGACTTACGG
1 -TGTTGTCTT-GGTCATCTTTATTTTTTTGACCTAC-A
* * * * * ***
17827106 TGTTATCTTGATCATATTT-TTTTTTCTAAACATTGG
1 TGTTGTCTTGGTCATCTTTATTTTTT-T-GACCTACA
17827142 TGTTGTCTTGGTCATCTTTA-TTTTTTGACCTACAA
1 TGTTGTCTTGGTCATCTTTATTTTTTTGACCTAC-A
* *
17827177 TGTTGTCTTGGTCATATTTGTTTTTTTGACC
1 TGTTGTCTTGGTCATCTTTATTTTTTTGACC
17827208 ATTTGGTATT
Statistics
Matches: 383, Mismatches: 109, Indels: 59
0.70 0.20 0.11
Matches are distributed among these distances:
28 2 0.01
29 8 0.02
30 10 0.03
31 1 0.00
32 1 0.00
34 8 0.02
35 178 0.46
36 167 0.44
37 7 0.02
38 1 0.00
ACGTcount: A:0.17, C:0.15, G:0.15, T:0.54
Consensus pattern (35 bp):
TGTTGTCTTGGTCATCTTTATTTTTTTGACCTACA
Found at i:17826858 original size:36 final size:36
Alignment explanation
Indices: 17826650--17827363 Score: 232
Period size: 36 Copynumber: 20.2 Consensus size: 36
17826640 TCAACTACCA
* * * *
17826650 GTGTTGTCTTGATCATCTTTATATTTTTGACTTAT-
1 GTGTTGTCCTGGTCATCTTTATTTTTTTGACCTATG
* *
17826685 GTGTTGT-CTCAGTCATCTTTATTTTTTTGACCTA-C
1 GTGTTGTCCT-GGTCATCTTTATTTTTTTGACCTATG
* * * * * * * **
17826720 ATGTTGGCTTGGTCATTTTTAATTTTTTAATCTGCG
1 GTGTTGTCCTGGTCATCTTTATTTTTTTGACCTATG
* * ** *
17826756 GTGTTGTCCTGGTCATATTT-TTTCTTT-ATTTGTG
1 GTGTTGTCCTGGTCATCTTTATTTTTTTGACCTATG
* *
17826790 GTATTGTCC-AGTCA---TT-TTTTTTT-A-CTATTG
1 GTGTTGTCCTGGTCATCTTTATTTTTTTGACCTA-TG
*
17826820 GTGTTGTCCTGGTCATCTTTATTTTTTTAACCTATG
1 GTGTTGTCCTGGTCATCTTTATTTTTTTGACCTATG
*** * *
17826856 GTGTTGTCCCAATCATCTTTA-TTTTTTGACTTACG
1 GTGTTGTCCTGGTCATCTTTATTTTTTTGACCTATG
* ** * * * **
17826891 ATGTTGTTTTAGTCATTTTTA-TTTTTTAACCTACA
1 GTGTTGTCCTGGTCATCTTTATTTTTTTGACCTATG
* * *** * * * **
17826926 ATGTTATCCCAATCATATTTATTTTTCTGACTTACA
1 GTGTTGTCCTGGTCATCTTTATTTTTTTGACCTATG
* * * * *
17826962 ATGCTATCCTTGTCATATTTATTTTTTTGA-CTATTG
1 GTGTTGTCCTGGTCATCTTTATTTTTTTGACCTA-TG
* * * * * * *
17826998 GTGTTATCCCGATCATTTTTGTTTTCTTGA-CGATTG
1 GTGTTGTCCTGGTCATCTTTATTTTTTTGACCTA-TG
* * **
17827034 GTGTTGT-TTAAGTCATCTTTATTTTTTTGACCTACA
1 GTGTTGTCCT-GGTCATCTTTATTTTTTTGACCTATG
* * * * *
17827070 GAGTTGT-TTCGATCATCTTTA-TTTTTTGACTTACG
1 GTGTTGTCCT-GGTCATCTTTATTTTTTTGACCTATG
* * * * * *
17827105 GTGTTATCTTGATCATATTT-TTTTTTCTAAAC-ATTG
1 GTGTTGTCCTGGTCATCTTTATTTTTT-TGACCTA-TG
* **
17827141 GTGTTGTCTTGGTCATCTTTA-TTTTTTGACCTACA
1 GTGTTGTCCTGGTCATCTTTATTTTTTTGACCTATG
* * * * *
17827176 ATGTTGTCTTGGTCATATTTGTTTTTTTGACCATTTG
1 GTGTTGTCCTGGTCATCTTTATTTTTTTGACC-TATG
* * ** **
17827213 GTATTATCCTAATCATCTTTATTTTTTCAACCTATG
1 GTGTTGTCCTGGTCATCTTTATTTTTTTGACCTATG
* * * * * * **
17827249 TTATTATCCTTGTCATCTTTATTTTTTTAACTTGCG
1 GTGTTGTCCTGGTCATCTTTATTTTTTTGACCTATG
* * * * *
17827285 GTGTTGTCTTAGTCATATTTATTTTTTTAACTTATG
1 GTGTTGTCCTGGTCATCTTTATTTTTTTGACCTATG
* * * * *
17827321 GTGTTAT-CTCGATCATCTTTATTTTTTTAACTTGTG
1 GTGTTGTCCT-GGTCATCTTTATTTTTTTGACCTATG
17827357 GTGTTGT
1 GTGTTGT
17827364 TCCAAAAAAA
Statistics
Matches: 513, Mismatches: 141, Indels: 49
0.73 0.20 0.07
Matches are distributed among these distances:
29 1 0.00
30 19 0.04
31 4 0.01
33 4 0.01
34 16 0.03
35 170 0.33
36 271 0.53
37 28 0.05
ACGTcount: A:0.18, C:0.14, G:0.14, T:0.54
Consensus pattern (36 bp):
GTGTTGTCCTGGTCATCTTTATTTTTTTGACCTATG
Found at i:17826896 original size:71 final size:71
Alignment explanation
Indices: 17826821--17827368 Score: 293
Period size: 72 Copynumber: 7.7 Consensus size: 71
17826811 TTACTATTGG
*
17826821 TGTTGTCCTGGTCATCTTTATTTTTTTAACCTATGGTGTTGTCCCAATCATCTTTATTTTTTGAC
1 TGTTATCCTGGTCATCTTTATTTTTTTAACCTATGGTGTTGTCCCAATCATCTTTATTTTTTGAC
17826886 TTACGA
66 TTACGA
* ** * * *** * *
17826892 TGTTGTTTTAGTCATTTTTA-TTTTTTAACCTACAATGTTATCCCAATCATATTTATTTTTCTGA
1 TGTTATCCTGGTCATCTTTATTTTTTTAACCTATGGTGTTGTCCCAATCATCTTTATTTTT-TGA
*
17826956 CTTACAA
65 CTTACGA
* * * * * * * *
17826963 TGCTATCCTTGTCATATTTATTTTTTTGA-CTATTGGTGTTATCCCGATCATTTTTGTTTTCTTG
1 TGTTATCCTGGTCATCTTTATTTTTTTAACCTA-TGGTGTTGTCCCAATCATCTTTATTTT-TTG
*
17827027 ACGATT--GG
64 AC--TTACGA
* * * * ** * ** *
17827035 TGTTGT-TTAAGTCATCTTTATTTTTTTGACCTACAGAGTTGTTTCGATCATCTTTATTTTTTGA
1 TGTTATCCT-GGTCATCTTTATTTTTTTAACCTATGGTGTTGTCCCAATCATCTTTATTTTTTGA
*
17827099 CTTACGG
65 CTTACGA
* * * * ****
17827106 TGTTATCTTGATCATATTT-TTTTTTCTAAAC-ATTGGTGTTGTCTTGGTCATCTTTATTTTTTG
1 TGTTATCCTGGTCATCTTTATTTTTT-TAACCTA-TGGTGTTGTCCCAATCATCTTTATTTTTTG
* *
17827169 ACCTACAA
64 ACTTACGA
* * * * * * * * * *
17827177 TGTTGTCTTGGTCATATTTGTTTTTTTGACCATTTGGTATTATCCTAATCATCTTTATTTTTTCA
1 TGTTATCCTGGTCATCTTTATTTTTTTAACC-TATGGTGTTGTCCCAATCATCTTTATTTTTT-G
* * *
17827242 ACCTATGT
64 ACTTACGA
* * * ** ** * * *
17827250 TATTATCCTTGTCATCTTTATTTTTTTAACTTGCGGTGTTGTCTTAGTCATATTTATTTTTTTAA
1 TGTTATCCTGGTCATCTTTATTTTTTTAACCTATGGTGTTGTCCCAATCATCTTTA-TTTTTTGA
* *
17827315 CTTATGG
65 CTTACGA
* * * *
17827322 TGTTAT-CTCGATCATCTTTATTTTTTTAACTTGTGGTGTTGTTCCAA
1 TGTTATCCT-GGTCATCTTTATTTTTTTAACCTATGGTGTTGTCCCAA
17827369 AAAAATAAAA
Statistics
Matches: 366, Mismatches: 92, Indels: 37
0.74 0.19 0.07
Matches are distributed among these distances:
69 2 0.01
70 42 0.11
71 116 0.32
72 166 0.45
73 38 0.10
74 2 0.01
ACGTcount: A:0.19, C:0.15, G:0.13, T:0.53
Consensus pattern (71 bp):
TGTTATCCTGGTCATCTTTATTTTTTTAACCTATGGTGTTGTCCCAATCATCTTTATTTTTTGAC
TTACGA
Found at i:17827095 original size:107 final size:107
Alignment explanation
Indices: 17826974--17827206 Score: 280
Period size: 107 Copynumber: 2.2 Consensus size: 107
17826964 GCTATCCTTG
* **
17826974 TCATATTTATTTTTTTGAC-TATTGGTGTTATCCCGATCAT-TTTTGTTTTCTTGACGATTGGTG
1 TCATATTTATTTTTTTGACTTA-CGGTGTTATCCCGATCATATTTTGTTTTCTAAAC-ATTGGTG
17827037 TTGT-TTAAGTCATCTTTATTTTTTTGACCTACAGAGTTGTTTCGA
64 TTGTCTT-AGTCATCTTTA-TTTTTTGACCTACAGAGTTGTTTCGA
* ** *
17827082 TCATCTTTA-TTTTTTGACTTACGGTGTTATCTTGATCATATTTTTTTTTCTAAACATTGGTGTT
1 TCATATTTATTTTTTTGACTTACGGTGTTATCCCGATCATATTTTGTTTTCTAAACATTGGTGTT
* *
17827146 GTCTTGGTCATCTTTATTTTTTGACCTACA-ATGTTGTCTT-GG
66 GTCTTAGTCATCTTTATTTTTTGACCTACAGA-GTTGT-TTCGA
*
17827188 TCATATTTGTTTTTTTGAC
1 TCATATTTATTTTTTTGAC
17827207 CATTTGGTAT
Statistics
Matches: 108, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
105 1 0.01
106 27 0.25
107 56 0.52
108 24 0.22
ACGTcount: A:0.17, C:0.13, G:0.15, T:0.54
Consensus pattern (107 bp):
TCATATTTATTTTTTTGACTTACGGTGTTATCCCGATCATATTTTGTTTTCTAAACATTGGTGTT
GTCTTAGTCATCTTTATTTTTTGACCTACAGAGTTGTTTCGA
Found at i:17827264 original size:108 final size:108
Alignment explanation
Indices: 17827045--17827347 Score: 264
Period size: 108 Copynumber: 2.8 Consensus size: 108
17827035 TGTTGTTTAA
* * * * *
17827045 GTCATCTTTATTTTTTTGACCTACAGA-GTTGT-TTCGATCATCTTTA-TTTTTTGACTTACGGT
1 GTCATCTTTATTTTTTTAACCTACA-ATGTTGTCTTAG-TCATATTTATTTTTTTAACTTATGGT
* ** * * * * *
17827107 GTTATCTTGATCATATTT-TTTTTTCTAAAC-ATTGGTGTTGT-CTT
64 ATTATCTCAATCATCTTTATTTTTTC-AACCTA-TGTTATTATCCTT
* * * *
17827151 GGTCATCTTTA-TTTTTTGACCTACAATGTTGTCTTGGTCATATTTGTTTTTTTGACCATT-TGG
1 -GTCATCTTTATTTTTTTAACCTACAATGTTGTCTTAGTCATATTTATTTTTTT-AAC-TTATGG
17827214 TATTATC-CTAATCATCTTTATTTTTTCAACCTATGTTATTATCCTT
63 TATTATCTC-AATCATCTTTATTTTTTCAACCTATGTTATTATCCTT
* * ** *
17827260 GTCATCTTTATTTTTTTAACTTGCGGTGTTGTCTTAGTCATATTTATTTTTTTAACTTATGGTGT
1 GTCATCTTTATTTTTTTAACCTACAATGTTGTCTTAGTCATATTTATTTTTTTAACTTATGGTAT
*
17827325 TATCTCGATCATCTTTATTTTTT
66 TATCTCAATCATCTTTATTTTTT
17827348 TAACTTGTGG
Statistics
Matches: 160, Mismatches: 24, Indels: 23
0.77 0.12 0.11
Matches are distributed among these distances:
105 1 0.01
106 26 0.16
107 21 0.13
108 63 0.39
109 49 0.31
ACGTcount: A:0.18, C:0.15, G:0.13, T:0.55
Consensus pattern (108 bp):
GTCATCTTTATTTTTTTAACCTACAATGTTGTCTTAGTCATATTTATTTTTTTAACTTATGGTAT
TATCTCAATCATCTTTATTTTTTCAACCTATGTTATTATCCTT
Found at i:17827409 original size:19 final size:21
Alignment explanation
Indices: 17827389--17827468 Score: 67
Period size: 22 Copynumber: 3.7 Consensus size: 21
17827379 ATAAAAATAA
*
17827389 AAACAAAACAAAATA-AGAAA
1 AAACAAAACAAAAAACAGAAA
*
17827409 AAAAAAAACAAAAAACAGACAA
1 AAACAAAACAAAAAACAGA-AA
17827431 ACAA-ACAAAC-AAAAACAGCAAA
1 A-AACA-AAACAAAAAACAG-AAA
*
17827453 AAACAAAGAAAAAAAA
1 AAACAAA-ACAAAAAA
17827469 GGAAGAAGGG
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
20 13 0.27
21 7 0.14
22 17 0.35
23 12 0.24
ACGTcount: A:0.80, C:0.14, G:0.05, T:0.01
Consensus pattern (21 bp):
AAACAAAACAAAAAACAGAAA
Found at i:17827423 original size:12 final size:12
Alignment explanation
Indices: 17827368--17827468 Score: 67
Period size: 12 Copynumber: 7.7 Consensus size: 12
17827358 TGTTGTTCCA
*
17827368 AAAAAATAAAAAT
1 AAAAAA-AAAAAC
*
17827381 AAAAATAAAAAC
1 AAAAAAAAAAAC
* *
17827393 AAAACAAAATAAG
1 AAAA-AAAAAAAC
17827406 AAAAAAAAAAAC
1 AAAAAAAAAAAC
17827418 AAAAAACAGACAAAC
1 AAAAAA-A-A-AAAC
17827433 AAACAAACAAAAAC
1 AAA-AAA-AAAAAC
* *
17827447 AGCAAAAAACAAAG
1 A--AAAAAAAAAAC
17827461 AAAAAAAA
1 AAAAAAAA
17827469 GGAAGAAGGG
Statistics
Matches: 71, Mismatches: 10, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
12 27 0.38
13 15 0.21
14 11 0.15
15 11 0.15
16 7 0.10
ACGTcount: A:0.81, C:0.11, G:0.04, T:0.04
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:17827458 original size:20 final size:20
Alignment explanation
Indices: 17827387--17827465 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
17827377 AAATAAAAAT
*
17827387 AAAAACAAAACAAAATA-AGAA
1 AAAAAC-AAACAAAA-ACAGCA
*
17827408 AAAAAAAAACAAAAAACAGACA
1 AAAAACAAAC-AAAAACAG-CA
17827430 AACAAACAAACAAAAACAGCA
1 AA-AAACAAACAAAAACAGCA
*
17827451 AAAAACAAAGAAAAA
1 AAAAACAAACAAAAA
17827466 AAAGGAAGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
20 17 0.34
21 15 0.30
22 11 0.22
23 7 0.14
ACGTcount: A:0.80, C:0.14, G:0.05, T:0.01
Consensus pattern (20 bp):
AAAAACAAACAAAAACAGCA
Found at i:17827481 original size:9 final size:9
Alignment explanation
Indices: 17827469--17827496 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
17827459 AGAAAAAAAA
17827469 GGAAGAAGG
1 GGAAGAAGG
17827478 GGAAGAAGG
1 GGAAGAAGG
17827487 GGAAGAAGG
1 GGAAGAAGG
17827496 G
1 G
17827497 TTCTCTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (9 bp):
GGAAGAAGG
Found at i:17828276 original size:145 final size:145
Alignment explanation
Indices: 17828006--17828278 Score: 336
Period size: 145 Copynumber: 1.9 Consensus size: 145
17827996 AGATTTTTCA
* * * *
17828006 AGCTCAGATTTTCATGAAATTGTTCATGTCTCAATTTCATAATATTTCATGATTTTTTATGCATT
1 AGCTCAGAATTTCATAAAATTGTTCATATCTCAATTTCATAATATTTCATGATTTTTGATGCATT
* * *
17828071 TGAAATCACAACAATACCCCAAGAGGTGTAAAATTATCAAAATACCCCTTTAGGGCTATTTTCGT
66 TGAAATCACAACAATACCCCAAGAGATGTAAAATTATCAAAATACCCCTTGAGCGCTATTTTCGT
17828136 AATTTGGCCTTATTG
131 AATTTGGCCTTATTG
* * *
17828151 AGCTCAGAATTTCATAAAACTT-TTCATATCTTAATTTCATAATATTTCATGATTTTTGGTGTAT
1 AGCTCAGAATTTCATAAAA-TTGTTCATATCTCAATTTCATAATATTTCATGATTTTTGATGCAT
* * ** * * * *
17828215 TTGAAATCAC-ACTAGTATCTTAAGAGATGTGAAATTATCGAAATATCCC-TGAGCTCATATTTT
65 TTGAAATCACAAC-AATACCCCAAGAGATGTAAAATTATCAAAATACCCCTTGAGCGC-TATTTT
17828278 C
128 C
17828279 ATAAAATTTT
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
144 6 0.06
145 99 0.93
146 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (145 bp):
AGCTCAGAATTTCATAAAATTGTTCATATCTCAATTTCATAATATTTCATGATTTTTGATGCATT
TGAAATCACAACAATACCCCAAGAGATGTAAAATTATCAAAATACCCCTTGAGCGCTATTTTCGT
AATTTGGCCTTATTG
Found at i:17831692 original size:16 final size:17
Alignment explanation
Indices: 17831667--17831718 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 17
17831657 AATTATTTAC
17831667 ATTTTAAACA-AAAATA
1 ATTTTAAACATAAAATA
* *
17831683 ATTTTGAACATAAAATT
1 ATTTTAAACATAAAATA
* *
17831700 ATTTATAAAAATAATATA
1 ATTT-TAAACATAAAATA
17831718 A
1 A
17831719 AATTATTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
16 9 0.32
17 9 0.32
18 10 0.36
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (17 bp):
ATTTTAAACATAAAATA
Found at i:17837721 original size:61 final size:60
Alignment explanation
Indices: 17837619--17837937 Score: 237
Period size: 62 Copynumber: 5.2 Consensus size: 60
17837609 GCTTTAGATG
* * * *
17837619 CCTTGAATAATC-CCTAACAAAAATTAGAAGGAATTATTCAAGGTGTTTTTGGCTAAAAACA
1 CCTTGAATAATCTCC-AAAAAAAATGA-AAGGGATTATTCAAGGTGTTTTTGGCCAAAAACA
* * * *
17837680 CCTTGAATAATCTCCAATAAAAAATGAAAGGGATTAATCAAGGCGTTTTAGGCCAAAAATA
1 CCTTGAATAATCTCCAA-AAAAAATGAAAGGGATTATTCAAGGTGTTTTTGGCCAAAAACA
* * ** ***** * * *
17837741 CCTTAAATAACCCTCTTTAATTTTTTGTAAGGGATTATTCAAGGTGTTTTTAGCCAAAAAAA
1 CCTTGAATAA-TCTC-CAAAAAAAATGAAAGGGATTATTCAAGGTGTTTTTGGCCAAAAACA
* * * ** *
17837803 GCCTTGAATAATC-CAAAAAAAAATGGCAAGAGATTATTCAAGGCATTTTTGGCCAAAAACG
1 -CCTTGAATAATCTCCAAAAAAAAT-GAAAGGGATTATTCAAGGTGTTTTTGGCCAAAAACA
* * * ** * *
17837864 CCTAGAATAATCCCTTCAAAAAAATTGAAAATGATTATTCAAAGTGTTTTTAGCCAAAAACA
1 CCTTGAATAAT--CTCCAAAAAAAATGAAAGGGATTATTCAAGGTGTTTTTGGCCAAAAACA
*
17837926 CCTTCAATAATC
1 CCTTGAATAATC
17837938 CCCTTCAATT
Statistics
Matches: 196, Mismatches: 53, Indels: 19
0.73 0.20 0.07
Matches are distributed among these distances:
60 14 0.07
61 81 0.41
62 83 0.42
63 18 0.09
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (60 bp):
CCTTGAATAATCTCCAAAAAAAATGAAAGGGATTATTCAAGGTGTTTTTGGCCAAAAACA
Found at i:17837900 original size:123 final size:120
Alignment explanation
Indices: 17837618--17837938 Score: 324
Period size: 123 Copynumber: 2.6 Consensus size: 120
17837608 TGCTTTAGAT
* * * *
17837618 GCCTTGAATAATCCC-TAACAAAAATT-AGAAGGAATTATTCAAGGTGTTTTTGGCTAAAAACAC
1 GCCTAGAATAATCCCTTAA-AAAAATTGAAAAGG-ATTATTCAAGGTGTTTTTAGCCAAAAACAC
* * * *
17837681 CTTGAATAATCTCCAATAAAAAATGAAAGGGATTAATCAAGGCGTTTTAGGCCAAAAAT
64 CTTGAATAA--TCCAAAAAAAAATGAAAGAGATTAATCAAGGCATTTTAGGCCAAAAAC
* * * **** * * *
17837740 ACCTTA-AATAACCCTCTTTAATTTTTTGTAAGGGATTATTCAAGGTGTTTTTAGCCAAAAAAAG
1 GCC-TAGAATAATCC-CTTAAAAAAATTGAAAAGGATTATTCAAGGTGTTTTTAGCCAAAAACA-
* * *
17837804 CCTTGAATAATCCAAAAAAAAATGGCAAGAGATTATTCAAGGCATTTTTGGCCAAAAAC
63 CCTTGAATAATCCAAAAAAAAAT-GAAAGAGATTAATCAAGGCATTTTAGGCCAAAAAC
* *
17837863 GCCTAGAATAATCCCTTCAAAAAAATTGAAAATGATTATTCAAAGTGTTTTTAGCCAAAAACACC
1 GCCTAGAATAATCCCTT-AAAAAAATTGAAAAGGATTATTCAAGGTGTTTTTAGCCAAAAACACC
*
17837928 TTCAATAATCC
65 TTGAATAATCC
17837939 CCTTCAATTT
Statistics
Matches: 157, Mismatches: 34, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
122 38 0.24
123 104 0.66
124 15 0.10
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (120 bp):
GCCTAGAATAATCCCTTAAAAAAATTGAAAAGGATTATTCAAGGTGTTTTTAGCCAAAAACACCT
TGAATAATCCAAAAAAAAATGAAAGAGATTAATCAAGGCATTTTAGGCCAAAAAC
Found at i:17837962 original size:185 final size:184
Alignment explanation
Indices: 17837651--17837987 Score: 410
Period size: 185 Copynumber: 1.8 Consensus size: 184
17837641 ATTAGAAGGA
** * * *
17837651 ATTATTCAAGGTGTTTTTGGCTAAAAACACCTTGAATAATCTCCAATAAAAAATGAAAGGGATTA
1 ATTATTCAAGGCATTTTTGGCCAAAAACACCTAGAATAATCTCCAATAAAAAATGAAAAGGATTA
* * * *
17837716 ATCAAGGCGTTTTAGGCCAAAAATACCTTAAATAACCCTCTTTAATTTTTTGTAAGGGATTATTC
66 ATCAAAGCGTTTTAGGCCAAAAACACCTTAAATAACCCTCTTCAATTTTTTATAAGGGATTATTC
**
17837781 AAGGTGTTTTTAGCCAAAAAAAGCCTTGAATAATCCAAAAAAAAATGGCAAGAG
131 AAGGCATTTTTAGCCAAAAAAAGCCTTGAATAATCCAAAAAAAAATGGCAAGAG
* * * *
17837835 ATTATTCAAGGCATTTTTGGCCAAAAACGCCTAGAATAATCCCTTCAA-AAAAATTGAAAATGAT
1 ATTATTCAAGGCATTTTTGGCCAAAAACACCTAGAATAAT--CTCCAATAAAAAATGAAAAGGAT
* * * **
17837899 TATTCAAAGTGTTTTTA-GCCAAAAACACCTTCAATAATCCC-CTTCAATTTTTTATTGGGGATT
64 TAATCAAAGCG-TTTTAGGCCAAAAACACCTTAAATAA-CCCTCTTCAATTTTTTATAAGGGATT
* * *
17837962 ATTGAAGGCATTTTTGGCCAGAAAAA
127 ATTCAAGGCATTTTTAGCCAAAAAAA
17837988 TCATGAATAA
Statistics
Matches: 126, Mismatches: 23, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
184 35 0.28
185 78 0.62
186 13 0.10
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (184 bp):
ATTATTCAAGGCATTTTTGGCCAAAAACACCTAGAATAATCTCCAATAAAAAATGAAAAGGATTA
ATCAAAGCGTTTTAGGCCAAAAACACCTTAAATAACCCTCTTCAATTTTTTATAAGGGATTATTC
AAGGCATTTTTAGCCAAAAAAAGCCTTGAATAATCCAAAAAAAAATGGCAAGAG
Found at i:17838142 original size:102 final size:101
Alignment explanation
Indices: 17838001--17838327 Score: 345
Period size: 102 Copynumber: 3.2 Consensus size: 101
17837991 TGAATAACAA
** * * ** *
17838001 ATTATTGAAGGTATTTTTTTT-TACCAAAAATGCCTTGAATAATGGGGTTATTCAAGGTATTTTT
1 ATTATTGAAGGTATTTTTTTTGT--CAAAAACACCTTGAATAAT-CGATTATTCAAGGCGTTTCT
* *
17838065 GGCCAAAAATACCTTCAATAATCCTAAAAATAACAAGGG
63 AGCCAAAAATACCTTCAATAATCCCAAAAATAACAAGGG
* * *
17838104 ATTATTGAAGGTATTTTTTTTGTTAAAAACACCTTGAATAACCCCATTATTCAAGGCGTTTCTAG
1 ATTATTGAAGGTATTTTTTTTGTCAAAAACACCTTGAATAA-TCGATTATTCAAGGCGTTTCTAG
* * * * *
17838169 CAAAAAATGCTTTCAATAATCCCCAATAAAAAATTAATGGAG
65 CCAAAAATACCTTCAATAAT-CCCAA-AAATAA-CAA-GG-G
* * * * *
17838211 ATTATTGAA--AATGTTTTTGGCCAAAAACACATTGAATAATCGATTATTCAAGGCGTTTCTAGC
1 ATTATTGAAGGTATTTTTTTTGTCAAAAACACCTTGAATAATCGATTATTCAAGGCGTTTCTAGC
*
17838274 CAAAAATACCTTCAATAATCCCAAAAATAACATGGG
66 CAAAAATACCTTCAATAATCCCAAAAATAACAAGGG
17838310 ATTATTGAAGGTATTTTT
1 ATTATTGAAGGTATTTTT
17838328 GGTTAGAAAC
Statistics
Matches: 182, Mismatches: 33, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
99 10 0.05
100 2 0.01
101 6 0.03
102 52 0.29
103 30 0.16
104 44 0.24
105 26 0.14
106 2 0.01
107 10 0.05
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (101 bp):
ATTATTGAAGGTATTTTTTTTGTCAAAAACACCTTGAATAATCGATTATTCAAGGCGTTTCTAGC
CAAAAATACCTTCAATAATCCCAAAAATAACAAGGG
Found at i:17838419 original size:42 final size:43
Alignment explanation
Indices: 17838372--17838453 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
17838362 GTTGAAGGGA
* *
17838372 ATTATTGAAGGTATTT-TAACCATAAACGCCTTGAATAATCCC
1 ATTATTGAAGGTATTTCTAACCAAAAACGCCTTCAATAATCCC
* *
17838414 ATTATTGAAGGTGTTTCTAACCAAAAATGCCTTCAATAAT
1 ATTATTGAAGGTATTTCTAACCAAAAACGCCTTCAATAAT
17838454 TCGTTATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
42 15 0.43
43 20 0.57
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (43 bp):
ATTATTGAAGGTATTTCTAACCAAAAACGCCTTCAATAATCCC
Found at i:17838461 original size:42 final size:42
Alignment explanation
Indices: 17838372--17838496 Score: 126
Period size: 42 Copynumber: 3.0 Consensus size: 42
17838362 GTTGAAGGGA
* * *
17838372 ATTATTGAAGGTATTTTAACCATAAACGCCTTGAATAATCCC
1 ATTATTGAAGGTATTTTAACCAAAAATGCCTTCAATAATCCC
* *
17838414 ATTATTGAAGGTGTTTCTAACCAAAAATGCCTTCAATAAT-TC
1 ATTATTGAAGGTATTT-TAACCAAAAATGCCTTCAATAATCCC
* * * ** *
17838456 GTTATTCAAAGTATTTTTGGCCAAAAATACCTTCAATAATC
1 ATTATTGAAGGTA-TTTTAACCAAAAATGCCTTCAATAATC
17838497 TCTAATAAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 45 0.66
43 23 0.34
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (42 bp):
ATTATTGAAGGTATTTTAACCAAAAATGCCTTCAATAATCCC
Found at i:17838587 original size:101 final size:101
Alignment explanation
Indices: 17838476--17838664 Score: 283
Period size: 101 Copynumber: 1.9 Consensus size: 101
17838466 GTATTTTTGG
* *
17838476 CCAAAAATACCTTCAATAAT-CTCTAATAAAAAATTGAAAGGGATTA-TTAAAGGTATTTTTAGC
1 CCAAAAATACCTTCAATAATCCT-TAATAAAAAATTGAAAAGGATTACTGAAA-GTATTTTTAGC
*
17838539 CAGAAACACCTTGAATAACCGATTAAAAGTGTTTCTAC
64 CAGAAACACCCTGAATAACCGATTAAAAGTGTTTCTAC
* *
17838577 CCAAAAATACCTTCAATAATCCTTAATAAAAAATTGAAAAGGATTACTGAAAGTATTTTTGGCTA
1 CCAAAAATACCTTCAATAATCCTTAATAAAAAATTGAAAAGGATTACTGAAAGTATTTTTAGCCA
**
17838642 GAAATGCCCTGAATAACCGATTA
66 GAAACACCCTGAATAACCGATTA
17838665 TTTAAGGCAT
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
101 73 0.92
102 6 0.08
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (101 bp):
CCAAAAATACCTTCAATAATCCTTAATAAAAAATTGAAAAGGATTACTGAAAGTATTTTTAGCCA
GAAACACCCTGAATAACCGATTAAAAGTGTTTCTAC
Found at i:17838665 original size:408 final size:407
Alignment explanation
Indices: 17838023--17838788 Score: 966
Period size: 408 Copynumber: 1.9 Consensus size: 407
17838013 ATTTTTTTTT
* * *
17838023 ACCAAAAATGCCTTGAATAATGGGGTTATTCAAGGTATTTTTGGCCAAAAATACCTTCAATAATC
1 ACCAAAAATGCCTTCAATAATGGCGTTATTCAAAGTATTTTTGGCCAAAAATACCTTCAATAATC
* * * * **
17838088 CTAAAAATAACAAGGGATTATTGAAGGTATTTTTTTTGTTAAAAACACCTTGAATAACCCCATTA
66 CTAAAAAAAAAAAGGGATTATTAAAGGTA-TTTTTTAGCCAAAAACACCTTGAATAACCCCATTA
* * * * ** *
17838153 TTCAAGGCGTTTCTAGCAAAAAATGCTTTCAATAATCCCCAATAAAAAATTAATGGAGATTATTG
130 -T-AAAGCGTTTCTACCAAAAAATACCTTCAATAATCCCCAATAAAAAATTAAAAGAGATTACTG
* * * * *
17838218 AAAATGTTTTTGGCCAAAAACACATTGAATAATCGATTATTCAAGGCGTTTCTAGCCAAAAATAC
193 AAAATATTTTTGGCCAAAAACACACTGAATAACCGATTATTCAAGGCATTTCTAGCCAAAAACAC
* * * ** *
17838283 CTTCAATAATCCCAAAAATAACATGGGATTATTGAAGGTATTTTTGGTTAGAAACGCCTTCAATA
258 CTTCAATAATCCCAAAAATAACAAGAGATTATTCAAGGTATTTTTGGCCAAAAACGCCTTCAATA
*
17838348 ATCCCCTCATAAAAGTTGAAGGGAATTATTGAAGGTATTTTAACCATAAACGCCTTGAATAATCC
323 ATCCCCTCATAAAAATTGAAGGGAATTATTGAAGGTATTTTAACCATAAACGCCTTGAATAATCC
17838413 CATTATTGAAGGTGTTTCTA
388 CATTATTGAAGGTGTTTCTA
*
17838433 ACCAAAAATGCCTTCAATAAT-TCGTTATTCAAAGTATTTTTGGCCAAAAATACCTTCAATAATC
1 ACCAAAAATGCCTTCAATAATGGCGTTATTCAAAGTATTTTTGGCCAAAAATACCTTCAATAATC
* *
17838497 TCTAATAAAAAATTGAAAGGGATTATTAAAGGTA-TTTTTAGCCAGAAACACCTTGAATAA-CCG
66 -CTAA-AAAAAA---AAAGGGATTATTAAAGGTATTTTTTAGCCAAAAACACCTTGAATAACCCC
* * **
17838560 ATTA-AAAGTGTTTCTACCCAAAAATACCTTCAATAATCCTTAATAAAAAATTGAAAAG-GATTA
126 ATTATAAAGCGTTTCTACCAAAAAATACCTTCAATAATCCCCAATAAAAAATT-AAAAGAGATTA
* * * ** * * * *
17838623 CTGAAAGTATTTTTGGCTAGAAATGCCCTGAATAACCGATTATTTAAGGCATTTCTGGCTAAAAA
190 CTGAAAATATTTTTGGCCAAAAACACACTGAATAACCGATTATTCAAGGCATTTCTAGCCAAAAA
* * *
17838688 CACCTTCAATAATCTCAAAAATAACAAGAGATTATTCAAGGTGTTTTTGGCCAAAAACGCCTTGA
255 CACCTTCAATAATCCCAAAAATAACAAGAGATTATTCAAGGTATTTTTGGCCAAAAACGCCTTCA
** *
17838753 ATAATCTGCTCATAAAAATTGAAGGGGATTATTGAA
320 ATAATCCCCTCATAAAAATTGAAGGGAATTATTGAA
17838789 AGCATTTTTT
Statistics
Matches: 300, Mismatches: 50, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
408 183 0.61
409 43 0.14
410 24 0.08
411 11 0.04
412 22 0.07
414 17 0.06
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (407 bp):
ACCAAAAATGCCTTCAATAATGGCGTTATTCAAAGTATTTTTGGCCAAAAATACCTTCAATAATC
CTAAAAAAAAAAAGGGATTATTAAAGGTATTTTTTAGCCAAAAACACCTTGAATAACCCCATTAT
AAAGCGTTTCTACCAAAAAATACCTTCAATAATCCCCAATAAAAAATTAAAAGAGATTACTGAAA
ATATTTTTGGCCAAAAACACACTGAATAACCGATTATTCAAGGCATTTCTAGCCAAAAACACCTT
CAATAATCCCAAAAATAACAAGAGATTATTCAAGGTATTTTTGGCCAAAAACGCCTTCAATAATC
CCCTCATAAAAATTGAAGGGAATTATTGAAGGTATTTTAACCATAAACGCCTTGAATAATCCCAT
TATTGAAGGTGTTTCTA
Found at i:17838893 original size:22 final size:22
Alignment explanation
Indices: 17838868--17838916 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
17838858 AATGATCCCG
*
17838868 ATAATGGGCAAAAATGCCTTGA
1 ATAATGGGCAAAAATACCTTGA
* *
17838890 ATAATGGGTAAAATTACCTTGA
1 ATAATGGGCAAAAATACCTTGA
17838912 ATAAT
1 ATAAT
17838917 ATTAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (22 bp):
ATAATGGGCAAAAATACCTTGA
Found at i:17841748 original size:21 final size:21
Alignment explanation
Indices: 17841702--17841748 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
17841692 CCTTGTATTC
* * *
17841702 TTCAAGTTTGTGATGTTGATA
1 TTCAAGTTGGTAATGTTGACA
*
17841723 CTCAAGTTGGTAATGTTGACA
1 TTCAAGTTGGTAATGTTGACA
17841744 TTCAA
1 TTCAA
17841749 AGTGATGAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (21 bp):
TTCAAGTTGGTAATGTTGACA
Found at i:17845213 original size:160 final size:159
Alignment explanation
Indices: 17844855--17845438 Score: 407
Period size: 161 Copynumber: 3.6 Consensus size: 159
17844845 AATTTTTTTG
* * * * * * * *
17844855 TTTTAATAGTTTAGATAGCTACAATACGTTATATTAAACTT-ACTTGAATGATTAAACTTGGTTT
1 TTTTAACAGTTTAGATAGTTTCAATACATAATATTAAACTTGTC-CGAATGATTGAACTTGGTTT
** * * * * ** * * *
17844919 CCACGGTTTATATGTGTG-AAAAGTTACCATTTATATCTTTTTAGGA-TATTATTGTGCCGTTAA
65 CCAC-AATT-GATGTGAGAAAAAGTTACCGTTTATGTCTTTTTAACACT-TTGTTATGCCATTAA
** * * **
17844982 AAGGCAAAAATATAAATATGCAGTTA-TATTTATG
127 AAGGCAAAAACGTCAAT-TGCATTTATTA-TTACA
* * * *
17845016 TTTTAAGAGTTTGGATAGCTT-AACTACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTT
1 TTTTAACAGTTTAGATAGTTTCAA-TACATAATATTAAACTTGTCCGAATGATTGAACTTGGTTT
** * * *
17845080 CCACAATTGATGTGAGAAAAAGTTATTGTTTATGT-TTGTTTAACACTTTTTTGTGCCGTTAAAA
65 CCACAATTGATGTGAGAAAAAGTTACCGTTTATGTCTT-TTTAACACTTTGTTATGCCATTAAAA
* *
17845144 GGCCAAAACG-CAAATT-CACTTTTATTATTCCA
129 GGCAAAAACGTC-AATTGCA--TTTATTATTACA
* * * *
17845176 TTTTAGCAGTTTAGATAGTTTCAATATATAATATTAAACTTG-CCCAGATAATTGAACTTGGTTT
1 TTTTAACAGTTTAGATAGTTTCAATACATAATATTAAACTTGTCCGA-ATGATTGAACTTGGTTT
* * **
17845240 CCACGATTGATATGTGCGAAAAAGTTACCGTTTATGTCTTTTTAGGACTTTGTTATGCCATTAAA
65 CCACAATTG--ATGTGAGAAAAAGTTACCGTTTATGTCTTTTTAACACTTTGTTATGCCATTAAA
* * * * *
17845305 AGGTAAAAATGTCATTTGCATTTATTTTTATA
128 AGGCAAAAACGTCAATTGCATTTATTATTACA
* * * * *
17845337 TTTTAACAGTTTAGATAGTTTGAATACATTATATTAAACATT-TTCGAATGATTTAACTTGCTTT
1 TTTTAACAGTTTAGATAGTTTCAATACATAATATTAAAC-TTGTCCGAATGATTGAACTTGGTTT
** * * * *
17845401 CCGTGAA-TGATGTGTGAAAAAGTTGCCATTTATATCTT
65 CC-ACAATTGATGTGAGAAAAAGTTACCGTTTATGTCTT
17845439 AGCACTTTTT
Statistics
Matches: 337, Mismatches: 67, Indels: 40
0.76 0.15 0.09
Matches are distributed among these distances:
158 2 0.01
159 37 0.11
160 111 0.33
161 122 0.36
162 60 0.18
163 5 0.01
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (159 bp):
TTTTAACAGTTTAGATAGTTTCAATACATAATATTAAACTTGTCCGAATGATTGAACTTGGTTTC
CACAATTGATGTGAGAAAAAGTTACCGTTTATGTCTTTTTAACACTTTGTTATGCCATTAAAAGG
CAAAAACGTCAATTGCATTTATTATTACA
Found at i:17845507 original size:157 final size:157
Alignment explanation
Indices: 17845023--17845511 Score: 375
Period size: 161 Copynumber: 3.1 Consensus size: 157
17845013 ATGTTTTAAG
* * * * * *
17845023 AGTTTGGATAGCTT-AACTACATGATATTAAACTTGTCC-GAATGATTGAACTTGGTTTCCAC-A
1 AGTTTAGATAGTTTCAA-TACATAATATTAAACTTGCCCAG-ATAATTGAACTTGCTTTCCACGA
* *** * * * *
17845085 ATTG-ATGTGAGAAAAAGTTATTGTTTATGTTTGTTTAACACTTTTTTGTGCCGTTAAAAGGCCA
64 A-TGAATGTGCGAAAAAGTTACCATTTA--TATCTTTAGCACTTTTTTATGCCGTTAAAAGGCCA
* ** *
17845149 AAACGCAAATTCACTTTTATTATTCCATTTTAGC
126 AAATGCAAATT-TGTTTTATTATTCTATTTTA-C
* * *
17845183 AGTTTAGATAGTTTCAATATATAATATTAAACTTGCCCAGATAATTGAACTTGGTTTCCACGATT
1 AGTTTAGATAGTTTCAATACATAATATTAAACTTGCCCAGATAATTGAACTTGCTTTCCACGAAT
* * * * * **
17845248 GATATGTGCGAAAAAGTTACCGTTTATGTCTTTTTAGGACTTTGTTATGCCATTAAAAGGTAAAA
66 GA-ATGTGCGAAAAAGTTACCATTTATATC--TTTAGCACTTTTTTATGCCGTTAAAAGGCCAAA
* * *
17845313 ATGTC--ATTTGCATTTATTTTTATATTTTAAC
128 ATG-CAAATTTG-TTTTATTATTCTATTTT-AC
* * ** * * * **
17845344 AGTTTAGATAGTTTGAATACATTATATTAAACATTTTCGA-ATGATTTAACTTGCTTTCCGTGAA
1 AGTTTAGATAGTTTCAATACATAATATTAAAC-TTGCCCAGATAATTGAACTTGCTTTCCACGAA
* * *
17845408 TG-ATGTGTGAAAAAGTTGCCATTTATATC-TTAGCACTTTTTTATGTCGTTAAAAGGCCAAAAT
65 TGAATGTGCGAAAAAGTTACCATTTATATCTTTAGCACTTTTTTATGCCGTTAAAAGGCCAAAAT
*
17845471 GCAAATTTGTGTTTATTATTCTATTTTGAT
130 GCAAATTTGT-TTTATTATTCTATTTT-AC
17845501 AGTTTAGATAG
1 AGTTTAGATAG
17845512 CTCCGAATGA
Statistics
Matches: 262, Mismatches: 53, Indels: 31
0.76 0.15 0.09
Matches are distributed among these distances:
155 1 0.00
156 29 0.11
157 31 0.12
159 23 0.09
160 54 0.21
161 70 0.27
162 53 0.20
163 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (157 bp):
AGTTTAGATAGTTTCAATACATAATATTAAACTTGCCCAGATAATTGAACTTGCTTTCCACGAAT
GAATGTGCGAAAAAGTTACCATTTATATCTTTAGCACTTTTTTATGCCGTTAAAAGGCCAAAATG
CAAATTTGTTTTATTATTCTATTTTAC
Found at i:17847037 original size:33 final size:33
Alignment explanation
Indices: 17846888--17847049 Score: 128
Period size: 33 Copynumber: 4.8 Consensus size: 33
17846878 TATAGAAATG
** * **
17846888 CTACTAAGTTTAGTGGCATTTACGTCTATAAATG
1 CTACTAA-TTTAGTGGCATTTGTGTCTACAAACA
* * * *
17846922 CTGCTAAATTAGTGGCAGCATTTGTTTTTACAAACA
1 CTACTAATTTAGT-G--GCATTTGTGTCTACAAACA
* * *
17846958 CCACTAATTTAGTAGCATTTGTGTCTACAAATA
1 CTACTAATTTAGTGGCATTTGTGTCTACAAACA
* *
17846991 C-ATCTAACTTAGTGGCATTTGTGTCTAGAAACA
1 CTA-CTAATTTAGTGGCATTTGTGTCTACAAACA
**
17847024 CTACTAATTTAGTGGTGTTTGTGTCT
1 CTACTAATTTAGTGGCATTTGTGTCT
17847050 TAAAATGCCA
Statistics
Matches: 100, Mismatches: 23, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
32 1 0.01
33 69 0.69
34 8 0.08
36 22 0.22
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.38
Consensus pattern (33 bp):
CTACTAATTTAGTGGCATTTGTGTCTACAAACA
Found at i:17847045 original size:66 final size:66
Alignment explanation
Indices: 17846939--17847102 Score: 161
Period size: 66 Copynumber: 2.5 Consensus size: 66
17846929 ATTAGTGGCA
* *
17846939 GCATTTGTTTTTACAAACACCACTAATTTAGTAGCATTTGTGTC-TACAAAT-ACATCTAACTTA
1 GCATTTGTGTCTACAAACACCACTAATTTAGTAGCATTTGTGTCTTA-AAATGACA-CTAACTTA
17847002 GTG
64 GTG
* * * ** * *
17847005 GCATTTGTGTCTAGAAACACTACTAATTTAGTGGTGTTTGTGTCTTAAAATGCCACTAAGTTAGT
1 GCATTTGTGTCTACAAACACCACTAATTTAGTAGCATTTGTGTCTTAAAATGACACTAACTTAGT
17847070 G
66 G
* * * ** *
17847071 GTATTTGTGACTTCAAATGCCGCTAATTTAGT
1 GCATTTGTGTCTACAAACACCACTAATTTAGT
17847103 GACATTTTTC
Statistics
Matches: 79, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
66 75 0.95
67 4 0.05
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (66 bp):
GCATTTGTGTCTACAAACACCACTAATTTAGTAGCATTTGTGTCTTAAAATGACACTAACTTAGT
G
Found at i:17847063 original size:33 final size:33
Alignment explanation
Indices: 17847026--17847103 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 33
17847016 TAGAAACACT
* *
17847026 ACTAATTTAGTGGTGTTTGTGTCTTAAAATGCC
1 ACTAATTTAGTGGTATTTGTGACTTAAAATGCC
* *
17847059 ACTAAGTTAGTGGTATTTGTGACTTCAAATGCC
1 ACTAATTTAGTGGTATTTGTGACTTAAAATGCC
*
17847092 GCTAATTTAGTG
1 ACTAATTTAGTG
17847104 ACATTTTTCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.40
Consensus pattern (33 bp):
ACTAATTTAGTGGTATTTGTGACTTAAAATGCC
Found at i:17851130 original size:19 final size:19
Alignment explanation
Indices: 17851108--17851161 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 19
17851098 TATTTGCTTC
17851108 TAGTTCATCAATTTATTGT
1 TAGTTCATCAATTTATTGT
17851127 TAGTTCATCAATTTATTGT
1 TAGTTCATCAATTTATTGT
*
17851146 TATTTGCATCATATTT
1 TAGTT-CATCA-ATTT
17851162 TGATATTGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 23 0.72
20 5 0.16
21 4 0.12
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.54
Consensus pattern (19 bp):
TAGTTCATCAATTTATTGT
Found at i:17853480 original size:191 final size:191
Alignment explanation
Indices: 17853155--17853525 Score: 600
Period size: 191 Copynumber: 1.9 Consensus size: 191
17853145 TTTAAATTAC
* * ** *
17853155 ATCTTATATAAATATATAAAAGCCAAAGCCTTTGACAAAAAATGAAATTGTCCTATGTGAATAGC
1 ATCTTATATAAATATATAAAAGCCAAAGCCTTTGACAAAAAAGGAAATTGTCCAACATGAATAAC
* * *
17853220 CTATATGATTGACATAAGGACAATTTTAAAAAATTGTCATGTATCTTTTAATAAATTAATTACAT
66 CTATATAATTGACATAAGAACAATTTTAAAAAATTGTCATGTATCTTCTAATAAATTAATTACAT
*
17853285 TTATGTTTTATTATTTATCTTAAATTACTCTCAATTAAATTCATATTAAAAGTAGTCTTAT
131 TTATGTTTTATTATTTACCTTAAATTACTCTCAATTAAATTCATATTAAAAGTAGTCTTAT
17853346 ATCTTATATAAATATATAAAAGCCAAA-CCTTTTGACAAAAAAGGAAATTGTCCAACATGAATAA
1 ATCTTATATAAATATATAAAAGCCAAAGCC-TTTGACAAAAAAGGAAATTGTCCAACATGAATAA
* * *
17853410 CCTATATAATTGACATATGAACAATTTTAAAAAATTGTCTTGTATCTTCTAATAAATTAATTATA
65 CCTATATAATTGACATAAGAACAATTTTAAAAAATTGTCATGTATCTTCTAATAAATTAATTACA
* *
17853475 TTTATGTTTTATTATTTACCTTAAGTTACTCTTAATTAAATTCATATTAAA
130 TTTATGTTTTATTATTTACCTTAAATTACTCTCAATTAAATTCATATTAAA
17853526 GGTTAAAAAA
Statistics
Matches: 165, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
190 2 0.01
191 163 0.99
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (191 bp):
ATCTTATATAAATATATAAAAGCCAAAGCCTTTGACAAAAAAGGAAATTGTCCAACATGAATAAC
CTATATAATTGACATAAGAACAATTTTAAAAAATTGTCATGTATCTTCTAATAAATTAATTACAT
TTATGTTTTATTATTTACCTTAAATTACTCTCAATTAAATTCATATTAAAAGTAGTCTTAT
Found at i:17854184 original size:41 final size:41
Alignment explanation
Indices: 17854127--17854208 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
17854117 GGTTCTTTTT
* *
17854127 TTTCTTTGTGAAGTTATATATATAGGTGGATTAGATGCACA
1 TTTCTTTGTGAAGTTATATATACAGGTGAATTAGATGCACA
* *
17854168 TTTCTTTGTGATGTTATATATGCAGGTGAATTAGATGCACA
1 TTTCTTTGTGAAGTTATATATACAGGTGAATTAGATGCACA
17854209 AAATTTAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (41 bp):
TTTCTTTGTGAAGTTATATATACAGGTGAATTAGATGCACA
Found at i:17854351 original size:29 final size:28
Alignment explanation
Indices: 17854318--17854383 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
17854308 GAAACTTTTC
* *
17854318 CAAATTTATGCTTCATTGTAATCATATAA
1 CAAA-TTATGCTTCAATGCAATCATATAA
* *
17854347 CAAATTATGTTTTAATGCAATCATATAA
1 CAAATTATGCTTCAATGCAATCATATAA
* *
17854375 TAAGTTATG
1 CAAATTATG
17854384 TTTTGAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
28 27 0.87
29 4 0.13
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (28 bp):
CAAATTATGCTTCAATGCAATCATATAA
Found at i:17854856 original size:234 final size:234
Alignment explanation
Indices: 17854431--17854898 Score: 900
Period size: 234 Copynumber: 2.0 Consensus size: 234
17854421 AAATAATCTG
*
17854431 TTTGGGTTCCAAAAAAATTAAGCAAAATTTCTTGAAAATTTAATGATTTGAATTTTTTCTAATGC
1 TTTGGGCTCCAAAAAAATTAAGCAAAATTTCTTGAAAATTTAATGATTTGAATTTTTTCTAATGC
17854496 TTTGGCTATTACTATTAGTTTTATTGTAGTTTAAATTATAAATATATTTGTACATATTATTTGAT
66 TTTGGCTATTACTATTAGTTTTATTGTAGTTTAAATTATAAATATATTTGTACATATTATTTGAT
* *
17854561 ACTTTTATGTAAGTTTTTGTTATGATATTGATTTGTATACCAATCCCCTTTAGTCTTCTCTTTTT
131 ACTTTTATGTAAGTTTTTGTTATGATATTGATTTGTATACCAATCCCCATTAGTATTCTCTTTTT
17854626 GGATCATGAAACAAGAGAGCAAGCTAAGTGGTAAGTTAA
196 GGATCATGAAACAAGAGAGCAAGCTAAGTGGTAAGTTAA
*
17854665 TTTGGGCTCTAAAAAAATTAAGCAAAATTTCTTGAAAATTTAATGATTTGAATTTTTTCTAATGC
1 TTTGGGCTCCAAAAAAATTAAGCAAAATTTCTTGAAAATTTAATGATTTGAATTTTTTCTAATGC
17854730 TTTGGCTATTACTATTAGTTTTATTGTAGTTTAAATTATAAATATATTTGTACATATTATTTGAT
66 TTTGGCTATTACTATTAGTTTTATTGTAGTTTAAATTATAAATATATTTGTACATATTATTTGAT
17854795 ACTTTTATGTAAGTTTTTGTTATGATATTGATTTGTATACCAATCCCCATTAGTATTCTCTTTTT
131 ACTTTTATGTAAGTTTTTGTTATGATATTGATTTGTATACCAATCCCCATTAGTATTCTCTTTTT
17854860 GGATCATGAAACAAGAGAGCAAGCTAAGTGGTAAGTTAA
196 GGATCATGAAACAAGAGAGCAAGCTAAGTGGTAAGTTAA
17854899 AAAAAAGTGA
Statistics
Matches: 230, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
234 230 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (234 bp):
TTTGGGCTCCAAAAAAATTAAGCAAAATTTCTTGAAAATTTAATGATTTGAATTTTTTCTAATGC
TTTGGCTATTACTATTAGTTTTATTGTAGTTTAAATTATAAATATATTTGTACATATTATTTGAT
ACTTTTATGTAAGTTTTTGTTATGATATTGATTTGTATACCAATCCCCATTAGTATTCTCTTTTT
GGATCATGAAACAAGAGAGCAAGCTAAGTGGTAAGTTAA
Found at i:17856755 original size:34 final size:34
Alignment explanation
Indices: 17856715--17856784 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
17856705 TTATTTAGGA
17856715 TACACTATGTTGATTAAATGATAAAATTAAAAAT
1 TACACTATGTTGATTAAATGATAAAATTAAAAAT
17856749 TACACTATGTTGATTAAATGATAAAATTAAAAAT
1 TACACTATGTTGATTAAATGATAAAATTAAAAAT
17856783 TA
1 TA
17856785 AAGTAAACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.36
Consensus pattern (34 bp):
TACACTATGTTGATTAAATGATAAAATTAAAAAT
Found at i:17858479 original size:24 final size:24
Alignment explanation
Indices: 17858423--17858490 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 24
17858413 TAAGTAAAAG
* * * *
17858423 TCAATTTAAATTAATTAGATTGAT
1 TCAATTTGAATGAATTTGATTGAA
* *
17858447 TAAAATTGAATGAATTTGATTGAA
1 TCAATTTGAATGAATTTGATTGAA
*
17858471 TCAATTTGAA-GTATTTGATT
1 TCAATTTGAATGAATTTGATT
17858491 TTGATTATAT
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 9 0.26
24 26 0.74
ACGTcount: A:0.40, C:0.03, G:0.13, T:0.44
Consensus pattern (24 bp):
TCAATTTGAATGAATTTGATTGAA
Found at i:17858605 original size:14 final size:14
Alignment explanation
Indices: 17858586--17858617 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
17858576 TTAATTTTTT
17858586 AATAAATTAAAATA
1 AATAAATTAAAATA
17858600 AATAAATTAAAATA
1 AATAAATTAAAATA
17858614 AATA
1 AATA
17858618 TTTTTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AATAAATTAAAATA
Found at i:17859397 original size:3 final size:3
Alignment explanation
Indices: 17859389--17859424 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
17859379 ATAACTTTTA
17859389 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17859425 AATAAACAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:17862263 original size:19 final size:19
Alignment explanation
Indices: 17862239--17862275 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
17862229 TTTTTATCTA
*
17862239 TTTGATTATAGTTTTGCTT
1 TTTGATTAAAGTTTTGCTT
17862258 TTTGATTAAAGTTTTGCT
1 TTTGATTAAAGTTTTGCT
17862276 GATCATGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.05, G:0.16, T:0.59
Consensus pattern (19 bp):
TTTGATTAAAGTTTTGCTT
Found at i:17867913 original size:13 final size:13
Alignment explanation
Indices: 17867881--17867925 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
17867871 TAATTTCATA
17867881 AAAAATATTAT-C
1 AAAAATATTATAC
*
17867893 AAAGATATTATAC
1 AAAAATATTATAC
* *
17867906 AAAAATATCATAG
1 AAAAATATTATAC
17867919 AAAAATA
1 AAAAATA
17867926 ACATAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
12 10 0.36
13 18 0.64
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (13 bp):
AAAAATATTATAC
Found at i:17867993 original size:24 final size:23
Alignment explanation
Indices: 17867939--17868041 Score: 88
Period size: 23 Copynumber: 4.4 Consensus size: 23
17867929 TAAAAATACC
*
17867939 ATATCATAAAAAAAATCATGC-AA
1 ATATCATAATAAAAAT-ATGCAAA
17867962 ATAT-ATAATAAAAATATGCAATA
1 ATATCATAATAAAAATATGCAA-A
*
17867985 ATATCATAAT-AAAATCATACAAA
1 ATATCATAATAAAAAT-ATGCAAA
**
17868008 A-ATACATCGTAAAAAATATGCTAAA
1 ATAT-CATAAT-AAAAATATGC-AAA
17868033 ATATCATAA
1 ATATCATAA
17868042 AAATGCAATA
Statistics
Matches: 64, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
21 4 0.06
22 13 0.20
23 20 0.31
24 13 0.20
25 12 0.19
26 2 0.03
ACGTcount: A:0.59, C:0.11, G:0.04, T:0.26
Consensus pattern (23 bp):
ATATCATAATAAAAATATGCAAA
Found at i:17868100 original size:67 final size:70
Alignment explanation
Indices: 17867947--17868101 Score: 175
Period size: 67 Copynumber: 2.3 Consensus size: 70
17867937 CCATATCATA
* *
17867947 AAAAAAATCATGCA-AATATATAATAAAAATATGCAATAATATCATAATAAAATCATACAAAAAT
1 AAAAAAATCATGCATAAAATATAATAAAAATATGCAATAATATCATAATAAAATCATAAAAAAAT
17868011 ACATC
66 ACATC
* *
17868016 GTAAAAAAT-ATGC-TAAAATATCAT-AAAA-ATGCAATAATATCATAA-AAAAT-ATATAATAA
1 -AAAAAAATCATGCATAAAATATAATAAAAATATGCAATAATATCATAATAAAATCATA-AA-AA
17868075 AATA-AT-
63 AATACATC
17868081 AAAAAAATCATAGCATAAAAT
1 AAAAAAATCAT-GCATAAAAT
17868102 TTATTTAAAT
Statistics
Matches: 74, Mismatches: 5, Indels: 15
0.79 0.05 0.16
Matches are distributed among these distances:
64 7 0.09
65 5 0.07
66 10 0.14
67 29 0.39
68 4 0.05
69 12 0.16
70 7 0.09
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.25
Consensus pattern (70 bp):
AAAAAAATCATGCATAAAATATAATAAAAATATGCAATAATATCATAATAAAATCATAAAAAAAT
ACATC
Found at i:17868233 original size:13 final size:13
Alignment explanation
Indices: 17868214--17868261 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
17868204 AACAAAAAAT
17868214 ATAAAAAATAGAA
1 ATAAAAAATAGAA
*
17868227 TTAAAAAAT-GAA
1 ATAAAAAATAGAA
*
17868239 ATAATAAAATAAAA
1 ATAA-AAAATAGAA
17868253 ACTAAAAAA
1 A-TAAAAAA
17868262 GAAAAAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 6 0.21
13 13 0.45
14 7 0.24
15 3 0.10
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (13 bp):
ATAAAAAATAGAA
Found at i:17870442 original size:28 final size:28
Alignment explanation
Indices: 17870401--17870466 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
17870391 GATATTTATT
* * *
17870401 GAAAGAAAT-ACATATGGTAAACAATAG
1 GAAAGTAATCACATAAGGTAAACAAAAG
17870428 GAAAGTAATCACATAAGGTAAACAAAAG
1 GAAAGTAATCACATAAGGTAAACAAAAG
17870456 GAAAGTAATCA
1 GAAAGTAATCA
17870467 ATCTCAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 8 0.23
28 27 0.77
ACGTcount: A:0.56, C:0.09, G:0.18, T:0.17
Consensus pattern (28 bp):
GAAAGTAATCACATAAGGTAAACAAAAG
Found at i:17872964 original size:19 final size:19
Alignment explanation
Indices: 17872923--17873066 Score: 134
Period size: 19 Copynumber: 7.7 Consensus size: 19
17872913 ATTTCTCAAG
17872923 AAACCCTAAACC-CCC-ATA
1 AAACCCTAAACCACCCTA-A
17872941 AAACCCTAAACCACCCTAA
1 AAACCCTAAACCACCCTAA
* *
17872960 AAACCCTAAGCCACCC-ATG
1 AAACCCTAAACCACCCTA-A
* **
17872979 AAACCCTAAACCACCATTT
1 AAACCCTAAACCACCCTAA
*
17872998 AAACCTTAAACCACCC-AA
1 AAACCCTAAACCACCCTAA
* * **
17873016 AAGCCCTAAACCACCATCT
1 AAACCCTAAACCACCCTAA
**
17873035 AAACCCTAAACCACCCTTT
1 AAACCCTAAACCACCCTAA
17873054 AAACCCTAAACCA
1 AAACCCTAAACCA
17873067 AAAAAACTTA
Statistics
Matches: 103, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
18 26 0.25
19 76 0.74
20 1 0.01
ACGTcount: A:0.43, C:0.41, G:0.02, T:0.14
Consensus pattern (19 bp):
AAACCCTAAACCACCCTAA
Found at i:17873023 original size:56 final size:57
Alignment explanation
Indices: 17872922--17873066 Score: 197
Period size: 56 Copynumber: 2.6 Consensus size: 57
17872912 CATTTCTCAA
* * *
17872922 GAAACCCTAAACCCCCA-TAAAACCCTAAACCACCCTAAAAACCCTAAGCCACCCAT-
1 GAAACCCTAAACCACCATTTAAACCCTAAACCACCCTAAAAACCCTAAACCA-CCATC
* *
17872978 GAAACCCTAAACCACCATTTAAACCTTAAACCACCC-AAAAGCCCTAAACCACCATC
1 GAAACCCTAAACCACCATTTAAACCCTAAACCACCCTAAAAACCCTAAACCACCATC
* *
17873034 TAAACCCTAAACCACCCTTTAAACCCTAAACCA
1 GAAACCCTAAACCACCATTTAAACCCTAAACCA
17873067 AAAAAACTTA
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
55 4 0.05
56 59 0.75
57 16 0.20
ACGTcount: A:0.43, C:0.41, G:0.03, T:0.14
Consensus pattern (57 bp):
GAAACCCTAAACCACCATTTAAACCCTAAACCACCCTAAAAACCCTAAACCACCATC
Found at i:17873031 original size:37 final size:37
Alignment explanation
Indices: 17872923--17873066 Score: 175
Period size: 38 Copynumber: 3.8 Consensus size: 37
17872913 ATTTCTCAAG
* *
17872923 AAACCCTAAACC-CCCATAAAACCCTAAACCACCCTAA
1 AAACCCTAAACCACCCAT-AAACCCTAAACCACCATAT
* *
17872960 AAACCCTAAGCCACCCATGAAACCCTAAACCACCATTT
1 AAACCCTAAACCACCCAT-AAACCCTAAACCACCATAT
* *
17872998 AAACCTTAAACCACCCA-AAAGCCCTAAACCACCATCT
1 AAACCCTAAACCACCCATAAA-CCCTAAACCACCATAT
*
17873035 AAACCCTAAACCACCCTTTAAACCCTAAACCA
1 AAACCCTAAACCACCC-ATAAACCCTAAACCA
17873067 AAAAAACTTA
Statistics
Matches: 93, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
36 3 0.03
37 41 0.44
38 46 0.49
39 3 0.03
ACGTcount: A:0.43, C:0.41, G:0.02, T:0.14
Consensus pattern (37 bp):
AAACCCTAAACCACCCATAAACCCTAAACCACCATAT
Found at i:17873049 original size:75 final size:75
Alignment explanation
Indices: 17872923--17873066 Score: 200
Period size: 75 Copynumber: 1.9 Consensus size: 75
17872913 ATTTCTCAAG
* *
17872923 AAACCCTAAACCCCCATAAAACCCTAAACCACCCTAAAAACCCTAAGCCACCCATGAAACCCTAA
1 AAACCCTAAACCCCCATAAAACCCTAAACCACCATAAAAACCCTAAACCACCCATGAAACCCTAA
17872988 ACCACCATTT
66 ACCACCATTT
* * ** * *
17872998 AAACCTTAAACCACCCA-AAAGCCCTAAACCACCATCTAAACCCTAAACCACCCTTTAAACCCTA
1 AAACCCTAAACC-CCCATAAAACCCTAAACCACCATAAAAACCCTAAACCACCCATGAAACCCTA
17873062 AACCA
65 AACCA
17873067 AAAAAACTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
75 56 0.93
76 4 0.07
ACGTcount: A:0.43, C:0.41, G:0.02, T:0.14
Consensus pattern (75 bp):
AAACCCTAAACCCCCATAAAACCCTAAACCACCATAAAAACCCTAAACCACCCATGAAACCCTAA
ACCACCATTT
Done.