Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 87 of 127
Found at i:16534719 original size:19 final size:17
Alignment explanation
Indices: 16534675--16534723 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 17
16534665 ATAAGTTGCG
16534675 AAAAAAAGAAGAAAAAAA
1 AAAAAAAGAA-AAAAAAA
*
16534693 AGTAAAAAGAAAAAAGAAA
1 A-AAAAAAGAAAAAA-AAA
16534712 AAAGAAAAGAAA
1 AAA-AAAAGAAA
16534724 TTGATTATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 6 0.23
19 20 0.77
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (17 bp):
AAAAAAAGAAAAAAAAA
Found at i:16535104 original size:13 final size:13
Alignment explanation
Indices: 16535094--16535120 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16535084 AAAAGAAAGC
16535094 AAAAAAGGAAAAA
1 AAAAAAGGAAAAA
16535107 AAAAAAGGAAAAA
1 AAAAAAGGAAAAA
16535120 A
1 A
16535121 GAGAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAGGAAAAA
Found at i:16535108 original size:11 final size:11
Alignment explanation
Indices: 16535083--16535146 Score: 67
Period size: 11 Copynumber: 5.6 Consensus size: 11
16535073 TCATGTAAGG
16535083 AAAAAGAAAGCAA
1 AAAAAGAAA--AA
*
16535096 AAAAGGAAAAA
1 AAAAAGAAAAA
*
16535107 AAAAA-AGGAAA
1 AAAAAGA-AAAA
*
16535118 AAAGAGAAAAA
1 AAAAAGAAAAA
16535129 AAAAAGAAAAA
1 AAAAAGAAAAA
16535140 AAAAAGA
1 AAAAAGA
16535147 TGAGAATGCA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
10 1 0.02
11 33 0.77
12 1 0.02
13 8 0.19
ACGTcount: A:0.83, C:0.02, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:16535113 original size:21 final size:21
Alignment explanation
Indices: 16535083--16535141 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
16535073 TCATGTAAGG
* *
16535083 AAAAAGAAAGCAAAAAAG-GAA
1 AAAAAAAAAGAAAAAAAGAG-A
*
16535104 AAAAAAAAAGGAAAAAAGAGA
1 AAAAAAAAAGAAAAAAAGAGA
16535125 AAAAAAAAAGAAAAAAA
1 AAAAAAAAAGAAAAAAA
16535142 AAAGATGAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 33 0.97
22 1 0.03
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAGAAAAAAAGAGA
Found at i:16535131 original size:13 final size:12
Alignment explanation
Indices: 16535083--16535144 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
16535073 TCATGTAAGG
*
16535083 AAAAAGAAAGCAA
1 AAAAAGAAA-AAA
*
16535096 AAAAGGAAAAAA
1 AAAAAGAAAAAA
*
16535108 AAAAAG--GAAA
1 AAAAAGAAAAAA
*
16535118 AAAGAG-AAAAA
1 AAAAAGAAAAAA
16535129 AAAAAGAAAAAA
1 AAAAAGAAAAAA
16535141 AAAA
1 AAAA
16535145 GATGAGAATG
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
10 8 0.20
11 8 0.20
12 16 0.40
13 8 0.20
ACGTcount: A:0.84, C:0.02, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:16535412 original size:11 final size:11
Alignment explanation
Indices: 16535396--16535420 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16535386 ATGGTGTCAT
16535396 AAAAAAAGGAA
1 AAAAAAAGGAA
16535407 AAAAAAAGGAA
1 AAAAAAAGGAA
16535418 AAA
1 AAA
16535421 TGAGAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAAAGGAA
Found at i:16536275 original size:9 final size:9
Alignment explanation
Indices: 16536256--16536303 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
16536246 TATGGTATTA
16536256 ATTTCATGC
1 ATTTCATGC
16536265 ATTGT-ATGC
1 ATT-TCATGC
*
16536274 ATTTCAAGC
1 ATTTCATGC
16536283 ATTAT-ATGC
1 ATT-TCATGC
16536292 ATTTCATGC
1 ATTTCATGC
16536301 ATT
1 ATT
16536304 ATGTGCATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
8 2 0.06
9 29 0.88
10 2 0.06
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (9 bp):
ATTTCATGC
Found at i:16536277 original size:18 final size:18
Alignment explanation
Indices: 16536256--16536311 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
16536246 TATGGTATTA
*
16536256 ATTTCATGCATTGTATGC
1 ATTTCATGCATTATATGC
*
16536274 ATTTCAAGCATTATATGC
1 ATTTCATGCATTATATGC
*
16536292 ATTTCATGCATTATGTGC
1 ATTTCATGCATTATATGC
16536310 AT
1 AT
16536312 CACATTCATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (18 bp):
ATTTCATGCATTATATGC
Found at i:16536645 original size:23 final size:23
Alignment explanation
Indices: 16536619--16536673 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
16536609 AAGACTTTCA
* **
16536619 AGCATGATCTTTTAAGCCCTTCG
1 AGCATGATCTTGTAAAACCTTCG
16536642 AGCATGAT-TTGTAAAACCTTCG
1 AGCATGATCTTGTAAAACCTTCG
*
16536664 GGCATGATCT
1 AGCATGATCT
16536674 ATAAGACCTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (23 bp):
AGCATGATCTTGTAAAACCTTCG
Found at i:16536668 original size:22 final size:22
Alignment explanation
Indices: 16536636--16536694 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
16536626 TCTTTTAAGC
* * *
16536636 CCTTCGAGCATGATTTGTAAAA
1 CCTTCGGGCATGATCTATAAAA
*
16536658 CCTTCGGGCATGATCTATAAGA
1 CCTTCGGGCATGATCTATAAAA
16536680 CC-TCTGGGCATGATC
1 CCTTC-GGGCATGATC
16536695 ATTAAAGCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (22 bp):
CCTTCGGGCATGATCTATAAAA
Found at i:16537140 original size:40 final size:37
Alignment explanation
Indices: 16537094--16537185 Score: 107
Period size: 35 Copynumber: 2.4 Consensus size: 37
16537084 GGGTGTCATC
* *
16537094 CTTAATTTTTAAAGTTATATGCCTTTGTGTTGAAGGAGCT
1 CTTAATTTTTAAAG-T-T-TGCCTTTGTGTAGAAGGAGCA
*
16537134 TTTAATTTTTAAAG--TGCCTTTGTGTAGAAGGAGCA
1 CTTAATTTTTAAAGTTTGCCTTTGTGTAGAAGGAGCA
16537169 CTTATATTTTTAAAGTT
1 CTTA-ATTTTTAAAGTT
16537186 GTGTGCTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
35 22 0.49
36 10 0.22
40 13 0.29
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.46
Consensus pattern (37 bp):
CTTAATTTTTAAAGTTTGCCTTTGTGTAGAAGGAGCA
Found at i:16537153 original size:35 final size:36
Alignment explanation
Indices: 16537113--16537184 Score: 110
Period size: 35 Copynumber: 2.0 Consensus size: 36
16537103 TAAAGTTATA
* **
16537113 TGCCTTTGTGTTGAAGGAGCTTTTA-ATTTTTAAAG
1 TGCCTTTGTGTAGAAGGAGCACTTATATTTTTAAAG
16537148 TGCCTTTGTGTAGAAGGAGCACTTATATTTTTAAAG
1 TGCCTTTGTGTAGAAGGAGCACTTATATTTTTAAAG
16537184 T
1 T
16537185 TGTGTGCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 22 0.67
36 11 0.33
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.43
Consensus pattern (36 bp):
TGCCTTTGTGTAGAAGGAGCACTTATATTTTTAAAG
Found at i:16537401 original size:4 final size:4
Alignment explanation
Indices: 16537380--16537464 Score: 57
Period size: 4 Copynumber: 20.0 Consensus size: 4
16537370 CAATTATTGA
* *
16537380 ATTT TTTT ATTT -TTT ATTT ATTT GATGT -TTT ACTTTT ATTT CATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT -ATTT ATTT A--TTT ATTT -ATTT
* *
16537426 ATTT GTGTAT ATAT ATTT ATCTT ATTT ATTT ATTT ATTT
1 ATTT AT-T-T ATTT ATTT AT-TT ATTT ATTT ATTT ATTT
16537465 TTCTTTACTT
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
3 5 0.08
4 41 0.64
5 12 0.19
6 6 0.09
ACGTcount: A:0.21, C:0.04, G:0.05, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:16537543 original size:17 final size:17
Alignment explanation
Indices: 16537521--16537560 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
16537511 ATTGGTTATC
*
16537521 TTTATTG-TTGATTATTT
1 TTTATTGATT-ATTATTA
16537538 TTTATTGATTATTATTA
1 TTTATTGATTATTATTA
16537555 TTTATT
1 TTTATT
16537561 TTATTTGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 19 0.90
18 2 0.10
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (17 bp):
TTTATTGATTATTATTA
Found at i:16537547 original size:14 final size:14
Alignment explanation
Indices: 16537507--16537550 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
16537497 TTATTGTTAA
*
16537507 TTTTATTGGTTATCT
1 TTTTATTGATTAT-T
*
16537522 TTATTGTTGATTATT
1 TT-TTATTGATTATT
16537537 TTTTATTGATTATT
1 TTTTATTGATTATT
16537551 ATTATTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 11 0.44
15 5 0.20
16 9 0.36
ACGTcount: A:0.18, C:0.02, G:0.11, T:0.68
Consensus pattern (14 bp):
TTTTATTGATTATT
Found at i:16538438 original size:17 final size:17
Alignment explanation
Indices: 16538416--16538449 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
16538406 TGGACGATTT
16538416 GACTCGCAGTGTGACTC
1 GACTCGCAGTGTGACTC
*
16538433 GACTCGTAGTGTGACTC
1 GACTCGCAGTGTGACTC
16538450 AATTTGGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.26, G:0.29, T:0.26
Consensus pattern (17 bp):
GACTCGCAGTGTGACTC
Found at i:16538645 original size:3 final size:3
Alignment explanation
Indices: 16538637--16538706 Score: 95
Period size: 3 Copynumber: 23.3 Consensus size: 3
16538627 AATATTTTTA
* * * *
16538637 AAT AAT AAT AAT GAT AAT AAC AAT AAT AAT AAT ACT ACT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
16538685 AAT AAT TAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
16538707 TTTTAGAACC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:16538790 original size:60 final size:59
Alignment explanation
Indices: 16538725--16538839 Score: 176
Period size: 60 Copynumber: 1.9 Consensus size: 59
16538715 CCTTACCAAT
* *
16538725 ATATTGGAAGGTTCAAATTCCTAAAAATTATTTTTTGAATAAAAAATAAATCTTACGAGC
1 ATATTGGAAGGTTCAAATTCATAAAAATGATTTTTTGAA-AAAAAATAAATCTTACGAGC
** *
16538785 ATATTGGAAGGTTCAAATTCATAAAAATGATTTTTTTTAAAAAAATGAATCTTAC
1 ATATTGGAAGGTTCAAATTCATAAAAATGATTTTTTGAAAAAAAATAAATCTTAC
16538840 CAACATAATG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
59 15 0.30
60 35 0.70
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (59 bp):
ATATTGGAAGGTTCAAATTCATAAAAATGATTTTTTGAAAAAAAATAAATCTTACGAGC
Found at i:16543086 original size:56 final size:55
Alignment explanation
Indices: 16542941--16543112 Score: 172
Period size: 56 Copynumber: 3.1 Consensus size: 55
16542931 ATTTCAAAAA
* * * * *
16542941 AAAAAAAGTTTTGATGAAAAGTTGAAGCATCAA--TTCATTGAATAAAAATATTTC
1 AAAAAATGTTTTGAGGAAAAGTTGAAGTATCAATTTTC-TTTAATAAAAATATTTT
* * * **
16542995 AAAAAAT-ATTT-ATGGAAAATTTAAAGTATTGATTTTCTTTAATTAAAAATATTTT
1 AAAAAATGTTTTGA-GGAAAAGTTGAAGTATCAATTTTCTTTAA-TAAAAATATTTT
* *
16543050 AAAAAATGTTTTGAGGAAAAGTTGAAGTATCAATTTTTCTTAAATAAAAATAATTT
1 AAAAAATGTTTTGAGGAAAAGTTGAAGTATCAA-TTTTCTTTAATAAAAATATTTT
16543106 AAAAAAT
1 AAAAAAT
16543113 AGAGGAAAAA
Statistics
Matches: 94, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
52 1 0.01
53 16 0.17
54 10 0.11
55 21 0.22
56 36 0.38
57 10 0.11
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.37
Consensus pattern (55 bp):
AAAAAATGTTTTGAGGAAAAGTTGAAGTATCAATTTTCTTTAATAAAAATATTTT
Found at i:16543198 original size:50 final size:50
Alignment explanation
Indices: 16543096--16543195 Score: 116
Period size: 50 Copynumber: 2.0 Consensus size: 50
16543086 TTCTTAAATA
*
16543096 AAAATAATTTAAAAAATAGAGGAAAAAATTGAAATATCAAATTTTCCTTT
1 AAAACAATTTAAAAAATAGAGGAAAAAATTGAAATATCAAATTTTCCTTT
* *
16543146 AAAACAATTTCAAGAAAAT-GA-GAAAAAAGTT-AAATTATTAATTTTTCCTT
1 AAAACAATTT-AA-AAAATAGAGGAAAAAA-TTGAAA-TATCAAATTTTCCTT
16543196 AAATAAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
50 19 0.44
51 19 0.44
52 5 0.12
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.33
Consensus pattern (50 bp):
AAAACAATTTAAAAAATAGAGGAAAAAATTGAAATATCAAATTTTCCTTT
Found at i:16543279 original size:55 final size:54
Alignment explanation
Indices: 16543027--16543306 Score: 202
Period size: 54 Copynumber: 5.2 Consensus size: 54
16543017 AAAGTATTGA
* * * *
16543027 TTTTCTTTAATTAAAAAT-ATTTTAAAAAATGTTTTGAGGAAAAGTTGAAGTATCAAT
1 TTTTCCTTAAATAAAAATAATTTTAAAAAATG----AAGGAAAAGTTGAATTATCAAT
* * *
16543084 TTTT-CTTAAATAAAAATAA-TTTAAAAAAT-AGAGGAAAAAATTGAAATATCAAA
1 TTTTCCTTAAATAAAAATAATTTTAAAAAATGA-AGG-AAAAGTTGAATTATCAAT
* * * * *
16543137 TTTTCCTT---T-AAAACAATTTCAAGAAAATG-AGAAAAAAGTTAAATTATTAAT
1 TTTTCCTTAAATAAAAATAATTTTAA-AAAATGAAG-GAAAAGTTGAATTATCAAT
**** * *
16543188 TTTTCCTTAAATAAAAATAATTTTAAGTTTTTAAGGAAAAGTTGAATTATTAAT
1 TTTTCCTTAAATAAAAATAATTTTAAAAAATGAAGGAAAAGTTGAATTATCAAT
** * *
16543242 TTTTTATTAAAATAAAAATAATTTTAAAAAATGAAGG-AAAGTTAAAATATCAAT
1 TTTTCCTT-AAATAAAAATAATTTTAAAAAATGAAGGAAAAGTTGAATTATCAAT
*
16543296 CTTTCCTTAAA
1 TTTTCCTTAAA
16543307 AGAAAATTTT
Statistics
Matches: 173, Mismatches: 36, Indels: 32
0.72 0.15 0.13
Matches are distributed among these distances:
50 6 0.03
51 28 0.16
52 8 0.05
53 22 0.13
54 47 0.27
55 36 0.21
56 21 0.12
57 5 0.03
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.38
Consensus pattern (54 bp):
TTTTCCTTAAATAAAAATAATTTTAAAAAATGAAGGAAAAGTTGAATTATCAAT
Found at i:16543283 original size:54 final size:54
Alignment explanation
Indices: 16542974--16543306 Score: 172
Period size: 55 Copynumber: 6.2 Consensus size: 54
16542964 GAAGCATCAA
* * * * *
16542974 TTCATTGAATAAAAAT-ATTTCAAAAAAT-ATTTATGGAAAATTTAAAGTATTGA-TT
1 TTCATTAAATAAAAATAATTTTAAAAAATGA---A-GGAAAAGTTAAATTATTAATTT
* * * * * *
16543029 TTCTTTAATTAAAAAT-ATTTTAAAAAATGTTTTGAGGAAAAGTTGAAGTATCAATTT
1 TTCATTAAATAAAAATAATTTTAAAAAATG----AAGGAAAAGTTAAATTATTAATTT
* * *
16543086 TTC-TTAAATAAAAATAA-TTTAAAAAAT-AGAGGAAAAAATTGAAA-TATCAAATT
1 TTCATTAAATAAAAATAATTTTAAAAAATGA-AGG-AAAAGTT-AAATTATTAATTT
* * * *
16543139 TTCCTT---T-AAAACAATTTCAAGAAAATG-AGAAAAAAGTTAAATTATTAATTT
1 TTCATTAAATAAAAATAATTTTAA-AAAATGAAG-GAAAAGTTAAATTATTAATTT
* **** * *
16543190 TTCCTTAAATAAAAATAATTTTAAGTTTTTAAGGAAAAGTTGAATTATTAATTT
1 TTCATTAAATAAAAATAATTTTAAAAAATGAAGGAAAAGTTAAATTATTAATTT
* * * *
16543244 TTTATTAAAATAAAAATAATTTTAAAAAATGAAGG-AAAGTTAAAATATCAATCT
1 TTCATT-AAATAAAAATAATTTTAAAAAATGAAGGAAAAGTTAAATTATTAATTT
*
16543298 TTCCTTAAA
1 TTCATTAAA
16543307 AGAAAATTTT
Statistics
Matches: 214, Mismatches: 42, Indels: 46
0.71 0.14 0.15
Matches are distributed among these distances:
50 9 0.04
51 26 0.12
52 8 0.04
53 20 0.09
54 48 0.22
55 60 0.28
56 36 0.17
57 7 0.03
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.38
Consensus pattern (54 bp):
TTCATTAAATAAAAATAATTTTAAAAAATGAAGGAAAAGTTAAATTATTAATTT
Found at i:16544219 original size:25 final size:26
Alignment explanation
Indices: 16544185--16544238 Score: 92
Period size: 25 Copynumber: 2.1 Consensus size: 26
16544175 CACCCAACCC
*
16544185 TGCATATAGTACACATTTAAAAGG-T
1 TGCATATAGTACACACTTAAAAGGCT
16544210 TGCATATAGTACACACTTAAAAGGCT
1 TGCATATAGTACACACTTAAAAGGCT
16544236 TGC
1 TGC
16544239 TTTAGGATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (26 bp):
TGCATATAGTACACACTTAAAAGGCT
Found at i:16548433 original size:8 final size:8
Alignment explanation
Indices: 16548415--16548464 Score: 84
Period size: 8 Copynumber: 6.2 Consensus size: 8
16548405 TTGAAAAAAT
16548415 AAAAT-AA
1 AAAATAAA
16548422 AAAATAAA
1 AAAATAAA
16548430 AAAATAAA
1 AAAATAAA
16548438 AAAATAAA
1 AAAATAAA
16548446 AAAATAAA
1 AAAATAAA
16548454 AAAATGAAA
1 AAAAT-AAA
16548463 AA
1 AA
16548465 TGATTTTGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
7 5 0.12
8 31 0.76
9 5 0.12
ACGTcount: A:0.86, C:0.00, G:0.02, T:0.12
Consensus pattern (8 bp):
AAAATAAA
Found at i:16548684 original size:25 final size:25
Alignment explanation
Indices: 16548595--16548710 Score: 103
Period size: 25 Copynumber: 4.6 Consensus size: 25
16548585 ATGTGTTTTA
*
16548595 CATTTCATGCATAT-TTGTAATTATGT
1 CATTTCAT--ATATATTGTAAATATGT
* *
16548621 CATTTCATATATTTTGTAAATATAT
1 CATTTCATATATATTGTAAATATGT
* ** *
16548646 CATCTCATGCATATTGTAAATATTT
1 CATTTCATATATATTGTAAATATGT
*
16548671 CATTTCATATATA-TGTTAATTATGT
1 CATTTCATATATATTG-TAAATATGT
16548696 CATTT-ATTATATATT
1 CATTTCA-TATATATT
16548711 ATTGTTCTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
24 7 0.09
25 58 0.78
26 9 0.12
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (25 bp):
CATTTCATATATATTGTAAATATGT
Found at i:16549441 original size:16 final size:16
Alignment explanation
Indices: 16549420--16549459 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
16549410 TATTTCGGGT
16549420 ATTTATTTATAGATAA
1 ATTTATTTATAGATAA
16549436 ATTTATTTATAGATAA
1 ATTTATTTATAGATAA
16549452 ATTTATTT
1 ATTTATTT
16549460 CTAAAAACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (16 bp):
ATTTATTTATAGATAA
Found at i:16551691 original size:145 final size:143
Alignment explanation
Indices: 16551424--16551728 Score: 346
Period size: 145 Copynumber: 2.1 Consensus size: 143
16551414 GGTATTTAAT
*
16551424 GGTATTTTGGTAATTTCACACTTCCCAGGGTACTGCTTGATTTCAAATACATTAAAAATCATGAA
1 GGTATTTTGGTAATTTCACACTTCCCAGGGTACTGCTTGATTTCAAATACACTAAAAATCATGAA
* * * * *** * **
16551489 ATAATATGAAATTAAGATCTGGAAAGTTTTGTGAAAATCCAAGTTTGAGAAGATTAAATTATGAA
66 ATAATATGAAATTAAAATCTGAAAAATTTTATGAAAATCCAAGTCAAAAAAGATTAAATTACAAA
16551554 AATACCCTTATAAG
131 AATACCCTTAT-AG
**** *
16551568 GGTATTTTGGTAATTTCACACTTTTTGGGGTA-TGACTGTGATTTCAAATGCACTAAAAATCATG
1 GGTATTTTGGTAATTTCACACTTCCCAGGGTACTG-CT-TGATTTCAAATACACTAAAAATCATG
* ***
16551632 AAATATTATGAAATTAAAATCT-AAAAATTTTCATGAAAATTTGAGCTCAAAAAAG-TTAAATTA
64 AAATAATATGAAATTAAAATCTGAAAAATTTT-ATGAAAATCCAAG-TCAAAAAAGATTAAATTA
*
16551695 CAAAAATATCCTTATAG
127 CAAAAATACCCTTATAG
16551712 GAGTATTTTGGTAATTT
1 G-GTATTTTGGTAATTT
16551729 TGTCTTTCTC
Statistics
Matches: 135, Mismatches: 21, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
143 2 0.01
144 40 0.30
145 88 0.65
146 5 0.04
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.35
Consensus pattern (143 bp):
GGTATTTTGGTAATTTCACACTTCCCAGGGTACTGCTTGATTTCAAATACACTAAAAATCATGAA
ATAATATGAAATTAAAATCTGAAAAATTTTATGAAAATCCAAGTCAAAAAAGATTAAATTACAAA
AATACCCTTATAG
Found at i:16552338 original size:69 final size:68
Alignment explanation
Indices: 16552227--16552967 Score: 896
Period size: 69 Copynumber: 10.9 Consensus size: 68
16552217 TGGGGACTTA
* * * * *
16552227 CAAATTTCAAAATCTTTGAATGCTCTTTCGATCAGAGGCCATGAAACTTTAAAAATTAAAAATGT
1 CAAATCTCAAAA-CTTTGAATGCTCCTCCAATCAGAGGCCATGAAACTTTAAAAATTTAAAATGT
16552292 TTTG
65 TTTG
* *
16552296 CAAATCTTAAAATCTTTGAATGCTCCTCCAATCAGAGGCCATGAAACTTTAAAGA-TTAAAATGT
1 CAAATCTCAAAA-CTTTGAATGCTCCTCCAATCAGAGGCCATGAAACTTTAAAAATTTAAAATGT
16552360 TTTG
65 TTTG
* * * *
16552364 CAAATCTCAAAACCTTTGAATGCTCATCTAATCAGAGGCCCTAAAACTTTAAAAATTTTAAAATG
1 CAAATCTCAAAA-CTTTGAATGCTCCTCCAATCAGAGGCCATGAAACTTTAAAAA-TTTAAAATG
16552429 TTTTG
64 TTTTG
* *
16552434 CAAATCTCAAAACCTTTGAATGCTCCTCCCATCAAAGGCCATGAAACTTTAAAAATTTAAAATGT
1 CAAATCTCAAAA-CTTTGAATGCTCCTCCAATCAGAGGCCATGAAACTTTAAAAATTTAAAATGT
16552499 TTTG
65 TTTG
* * * *
16552503 CAAATCTCAAAACCTTTGAGTGCTCCTCCAATCAAAGGCCATGAAACTTTAAAATTTTAAAATAT
1 CAAATCTCAAAA-CTTTGAATGCTCCTCCAATCAGAGGCCATGAAACTTTAAAAATTTAAAATGT
*
16552568 TTTA
65 TTTG
* * * * * *
16552572 CAAATCTCAAAACTTTTGAATACTTCTCCGATTAGAGACCATGAAAC--TCAAAATTTAAAATGT
1 CAAATCTCAAAAC-TTTGAATGCTCCTCCAATCAGAGGCCATGAAACTTTAAAAATTTAAAATGT
16552635 TTTG
65 TTTG
* * * **
16552639 CAACTCTCAAAACTTTTGAATGCTCCTCCGATTAGAGAACATGAAACTTTAAAAATTTAAAATGT
1 CAAATCTCAAAAC-TTTGAATGCTCCTCCAATCAGAGGCCATGAAACTTTAAAAATTTAAAATGT
*
16552704 TTTA
65 TTTG
* * *
16552708 CAAATTTCAAAACTTTTGAGTGCTCCTCCAATCAAAGGCCATGAAACTTTAAAAATTTAAAATGT
1 CAAATCTCAAAAC-TTTGAATGCTCCTCCAATCAGAGGCCATGAAACTTTAAAAATTTAAAATGT
16552773 TTTG
65 TTTG
* *
16552777 CAAATCTCAAAAACTTTTGAATGCTCCTCCAATCATAGGTCATGAAACTTT--AAATTTAAAATG
1 CAAATCTC-AAAAC-TTTGAATGCTCCTCCAATCAGAGGCCATGAAACTTTAAAAATTTAAAATG
16552840 TTTTG
64 TTTTG
* * *
16552845 GAAATCTCAGAACTTTTGAGTGCTCCTCCAATCA-ATGGCCATGAAACTTTAAAAATTTAAAATG
1 CAAATCTCAAAAC-TTTGAATGCTCCTCCAATCAGA-GGCCATGAAACTTTAAAAATTTAAAATG
*
16552909 TTTTA
64 TTTTG
* * *
16552914 CAAATCTCAAAACTCT---T-CT-CT--AATCAGAGGCTATGAAACTTTAAAATTTTAAAA
1 CAAATCTCAAAACTTTGAATGCTCCTCCAATCAGAGGCCATGAAACTTTAAAAATTTAAAA
16552968 ATATTTTTTC
Statistics
Matches: 597, Mismatches: 65, Indels: 28
0.87 0.09 0.04
Matches are distributed among these distances:
61 29 0.05
62 1 0.00
63 2 0.00
64 2 0.00
65 1 0.00
66 1 0.00
67 96 0.16
68 87 0.15
69 277 0.46
70 101 0.17
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (68 bp):
CAAATCTCAAAACTTTGAATGCTCCTCCAATCAGAGGCCATGAAACTTTAAAAATTTAAAATGTT
TTG
Found at i:16552907 original size:206 final size:204
Alignment explanation
Indices: 16552227--16552927 Score: 931
Period size: 205 Copynumber: 3.4 Consensus size: 204
16552217 TGGGGACTTA
* * * * *
16552227 CAAATTTCAAAA-TCTTTGAATGCTCTTTCGATCAGAGGCCATGAAACTTTAAAAATTAAAAATG
1 CAAATCTCAAAACT-TTTGAATGCTCCTCCAATCA-AGGCCATGAAACTTTAAAAATTTAAAATG
* * * * *
16552291 TTTTGCAAATCTTAAAA-TCTTTGAATGCTCCTCCAATCAGAGGCCATGAAACTTTAAAGA-TTA
64 TTTTACAAATCTCAAAACT-TTTGAGTGCTCCTCCAATCAAAGGCCATGAAACTTTAAAAATTTA
* * * * *
16552354 AAATGTTTTGCAAATCTCAAAACCTTTGAATGCTCATCTAATCAGAGGCCCTAAAACTTTAAAAA
128 AAATGTTTTGCAAATCTCAAAACTTTTGAATGCTCCTCCAATCAGAGGCCATGAAACTTT--AAA
16552419 TTTTAAAATGTTTTG
191 -TTTAAAATGTTTTG
* *
16552434 CAAATCTCAAAACCTTTGAATGCTCCTCCCATCAAAGGCCATGAAACTTTAAAAATTTAAAATGT
1 CAAATCTCAAAACTTTTGAATGCTCCTCCAATC-AAGGCCATGAAACTTTAAAAATTTAAAATGT
* * *
16552499 TTTGCAAATCTCAAAACCTTTGAGTGCTCCTCCAATCAAAGGCCATGAAACTTTAAAATTTTAAA
65 TTTACAAATCTCAAAACTTTTGAGTGCTCCTCCAATCAAAGGCCATGAAACTTTAAAAATTTAAA
* * * * * * * **
16552564 ATATTTTACAAATCTCAAAACTTTTGAATACTTCTCCGATTAGAGACCATGAAACTCAAAATTTA
130 ATGTTTTGCAAATCTCAAAACTTTTGAATGCTCCTCCAATCAGAGGCCATGAAACTTTAAATTTA
16552629 AAATGTTTTG
195 AAATGTTTTG
* * * **
16552639 CAACTCTCAAAACTTTTGAATGCTCCTCCGATTAGAGAACATGAAACTTTAAAAATTTAAAATGT
1 CAAATCTCAAAACTTTTGAATGCTCCTCCAATCA-AGGCCATGAAACTTTAAAAATTTAAAATGT
*
16552704 TTTACAAATTTCAAAACTTTTGAGTGCTCCTCCAATCAAAGGCCATGAAACTTTAAAAATTTAAA
65 TTTACAAATCTCAAAACTTTTGAGTGCTCCTCCAATCAAAGGCCATGAAACTTTAAAAATTTAAA
* *
16552769 ATGTTTTGCAAATCTCAAAAACTTTTGAATGCTCCTCCAATCATAGGTCATGAAACTTTAAATTT
130 ATGTTTTGCAAATCTC-AAAACTTTTGAATGCTCCTCCAATCAGAGGCCATGAAACTTTAAATTT
16552834 AAAATGTTTTG
194 AAAATGTTTTG
* * *
16552845 GAAATCTCAGAACTTTTGAGTGCTCCTCCAATCAATGGCCATGAAACTTTAAAAATTTAAAATGT
1 CAAATCTCAAAACTTTTGAATGCTCCTCCAATCAA-GGCCATGAAACTTTAAAAATTTAAAATGT
16552910 TTTACAAATCTCAAAACT
65 TTTACAAATCTCAAAACT
16552928 CTTCTCTAAT
Statistics
Matches: 431, Mismatches: 56, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
204 1 0.00
205 147 0.34
206 125 0.29
207 108 0.25
208 50 0.12
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (204 bp):
CAAATCTCAAAACTTTTGAATGCTCCTCCAATCAAGGCCATGAAACTTTAAAAATTTAAAATGTT
TTACAAATCTCAAAACTTTTGAGTGCTCCTCCAATCAAAGGCCATGAAACTTTAAAAATTTAAAA
TGTTTTGCAAATCTCAAAACTTTTGAATGCTCCTCCAATCAGAGGCCATGAAACTTTAAATTTAA
AATGTTTTG
Found at i:16553737 original size:26 final size:26
Alignment explanation
Indices: 16553682--16553742 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 26
16553672 CAGATGTCAT
* * *
16553682 GATGCAAATGCAAACTTCTTTCTTAT
1 GATGCAAATGCAAACTCCTTGCTTAA
*
16553708 GATGCAAATGCAAA-TGCCTTGGTTAA
1 GATGCAAATGCAAACT-CCTTGCTTAA
*
16553734 GATGAAAAT
1 GATGCAAAT
16553743 ACAAGTACAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 1 0.03
26 28 0.97
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (26 bp):
GATGCAAATGCAAACTCCTTGCTTAA
Found at i:16554174 original size:33 final size:33
Alignment explanation
Indices: 16554124--16554209 Score: 111
Period size: 33 Copynumber: 2.6 Consensus size: 33
16554114 TTTCTTTGAA
* * * *
16554124 GGCCAGCTAAACT-GGCTTAATATTTTATTAGG
1 GGCCAACTAATCTAGGCTTAATATTTCATGAGG
*
16554156 GGCCAACTAATCTAGGCTTAATATTTCATGGGG
1 GGCCAACTAATCTAGGCTTAATATTTCATGAGG
*
16554189 GGCCAACTAATCTAAGCTTAA
1 GGCCAACTAATCTAGGCTTAA
16554210 ATCTTTTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
32 11 0.23
33 36 0.77
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (33 bp):
GGCCAACTAATCTAGGCTTAATATTTCATGAGG
Found at i:16554318 original size:97 final size:100
Alignment explanation
Indices: 16554090--16554336 Score: 315
Period size: 97 Copynumber: 2.5 Consensus size: 100
16554080 ACTCTTTAGA
* * *
16554090 GGCCAATTAATCTAAGCTTAAATCTTTCTTTGAAGGCCAGCTAAACT-GGCTTAATATTTTATTA
1 GGCCAACTAATCTAAGCTTAAATCTTTCTTTGAAGGCCAGCTAAACTGGGCTTAACATTTCATTA
16554154 GGGGCCAACTAATCTAGGCTTAATATTTCATGGGG
66 GGGGCCAACTAATCTAGGCTTAATATTTCATGGGG
* *
16554189 GGCCAACTAATCTAAGCTTAAATCTTTTTTTGAAGGCCAGCTAAACTGGGCTT-CCA-TTCATT-
1 GGCCAACTAATCTAAGCTTAAATCTTTCTTTGAAGGCCAGCTAAACTGGGCTTAACATTTCATTA
* *
16554251 GGAGGCCAACTAATCTGGGC-TAATATTTCATTGGG
66 GG-GGCCAACTAATCTAGGCTTAATATTTCATGGGG
* * * * * * * *
16554286 GGCTAGCTAATTTGAGCTTAAATATTTCTTTGAAAGACAACTAAACTGGGC
1 GGCCAACTAATCTAAGCTTAAATCTTTCTTTGAAGGCCAGCTAAACTGGGC
16554337 CTACATGCTT
Statistics
Matches: 130, Mismatches: 16, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
97 58 0.45
98 21 0.16
99 46 0.35
100 5 0.04
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (100 bp):
GGCCAACTAATCTAAGCTTAAATCTTTCTTTGAAGGCCAGCTAAACTGGGCTTAACATTTCATTA
GGGGCCAACTAATCTAGGCTTAATATTTCATGGGG
Found at i:16554828 original size:22 final size:23
Alignment explanation
Indices: 16554803--16554851 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
16554793 CTAAAGTCAC
16554803 TTTTATTTCTA-TTATTTCTTTT
1 TTTTATTTCTATTTATTTCTTTT
*
16554825 TTTT-TTTCTATTTTTTTCTTTT
1 TTTTATTTCTATTTATTTCTTTT
16554847 TTTTA
1 TTTTA
16554852 ACGCACCATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTATTTCTATTTATTTCTTTT
Found at i:16554836 original size:18 final size:18
Alignment explanation
Indices: 16554815--16554849 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
16554805 TTATTTCTAT
16554815 TATTTCTTTT-TTTTTTTC
1 TATTT-TTTTCTTTTTTTC
16554833 TATTTTTTTCTTTTTTT
1 TATTTTTTTCTTTTTTT
16554850 TAACGCACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.86
Consensus pattern (18 bp):
TATTTTTTTCTTTTTTTC
Found at i:16555268 original size:34 final size:32
Alignment explanation
Indices: 16555192--16555284 Score: 91
Period size: 34 Copynumber: 2.8 Consensus size: 32
16555182 CTCATTTTTT
16555192 TTCTTTTTCTTTCTTTTATTCTTCCTTTTCTTTCA
1 TTCTTTTTCTTTCTTTT-TTCTT--TTTTCTTTCA
*
16555227 TTTTTTTTCTTTCTTTTTTCTTTTGTTACTTTGCA
1 TTCTTTTTCTTTCTTTTTTCTTTT-TT-CTTT-CA
*
16555262 -TCTTTTT-TTTTTTTTTTGCTTTT
1 TTCTTTTTCTTTCTTTTTT-CTTTT
16555285 AGATCTTGTC
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
32 2 0.04
33 11 0.22
34 20 0.39
35 18 0.35
ACGTcount: A:0.04, C:0.16, G:0.03, T:0.76
Consensus pattern (32 bp):
TTCTTTTTCTTTCTTTTTTCTTTTTTCTTTCA
Found at i:16555268 original size:35 final size:32
Alignment explanation
Indices: 16555195--16555284 Score: 94
Period size: 35 Copynumber: 2.7 Consensus size: 32
16555185 ATTTTTTTTC
*
16555195 TTTTTCTTTCTTTTATTCTTCCTTTTCTTTCATTT
1 TTTTTCTTTCTTTT-TTCTT--TTTTCTTTCATCT
16555230 TTTTTCTTTCTTTTTTCTTTTGTTACTTTGCATCT
1 TTTTTCTTTCTTTTTTCTTTT-TT-CTTT-CATCT
16555265 TTTTT-TTT-TTTTTTGCTTTT
1 TTTTTCTTTCTTTTTT-CTTTT
16555285 AGATCTTGTC
Statistics
Matches: 50, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
32 2 0.04
33 8 0.16
34 17 0.34
35 23 0.46
ACGTcount: A:0.04, C:0.16, G:0.03, T:0.77
Consensus pattern (32 bp):
TTTTTCTTTCTTTTTTCTTTTTTCTTTCATCT
Found at i:16565034 original size:145 final size:144
Alignment explanation
Indices: 16564802--16565078 Score: 396
Period size: 145 Copynumber: 1.9 Consensus size: 144
16564792 CAGGGTGCTG
* * *
16564802 CTATGATTTAAATGCATAAAAAATCATGAAATAATATGAAATTAAGATCTAAAAAATTTTACGAA
1 CTATGATTTAAATACATAAAAAATCATGAAATAATATGAAATTAAAATCTAAAAAATTTCACGAA
16564867 AATCCAAGCTTGAGAAGATCAAATTACAAAAATAACCTTATAGGGGTATTTTAGTAATTTTGCAC
66 AATCCAAGCTTGAGAAGATCAAATTACAAAAATAACCTTATAGGGGTATTTTAGTAATTTTGCAC
16564932 TTCTTGGGGTACGA
131 TTCTTGGGGTACGA
* * * *
16564946 CTATGATTTCAAATACACT-AAAAATCATGAAATATTATGAAATTAAAATCTAGAAAGTTTCATG
1 CTATGATTT-AAATACA-TAAAAAATCATGAAATAATATGAAATTAAAATCTAAAAAATTTCACG
* * * * *
16565010 AAAATCCAAGCTTGGGAA-AGTCAAATTACGAAAATATCCTTTTAGGGGTATTTTGGTAATTTTG
64 AAAATCCAAGCTTGAGAAGA-TCAAATTACAAAAATAACCTTATAGGGGTATTTTAGTAATTTTG
*
16565074 TACTT
128 CACTT
16565079 TTTTCGATGC
Statistics
Matches: 117, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
144 10 0.09
145 106 0.91
146 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (144 bp):
CTATGATTTAAATACATAAAAAATCATGAAATAATATGAAATTAAAATCTAAAAAATTTCACGAA
AATCCAAGCTTGAGAAGATCAAATTACAAAAATAACCTTATAGGGGTATTTTAGTAATTTTGCAC
TTCTTGGGGTACGA
Found at i:16566293 original size:38 final size:37
Alignment explanation
Indices: 16566229--16566347 Score: 107
Period size: 38 Copynumber: 3.2 Consensus size: 37
16566219 ATGATTGGAA
* * **
16566229 ATAATAAGATAATACATGTACCTCATCTCATGCACAT
1 ATAATAGGATAATACATGCATTTCATCTCATGCACAT
**
16566266 CATAATAGGATAATACATGCATTTCATCTCACCCACAT
1 -ATAATAGGATAATACATGCATTTCATCTCATGCACAT
* * * *
16566304 -TAATA-AATAGTACATGCATTCCATCTTATGCACAT
1 ATAATAGGATAATACATGCATTTCATCTCATGCACAT
*
16566339 GTTAATAGG
1 -ATAATAGG
16566348 TGGTACTTAC
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
35 24 0.37
36 5 0.08
37 5 0.08
38 31 0.48
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (37 bp):
ATAATAGGATAATACATGCATTTCATCTCATGCACAT
Found at i:16566338 original size:35 final size:37
Alignment explanation
Indices: 16566252--16566338 Score: 97
Period size: 35 Copynumber: 2.4 Consensus size: 37
16566242 ACATGTACCT
* *
16566252 CATCTCATGCACATCATAATAGGATAATACATGCATTT
1 CATCTCATGCACAT-ATAATAGAATAATACATGCATTC
** *
16566290 CATCTCACCCACAT-TAATA-AATAGTACATGCATTC
1 CATCTCATGCACATATAATAGAATAATACATGCATTC
*
16566325 CATCTTATGCACAT
1 CATCTCATGCACAT
16566339 GTTAATAGGT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
35 24 0.59
36 5 0.12
38 12 0.29
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.31
Consensus pattern (37 bp):
CATCTCATGCACATATAATAGAATAATACATGCATTC
Found at i:16566401 original size:37 final size:37
Alignment explanation
Indices: 16566252--16566418 Score: 122
Period size: 37 Copynumber: 4.5 Consensus size: 37
16566242 ACATGTACCT
* * ** *
16566252 CATCTCATGCACATCATAATAGGATAATACATGCATTT
1 CATCTCATGCATATCTTAATAGG-TAGCACATGCATTC
** * ** *
16566290 CATCTCACCCACA--TTAATAAATAGTACATGCATTC
1 CATCTCATGCATATCTTAATAGGTAGCACATGCATTC
* * * * * * *
16566325 CATCTTATGCACATGTTAATAGGTGGTACTTACATTC
1 CATCTCATGCATATCTTAATAGGTAGCACATGCATTC
* *
16566362 CATCCCATGCATATCTTAATAGGTAGCACATGCACTC
1 CATCTCATGCATATCTTAATAGGTAGCACATGCATTC
16566399 CATCTCATTGCATATCTTAA
1 CATCTCA-TGCATATCTTAA
16566419 GGTAGTGTCA
Statistics
Matches: 101, Mismatches: 25, Indels: 6
0.77 0.19 0.05
Matches are distributed among these distances:
35 22 0.22
36 5 0.05
37 51 0.50
38 23 0.23
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (37 bp):
CATCTCATGCATATCTTAATAGGTAGCACATGCATTC
Found at i:16566570 original size:69 final size:69
Alignment explanation
Indices: 16566494--16566623 Score: 201
Period size: 69 Copynumber: 1.9 Consensus size: 69
16566484 ATATAATATG
*
16566494 TTAGTGCATTTCATAAAAGTATGTTGTATT-AGTAATAGGTATGCATCTTATTA-TCGATATAGT
1 TTAGTGCATTTCATAAAAGTATGTTGTATTCA-TAATAGGTATACATCTTATTACT-GATATAGT
16566557 AATAAC
64 AATAAC
**
16566563 TTAGTGCATTTCATGTAAGTATGTTGTATTCATAATAGGTATACATCTTATTACTGATATA
1 TTAGTGCATTTCATAAAAGTATGTTGTATTCATAATAGGTATACATCTTATTACTGATATA
16566624 ATATGTTATT
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
69 54 0.96
70 2 0.04
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.42
Consensus pattern (69 bp):
TTAGTGCATTTCATAAAAGTATGTTGTATTCATAATAGGTATACATCTTATTACTGATATAGTAA
TAAC
Found at i:16567899 original size:23 final size:23
Alignment explanation
Indices: 16567851--16567900 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
16567841 GCCAAGATAT
* *
16567851 AAAAAAAGAGAAGCCAAAATTAA
1 AAAAAAAAAGAAGCCAAAAATAA
*
16567874 AAAAAAAAAGAAGCAGAAAAATAA
1 AAAAAAAAAGAAGC-CAAAAATAA
16567898 AAA
1 AAA
16567901 CTGCAGCAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.76, C:0.06, G:0.12, T:0.06
Consensus pattern (23 bp):
AAAAAAAAAGAAGCCAAAAATAA
Found at i:16568907 original size:3 final size:3
Alignment explanation
Indices: 16568899--16568923 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16568889 AAGCCTTTGA
16568899 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
16568924 TGAGCTTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:16569060 original size:17 final size:18
Alignment explanation
Indices: 16569038--16569079 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
16569028 TAAATTTAAA
*
16569038 AAAAAATAATAAAAA-GT
1 AAAAAATAATAAAAATGG
* *
16569055 AAAAAAGAGTAAAAATGG
1 AAAAAATAATAAAAATGG
16569073 AAAAAAT
1 AAAAAAT
16569080 GGAAAAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (18 bp):
AAAAAATAATAAAAATGG
Found at i:16569183 original size:27 final size:25
Alignment explanation
Indices: 16569157--16569231 Score: 73
Period size: 26 Copynumber: 3.0 Consensus size: 25
16569147 AGAATTATTA
16569157 AATAATAAAAATAAAATAAAAAGATT
1 AATAATAAAAATAAAATAAAAA-ATT
*
16569183 AATAAGTAACAAT--AATAAAAAATT
1 AATAA-TAAAAATAAAATAAAAAATT
** *
16569207 TTTAATAAAAAGTAAAATATAAAAT
1 AATAATAAAAA-TAAAATAAAAAAT
16569232 ATAAAAATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
23 5 0.12
24 7 0.17
25 8 0.20
26 14 0.35
27 6 0.15
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.27
Consensus pattern (25 bp):
AATAATAAAAATAAAATAAAAAATT
Found at i:16570196 original size:20 final size:20
Alignment explanation
Indices: 16570171--16570211 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
16570161 CTACTTGATT
16570171 ATACTTAAATTTCATATAAA
1 ATACTTAAATTTCATATAAA
16570191 ATACTTAAATTTCATATAAA
1 ATACTTAAATTTCATATAAA
16570211 A
1 A
16570212 ACCATTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (20 bp):
ATACTTAAATTTCATATAAA
Found at i:16575146 original size:25 final size:25
Alignment explanation
Indices: 16575084--16575146 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
16575074 AAATGGATTT
* *
16575084 ATTCCACACGACCCTGTTCTCGTTC
1 ATTCCACACGACTCTGTTCTCATTC
*
16575109 ATTCCACACGACTCTGTTCTTATTC
1 ATTCCACACGACTCTGTTCTCATTC
*
16575134 ATTCCACATGACT
1 ATTCCACACGACT
16575147 ATTTTTTTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.21, C:0.35, G:0.10, T:0.35
Consensus pattern (25 bp):
ATTCCACACGACTCTGTTCTCATTC
Found at i:16575785 original size:16 final size:16
Alignment explanation
Indices: 16575764--16575816 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
16575754 TCACTTGGAA
16575764 AAAAAG-GACAAAAAAG
1 AAAAAGTGA-AAAAAAG
16575780 AAAAAGTGAAAAAAAG
1 AAAAAGTGAAAAAAAG
**
16575796 AAGGAAAAAGAAAAAAAG
1 AA--AAAGTGAAAAAAAG
16575814 AAA
1 AAA
16575817 GAAAAGGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 16 0.50
17 2 0.06
18 14 0.44
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (16 bp):
AAAAAGTGAAAAAAAG
Found at i:16575834 original size:18 final size:18
Alignment explanation
Indices: 16575761--16575825 Score: 66
Period size: 18 Copynumber: 3.7 Consensus size: 18
16575751 ATTTCACTTG
16575761 GAAA-AAAAGGACAAAAAA
1 GAAAGAAAAGGA-AAAAAA
16575779 G--A-AAAAGTGAAAAAAA
1 GAAAGAAAAG-GAAAAAAA
* *
16575795 GAAGGAAAAAGAAAAAAA
1 GAAAGAAAAGGAAAAAAA
16575813 GAAAGAAAAGGAA
1 GAAAGAAAAGGAA
16575826 TAAATGAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 13 0.33
17 2 0.05
18 20 0.51
19 4 0.10
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (18 bp):
GAAAGAAAAGGAAAAAAA
Found at i:16576919 original size:22 final size:21
Alignment explanation
Indices: 16576894--16576953 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
16576884 GTCCAAGTTG
16576894 TAAGCCCAGTCTAGCTAGCACA
1 TAAGCCCAGTCTAGCT-GCACA
* * *
16576916 TAAGCCAAGTTTAGCTGCATA
1 TAAGCCCAGTCTAGCTGCACA
* *
16576937 TAAGCCCAATTTAGCTG
1 TAAGCCCAGTCTAGCTG
16576954 GTATATAAGC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
21 19 0.58
22 14 0.42
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (21 bp):
TAAGCCCAGTCTAGCTGCACA
Found at i:16576959 original size:22 final size:22
Alignment explanation
Indices: 16576894--16577000 Score: 110
Period size: 22 Copynumber: 4.9 Consensus size: 22
16576884 GTCCAAGTTG
* * * *
16576894 TAAGCCCAGTCTAGCTAGCACA
1 TAAGCCCAATTTAGCTGGCATA
16576916 TAAG-CCAAGTTTAGCT-GCATA
1 TAAGCCCAA-TTTAGCTGGCATA
*
16576937 TAAGCCCAATTTAGCTGGTATA
1 TAAGCCCAATTTAGCTGGCATA
*
16576959 TAAGCCCAAATTAGCTGGCATA
1 TAAGCCCAATTTAGCTGGCATA
* * *
16576981 CAAGCCTAGTTTAGCTGGCA
1 TAAGCCCAATTTAGCTGGCA
16577001 CCCAATGAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
21 18 0.25
22 54 0.75
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (22 bp):
TAAGCCCAATTTAGCTGGCATA
Found at i:16577253 original size:33 final size:33
Alignment explanation
Indices: 16577214--16577326 Score: 147
Period size: 33 Copynumber: 3.4 Consensus size: 33
16577204 GCTCCTAATG
*
16577214 AAATTTATGCCTAGTGTAGCTGGCACTTAGTGA
1 AAATTTAAGCCTAGTGTAGCTGGCACTTAGTGA
* * *
16577247 AAATTTAAGCCCAGTCTAGCTAGCAC-TAGTGCA
1 AAATTTAAGCCTAGTGTAGCTGGCACTTAGTG-A
* *
16577280 AAATTTAAGCCTAGTGTAGATGGCACTTAATGA
1 AAATTTAAGCCTAGTGTAGCTGGCACTTAGTGA
*
16577313 AAATTTAAACCTAG
1 AAATTTAAGCCTAG
16577327 ATTATCTGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
32 5 0.07
33 59 0.87
34 4 0.06
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (33 bp):
AAATTTAAGCCTAGTGTAGCTGGCACTTAGTGA
Found at i:16577277 original size:32 final size:31
Alignment explanation
Indices: 16577208--16577646 Score: 214
Period size: 32 Copynumber: 13.6 Consensus size: 31
16577198 TATATGGCTC
* *
16577208 CTAATG-AAATTTATGCCTAGTGTAGCTGGCA
1 CTAATGAAAATTTAAGCCTAGT-TAGCTAGCA
* *
16577239 CTTAGTGAAAATTTAAGCCCAGTCTAGCTAGCA
1 C-TAATGAAAATTTAAGCCTAGT-TAGCTAGCA
* * *
16577272 CTAGTGCAAAATTTAAGCCTAGTGTAGATGGCA
1 CTAATG-AAAATTTAAGCCTAGT-TAGCTAGCA
* * *
16577305 CTTAATGAAAATTTAAACCTAGATTATCTGGCA
1 C-TAATGAAAATTTAAGCCTAG-TTAGCTAGCA
* * * * * *
16577338 CCAATGAAAGTTTTAAGTTCAAATTATCTAGCA
1 CTAATGAAA-ATTTAAG-CCTAGTTAGCTAGCA
* * **
16577371 CCCAGTG--GTTTTAAGCCCT-GATTAGCTAGCA
1 -CTAATGAAAATTTAAG-CCTAG-TTAGCTAGCA
*
16577402 CCAA-GAAAAATTTAAGTCC-AGTTTAGCTAGCA
1 CTAATG-AAAATTTAAG-CCTAG-TTAGCTAGCA
* * *
16577434 CTTATGAAAAGTTAAACCTAGCTTAGCTAGCA
1 CTAATGAAAATTTAAGCCTAG-TTAGCTAGCA
*
16577466 CCCAATG-AAATTTAAGCCTAGTCTAGCTAGCA
1 -CTAATGAAAATTTAAGCCTAGT-TAGCTAGCA
* *
16577498 CCCAATGAAAATTTAAGCCTAGTTTATCT-GACA
1 -CTAATGAAAATTTAAGCCTAG-TTAGCTAG-CA
* *
16577531 CCAAAGAAAATTTAAGCCCAATA-TTAGCTAGCA
1 CTAATGAAAATTTAAG-CC--TAGTTAGCTAGCA
*
16577564 CCTAATGAAAA-TTAAGCTTAGTCTAGCTAGCA
1 -CTAATGAAAATTTAAGCCTAGT-TAGCTAGCA
* * * * ** * *
16577596 CCAAATGAAATTTTAAACCCAGATTATTTGGCG
1 -CTAATGAAAATTTAAGCCTAG-TTAGCTAGCA
16577629 CTAATGAAAATTTAAGCC
1 CTAATGAAAATTTAAGCC
16577647 CAGTGTAGTG
Statistics
Matches: 320, Mismatches: 59, Indels: 57
0.73 0.14 0.13
Matches are distributed among these distances:
29 1 0.00
30 5 0.02
31 22 0.07
32 135 0.42
33 132 0.41
34 23 0.07
35 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (31 bp):
CTAATGAAAATTTAAGCCTAGTTAGCTAGCA
Found at i:16577353 original size:66 final size:64
Alignment explanation
Indices: 16577210--16577608 Score: 163
Period size: 66 Copynumber: 6.2 Consensus size: 64
16577200 TATGGCTCCT
* * * * *
16577210 AATGAAATTTATGCCTAGTGTAGCTGGCACTTAGTGAAAATTTAAGCCCAGTCTAGCTAGCACT
1 AATGAAATTTAAGCCTAGTGTAGATGGCACTTAATGAAAATTTAAACCCAGTCTAGCTAGCACC
* * * *
16577274 AGTGCAAAATTTAAGCCTAGTGTAGATGGCACTTAATGAAAATTTAAACCTAGAT-TATCTGGCA
1 AATG--AAATTTAAGCCTAGTGTAGATGGCACTTAATGAAAATTTAAACCCAG-TCTAGCTAGCA
16577338 CC
63 CC
* * * ** * ** * ** * *
16577340 AATGAAAGTTTTAAGTTCAAAT-TATCTAGCACCCAGTG--GTTTTAAGCCCTGAT-TAGCTAGC
1 AATGAAA--TTTAAG-CCTAGTGTAGATGGCACTTAATGAAAATTTAAACCCAG-TCTAGCTAGC
16577401 ACC
62 ACC
* * * * *
16577404 AA-GAAAAATTTAAGTCC-AGTTTAGCTAGCACTT-ATGAAAAGTTAAACCTAG-CTTAGCTAGC
1 AATG--AAATTTAAG-CCTAGTGTAGATGGCACTTAATGAAAATTTAAACCCAGTC-TAGCTAGC
16577465 ACCC
62 A-CC
* * * ** * * * *
16577469 AATGAAATTTAAGCCTAGTCTAGCTAGCACCCAATGAAAATTTAAGCCTAGTTTATCT-GACACC
1 AATGAAATTTAAGCCTAGTGTAGATGGCACTTAATGAAAATTTAAACCCAGTCTAGCTAG-CACC
* * * * * * * * **
16577533 AAAGAAAATTTAAGCCCAATATTAGCTAGCACCTAATGAAAA-TTAAGCTTAGTCTAGCTAGCAC
1 AATG-AAATTTAAGCCTAGT-GTAGATGGCACTTAATGAAAATTTAAACCCAGTCTAGCTAGCAC
16577597 C
64 C
16577598 AAATGAAATTT
1 -AATGAAATTT
16577609 TAAACCCAGA
Statistics
Matches: 258, Mismatches: 54, Indels: 45
0.72 0.15 0.13
Matches are distributed among these distances:
62 4 0.02
63 20 0.08
64 71 0.28
65 66 0.26
66 93 0.36
67 4 0.02
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (64 bp):
AATGAAATTTAAGCCTAGTGTAGATGGCACTTAATGAAAATTTAAACCCAGTCTAGCTAGCACC
Found at i:16577708 original size:32 final size:32
Alignment explanation
Indices: 16577667--16577819 Score: 175
Period size: 32 Copynumber: 4.7 Consensus size: 32
16577657 GCATGCAAGC
16577667 CTAGCTAGCACCCAATGAAATTTAAGCCTAGT
1 CTAGCTAGCACCCAATGAAATTTAAGCCTAGT
16577699 CTAGCTAGCACCCAATGAAAATTTAAGCCTAGT
1 CTAGCTAGCACCCAATG-AAATTTAAGCCTAGT
* * * * *
16577732 TTATCT-G-ACACCAAAGAAAATTTAAGCCCAAT
1 CTAGCTAGCAC-CCAATG-AAATTTAAGCCTAGT
* * *
16577764 ATTAGCTAGCACCTAATGAAAATTAAGCCTAGT
1 -CTAGCTAGCACCCAATGAAATTTAAGCCTAGT
*
16577797 CTAGCTAGCACCAAATGAAATTT
1 CTAGCTAGCACCCAATGAAATTT
16577820 TAAACCCAGA
Statistics
Matches: 102, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
31 2 0.02
32 57 0.56
33 36 0.35
34 5 0.05
35 2 0.02
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (32 bp):
CTAGCTAGCACCCAATGAAATTTAAGCCTAGT
Found at i:16577753 original size:113 final size:113
Alignment explanation
Indices: 16577555--16577761 Score: 297
Period size: 113 Copynumber: 1.8 Consensus size: 113
16577545 AGCCCAATAT
* * *
16577555 TAGCTAGCACCTAATGAAAATTAAGCTTAGTCTAGCTAGCACCAAATGAAATTTTAAACCCAGAT
1 TAGCTAGCACCCAATGAAAATTAAGCCTAGTCTAGCTAGCACCAAATGAAAATTTAAACCCAGAT
* * * * *
16577620 TATTTGGCGCTAATGAAAATTTAAGCCCAGTGTAGTGGCATGCAAGCC
66 TATCTGACACCAAAGAAAATTTAAGCCCAGTGTAGTGGCATGCAAGCC
* * * * *
16577668 TAGCTAGCACCCAATGAAATTTAAGCCTAGTCTAGCTAGCACCCAATGAAAATTTAAGCCTAGTT
1 TAGCTAGCACCCAATGAAAATTAAGCCTAGTCTAGCTAGCACCAAATGAAAATTTAAACCCAGAT
16577733 TATCTGACACCAAAGAAAATTTAAGCCCA
66 TATCTGACACCAAAGAAAATTTAAGCCCA
16577762 ATATTAGCTA
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
113 81 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (113 bp):
TAGCTAGCACCCAATGAAAATTAAGCCTAGTCTAGCTAGCACCAAATGAAAATTTAAACCCAGAT
TATCTGACACCAAAGAAAATTTAAGCCCAGTGTAGTGGCATGCAAGCC
Found at i:16577821 original size:211 final size:211
Alignment explanation
Indices: 16577457--16577945 Score: 843
Period size: 211 Copynumber: 2.3 Consensus size: 211
16577447 AAACCTAGCT
16577457 TAGCTAGCACCCAATGAAATTTAAGCCTAGTCTAGCTAGCACCCAATGAAAATTTAAGCCTAGTT
1 TAGCTAGCACCCAATGAAATTTAAGCCTAGTCTAGCTAGCACCCAATGAAAATTTAAGCCTAGTT
*
16577522 TATCTGACACCAAAGAAAATTTAAGCCCAATATTAGCTAGCACCTAATGAAAATTAAGCTTAGTC
66 TATCTGACACCAAAGAAAATTTAAGCCCAATATTAGCTAGCACCTAATGAAAATTAAGCCTAGTC
16577587 TAGCTAGCACCAAATGAAATTTTAAACCCAGATTATTTGGCGCTAATGAAAATTTAAGCCCAGTG
131 TAGCTAGCACCAAATGAAATTTTAAACCCAGATTATTTGGCGCTAATGAAAATTTAAGCCCAGTG
16577652 TAGTGGCATGCAAGCC
196 TAGTGGCATGCAAGCC
16577668 TAGCTAGCACCCAATGAAATTTAAGCCTAGTCTAGCTAGCACCCAATGAAAATTTAAGCCTAGTT
1 TAGCTAGCACCCAATGAAATTTAAGCCTAGTCTAGCTAGCACCCAATGAAAATTTAAGCCTAGTT
16577733 TATCTGACACCAAAGAAAATTTAAGCCCAATATTAGCTAGCACCTAATGAAAATTAAGCCTAGTC
66 TATCTGACACCAAAGAAAATTTAAGCCCAATATTAGCTAGCACCTAATGAAAATTAAGCCTAGTC
16577798 TAGCTAGCACCAAATGAAATTTTAAACCCAGATTATTTGGCGCTAATGAAAATTTAAGCCCAGTG
131 TAGCTAGCACCAAATGAAATTTTAAACCCAGATTATTTGGCGCTAATGAAAATTTAAGCCCAGTG
16577863 TAGTGGCATGCAAGCC
196 TAGTGGCATGCAAGCC
* * * * * * *
16577879 TAGTTTATATGGCACCCTAGGAAATTTAAGCCCAATCTGGCTAACACCCAATGAAAAGATTTAAG
1 TAG---CTA--GCACCCAATGAAATTTAAGCCTAGTCTAGCTAGCACCCAATG-AAA-ATTTAAG
16577944 CC
59 CC
16577946 CATTTTAGAT
Statistics
Matches: 263, Mismatches: 8, Indels: 7
0.95 0.03 0.03
Matches are distributed among these distances:
211 213 0.81
214 2 0.01
216 36 0.14
217 3 0.01
218 9 0.03
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (211 bp):
TAGCTAGCACCCAATGAAATTTAAGCCTAGTCTAGCTAGCACCCAATGAAAATTTAAGCCTAGTT
TATCTGACACCAAAGAAAATTTAAGCCCAATATTAGCTAGCACCTAATGAAAATTAAGCCTAGTC
TAGCTAGCACCAAATGAAATTTTAAACCCAGATTATTTGGCGCTAATGAAAATTTAAGCCCAGTG
TAGTGGCATGCAAGCC
Found at i:16577855 original size:65 final size:66
Alignment explanation
Indices: 16577700--16577857 Score: 180
Period size: 65 Copynumber: 2.4 Consensus size: 66
16577690 AAGCCTAGTC
* * * * *
16577700 TAGCTAGCACCCAATGAAAATTTAAGCCTAGTTTATCTGACACCAAAGAAAATTTAAGCCCAATA
1 TAGCTAGCACCTAATGAAAATTTAAGCCTAGTCTAGCTGACACCAAAGAAAATTTAAACCCAAGA
16577765 T
66 T
*
16577766 TAGCTAGCACCTAATGAAAA-TTAAGCCTAGTCTAGCT-AGCACCAAATGAAATTTTAAACCC-A
1 TAGCTAGCACCTAATGAAAATTTAAGCCTAGTCTAGCTGA-CACCAAA-GAAAATTTAAACCCAA
16577828 GAT
64 GAT
** * *
16577831 TATTTGGC-GCTAATGAAAATTTAAGCC
1 TAGCTAGCACCTAATGAAAATTTAAGCC
16577858 CAGTGTAGTG
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
64 11 0.14
65 37 0.47
66 31 0.39
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (66 bp):
TAGCTAGCACCTAATGAAAATTTAAGCCTAGTCTAGCTGACACCAAAGAAAATTTAAACCCAAGA
T
Found at i:16577993 original size:34 final size:35
Alignment explanation
Indices: 16577924--16577995 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 35
16577914 TCTGGCTAAC
* **
16577924 ACCCAATGAAAAGATTTAAGCCCATTTTAGATGGT
1 ACCCAATGAAAAGATTCAAGCCCAAATTAGATGGT
**
16577959 ACCCAATGAAAA-ATTCAAGCCCAAATTATTTGGT
1 ACCCAATGAAAAGATTCAAGCCCAAATTAGATGGT
16577993 ACC
1 ACC
16577996 AATAGAGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
34 20 0.62
35 12 0.38
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (35 bp):
ACCCAATGAAAAGATTCAAGCCCAAATTAGATGGT
Found at i:16578122 original size:32 final size:32
Alignment explanation
Indices: 16578023--16578127 Score: 90
Period size: 32 Copynumber: 3.3 Consensus size: 32
16578013 AGCCTACTTT
* * * *
16578023 GCACCCAATGAAGTTTAAGCCCAGGTTATCTA
1 GCACTCAATGAAGTTTAAGCCTAGATTATCTG
* * * *
16578055 GCAC-CAATGAAATTAAAAG-CTCGATTTAACTG
1 GCACTCAATGAAGTT-TAAGCCTAGA-TTATCTG
*
16578087 GCACTCAATGAAGTTTAGGCCTAGATTATCTG
1 GCACTCAATGAAGTTTAAGCCTAGATTATCTG
16578119 GCACT-AATG
1 GCACTCAATG
16578128 GAATTTGAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
31 15 0.26
32 29 0.51
33 13 0.23
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (32 bp):
GCACTCAATGAAGTTTAAGCCTAGATTATCTG
Found at i:16578237 original size:33 final size:32
Alignment explanation
Indices: 16578195--16578310 Score: 103
Period size: 33 Copynumber: 3.6 Consensus size: 32
16578185 CCAATGAAAG
16578195 TTTAAGCCTAGTTTAGCTAGCACCAAAG-AGA
1 TTTAAGCCTAGTTTAGCTAGCACCAAAGAAGA
* * *
16578226 TTTTTAAGCCTAATTTAGCTAGCTCCCAATGAAGA
1 --TTTAAGCCTAGTTTAGCTAGC-ACCAAAGAAGA
* *
16578261 TTTAAG-CTCAGTTTAGCTGGCACCAATA-AAAA
1 TTTAAGCCT-AGTTTAGCTAGCACCAA-AGAAGA
* *
16578293 TTGAAGCCCAGTTTAGCT
1 TTTAAGCCTAGTTTAGCT
16578311 GGTACGTAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
32 23 0.34
33 37 0.54
34 5 0.07
35 3 0.04
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (32 bp):
TTTAAGCCTAGTTTAGCTAGCACCAAAGAAGA
Found at i:16578603 original size:8 final size:7
Alignment explanation
Indices: 16578563--16578616 Score: 56
Period size: 8 Copynumber: 7.3 Consensus size: 7
16578553 AAAAAAAAGC
16578563 AACAAAA
1 AACAAAA
16578570 AACAAAA
1 AACAAAA
*
16578577 AATTAAAA
1 AA-CAAAA
16578585 AACATAAA
1 AACA-AAA
16578593 AACAATAA
1 AACAA-AA
16578601 AACAAACA
1 AACAAA-A
16578609 AA-AAAA
1 AACAAAA
16578615 AA
1 AA
16578617 ATCTTTTTAG
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
6 3 0.07
7 15 0.37
8 23 0.56
ACGTcount: A:0.81, C:0.11, G:0.00, T:0.07
Consensus pattern (7 bp):
AACAAAA
Found at i:16578945 original size:8 final size:8
Alignment explanation
Indices: 16578932--16578963 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
16578922 ATTATTATTA
16578932 TTAAAATT
1 TTAAAATT
16578940 TTAAAATT
1 TTAAAATT
16578948 TTAAAATT
1 TTAAAATT
*
16578956 TAAAAATT
1 TTAAAATT
16578964 AAATTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
TTAAAATT
Found at i:16578953 original size:16 final size:16
Alignment explanation
Indices: 16578932--16579009 Score: 58
Period size: 14 Copynumber: 5.0 Consensus size: 16
16578922 ATTATTATTA
*
16578932 TTAAAATTTTAAAATT
1 TTAAAATTTAAAAATT
16578948 TTAAAATTTAAAAA--
1 TTAAAATTTAAAAATT
*
16578962 TT-AAATTAAAAATTATT
1 TTAAAATTTAAAA--ATT
*
16578979 ATTAAAAATTAAAAA--
1 -TTAAAATTTAAAAATT
*
16578994 TTAAAAGTTAAAAATT
1 TTAAAATTTAAAAATT
16579010 AAAACAATAA
Statistics
Matches: 49, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
13 9 0.18
14 15 0.31
15 1 0.02
16 13 0.27
17 1 0.02
18 2 0.04
19 8 0.16
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (16 bp):
TTAAAATTTAAAAATT
Found at i:16578959 original size:7 final size:7
Alignment explanation
Indices: 16578948--16579013 Score: 75
Period size: 7 Copynumber: 9.9 Consensus size: 7
16578938 TTTTAAAATT
*
16578948 TTAAAAT
1 TTAAAAA
16578955 TTAAAAA
1 TTAAAAA
16578962 TT--AAA
1 TTAAAAA
16578967 TTAAAAA
1 TTAAAAA
**
16578974 TT-ATTA
1 TTAAAAA
16578980 TTAAAAA
1 TTAAAAA
16578987 TTAAAAA
1 TTAAAAA
*
16578994 TTAAAAG
1 TTAAAAA
16579001 TTAAAAA
1 TTAAAAA
16579008 TTAAAA
1 TTAAAA
16579014 CAATAATAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
5 5 0.10
6 4 0.08
7 40 0.82
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (7 bp):
TTAAAAA
Found at i:16578973 original size:13 final size:12
Alignment explanation
Indices: 16578955--16579005 Score: 57
Period size: 12 Copynumber: 4.0 Consensus size: 12
16578945 ATTTTAAAAT
16578955 TTAAAAATTAAA
1 TTAAAAATTAAA
*
16578967 TTAAAAATTATTA
1 TTAAAAATTA-AA
16578980 TTAAAAATTAAAAA
1 TTAAAAATT--AAA
*
16578994 TTAAAAGTTAAA
1 TTAAAAATTAAA
16579006 AATTAAAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 13 0.39
13 10 0.30
14 9 0.27
15 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (12 bp):
TTAAAAATTAAA
Found at i:16578987 original size:20 final size:21
Alignment explanation
Indices: 16578964--16579013 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
16578954 TTTAAAAATT
**
16578964 AAATTAAAAATTATTA-TTAA
1 AAATTAAAAATTAAAAGTTAA
16578984 AAATTAAAAATTAAAAGTTAA
1 AAATTAAAAATTAAAAGTTAA
16579005 AAATTAAAA
1 AAATTAAAA
16579014 CAATAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
AAATTAAAAATTAAAAGTTAA
Found at i:16578991 original size:32 final size:34
Alignment explanation
Indices: 16578948--16579010 Score: 103
Period size: 32 Copynumber: 1.9 Consensus size: 34
16578938 TTTTAAAATT
*
16578948 TTAAAATTTAAAAATT-AAA-TTAAAAATTATTA
1 TTAAAAATTAAAAATTAAAAGTTAAAAATTATTA
16578980 TTAAAAATTAAAAATTAAAAGTTAAAAATTA
1 TTAAAAATTAAAAATTAAAAGTTAAAAATTA
16579011 AAACAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 15 0.54
33 3 0.11
34 10 0.36
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (34 bp):
TTAAAAATTAAAAATTAAAAGTTAAAAATTATTA
Found at i:16580099 original size:22 final size:22
Alignment explanation
Indices: 16580042--16580099 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
16580032 AATAAATTCT
* *
16580042 ATAATCAACTAAATCAATATCTA
1 ATAATCTA-TAAATCAATATCCA
* *
16580065 ATATTCTATAAATTAATATCCA
1 ATAATCTATAAATCAATATCCA
16580087 ATTAATCTA-AAAT
1 A-TAATCTATAAAT
16580100 ATTACTAGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 17 0.59
23 12 0.41
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (22 bp):
ATAATCTATAAATCAATATCCA
Found at i:16584571 original size:142 final size:143
Alignment explanation
Indices: 16584183--16584588 Score: 406
Period size: 142 Copynumber: 2.8 Consensus size: 143
16584173 GATTTTAAAA
* ** * * * * * *
16584183 AACCAAAAATAACAAAATTTTATAAAATCAAGATCTAGAAAGTTTCACGAAAATCCTAGCTCGAA
1 AACCAAAAATCATGAAATATTATGAAATTAAGATCTAAAAAGTTTCATGAAAATCCAAGCTCGAA
* * * * * ** *
16584248 AAGGTGAAATTATGAAAATACTCCTATAGAGGTATTTTAGTAATGTCACACTTGCTGGGGTATTG
66 AAGGT-AAATTAAGAAAATACCCCTATAAAGGTATTTTAGTAATTTCATACTT-CTGCAGTACTG
*
16584313 TTGTGATTTCAAATG
129 CTGTGATTTCAAATG
* * ** *
16584328 AACCAAAAATTATGAAATATTATGAAATTAAGATCTGAAAAGTTTCATGAAAATCTGATCTCGGA
1 AACCAAAAATCATGAAATATTATGAAATTAAGATCTAAAAAGTTTCATGAAAATCCAAGCTC-GA
* * ** *
16584393 AAGGGTAAATTACA-AAAGTACCATTATAAAGGTATTTTGGTAATTTCATACTT-T-CAGTACTG
65 AAAGGTAAATTA-AGAAAATACCCCTATAAAGGTATTTTAGTAATTTCATACTTCTGCAGTACTG
*
16584455 CTGTGATTTGAAATG
129 CTGTGATTTCAAATG
* * * * *
16584470 CACCAAATATCATGAAATATTATGAAATTAAGATTTAAAAAGTTTCATAAAAATCCAAGCTTGAA
1 AACCAAAAATCATGAAATATTATGAAATTAAGATCTAAAAAGTTTCATGAAAATCCAAGCTCGAA
* *
16584535 AAAGTCAAATTAAGAAAATACCCCTA-AAAGGATATTTTAGTAATTTTATACTTC
66 AAGGT-AAATTAAGAAAATACCCCTATAAAGG-TATTTTAGTAATTTCATACTTC
16584589 CCCAGTGCAA
Statistics
Matches: 211, Mismatches: 44, Indels: 14
0.78 0.16 0.05
Matches are distributed among these distances:
141 12 0.06
142 104 0.49
143 1 0.00
145 87 0.41
146 7 0.03
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (143 bp):
AACCAAAAATCATGAAATATTATGAAATTAAGATCTAAAAAGTTTCATGAAAATCCAAGCTCGAA
AAGGTAAATTAAGAAAATACCCCTATAAAGGTATTTTAGTAATTTCATACTTCTGCAGTACTGCT
GTGATTTCAAATG
Found at i:16585170 original size:37 final size:37
Alignment explanation
Indices: 16585112--16585188 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
16585102 TAAAATCTTG
* * * *
16585112 TTTGAAAATTGCTTCCTCTAAACAAAGGTTTTGAAAC
1 TTTGAAAATGGCTCCCCCTAAACAAAGGCTTTGAAAC
*
16585149 TTTGAAAATGGCTCCCCCTAAACAGAGGCTTTGAAAC
1 TTTGAAAATGGCTCCCCCTAAACAAAGGCTTTGAAAC
16585186 TTT
1 TTT
16585189 TAAGAAGGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (37 bp):
TTTGAAAATGGCTCCCCCTAAACAAAGGCTTTGAAAC
Found at i:16585492 original size:33 final size:33
Alignment explanation
Indices: 16585447--16585764 Score: 124
Period size: 34 Copynumber: 9.5 Consensus size: 33
16585437 TGATGCTAGA
* * * *
16585447 TAAACT-GGCTTAAATTGTCATTGGGTGCCAGT
1 TAAACTGGGCTTAAAATCTCATCGGGTGCCAGG
* *
16585479 TAAGCTGGGCTTAAAATCTCATCGGGTGCTAGG
1 TAAACTGGGCTTAAAATCTCATCGGGTGCCAGG
* *
16585512 TAAACTGGGCTTAAAATCT-ATCTTTGGTGCCAGA
1 TAAACTGGGCTTAAAATCTCATC--GGGTGCCAGG
* * * **
16585546 TAAATTGGGATTAAAATTTTTC-TTTGGTGCCAGG
1 TAAACTGGGCTTAAAA--TCTCATCGGGTGCCAGG
* * * ** *
16585580 TAAATTGGGATTAAAAGTTTTC-TTTGGTGCTAGG
1 TAAACTGGGCTTAAAA--TCTCATCGGGTGCCAGG
* * *** *
16585614 TAAATTGGGCTTAAAATTTTCATCAAATGCTAGG
1 TAAACTGGGCTTAAAA-TCTCATCGGGTGCCAGG
** * ** *
16585648 TAAA-TTAGCTTAAAATCTTTATCAAGTGTCAGG
1 TAAACTGGGCTTAAAATC-TCATCGGGTGCCAGG
* * * * *** *
16585681 TAAATTGAGCTTAAATTTTCATCAAATGCTAGG
1 TAAACTGGGCTTAAAATCTCATCGGGTGCCAGG
** * *
16585714 TAAACTGGGCTTAAAATCTTCATCAAGAGCCAGA
1 TAAACTGGGCTTAAAATC-TCATCGGGTGCCAGG
*
16585748 TAAACTAGGCTTAAAAT
1 TAAACTGGGCTTAAAAT
16585765 TTTCATCAAG
Statistics
Matches: 231, Mismatches: 45, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
32 9 0.04
33 93 0.40
34 126 0.55
36 3 0.01
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.34
Consensus pattern (33 bp):
TAAACTGGGCTTAAAATCTCATCGGGTGCCAGG
Found at i:16585645 original size:34 final size:34
Alignment explanation
Indices: 16585484--16586041 Score: 334
Period size: 34 Copynumber: 16.5 Consensus size: 34
16585474 CCAGTTAAGC
* ** *
16585484 TGGGCTTAAAA-TCTCATCGGGTGCTAGGTAAAC
1 TGGGCTTAAAATTTTCATCAAGTGCTAGGTAAAT
* *** * *
16585517 TGGGCTTAAAATCTATC-TTTGGTGCCAGATAAAT
1 TGGGCTTAAAAT-TTTCATCAAGTGCTAGGTAAAT
* *** *
16585551 TGGGATTAAAATTTTTC-TTTGGTGCCAGGTAAAT
1 TGGGCTTAAAA-TTTTCATCAAGTGCTAGGTAAAT
* ***
16585585 TGGGATTAAAAGTTTTC-TTTGGTGCTAGGTAAAT
1 TGGGCTTAAAA-TTTTCATCAAGTGCTAGGTAAAT
*
16585619 TGGGCTTAAAATTTTCATCAAATGCTAGGTAAAT
1 TGGGCTTAAAATTTTCATCAAGTGCTAGGTAAAT
*
16585653 T-AGCTTAAAATCTTT-ATCAAGTG-TCAGGTAAAT
1 TGGGCTTAAAAT-TTTCATCAAGTGCT-AGGTAAAT
* * *
16585686 TGAGCTT-AAATTTTCATCAAATGCTAGGTAAAC
1 TGGGCTTAAAATTTTCATCAAGTGCTAGGTAAAT
* * * * *
16585719 TGGGCTTAAAATCTTCATCAAGAGCCAGATAAAC
1 TGGGCTTAAAATTTTCATCAAGTGCTAGGTAAAT
* * ** *
16585753 TAGGCTTAAAATTTTCATCAAGGGC-AAATAATT
1 TGGGCTTAAAATTTTCATCAAGTGCTAGGTAAAT
* * *
16585786 TGGGCTTAAAATTTTCATCAAGTGCCAAGTAAAC
1 TGGGCTTAAAATTTTCATCAAGTGCTAGGTAAAT
* ** * * * **
16585820 TGGG-TTTAAATTTTCATTGAGAGATAGCTAAGC
1 TGGGCTTAAAATTTTCATCAAGTGCTAGGTAAAT
* * * *
16585853 TGGGCTTTAAAATCTTT-TTCAAGTGCCAAGTAAAC
1 TGGGC-TTAAAAT-TTTCATCAAGTGCTAGGTAAAT
* * * * * *
16585888 TGGGCTTAAATTTTTCATTATGGGCCAGATAAAT
1 TGGGCTTAAAATTTTCATCAAGTGCTAGGTAAAT
* * * *
16585922 T-GGCTTAAAATTTTCAT-AAGGGAGCCAGCTAAGT
1 TGGGCTTAAAATTTTCATCAA--GTGCTAGGTAAAT
** * *
16585956 TGTGTTTTAAAATCTTCATCAGGTGCTA-GTAAAT
1 TG-GGCTTAAAATTTTCATCAAGTGCTAGGTAAAT
* *
16585990 TAGGCTTAAAATTTTCATCAAGTGCTAAGTAAAT
1 TGGGCTTAAAATTTTCATCAAGTGCTAGGTAAAT
*
16586024 TGGGTTTAAAATTTTCAT
1 TGGGCTTAAAATTTTCAT
16586042 TGAGGACCAA
Statistics
Matches: 420, Mismatches: 84, Indels: 41
0.77 0.15 0.08
Matches are distributed among these distances:
32 5 0.01
33 156 0.37
34 214 0.51
35 28 0.07
36 16 0.04
37 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (34 bp):
TGGGCTTAAAATTTTCATCAAGTGCTAGGTAAAT
Found at i:16585693 original size:67 final size:68
Alignment explanation
Indices: 16585611--16586041 Score: 225
Period size: 67 Copynumber: 6.4 Consensus size: 68
16585601 CTTTGGTGCT
* * * *
16585611 AGGTAAATTGGGCTTAAAATTTTCATCAAATGCTAGGTAAA-TTAGCTTAAAATCTTTATCAAGT
1 AGGTAAATTGAGCTTAAAATTTTCATCAAATGCTAGGTAAACTGAGCTTAAAATCTTCATCAAGA
*
16585675 GTC
66 GCC
*
16585678 AGGTAAATTGAGCTT-AAATTTTCATCAAATGCTAGGTAAACTGGGCTTAAAATCTTCATCAAGA
1 AGGTAAATTGAGCTTAAAATTTTCATCAAATGCTAGGTAAACTGAGCTTAAAATCTTCATCAAGA
16585742 GCC
66 GCC
* * ** ** ** * *
16585745 AGATAAACT-AGGCTTAAAATTTTCATCAAGGGC-AAATAATTTGGGCTTAAAATTTTCATCAAG
1 AGGTAAATTGA-GCTTAAAATTTTCATCAAATGCTAGGTAAACTGAGCTTAAAATCTTCATCAAG
*
16585808 TGCC
65 AGCC
* * * * * * * * * * **
16585812 AAGTAAACTG-GGTTTAAATTTTCATTGAGA-GATAGCTAAGCTGGGCTTTAAAATCTTTTTCAA
1 AGGTAAATTGAGCTTAAAATTTTCA-TCAAATGCTAGGTAAACTGAGC-TTAAAATCTTCATCAA
*
16585875 GTGCC
64 GAGCC
* * * * * *** * * * *
16585880 AAGTAAACTGGGCTTAAATTTTTCATTATGGGCCAGATAAATTG-GCTTAAAATTTTCAT-AAGG
1 AGGTAAATTGAGCTTAAAATTTTCATCAAATGCTAGGTAAACTGAGCTTAAAATCTTCATCAA--
16585943 GAGCC
64 GAGCC
* * * * * ** * *
16585948 AGCTAAGTTGTGTTTTAAAATCTTCATCAGGTGCTA-GTAAA-TTAGGCTTAAAATTTTCATCAA
1 AGGTAAATTGAG-CTTAAAATTTTCATCAAATGCTAGGTAAACTGA-GCTTAAAATCTTCATCAA
* *
16586011 GTGCT
64 GAGCC
* * *
16586016 AAGTAAATTGGGTTTAAAATTTTCAT
1 AGGTAAATTGAGCTTAAAATTTTCAT
16586042 TGAGGACCAA
Statistics
Matches: 282, Mismatches: 67, Indels: 30
0.74 0.18 0.08
Matches are distributed among these distances:
66 41 0.15
67 116 0.41
68 73 0.26
69 50 0.18
70 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (68 bp):
AGGTAAATTGAGCTTAAAATTTTCATCAAATGCTAGGTAAACTGAGCTTAAAATCTTCATCAAGA
GCC
Found at i:16585765 original size:134 final size:135
Alignment explanation
Indices: 16585621--16585938 Score: 324
Period size: 134 Copynumber: 2.4 Consensus size: 135
16585611 AGGTAAATTG
* ** * *
16585621 GGCTTAAAATTTTCATCAAATGCTAGGTAAATT-AGCTTAAAATCTTT-ATCAAGTGTCAGGTAA
1 GGCTTAAAATTTTCATCAAAGGC-AAATAAATTGAGCTTAAAAT-TTTCATCAAGTGCCAAGTAA
* * *
16585684 ATTGAGCTTAAATTTTCA-TCAAATGCTAGGTAAACTGGGC-TTAAAATCTTCATCAAGAGCC-A
64 ACTGAGCTTAAATTTTCATTCAAA-GATAGCTAAACTGGGCTTTAAAATCTTCATCAAGAGCCAA
16585746 GATAAACTA
128 G-TAAACTA
* * *
16585755 GGCTTAAAATTTTCATCAAGGGCAAATAATTTGGGCTTAAAATTTTCATCAAGTGCCAAGTAAAC
1 GGCTTAAAATTTTCATCAAAGGCAAATAAATTGAGCTTAAAATTTTCATCAAGTGCCAAGTAAAC
* * * * * ** *
16585820 TGGGTTTAAATTTTCATTGAGAGATAGCTAAGCTGGGCTTTAAAATCTTTTTCAAGTGCCAAGTA
66 TGAGCTTAAATTTTCATTCAAAGATAGCTAAACTGGGCTTTAAAATCTTCATCAAGAGCCAAGTA
*
16585885 AACTG
131 AACTA
* * ** *
16585890 GGCTTAAATTTTTCATTATGGGCCAGATAAATTG-GCTTAAAATTTTCAT
1 GGCTTAAAATTTTCATCAAAGG-CAAATAAATTGAGCTTAAAATTTTCAT
16585939 AAGGGAGCCA
Statistics
Matches: 153, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
133 9 0.06
134 72 0.47
135 61 0.40
136 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (135 bp):
GGCTTAAAATTTTCATCAAAGGCAAATAAATTGAGCTTAAAATTTTCATCAAGTGCCAAGTAAAC
TGAGCTTAAATTTTCATTCAAAGATAGCTAAACTGGGCTTTAAAATCTTCATCAAGAGCCAAGTA
AACTA
Found at i:16585797 original size:33 final size:34
Alignment explanation
Indices: 16585614--16586041 Score: 185
Period size: 33 Copynumber: 12.7 Consensus size: 34
16585604 TGGTGCTAGG
* * **
16585614 TAAATTGGGCTTAAAATTTTCATCAA-ATGCTAGG
1 TAAACTGGGCTTAAAATTTTCATCAAGA-GCCAAA
** * * **
16585648 TAAA-TTAGCTTAAAATCTTT-ATCAAGTGTCAGG
1 TAAACTGGGCTTAAAAT-TTTCATCAAGAGCCAAA
* * * **
16585681 TAAATTGAGCTT-AAATTTTCATCAA-ATGCTAGG
1 TAAACTGGGCTTAAAATTTTCATCAAGA-GCCAAA
* *
16585714 TAAACTGGGCTTAAAATCTTCATCAAGAGCCAGA
1 TAAACTGGGCTTAAAATTTTCATCAAGAGCCAAA
* *
16585748 TAAACTAGGCTTAAAATTTTCATCAAG-GGCAAA
1 TAAACTGGGCTTAAAATTTTCATCAAGAGCCAAA
** * *
16585781 TAATTTGGGCTTAAAATTTTCATCAAGTGCCAAG
1 TAAACTGGGCTTAAAATTTTCATCAAGAGCCAAA
* ** ** **
16585815 TAAACTGGG-TTTAAATTTTCATTGAGAGATAGC
1 TAAACTGGGCTTAAAATTTTCATCAAGAGCCAAA
* * * *
16585848 TAAGCTGGGCTTTAAAATCTTT-TTCAAGTGCCAAG
1 TAAACTGGGC-TTAAAAT-TTTCATCAAGAGCCAAA
* * * * *
16585883 TAAACTGGGCTTAAATTTTTCATTATGGGCCAGA
1 TAAACTGGGCTTAAAATTTTCATCAAGAGCCAAA
* **
16585917 TAAA-TTGGCTTAAAATTTTCAT-AAGGGAGCCAGC
1 TAAACTGGGCTTAAAATTTTCATCAA--GAGCCAAA
** ** * * * * *
16585951 TAAGTTGTGTTTTAAAATCTTCATCAGGTG-CTAG
1 TAAACTG-GGCTTAAAATTTTCATCAAGAGCCAAA
* * * * *
16585985 TAAATTAGGCTTAAAATTTTCATCAAGTGCTAAG
1 TAAACTGGGCTTAAAATTTTCATCAAGAGCCAAA
* *
16586019 TAAATTGGGTTTAAAATTTTCAT
1 TAAACTGGGCTTAAAATTTTCAT
16586042 TGAGGACCAA
Statistics
Matches: 300, Mismatches: 76, Indels: 36
0.73 0.18 0.09
Matches are distributed among these distances:
32 4 0.01
33 135 0.45
34 120 0.40
35 24 0.08
36 16 0.05
37 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (34 bp):
TAAACTGGGCTTAAAATTTTCATCAAGAGCCAAA
Found at i:16587873 original size:12 final size:12
Alignment explanation
Indices: 16587856--16587898 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
16587846 TAATCATTTT
*
16587856 TCTTTTTGTTTC
1 TCTTTTTGTTTA
* *
16587868 TCTTTTTTTTTT
1 TCTTTTTGTTTA
*
16587880 TTTTTTTGTTTA
1 TCTTTTTGTTTA
16587892 TCTTTTT
1 TCTTTTT
16587899 TAACATGTCT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.02, C:0.09, G:0.05, T:0.84
Consensus pattern (12 bp):
TCTTTTTGTTTA
Found at i:16587880 original size:24 final size:24
Alignment explanation
Indices: 16587852--16587899 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
16587842 GTCATAATCA
*
16587852 TTTTTCTTTTTGTTTCTCTTTTTT
1 TTTTTCTTTTTGTTTATCTTTTTT
*
16587876 TTTTTTTTTTTGTTTATCTTTTTT
1 TTTTTCTTTTTGTTTATCTTTTTT
16587900 AACATGTCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.02, C:0.08, G:0.04, T:0.85
Consensus pattern (24 bp):
TTTTTCTTTTTGTTTATCTTTTTT
Found at i:16591942 original size:35 final size:30
Alignment explanation
Indices: 16591869--16591931 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
16591859 ATAAAATGAT
16591869 ATGCATGTACTATCCATTGATGTGGATGGG
1 ATGCATGTACTATCCATTGATGTGGATGGG
*
16591899 ATGCATGTACTATCTATTGATGTGGATGGG
1 ATGCATGTACTATCCATTGATGTGGATGGG
16591929 ATG
1 ATG
16591932 TAATGCATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.11, G:0.30, T:0.35
Consensus pattern (30 bp):
ATGCATGTACTATCCATTGATGTGGATGGG
Found at i:16594223 original size:10 final size:10
Alignment explanation
Indices: 16594197--16594230 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
16594187 TTGTTATTCA
16594197 TTTTAATTAT
1 TTTTAATTAT
*
16594207 GTTTTAATCAT
1 -TTTTAATTAT
16594218 TTTTAATTAT
1 TTTTAATTAT
16594228 TTT
1 TTT
16594231 CCAATTATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (10 bp):
TTTTAATTAT
Found at i:16596400 original size:145 final size:143
Alignment explanation
Indices: 16596132--16596592 Score: 493
Period size: 145 Copynumber: 3.2 Consensus size: 143
16596122 GCTATAATTC
* * * * * *
16596132 AAAAATCATGAAATATTATAAAATTAAAATCTGAAAA-GTTTCACGAAAATC-CATCCTAGGGAA
1 AAAAATCATGAAATATTATAAAATTAAAATCTAAAAATGTTTTATGAAAATCTGA-GCTATGGAA
* *
16596195 GGTGAAATTACGAAAATACCATTATAAGGGCATTTTAGTAATTTTACACTTTT-TAGGGTACTGC
65 GG-GAAATTAC-AAAATACCCTTATAAGGG-TTTTTAGTAATTTTACACTTTTATA-GGTACTGC
* *
16596259 TGTGATTTCAAATACACC
126 TGTGATTTCAAATGCACA
* *
16596277 AAAAATCATGAAATATTATAAAATTAACATCT-AAAATGTTTTATGAAAATCTGAGCTTTGGAAG
1 AAAAATCATGAAATATTATAAAATTAAAATCTAAAAATGTTTTATGAAAATCTGAGCTATGGAAG
* * *
16596341 GGCAAATTACAAAATATCCCCTAAAAGGTGTTTTTAATAATTTTACACTTTTATAGGTACTGCTG
66 GG-AAATTACAAAATA-CCCTTATAAGG-GTTTTTAGTAATTTTACACTTTTATAGGTACTGCTG
*
16596406 TGATTTCAAATGCAAA
128 TGATTTCAAATGCACA
* * * *
16596422 AAAAACTTATAAAATATTATAAAATTAAGATCTAAAAAT-TTTTATGAAAATCTGAGCTCTGGAA
1 AAAAA-TCATGAAATATTATAAAATTAAAATCTAAAAATGTTTTATGAAAATCTGAGCTATGG-A
* * * * * *
16596486 AAGTAAATTACAAAAGTACCCTTATAAGGGTATTTTGGTTATTTCACACTTTTCA-AGGTATTGC
64 AGGGAAATTACAAAA-TACCCTTATAAGGGT-TTTTAGTAATTTTACACTTTT-ATAGGTACTGC
* *
16596550 TATGATTTGAAATGCACA
126 TGTGATTTCAAATGCACA
* *
16596568 AAAAATTATGAAATATTATGAAATT
1 AAAAATCATGAAATATTATAAAATT
16596593 GTAATCTAGA
Statistics
Matches: 271, Mismatches: 33, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
144 11 0.04
145 134 0.49
146 115 0.42
147 11 0.04
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (143 bp):
AAAAATCATGAAATATTATAAAATTAAAATCTAAAAATGTTTTATGAAAATCTGAGCTATGGAAG
GGAAATTACAAAATACCCTTATAAGGGTTTTTAGTAATTTTACACTTTTATAGGTACTGCTGTGA
TTTCAAATGCACA
Found at i:16596494 original size:146 final size:145
Alignment explanation
Indices: 16596132--16596682 Score: 473
Period size: 145 Copynumber: 3.8 Consensus size: 145
16596122 GCTATAATTC
* * * * * * *
16596132 AAAAATCATGAAATATTATAAAATTAAAATCTGAAAA-GTTTCACGAAAATC-CATC-CTAGGGA
1 AAAAATTATGAAATATTATAAAATTAACATCT-AAAATGTTTTATGAAAATCTGAGCTCT-GGAA
* * ** * *
16596194 AGGTGAAATTACGAAAA-TACCATTATAAGGGCATTTTAGTAATTTTACACTTTT-TAGGGTACT
64 AAG-CAAATTAC-AAAAGTACCCCTAAAAGGGTATTTTAGTAATTTTACACTTTTATA-GGTACT
* *
16596257 GCTGTGATTTCAAATACACC
126 GCTGTGATTTCAAATGCACA
* * **
16596277 AAAAATCATGAAATATTATAAAATTAACATCTAAAATGTTTTATGAAAATCTGAGCTTTGGAAGG
1 AAAAATTATGAAATATTATAAAATTAACATCTAAAATGTTTTATGAAAATCTGAGCTCTGGAAAA
*
16596342 GCAAATTACAAAA-TATCCCCTAAAAGGTGT-TTTTAATAATTTTACACTTTTATAGGTACTGCT
66 GCAAATTACAAAAGTA-CCCCTAAAAGG-GTATTTTAGTAATTTTACACTTTTATAGGTACTGCT
*
16596405 GTGATTTCAAATGCAAA
129 GTGATTTCAAATGCACA
* *
16596422 AAAAACTTATAAAATATTATAAAATTAAGATCTAAAAAT-TTTTATGAAAATCTGAGCTCTGGAA
1 AAAAA-TTATGAAATATTATAAAATTAACATCT-AAAATGTTTTATGAAAATCTGAGCTCTGGAA
* * * * * * *
16596486 AAGTAAATTACAAAAGTACCCTTATAAGGGTATTTTGGTTATTTCACACTTTTCA-AGGTATTGC
64 AAGCAAATTACAAAAGTACCCCTAAAAGGGTATTTTAGTAATTTTACACTTTT-ATAGGTACTGC
* *
16596550 TATGATTTGAAATGCACA
128 TGTGATTTCAAATGCACA
* * * * * *
16596568 AAAAATTATGAAATATTATGAAATTGTA-ATCTAGAAAT-TTTCATAAAAAT-TCAAGCT-TAGA
1 AAAAATTATGAAATATTATAAAATT-AACATCTA-AAATGTTTTATGAAAATCT-GAGCTCTGGA
* * * * *
16596629 AAGGCCAAATTATGAAAA-TACCTCATGAAAGGGTATTTTAGTAATTTTATACTT
63 AAAG-CAAATTA-CAAAAGTACC-CCTAAAAGGGTATTTTAGTAATTTTACACTT
16596683 CCTCTAGTGC
Statistics
Matches: 338, Mismatches: 51, Indels: 33
0.80 0.12 0.08
Matches are distributed among these distances:
144 18 0.05
145 158 0.47
146 153 0.45
147 9 0.03
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (145 bp):
AAAAATTATGAAATATTATAAAATTAACATCTAAAATGTTTTATGAAAATCTGAGCTCTGGAAAA
GCAAATTACAAAAGTACCCCTAAAAGGGTATTTTAGTAATTTTACACTTTTATAGGTACTGCTGT
GATTTCAAATGCACA
Found at i:16600354 original size:3 final size:3
Alignment explanation
Indices: 16600346--16600377 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
16600336 GCCTTTTTAC
*
16600346 ATT ATT ATT ATT ATT ATT ATG ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
16600378 AGGATTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:16602879 original size:16 final size:16
Alignment explanation
Indices: 16602858--16602889 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16602848 TCTGATACCA
*
16602858 TATCTTGTTTGTCAAT
1 TATCTTATTTGTCAAT
16602874 TATCTTATTTGTCAAT
1 TATCTTATTTGTCAAT
16602890 ACCTTTCAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.12, G:0.09, T:0.56
Consensus pattern (16 bp):
TATCTTATTTGTCAAT
Found at i:16607955 original size:15 final size:15
Alignment explanation
Indices: 16607937--16607982 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
16607927 ATTTGTTTTG
16607937 TAAAAATAACAAAT-A
1 TAAAAATAA-AAATAA
16607952 TAAAAATATAAAATAA
1 TAAAAATA-AAAATAA
*
16607968 TAAAAATAATAATAA
1 TAAAAATAAAAATAA
16607983 CAAATTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 18 0.64
16 10 0.36
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAAAATAAAAATAA
Found at i:16607987 original size:22 final size:22
Alignment explanation
Indices: 16607939--16607981 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
16607929 TTGTTTTGTA
*
16607939 AAAATAACAAATATAAAAATAT
1 AAAATAACAAAAATAAAAATAT
* *
16607961 AAAATAATAAAAATAATAATA
1 AAAATAACAAAAATAAAAATA
16607982 ACAAATTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAATAACAAAAATAAAAATAT
Found at i:16609798 original size:24 final size:24
Alignment explanation
Indices: 16609762--16609813 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
16609752 TTAACCCAAT
* *
16609762 AAAAACTCAACAAATATATGACAA
1 AAAAACCCAACAAATATATAACAA
* *
16609786 AAAAACCCCACAAATCTATAACAA
1 AAAAACCCAACAAATATATAACAA
16609810 AAAA
1 AAAA
16609814 TTTAACAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.63, C:0.21, G:0.02, T:0.13
Consensus pattern (24 bp):
AAAAACCCAACAAATATATAACAA
Found at i:16609821 original size:12 final size:12
Alignment explanation
Indices: 16609804--16609853 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
16609794 CACAAATCTA
*
16609804 TAACAAAAAATT
1 TAACAAAAAACT
*
16609816 TAACAATAAACT
1 TAACAAAAAACT
*
16609828 CAACAAAAATACT
1 TAACAAAAA-ACT
*
16609841 AAACAAAAAACT
1 TAACAAAAAACT
16609853 T
1 T
16609854 GAAAAAATGG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
12 20 0.65
13 11 0.35
ACGTcount: A:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (12 bp):
TAACAAAAAACT
Found at i:16613153 original size:14 final size:14
Alignment explanation
Indices: 16613136--16613166 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
16613126 TAGACACCAA
16613136 GAGAATAGCTAAGT
1 GAGAATAGCTAAGT
16613150 GAGAATAGCTAAGT
1 GAGAATAGCTAAGT
16613164 GAG
1 GAG
16613167 TAGGCTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.32, T:0.19
Consensus pattern (14 bp):
GAGAATAGCTAAGT
Found at i:16621935 original size:2 final size:2
Alignment explanation
Indices: 16621928--16621956 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16621918 CATGGATGTT
16621928 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16621957 TTAATCATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16623600 original size:144 final size:141
Alignment explanation
Indices: 16623204--16623610 Score: 421
Period size: 144 Copynumber: 2.8 Consensus size: 141
16623194 CATTTTTGGG
* *
16623204 ATTTTAAA-ACACCAAAAATCATGAAATATTATGAAATTGAGATCTAAAAAGTTTCATGAAAATC
1 ATTTTAAATACACCAAAAATCATGAAATATTATGAAATTGATAT-TAAAAAGTTTCATGAAAATT
* * * *
16623268 CAAGCTCGAAAGGTCAAATTACGAAAATACCCCTTTAGAGATATTTTGATAATTTCACACCTTTC
65 CAAGCTCGAAAGGTCAAATTACGAAAATACCCATTAAGAG-TATTTTAATAATTTCACACCTTTA
* *
16623333 GGGATACTACTGT
129 GGGATACGACTAT
* * * * *
16623346 GTTTTCAAATGCACTGAAAAA-CATGAAATATTATAAAATAAAGATA-TAAAAAGTTTCAT-AAA
1 ATTTT-AAATACAC-CAAAAATCATGAAATATTATGAAAT--TGATATTAAAAAGTTTCATGAAA
* ** * *
16623408 AATCTAAGCTCGAGAAGGTCAAATTACGAAAATACCTTTTAAGGGTATTTTAATAATTTCACACT
62 ATTC-AAGCTCGA-AAGGTCAAATTACGAAAATACCCATTAAGAGTATTTTAATAATTTCACACC
16623473 TATTAGGG-TACGACTAT
125 T-TTAGGGATACGACTAT
* *
16623490 AATTTTAAATAAACCAAAAATCATGAAATATTATGAAATTGATACTTGAAAAGTTTCATGAAAAT
1 -ATTTTAAATACACCAAAAATCATGAAATATTATGAAATTGATA-TTAAAAAGTTTCATGAAAAT
* * * * * *
16623555 TCAAGCTCAATAATGTCAAATTAC-AAAAAATCCCATAAAAAGTATTTTAGTAATTT
64 TCAAGCTCGA-AAGGTCAAATTACGAAAATA-CCCATTAAGAGTATTTTAATAATTT
16623611 TGCACATCTC
Statistics
Matches: 216, Mismatches: 35, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
142 8 0.04
143 18 0.08
144 140 0.65
145 47 0.22
146 3 0.01
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (141 bp):
ATTTTAAATACACCAAAAATCATGAAATATTATGAAATTGATATTAAAAAGTTTCATGAAAATTC
AAGCTCGAAAGGTCAAATTACGAAAATACCCATTAAGAGTATTTTAATAATTTCACACCTTTAGG
GATACGACTAT
Found at i:16624410 original size:93 final size:92
Alignment explanation
Indices: 16624301--16624469 Score: 250
Period size: 93 Copynumber: 1.8 Consensus size: 92
16624291 TTATGCCTGT
16624301 AGGTCTTAAAAATCTCAAAATATTTGAATGCTCCTCCCAATCAAAGGCATTGAAACATT-AAAAT
1 AGGTCTTAAAAATCTCAAAATATTTGAATGCTCCT-CCAATCAAAGGCATTGAAACATTAAAAAT
16624365 TTTAAAATGTTTTCAGAAATTATATTGAG
65 TTT-AAATGTTTTCAGAAATTATATTGAG
* * * * * * *
16624394 AGGTCTTATAAATCTCAATATCTTTGAATGCTTCTCCAATCAGAGGCATTGGAACTTTAAAAATT
1 AGGTCTTAAAAATCTCAAAATATTTGAATGCTCCTCCAATCAAAGGCATTGAAACATTAAAAATT
16624459 TTAAATGTTTT
66 TTAAATGTTTT
16624470 GCTCAAAAGT
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
92 29 0.43
93 39 0.57
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.36
Consensus pattern (92 bp):
AGGTCTTAAAAATCTCAAAATATTTGAATGCTCCTCCAATCAAAGGCATTGAAACATTAAAAATT
TTAAATGTTTTCAGAAATTATATTGAG
Found at i:16624532 original size:197 final size:198
Alignment explanation
Indices: 16624196--16624574 Score: 505
Period size: 197 Copynumber: 1.9 Consensus size: 198
16624186 ATCATGCCAA
* *
16624196 AGGTCTTATAAATTTTAAAATCTTTGAATGCTCCTCCCAATCAGAGGCATTGAAACTTTAAAAAT
1 AGGTCTTATAAATCTCAAAATCTTTGAATGCTCCTCCCAATCAGAGGCATTGAAACTTTAAAAAT
* * * *
16624261 TTAAAATGGCTTACCCAAAGATCTTGGAGATTATGCCTGTAGGTCTTAAAAATCTCAAAATATTT
66 TTAAAATGGCTTACCAAAAGATCTTGGAAATTATGCCAGTAAGTCTTAAAAATCTCAAAATATTT
16624326 GAATGCTCCTCCCAATCAAAGGCATTGAAACATT-AAAATTTTAAAATGTTTTCAGAAATTATAT
131 GAATGCTCCTCCCAATCAAAGGCATTGAAACATTGAAAA-TTTAAAATGTTTTCAGAAATTATAT
16624390 TGAG
195 TGAG
* * *
16624394 AGGTCTTATAAATCTCAATATCTTTGAATGCTTCT-CCAATCAGAGGCATTGGAACTTTAAAAAT
1 AGGTCTTATAAATCTCAAAATCTTTGAATGCTCCTCCCAATCAGAGGCATTGAAACTTTAAAAAT
* ** * ** * *
16624458 TTTAAATGTTTTGCTCAAAAG-TCTTGGAAATTATGCCCAG-AAGTCTTAAAAATCTTGACATCT
66 TTAAAATGGCTTAC-CAAAAGATCTTGGAAATTATG-CCAGTAAGTCTTAAAAATCTCAAAATAT
* * * * *
16624521 TTGAATGCTCCTCCCAATTAGAGGCATTGAGACTTTGAAAATTTATAATGTTTT
129 TTGAATGCTCCTCCCAATCAAAGGCATTGAAACATTGAAAATTTAAAATGTTTT
16624575 GCTCAGAGGT
Statistics
Matches: 156, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
197 113 0.72
198 43 0.28
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (198 bp):
AGGTCTTATAAATCTCAAAATCTTTGAATGCTCCTCCCAATCAGAGGCATTGAAACTTTAAAAAT
TTAAAATGGCTTACCAAAAGATCTTGGAAATTATGCCAGTAAGTCTTAAAAATCTCAAAATATTT
GAATGCTCCTCCCAATCAAAGGCATTGAAACATTGAAAATTTAAAATGTTTTCAGAAATTATATT
GAG
Found at i:16624572 original size:105 final size:104
Alignment explanation
Indices: 16624396--16624641 Score: 300
Period size: 105 Copynumber: 2.4 Consensus size: 104
16624386 ATATTGAGAG
* * * *
16624396 GTCTTATAAATCTCAATATCTTTGAATGCTTCTCCAATCAGAGGCATTGGAACTTTAAAAATTTT
1 GTCTTAAAAATCTCGACATCTTTGAATGCTCCTCCAATCAGAGGCATTGGAACTTTAAAAATTTT
* *
16624461 AAATGTTTTGCTCAAAAGTCTTGGAA-ATTATGCCCAGAA
66 AAATGTTTTGCTCAAAAGTCTT-AAAGATTATGCCCAAAA
* * *
16624500 GTCTTAAAAATCTTGACATCTTTGAATGCTCCTCCCAATTAGAGGCATT-GAGACTTTGAAAA-T
1 GTCTTAAAAATCTCGACATCTTTGAATGCTCCT-CCAATCAGAGGCATTGGA-ACTTTAAAAATT
* * *
16624563 TTATAATGTTTTGCTCAGAGGTCTTAAAGATTATGCTCAAAA
64 TTA-AATGTTTTGCTCAAAAGTCTTAAAGATTATGCCCAAAA
* * *
16624605 GTTTTACAAATCTCGACATCTTTGAATGCTCTTCCAA
1 GTCTTAAAAATCTCGACATCTTTGAATGCTCCTCCAA
16624642 ATCTTGACAT
Statistics
Matches: 122, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
104 40 0.33
105 82 0.67
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (104 bp):
GTCTTAAAAATCTCGACATCTTTGAATGCTCCTCCAATCAGAGGCATTGGAACTTTAAAAATTTT
AAATGTTTTGCTCAAAAGTCTTAAAGATTATGCCCAAAA
Found at i:16624651 original size:28 final size:28
Alignment explanation
Indices: 16624611--16624695 Score: 161
Period size: 28 Copynumber: 3.0 Consensus size: 28
16624601 AAAAGTTTTA
*
16624611 CAAATCTCGACATCTTTGAATGCTCTTC
1 CAAATCTTGACATCTTTGAATGCTCTTC
16624639 CAAATCTTGACATCTTTGAATGCTCTTC
1 CAAATCTTGACATCTTTGAATGCTCTTC
16624667 CAAATCTTGACATCTTTGAATGCTCTTC
1 CAAATCTTGACATCTTTGAATGCTCTTC
16624695 C
1 C
16624696 CAATTAGAAG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.25, C:0.27, G:0.11, T:0.38
Consensus pattern (28 bp):
CAAATCTTGACATCTTTGAATGCTCTTC
Found at i:16624772 original size:161 final size:160
Alignment explanation
Indices: 16624507--16624808 Score: 505
Period size: 161 Copynumber: 1.9 Consensus size: 160
16624497 GAAGTCTTAA
* *
16624507 AAATCTTGACATCTTTGAATGCTCCTCCCAATTAGAGGCATTGAGACTTTGAAAATTTATAATGT
1 AAATCTTGACATCTTTGAATGCTCCTCCCAATTAGAAGCATTGAAACTTTGAAAATTTATAATGT
* * *
16624572 TTTGCTCAGAGGTCTTAAAGATTATGCTCAAAAGTTTTACAAATCTCGACATCTTTGAATGCTCT
66 TGTGCTCAGAGGTCTTAAAGATTATGCCCAAAAGTTTTACAAATCTCAACATCTTTGAATGCTCT
16624637 TCCAAATCTTGACATCTTTGAATGCTCTTCC
131 TCCAAAT-TTGACATCTTTGAATGCTCTTCC
*
16624668 AAATCTTGACATCTTTGAATGCTCTTCCCAATTAGAAGCATTGAAACTTTGAAAATTTATAATGT
1 AAATCTTGACATCTTTGAATGCTCCTCCCAATTAGAAGCATTGAAACTTTGAAAATTTATAATGT
** *
16624733 TGTGCTCAGAGGTCTTGGAGATTATGCCCGAAAGTTTTACAAATCTCAACATCTTTGAATGCTCT
66 TGTGCTCAGAGGTCTTAAAGATTATGCCCAAAAGTTTTACAAATCTCAACATCTTTGAATGCTCT
*
16624798 TCCCAATTTGA
131 TCCAAATTTGA
16624809 GGCATTGAGA
Statistics
Matches: 131, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
160 4 0.03
161 127 0.97
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (160 bp):
AAATCTTGACATCTTTGAATGCTCCTCCCAATTAGAAGCATTGAAACTTTGAAAATTTATAATGT
TGTGCTCAGAGGTCTTAAAGATTATGCCCAAAAGTTTTACAAATCTCAACATCTTTGAATGCTCT
TCCAAATTTGACATCTTTGAATGCTCTTCC
Found at i:16624853 original size:105 final size:105
Alignment explanation
Indices: 16624667--16624856 Score: 267
Period size: 105 Copynumber: 1.8 Consensus size: 105
16624657 AATGCTCTTC
** *
16624667 CAAATCTTGACATCTTTGAATGCTCTTCCCAATTAGAAGCATTGAAACTTTGAAAATTTATAATG
1 CAAATCTCAACATCTTTGAATGCTCTTCCCAATTAGAAGCATTGAAACTTTGAAAATTTAAAATG
* *
16624732 TTGTGCTCAGAGGTCTTGGAGATTATGCCCGAAAGTTTTA
66 TTGTGCCCAGAAGTCTTGGAGATTATGCCCGAAAGTTTTA
* * * *
16624772 CAAATCTCAACATCTTTGAATGCTCTTCCCAATTTGAGGCATTGAGATTTTGAAAATTTAAAATG
1 CAAATCTCAACATCTTTGAATGCTCTTCCCAATTAGAAGCATTGAAACTTTGAAAATTTAAAAT-
16624837 GTT-TGCCC-GAAAGTCTTGGA
65 GTTGTGCCCAG-AAGTCTTGGA
16624857 AATCTCAAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
104 1 0.01
105 70 0.95
106 3 0.04
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Consensus pattern (105 bp):
CAAATCTCAACATCTTTGAATGCTCTTCCCAATTAGAAGCATTGAAACTTTGAAAATTTAAAATG
TTGTGCCCAGAAGTCTTGGAGATTATGCCCGAAAGTTTTA
Found at i:16625537 original size:55 final size:55
Alignment explanation
Indices: 16625428--16625556 Score: 156
Period size: 55 Copynumber: 2.4 Consensus size: 55
16625418 TCTTATACAA
* *
16625428 GTGCAAATGCAAGTGATGCAAATGAAAATGTCTTTCTTATGATATAAATACAAGC
1 GTGCAAATACAAGTGATGCAAATGAAAATGTCTTTCTTATGATACAAATACAAGC
* * * * *
16625483 GATGCAAATACAAGTGATG-AAATGCAAATGTCTTTTTTATGATGCATATGCAAGC
1 G-TGCAAATACAAGTGATGCAAATGAAAATGTCTTTCTTATGATACAAATACAAGC
*
16625538 GTG--AATATAAGTGATGCAA
1 GTGCAAATACAAGTGATGCAA
16625557 GCGTGAATAT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
52 12 0.19
53 2 0.03
54 2 0.03
55 32 0.50
56 16 0.25
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (55 bp):
GTGCAAATACAAGTGATGCAAATGAAAATGTCTTTCTTATGATACAAATACAAGC
Found at i:16625554 original size:27 final size:25
Alignment explanation
Indices: 16625521--16625583 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 25
16625511 TGTCTTTTTT
16625521 ATGATGCATATGCAAGCGTGAATATA
1 ATGATGCA-ATGCAAGCGTGAATATA
16625547 A-G-TG--ATGCAAGCGTGAATATA
1 ATGATGCAATGCAAGCGTGAATATA
16625568 AGTGATGCAAGTGCAA
1 A-TGATGCAA-TGCAA
16625584 ATGTCCTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
21 18 0.58
23 1 0.03
24 4 0.13
25 1 0.03
26 2 0.06
27 5 0.16
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.24
Consensus pattern (25 bp):
ATGATGCAATGCAAGCGTGAATATA
Found at i:16625556 original size:21 final size:21
Alignment explanation
Indices: 16625530--16625578 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
16625520 TATGATGCAT
16625530 ATGCAAGCGTGAATATAAGTG
1 ATGCAAGCGTGAATATAAGTG
16625551 ATGCAAGCGTGAATATAAGTG
1 ATGCAAGCGTGAATATAAGTG
16625572 ATGCAAG
1 ATGCAAG
16625579 TGCAAATGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.39, C:0.10, G:0.29, T:0.22
Consensus pattern (21 bp):
ATGCAAGCGTGAATATAAGTG
Found at i:16626041 original size:19 final size:18
Alignment explanation
Indices: 16626016--16626055 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
16626006 AATTCAAAGA
16626016 CTTTTTTTT-T-TCATTT
1 CTTTTTTTTATCTCATTT
16626032 CATTTTTTTTATCTCATTT
1 C-TTTTTTTTATCTCATTT
16626051 CTTTT
1 CTTTT
16626056 CAAAAAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 1 0.05
17 8 0.38
18 5 0.24
19 7 0.33
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (18 bp):
CTTTTTTTTATCTCATTT
Found at i:16628257 original size:16 final size:16
Alignment explanation
Indices: 16628236--16628266 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16628226 TCTCTTTGTT
16628236 TTTGTTTTCATTTTTA
1 TTTGTTTTCATTTTTA
*
16628252 TTTGTTTTTATTTTT
1 TTTGTTTTCATTTTT
16628267 TTATTTACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.03, G:0.06, T:0.81
Consensus pattern (16 bp):
TTTGTTTTCATTTTTA
Found at i:16649008 original size:16 final size:16
Alignment explanation
Indices: 16648987--16649017 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
16648977 AGAATCCACC
16648987 TGGACTTTCTAACATT
1 TGGACTTTCTAACATT
16649003 TGGACTTTCTAACAT
1 TGGACTTTCTAACAT
16649018 CAAAGCAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (16 bp):
TGGACTTTCTAACATT
Found at i:16649421 original size:3 final size:3
Alignment explanation
Indices: 16649413--16649471 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
16649403 CTTGCTTACT
16649413 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16649461 TTA TTA TTA TT
1 TTA TTA TTA TT
16649472 GCTTGCATAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:16651214 original size:142 final size:144
Alignment explanation
Indices: 16650957--16651425 Score: 467
Period size: 142 Copynumber: 3.3 Consensus size: 144
16650947 AGAAGAGCAA
* ** * **
16650957 AATTATCAAAATATCCTTATAAGGGTATTTTTATAATTTGATCTTT-TCGAGCTCAGATTTTTGT
1 AATTATCAAAATACCCTTATAAGGGTATTTTCGTAATTT-AACTTTCTCGAGCTTGGATTTTTGT
* * * *
16651021 GAAA-TTTTTTAGTTTTAATTTTATAATATTTTATGAATTTTT-ATGCATTTAAAATCACAGTAG
65 GAAACTTTTTAAATTTTAATTTTATAATATTTCATGAATTTTTGGTGCATTTAAAATCACAGTAG
16651084 TACCCTGGTAAGGGT
130 TACCCTGGTAAGGGT
* *
16651099 AATTACCAAAATACTCTTATAAGGGTA-TTTCGTAATTTAACTTTCTCGAGCTTGGATTTTTGTG
1 AATTATCAAAATACCCTTATAAGGGTATTTTCGTAATTTAACTTTCTCGAGCTTGGATTTTTGTG
16651163 AAACTTTTTAAATTTTAATTTTATAATATTTCATG-ATTTTTGGTG-AGTTTAAAATCACAGTAG
66 AAACTTTTTAAATTTTAATTTTATAATATTTCATGAATTTTTGGTGCA-TTTAAAATCACAGTAG
* *
16651226 TACCCCGAG-AAGTGTGG
130 TACCCTG-GTAAG-G-GT
* * * * * * * **
16651243 AATTATTAAAATACCCTT-TAAGGGATACTTTCGTAAATTGACCTTTC-CAAACTTGGAATTTCA
1 AATTATCAAAATACCCTTATAAGGG-TATTTTCGT-AATTTAACTTTCTCGAGCTTGGATTTTTG
* * * * * * * * *
16651306 TAAAACTTTTCAGATCTTAATTTCATAATATTTCA-GAATTTTTGGTGTATCTGAAATCATAGTA
64 TGAAACTTTTTAAATTTTAATTTTATAATATTTCATGAATTTTTGGTGCATTTAAAATCACAGTA
*
16651370 GTATCCT--TAAGGGGT
129 GTACCCTGGTAA-GGGT
16651385 AAAATTATCAAAATACCCTTATAAGGGTATTTTCGTAATTT
1 --AATTATCAAAATACCCTTATAAGGGTATTTTCGTAATTT
16651426 GACTATCTTA
Statistics
Matches: 272, Mismatches: 38, Indels: 33
0.79 0.11 0.10
Matches are distributed among these distances:
140 5 0.02
141 36 0.13
142 80 0.29
143 15 0.06
144 45 0.17
145 80 0.29
146 11 0.04
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (144 bp):
AATTATCAAAATACCCTTATAAGGGTATTTTCGTAATTTAACTTTCTCGAGCTTGGATTTTTGTG
AAACTTTTTAAATTTTAATTTTATAATATTTCATGAATTTTTGGTGCATTTAAAATCACAGTAGT
ACCCTGGTAAGGGT
Found at i:16651491 original size:144 final size:140
Alignment explanation
Indices: 16650957--16651506 Score: 461
Period size: 144 Copynumber: 3.9 Consensus size: 140
16650947 AGAAGAGCAA
* ** * ** * *
16650957 AATTATCAAAATATCCTTATAAGGGTATTTTTATAATTTGATCTTT-TCGAGCTCAGATTTTTGT
1 AATTATCAAAATACCCTTATAAGGGTA-TTTCGTAATTTGA-CTTTCTCAAGCTTGGAATTTTAT
* * * * *
16651021 GAAATTTTTTAG-TTTTAATTTTATAATATTTTATGAATTTTT-ATGCATTTAAAATCACAGTAG
64 GAAATTTTTCAGATCTTAATTTCATAATATTTCATGAATTTTTGGTG-ATTTAAAATCACAGTAG
16651084 TACCCTGGTAAGGGT
128 TACCCT--TAAGGGT
* * * * * *
16651099 AATTACCAAAATACTCTTATAAGGGTATTTCGTAATTTAACTTTCTCGAGCTTGGATTTTTGTGA
1 AATTATCAAAATACCCTTATAAGGGTATTTCGTAATTTGACTTTCTCAAGCTTGGAATTTTATGA
* * *
16651164 AACTTTTT-AAATTTTAATTTTATAATATTTCATG-ATTTTTGGTGAGTTTAAAATCACAGTAGT
66 AA-TTTTTCAGATCTTAATTTCATAATATTTCATGAATTTTTGGTGA-TTTAAAATCACAGTAGT
** *
16651227 ACCCCGAGAAGTGTGG
129 A-CCC-TTAAG-G-GT
* * * *
16651243 AATTATTAAAATACCCTT-TAAGGGATACTTTCGTAAATTGACCTTTC-CAAACTTGGAATTTCA
1 AATTATCAAAATACCCTTATAAGGG-TA-TTTCGTAATTTGA-CTTTCTCAAGCTTGGAATTTTA
* * * * *
16651306 TAAAACTTTTCAGATCTTAATTTCATAATATTTCA-GAATTTTTGGTGTATCTGAAATCATAGTA
63 TGAAATTTTTCAGATCTTAATTTCATAATATTTCATGAATTTTTGGTG-ATTTAAAATCACAGTA
*
16651370 GTATCCTTAAGGGGT
127 GTACCCTTAA-GGGT
* * * *
16651385 AAAATTATCAAAATACCCTTATAAGGGTATTTTCGTAATTTGACTATCTTAAGTTTGAAATTTTA
1 --AATTATCAAAATACCCTTATAAGGGTA-TTTCGTAATTTGACTTTCTCAAGCTTGGAATTTTA
* * * ** *
16651450 CGAAATTTTTCCGATCTTAATTTCATAATATTTTATG-ATTTTTAATGTTTTAAAATC
63 TGAAATTTTTCAGATCTTAATTTCATAATATTTCATGAATTTTTGGTGATTTAAAATC
16651507 TCAAAAATGA
Statistics
Matches: 332, Mismatches: 55, Indels: 41
0.78 0.13 0.10
Matches are distributed among these distances:
140 4 0.01
141 38 0.11
142 75 0.23
143 24 0.07
144 106 0.32
145 79 0.24
146 6 0.02
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.43
Consensus pattern (140 bp):
AATTATCAAAATACCCTTATAAGGGTATTTCGTAATTTGACTTTCTCAAGCTTGGAATTTTATGA
AATTTTTCAGATCTTAATTTCATAATATTTCATGAATTTTTGGTGATTTAAAATCACAGTAGTAC
CCTTAAGGGT
Found at i:16653646 original size:3 final size:3
Alignment explanation
Indices: 16653632--16653666 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
16653622 TTATACAAGC
*
16653632 AAT AAA AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
16653667 AGTAAGCAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:16654820 original size:23 final size:24
Alignment explanation
Indices: 16654775--16654820 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
16654765 TCATTAATAA
* *
16654775 TTATTATTTATAAAGAATGTTATT
1 TTATTATTTAGAAAGAATATTATT
*
16654799 TTATT-TTTAGAAATAATATTAT
1 TTATTATTTAGAAAGAATATTAT
16654821 GATGAATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (24 bp):
TTATTATTTAGAAAGAATATTATT
Found at i:16659309 original size:52 final size:53
Alignment explanation
Indices: 16659218--16659321 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 53
16659208 CGCGCGGGTT
* *
16659218 CGGAGCTTAAGTCTCAACCCATGACAAATGGTATCAGAGCCAGCCTTAAACCG
1 CGGAGCTTAAGTCTCAACCCATGACAAACGGTATCAGAGCCAGCCCTAAACCG
* * * *
16659271 CGGAGCTTAAGTCTCGA-CCGTGACAAGCGGTATTAGAGCCAGCCCTAAACC
1 CGGAGCTTAAGTCTCAACCCATGACAAACGGTATCAGAGCCAGCCCTAAACC
16659322 ATTCGATCCA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
52 29 0.64
53 16 0.36
ACGTcount: A:0.30, C:0.29, G:0.23, T:0.18
Consensus pattern (53 bp):
CGGAGCTTAAGTCTCAACCCATGACAAACGGTATCAGAGCCAGCCCTAAACCG
Found at i:16659551 original size:75 final size:76
Alignment explanation
Indices: 16659420--16659566 Score: 199
Period size: 75 Copynumber: 1.9 Consensus size: 76
16659410 GTCACAGACT
* * *
16659420 TAAGGAAGAGTCCTGAATCTCATATTGAACATAATAGGAAAGTCATTGAGGAATAAAA-AGTTCA
1 TAAGGAAGAGTCCTGAATCTCACATCGAACATAATAGGAAAGTCATAGAGGAATAAAAGAGTTCA
16659484 CACCACCGACC
66 CACCACCGACC
* * * * *
16659495 TAAGGAAGAGTCTTGAATCTCACATCGAACATAATATGAAGGTCACTAGA-GTATAAAAGGGTTC
1 TAAGGAAGAGTCCTGAATCTCACATCGAACATAATAGGAAAGTCA-TAGAGGAATAAAAGAGTTC
16659559 ACACCACC
65 ACACCACC
16659567 TCTGCCTTGT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
75 47 0.76
76 15 0.24
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (76 bp):
TAAGGAAGAGTCCTGAATCTCACATCGAACATAATAGGAAAGTCATAGAGGAATAAAAGAGTTCA
CACCACCGACC
Found at i:16669044 original size:28 final size:27
Alignment explanation
Indices: 16669012--16669064 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 27
16669002 ACATTTCGTA
16669012 AATTCATAAATCAATATA-AAAATATGTC
1 AATTCATAAATC-AT-TACAAAATATGTC
16669040 AATTCATAAATCATTACAAAATATG
1 AATTCATAAATCATTACAAAATATG
16669065 CTACCATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 2 0.08
27 10 0.42
28 12 0.50
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.32
Consensus pattern (27 bp):
AATTCATAAATCATTACAAAATATGTC
Found at i:16670704 original size:16 final size:16
Alignment explanation
Indices: 16670685--16670733 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
16670675 TCGATAGTTA
16670685 AATTTTTTTATTTAAT
1 AATTTTTTTATTTAAT
*
16670701 AATTTTTTTATTTATT
1 AATTTTTTTATTTAAT
**
16670717 AATTAATTT-TTTAAT
1 AATTTTTTTATTTAAT
16670732 AA
1 AA
16670734 ATTAATAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 7 0.24
16 22 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
AATTTTTTTATTTAAT
Found at i:16670716 original size:20 final size:19
Alignment explanation
Indices: 16670687--16670728 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
16670677 GATAGTTAAA
16670687 TTTTTTTATTTAA-TAATTT
1 TTTTTTTA-TTAATTAATTT
16670706 TTTTATTTATTAATTAATTT
1 TTTT-TTTATTAATTAATTT
16670726 TTT
1 TTT
16670729 AATAAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTTTATTAATTAATTT
Found at i:16670737 original size:20 final size:20
Alignment explanation
Indices: 16670696--16670739 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
16670686 ATTTTTTTAT
* **
16670696 TTAA-TAATTTTTTTATTTA
1 TTAATTAATTTTTTAATAAA
16670715 TTAATTAATTTTTTAATAAA
1 TTAATTAATTTTTTAATAAA
16670735 TTAAT
1 TTAAT
16670740 AAATATTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTAATTAATTTTTTAATAAA
Found at i:16679998 original size:27 final size:28
Alignment explanation
Indices: 16679967--16680023 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
16679957 ATATTGATTT
16679967 ATGATCTACAAAATA-TTTGACATAATG
1 ATGATCTACAAAATATTTTGACATAATG
* ** *
16679994 ATGATTTTGAAAATATTTTGACATTATG
1 ATGATCTACAAAATATTTTGACATAATG
16680022 AT
1 AT
16680024 TTGATGAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (28 bp):
ATGATCTACAAAATATTTTGACATAATG
Found at i:16683036 original size:71 final size:70
Alignment explanation
Indices: 16682946--16683383 Score: 242
Period size: 73 Copynumber: 6.1 Consensus size: 70
16682936 TATATTTTCA
* * *
16682946 AAATTTTAAAATTTTAACAAAGATC-ATATTTTTAAAATAAAAAATATAGTTGATATTGAAAATT
1 AAATTCTAAAATTTTAACAAAGATCAAT-TTTTTAAAAT-AAAAATATAATAGATATTGAAAATT
16683010 TTTTTTG
64 TTTTTTG
* * *
16683017 AAAGTT-TAAAATTTTAACAAAGAT-AACGTTTTTAAAATAAAAATGTAATGGATATTGAAATCA
1 AAA-TTCTAAAATTTTAACAAAGATCAA-TTTTTTAAAATAAAAATATAATAGATATTGAAA--A
* ** *
16683080 CTCCTTTTA
62 TTTTTTTTG
* * * * * *
16683089 AAATTCTAAAATTTTAACAAAAATCAAGTTTTTTAAGATAAGAGTCATAATAGATGTTGAAACTT
1 AAATTCTAAAATTTTAACAAAGATCAA-TTTTTTAAAATAAAAAT-ATAATAGATATTGAAAATT
*
16683154 TATTCTTG
64 T-TTTTTG
* * * *
16683162 AAATTCTAAAATTTTAACAAA-AGCAACTTTTTTAAAATAAAAAACATAATGGATGTTGAAACCA
1 AAATTCTAAAATTTTAACAAAGATCAA-TTTTTTAAAAT-AAAAATATAATAGATATTGAAA--A
**** *
16683226 CCCCTTTTA
62 TTTTTTTTG
* * ** * * * *
16683235 AAATTCTAGAATTTTAACAAA-AACTGTGTTTTTAAGATAAAAAAATGTAATGGATATTGAAACT
1 AAATTCTAAAATTTTAACAAAGATCAAT-TTTTTAA-A-ATAAAAATATAATAGATATTGAAAAT
* **
16683299 TAATTTTCA
63 T-TTTTTTG
* ** * * * * *
16683308 AAATTCTAAAATTTTAATAAAGA-CCGTATTTTTAAGATAAAAAAGATAATGGGTGTTG-AAATT
1 AAATTCTAAAATTTTAACAAAGATCAAT-TTTTTAAAAT-AAAAATATAATAGATATTGAAAATT
16683371 TTATTTTG
64 TT-TTTTG
16683379 AAATT
1 AAATT
16683384 TTAACAAGGA
Statistics
Matches: 283, Mismatches: 65, Indels: 38
0.73 0.17 0.10
Matches are distributed among these distances:
70 20 0.07
71 47 0.17
72 74 0.26
73 107 0.38
74 34 0.12
75 1 0.00
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.38
Consensus pattern (70 bp):
AAATTCTAAAATTTTAACAAAGATCAATTTTTTAAAATAAAAATATAATAGATATTGAAAATTTT
TTTTG
Found at i:16683120 original size:72 final size:71
Alignment explanation
Indices: 16682940--16683324 Score: 282
Period size: 73 Copynumber: 5.3 Consensus size: 71
16682930 TAAAAGTATA
* * * *
16682940 TTTTCAAAATTTTAAAATTTTAACAAAGATCATA-TTTTTAAAATAAAAAATATAGTTGATATTG
1 TTTT-AAAATTCTAAAATTTTAACAAAAATCA-AGTTTTTAAAAT-AAAAATATAATGGATATTG
* **
16683004 AAA-ATTTT
63 AAACACTCC
* * *
16683012 TTTTGAAAGTT-TAAAATTTTAACAAAGAT-AACGTTTTTAAAATAAAAATGTAATGGATATTGA
1 TTTT-AAAATTCTAAAATTTTAACAAAAATCAA-GTTTTTAAAATAAAAATATAATGGATATTGA
16683075 AATCACTCC
64 AA-CACTCC
* * * * *
16683084 TTTTAAAATTCTAAAATTTTAACAAAAATCAAGTTTTTTAAGATAAGAGTCATAATAGATGTTGA
1 TTTTAAAATTCTAAAATTTTAACAAAAATCAAG-TTTTTAAAATAAAAAT-ATAATGGATATTGA
* **
16683149 AAC-TTTA
64 AACACTCC
* * * * *
16683156 TTCTTGAAATTCTAAAATTTTAAC-AAAAGCAACTTTTTTAAAATAAAAAACATAATGGATGTTG
1 TT-TTAAAATTCTAAAATTTTAACAAAAATCAA-GTTTTTAAAAT-AAAAATATAATGGATATTG
*
16683220 AAACCACCCC
63 AAA-CACTCC
* ** * *
16683230 TTTTAAAATTCTAGAATTTTAACAAAAA-CTGTGTTTTTAAGATAAAAAAATGTAATGGATATTG
1 TTTTAAAATTCTAAAATTTTAACAAAAATC-AAGTTTTTAA-A-ATAAAAATATAATGGATATTG
* **
16683294 AAAC-TTAA
63 AAACACTCC
16683302 TTTTCAAAATTCTAAAATTTTAA
1 TTTT-AAAATTCTAAAATTTTAA
16683325 TAAAGACCGT
Statistics
Matches: 250, Mismatches: 45, Indels: 35
0.76 0.14 0.11
Matches are distributed among these distances:
69 1 0.00
70 20 0.08
71 33 0.13
72 71 0.28
73 85 0.34
74 39 0.16
75 1 0.00
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (71 bp):
TTTTAAAATTCTAAAATTTTAACAAAAATCAAGTTTTTAAAATAAAAATATAATGGATATTGAAA
CACTCC
Found at i:16683248 original size:146 final size:142
Alignment explanation
Indices: 16682940--16683368 Score: 436
Period size: 146 Copynumber: 3.0 Consensus size: 142
16682930 TAAAAGTATA
* * * * * *
16682940 TTTTCAAAATTTTAAAATTTTAACAAAGATCA-TATTTTTAAAATAAAAAATATAGTTGATATTG
1 TTTT-AAAATTCTAAAATTTTAACAAA-AACAGTGTTTTTAAGATAAAAAATATAATAGATATTG
* * * **
16683004 AAAATTTTTTTTGAAAGTT-TAAAATTTTAACAAAGATAACGTTTTTAAAAT-AAAAATGTAATG
64 AAACTTTATTTTGAAA-TTCTAAAATTTTAACAAAG--AACTTTTTTAAAATAAAAAACATAATG
* * *
16683067 GATATTGAAATCACTCC
126 GATGTTGAAACCACCCC
* * *
16683084 TTTTAAAATTCTAAAATTTTAACAAAAATCAAGT-TTTTTAAGAT-AAGAGTCATAATAGATGTT
1 TTTTAAAATTCTAAAATTTTAACAAAAA-C-AGTGTTTTTAAGATAAAAAAT-ATAATAGATATT
16683147 GAAACTTTATTCTTGAAATTCTAAAATTTTAACAAAAGCAACTTTTTTAAAATAAAAAACATAAT
63 GAAACTTTATT-TTGAAATTCTAAAATTTTAAC-AAAG-AACTTTTTTAAAATAAAAAACATAAT
16683212 GGATGTTGAAACCACCCC
125 GGATGTTGAAACCACCCC
* * * *
16683230 TTTTAAAATTCTAGAATTTTAACAAAAACTGTGTTTTTAAGATAAAAAAATGTAATGGATATTGA
1 TTTTAAAATTCTAAAATTTTAACAAAAACAGTGTTTTTAAGAT-AAAAAATATAATAGATATTGA
* * * * * *
16683295 AACTTAATTTTCAAAATTCTAAAATTTTAATAAAGACCGTATTTTTAAGATAAAAAAGATAATGG
65 AACTTTATTTT-GAAATTCTAAAATTTTAACAAAGAAC-T-TTTTTAAAATAAAAAACATAATGG
*
16683360 GTGTTGAAA
127 ATGTTGAAA
16683369 TTTTATTTTG
Statistics
Matches: 240, Mismatches: 31, Indels: 26
0.81 0.10 0.09
Matches are distributed among these distances:
142 1 0.00
143 26 0.11
144 38 0.16
145 50 0.21
146 121 0.50
147 4 0.02
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (142 bp):
TTTTAAAATTCTAAAATTTTAACAAAAACAGTGTTTTTAAGATAAAAAATATAATAGATATTGAA
ACTTTATTTTGAAATTCTAAAATTTTAACAAAGAACTTTTTTAAAATAAAAAACATAATGGATGT
TGAAACCACCCC
Found at i:16683564 original size:37 final size:37
Alignment explanation
Indices: 16683514--16683597 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
16683504 CAAAATTAAA
*
16683514 ATAAAATATAAAATATCTTTACTTAAGATTATTA-TAT
1 ATAAAATTTAAAATATCTTTACTTAAGATTATTACT-T
* * *
16683551 ATAAAATTTAAAATATGTTTATTTAATATTATTACTT
1 ATAAAATTTAAAATATCTTTACTTAAGATTATTACTT
*
16683588 ACAAAATTTA
1 ATAAAATTTA
16683598 TTCTGAGGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
37 40 0.98
38 1 0.02
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (37 bp):
ATAAAATTTAAAATATCTTTACTTAAGATTATTACTT
Found at i:16684424 original size:18 final size:20
Alignment explanation
Indices: 16684398--16684498 Score: 71
Period size: 20 Copynumber: 4.8 Consensus size: 20
16684388 CATATCATGC
* *
16684398 AATCTTGCAAATATAT-TA-
1 AATCATGCAAATATATAAAT
*
16684416 AATCATGCAAATAAATAAAT
1 AATCATGCAAATATATAAAT
* *
16684436 AATCATGTAAATATATATTAT
1 AATCATGCAAATATATA-AAT
*
16684457 CCAAACATGCAAATAAATAAATAAAT
1 --AATCATGCAAAT--AT--ATAAAT
16684483 AATCATGCAAATATAT
1 AATCATGCAAATATAT
16684499 GTTATCCAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
18 14 0.22
19 1 0.02
20 17 0.27
21 2 0.03
22 2 0.03
23 10 0.16
24 11 0.17
25 2 0.03
26 2 0.03
27 3 0.05
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.31
Consensus pattern (20 bp):
AATCATGCAAATATATAAAT
Done.