Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 79 of 130
Found at i:15892978 original size:100 final size:99
Alignment explanation
Indices: 15892818--15893285 Score: 358
Period size: 100 Copynumber: 4.7 Consensus size: 99
15892808 TAGAGACTCC
* * * * * * *
15892818 ACAACTTGAAAAACTTTTTTCTT-AAAAAATGGCTCCTTTAAATAAAGGTTGAACAACTTTAAAA
1 ACAACTTTAAAAA-TCTTATCTTGAAAAAA--GCTCATTTAAACAAATGTTCAACAACTTTAAAA
* *
15892882 ATCTTATCTTGGGAAAAGCTCCTTTAAACAAAA-CTTTA
63 ATCTTATCTT-GGAAAAACTCCTTTAAACAAAAGC-TCA
* * *
15892920 ACTACTTTAAAAATTTTATCTTGAAAAAAGCTCATTTAAACAAATGTTCAATAACTTTAAAAAT-
1 ACAACTTTAAAAATCTTATCTTGAAAAAAGCTCATTTAAACAAATGTTCAACAACTTTAAAAATC
* * **
15892984 TTCATCTTGAAAATAACTCTTTTAAACAAAAGCTTG
66 TT-ATCTTGGAAA-AACTCCTTTAAACAAAAGCTCA
** * * * * *
15893020 ATGACTTTAAAAATCTTAT-TATGAAAAAAGTTCATTTAAAGAAATGGTCGATAACTTTAAAAAT
1 ACAACTTTAAAAATCTTATCT-TGAAAAAAGCTCATTTAAACAAATGTTCAACAACTTTAAAAAT
* * * *
15893084 CTCAT-TTTGAAAAACTTCTTTAAA-TAAAGACTCA
65 CTTATCTTGGAAAAACTCCTTTAAACAAAAG-CTCA
* * ** *
15893118 ACAACTTAAAAAATCTCATCTTAGAAAAAA-CTTTTTTAAACAAAAGCTT-AACAACTTTAAAAA
1 ACAACTTTAAAAATCTTATCTT-GAAAAAAGCTCATTTAAACAAATG-TTCAACAACTTTAAAAA
* * * *
15893181 TTTTATCTTGGGAAAACTTCTTTAAATAAAAGCTCA
64 TCTTATCTTGGAAAAACTCCTTTAAACAAAAGCTCA
* * * * * * * *
15893217 ACAATTTTAAAAATCTTATCTTGGGAAAAGGCTTCTTTTAAAAAAAAAGCTCGACAACTTTAAAA
1 ACAACTTTAAAAATCTTATCTT-GAAAAAAGC-TCATTT-AAACAAATGTTCAACAACTTTAAAA
15893282 ATCT
63 ATCT
15893286 AAAAAAAAAA
Statistics
Matches: 295, Mismatches: 55, Indels: 32
0.77 0.14 0.08
Matches are distributed among these distances:
97 4 0.01
98 55 0.19
99 66 0.22
100 114 0.39
101 16 0.05
102 40 0.14
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (99 bp):
ACAACTTTAAAAATCTTATCTTGAAAAAAGCTCATTTAAACAAATGTTCAACAACTTTAAAAATC
TTATCTTGGAAAAACTCCTTTAAACAAAAGCTCA
Found at i:15897784 original size:21 final size:21
Alignment explanation
Indices: 15897733--15897785 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
15897723 TCTTGATGAG
*
15897733 GCTCTATAAACTTTTTTTCTT
1 GCTCTATAAGCTTTTTTTCTT
15897754 GCTCTATAAGCTTTTTTTCTT
1 GCTCTATAAGCTTTTTTTCTT
15897775 GCTCTATAAGC
1 GCTCTATAAGC
15897786 CTTAAGAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.19, C:0.21, G:0.09, T:0.51
Consensus pattern (21 bp):
GCTCTATAAGCTTTTTTTCTT
Found at i:15900484 original size:19 final size:20
Alignment explanation
Indices: 15900446--15900484 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15900436 TTTCAAAGCT
*
15900446 TTTTTTTTCTTTTTCTCTTC
1 TTTTTTTTCTTTATCTCTTC
15900466 TTTTTTTTCTTTATC-CTTC
1 TTTTTTTTCTTTATCTCTTC
15900485 CTCTCTCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTTTTCTTTATCTCTTC
Found at i:15900533 original size:13 final size:12
Alignment explanation
Indices: 15900512--15900559 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
15900502 AACTCAACTG
*
15900512 TTTTTT-TTTTG
1 TTTTTTCTTTTT
15900523 TTTTTTCTTTTT
1 TTTTTTCTTTTT
15900535 TTTTCTTCTTTTT
1 TTTT-TTCTTTTT
15900548 TCTCTTTTCTTT
1 T-T-TTTTCTTT
15900560 CTTTATCTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
11 6 0.19
12 8 0.25
13 9 0.28
14 7 0.22
15 2 0.06
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.85
Consensus pattern (12 bp):
TTTTTTCTTTTT
Found at i:15900537 original size:20 final size:21
Alignment explanation
Indices: 15900512--15900562 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
15900502 AACTCAACTG
*
15900512 TTTTTTTT-TTGTTTTTTCT-
1 TTTTTTTTCTTCTTTTTTCTC
15900531 TTTTTTTTCTTCTTTTTTCTC
1 TTTTTTTTCTTCTTTTTTCTC
*
15900552 TTTTCTTTCTT
1 TTTTTTTTCTT
15900563 TATCTGTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 8 0.29
20 10 0.36
21 10 0.36
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.84
Consensus pattern (21 bp):
TTTTTTTTCTTCTTTTTTCTC
Found at i:15900550 original size:7 final size:7
Alignment explanation
Indices: 15900512--15900559 Score: 55
Period size: 7 Copynumber: 7.1 Consensus size: 7
15900502 AACTCAACTG
15900512 TTTT-TT
1 TTTTCTT
*
15900518 TTTTGTT
1 TTTTCTT
15900525 TTTTCTT
1 TTTTCTT
15900532 TTTT-TT
1 TTTTCTT
*
15900538 TCTTCTT
1 TTTTCTT
*
15900545 TTTTCTC
1 TTTTCTT
15900552 TTTTCTT
1 TTTTCTT
15900559 T
1 T
15900560 CTTTATCTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
6 9 0.26
7 26 0.74
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.85
Consensus pattern (7 bp):
TTTTCTT
Found at i:15900553 original size:9 final size:10
Alignment explanation
Indices: 15900513--15900555 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
15900503 ACTCAACTGT
* *
15900513 TTTTTTTTTG
1 TTTTTTCTTC
*
15900523 TTTTTTCTTT
1 TTTTTTCTTC
15900533 TTTTTTCTTC
1 TTTTTTCTTC
15900543 TTTTTTC-TC
1 TTTTTTCTTC
15900552 TTTT
1 TTTT
15900556 CTTTCTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
9 6 0.20
10 24 0.80
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.86
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:15900560 original size:21 final size:20
Alignment explanation
Indices: 15900523--15900562 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
15900513 TTTTTTTTTG
*
15900523 TTTTTTCTTTTTTTTTCTTC
1 TTTTTTCTTTTTCTTTCTTC
15900543 TTTTTTCTCTTTTCTTTCTT
1 TTTTTTCT-TTTTCTTTCTT
15900563 TATCTGTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTTTCTTTTTCTTTCTTC
Found at i:15900646 original size:21 final size:21
Alignment explanation
Indices: 15900622--15900664 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
15900612 ATTTTTTCCA
15900622 CTTTTTTCCTTCATTTT-TTTT
1 CTTTTTTCCTTC-TTTTCTTTT
*
15900643 CTTTTTTCTTTCTTTTCTTTT
1 CTTTTTTCCTTCTTTTCTTTT
15900664 C
1 C
15900665 CTTCCCCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (21 bp):
CTTTTTTCCTTCTTTTCTTTT
Found at i:15900819 original size:15 final size:16
Alignment explanation
Indices: 15900794--15900823 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15900784 AAGACTATGT
15900794 TTTTTTATTATTTTTA
1 TTTTTTATTATTTTTA
15900810 TTTTTT-TTATTTTT
1 TTTTTTATTATTTTT
15900824 GGCTATAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTTATTATTTTTA
Found at i:15900821 original size:9 final size:9
Alignment explanation
Indices: 15900793--15900823 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15900783 GAAGACTATG
15900793 TTTTTTTAT
1 TTTTTTTAT
*
15900802 TATTTTTAT
1 TTTTTTTAT
15900811 TTTTTTTAT
1 TTTTTTTAT
15900820 TTTT
1 TTTT
15900824 GGCTATAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:15903807 original size:21 final size:21
Alignment explanation
Indices: 15903766--15903858 Score: 98
Period size: 21 Copynumber: 4.2 Consensus size: 21
15903756 TTCAAACATA
*
15903766 TATTTTTATCATTATTTTAATTT
1 TATTATTAT-ATTA-TTTAATTT
15903789 TATTATTATATTATTTAATTT
1 TATTATTATATTATTTAATTT
* *
15903810 TATTATTATAATAATTAATCTCAT
1 TATTATTATATTATTTAAT-T--T
*
15903834 TATTATTA-ATTTTTTAATTT
1 TATTATTATATTATTTAATTT
15903854 TATTA
1 TATTA
15903859 AAATCAATCT
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
20 6 0.10
21 25 0.41
22 6 0.10
23 15 0.25
24 9 0.15
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (21 bp):
TATTATTATATTATTTAATTT
Found at i:15905383 original size:63 final size:62
Alignment explanation
Indices: 15905274--15905403 Score: 158
Period size: 63 Copynumber: 2.1 Consensus size: 62
15905264 AAATTTTTGT
*
15905274 TTTTATAAATAGATTATTTAAAGAGTTTTTGAACAAAAAATATCTTAAATAAAT-TTTTTAATA
1 TTTTATAAATAGATTATTTAAAGAGTTTTTGAACAAAAAACATCTTAAAT-AATCTTTTT-ATA
* * * *
15905337 TTTTATAAATAGATTATTT-AAG-GTATTTATGTAGAGAAAACGTCTTAAATAATCTTTTTATA
1 TTTTATAAATAGATTATTTAAAGAGT-TTT-TGAACAAAAAACATCTTAAATAATCTTTTTATA
15905399 TTTTA
1 TTTTA
15905404 AGATTTGGGT
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
61 2 0.03
62 17 0.29
63 40 0.68
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (62 bp):
TTTTATAAATAGATTATTTAAAGAGTTTTTGAACAAAAAACATCTTAAATAATCTTTTTATA
Found at i:15905552 original size:148 final size:146
Alignment explanation
Indices: 15905271--15905549 Score: 316
Period size: 148 Copynumber: 1.9 Consensus size: 146
15905261 AATAAATTTT
* * * * *
15905271 TGTTTTTATAAATAGATTATTTAAAGAGTTTTTGAACAAAAAATATCTTAAATAAATTTTTTAAT
1 TGTTTTTATAAAAAAATTATTTAAAGAATTTTTGAACAAAAAACAACTTAAATAAATTTTTTAAT
* * * * ***
15905336 ATTTTATAAATAGATTATTTAAGGTATTTATGTAGAGAAAACGTCTTAAATAATCTTTTTATATT
66 ATTTTACAAATAGAGTATTTAAGGCATTTATGCAGAGAAAACGTCTTAAATAATCCCCTTATATT
15905401 TTAAGATTTGGGTTAA
131 TTAAGATTTGGGTTAA
*
15905417 TGTTTTTATAAAAAAAATTATTT-AAGATATTTTTGTACAAAAAAACAACTTAAAT-AATTCTTT
1 TGTTTTTAT-AAAAAAATTATTTAAAGA-ATTTTTGAAC-AAAAAACAACTTAAATAAATT-TTT
* * *
15905480 T-ATATTTTTACAAATAGAGTATTTAAGGCATTTTTGCATATAAATAC-T-TTAAATAATCCCCT
62 TAATA-TTTTACAAATAGAGTATTTAAGGCATTTATGCAGAGAAA-ACGTCTTAAATAATCCCCT
*
15905542 TATTTTTT
125 TATATTTT
15905550 TAAAAAATGA
Statistics
Matches: 110, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
146 13 0.12
147 44 0.40
148 51 0.46
149 2 0.02
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.46
Consensus pattern (146 bp):
TGTTTTTATAAAAAAATTATTTAAAGAATTTTTGAACAAAAAACAACTTAAATAAATTTTTTAAT
ATTTTACAAATAGAGTATTTAAGGCATTTATGCAGAGAAAACGTCTTAAATAATCCCCTTATATT
TTAAGATTTGGGTTAA
Found at i:15905627 original size:61 final size:63
Alignment explanation
Indices: 15905420--15905629 Score: 151
Period size: 63 Copynumber: 3.3 Consensus size: 63
15905410 GGGTTAATGT
* * * * * * **
15905420 TTTTATAAAAAAAATTATTTAAGATATTTTTGTACAAAAAAACAAC-TTAAATAATTCTTTTA-T
1 TTTTAAAAAAAAAACTATTTAAGACATTTTTG--CATAAAAA-TACTTTAAATAATCCCCTTATT
15905483 A
63 A
* * * * * * * *
15905484 TTTTTACAAATAGAGTATTTAAGGCATTTTTGCATATAAATACTTTAAATAATCCCCTTATTT
1 TTTTAAAAAAAAAACTATTTAAGACATTTTTGCATAAAAATACTTTAAATAATCCCCTTATTA
** ** *
15905547 TTTTAAAAAATGAACTATTTAAGACATTTTTAG-ATAAAAATGTTTTAAATAAT-CTCTT-TTA
1 TTTTAAAAAAAAAACTATTTAAGACATTTTT-GCATAAAAATACTTTAAATAATCCCCTTATTA
*
15905608 TTTTAAAAAAAAAATTATTTAA
1 TTTTAAAAAAAAAACTATTTAA
15905630 AGCGTTTTGG
Statistics
Matches: 114, Mismatches: 29, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
61 23 0.20
62 23 0.20
63 43 0.38
64 25 0.22
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (63 bp):
TTTTAAAAAAAAAACTATTTAAGACATTTTTGCATAAAAATACTTTAAATAATCCCCTTATTA
Found at i:15905757 original size:62 final size:60
Alignment explanation
Indices: 15905688--15905888 Score: 185
Period size: 63 Copynumber: 3.2 Consensus size: 60
15905678 ATCAACATTG
*
15905688 TTTAAAGTATTTTTGGATAAAAAATATCGTAAATAAATCATAAATTTTTTTAAAAGGTATTA
1 TTTAAAGTATTTTTAGATAAAAAATATC-TAAATAAATCAT-AATTTTTTTAAAAGGTATTA
* * * *
15905750 TTTAAAGTATTTTTTG-TCAAAAAAAATCTCAAAT-AATCCCTTTATTTTTTTTAAATAGG-ATT
1 TTTAAAGTATTTTTAGAT-AAAAAATATCT-AAATAAAT--C-ATAATTTTTTTAAA-AGGTATT
15905812 A
60 A
* * *
15905813 TTTAAAATATTTTTAGACTAAAAAATACCTTAAATAATACCATAATTTTTTTAGAAA-GTATTA
1 TTTAAAGTATTTTTAGA-TAAAAAATATC-TAAATAA-ATCATAATTTTTTTA-AAAGGTATTA
*
15905876 TTTAAAGCATTTT
1 TTTAAAGTATTTT
15905889 ATCTAAAAAT
Statistics
Matches: 113, Mismatches: 13, Indels: 25
0.75 0.09 0.17
Matches are distributed among these distances:
61 5 0.04
62 29 0.26
63 56 0.50
64 19 0.17
65 3 0.03
66 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (60 bp):
TTTAAAGTATTTTTAGATAAAAAATATCTAAATAAATCATAATTTTTTTAAAAGGTATTA
Found at i:15905924 original size:126 final size:124
Alignment explanation
Indices: 15905688--15905927 Score: 290
Period size: 126 Copynumber: 1.9 Consensus size: 124
15905678 ATCAACATTG
* * * *
15905688 TTTAAAGTATTTTTGGATAAAAAATATCGTAAATAAATCATAAATTTTTTTAAAAGGTATTATTT
1 TTTAAAATATTTTTAGATAAAAAATACCGTAAATAAACCATAAATTTTTTTAAAAGGTATTATTT
* * *
15905753 AAAGTATTTTTTGTCAAAAAAAATCTCAAATAATCCCTTTATTTTTTTTAAATAGGATTA
66 AAAGCA-TTTTTATCAAAAAAAACCTCAAATAATCCCTTTATTTTTTTTAAATAGGATTA
*
15905813 TTTAAAATATTTTTAGACTAAAAAATACCTTAAATAATACCAT-AATTTTTTTAGAAA-GTATTA
1 TTTAAAATATTTTTAGA-TAAAAAATACCGTAAATAA-ACCATAAATTTTTTTA-AAAGGTATTA
* * * * * *
15905876 TTTAAAGCA-TTTTATCTAAAAATACCTTAAATAAT-GCTTCATATTTTTTAAA
63 TTTAAAGCATTTTTATCAAAAAAAACCTCAAATAATCCCTTTATTTTTTTTAAA
15905928 CACATTATTT
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
123 14 0.14
124 21 0.21
125 15 0.15
126 41 0.42
127 7 0.07
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.43
Consensus pattern (124 bp):
TTTAAAATATTTTTAGATAAAAAATACCGTAAATAAACCATAAATTTTTTTAAAAGGTATTATTT
AAAGCATTTTTATCAAAAAAAACCTCAAATAATCCCTTTATTTTTTTTAAATAGGATTA
Found at i:15915474 original size:3 final size:3
Alignment explanation
Indices: 15915468--15915502 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
15915458 AATAATAATA
15915468 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
15915503 AAAAACTCCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:15918085 original size:25 final size:27
Alignment explanation
Indices: 15918036--15918085 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
15918026 TTTGGATTTT
**
15918036 AGGGTTTCAAGGGTTTGGAGGGTTTGG
1 AGGGTTTCAAGGGTTTGGAAAGTTTGG
15918063 AGGGTTT-AA-GGTTTGGAAAGTTT
1 AGGGTTTCAAGGGTTTGGAAAGTTT
15918086 TAGGGCTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 12 0.57
26 2 0.10
27 7 0.33
ACGTcount: A:0.20, C:0.02, G:0.42, T:0.36
Consensus pattern (27 bp):
AGGGTTTCAAGGGTTTGGAAAGTTTGG
Found at i:15918102 original size:17 final size:17
Alignment explanation
Indices: 15918032--15918103 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
15918022 GAGTTTTGGA
**
15918032 TTTTAGGGTTTCAAGGG
1 TTTTAGGGTTTGGAGGG
*
15918049 TTTGGAGGGTTTGGAGGG
1 TTT-TAGGGTTTGGAGGG
* **
15918067 -TTTAAGGTTTGGAAAG
1 TTTTAGGGTTTGGAGGG
*
15918083 TTTTAGGGCTTGGAGGG
1 TTTTAGGGTTTGGAGGG
15918100 TTTT
1 TTTT
15918104 GAAATTTGAA
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
16 10 0.24
17 21 0.50
18 11 0.26
ACGTcount: A:0.17, C:0.03, G:0.40, T:0.40
Consensus pattern (17 bp):
TTTTAGGGTTTGGAGGG
Found at i:15918207 original size:9 final size:8
Alignment explanation
Indices: 15918129--15918204 Score: 55
Period size: 8 Copynumber: 9.5 Consensus size: 8
15918119 AGGGTTTGGA
*
15918129 TTTTAGGG
1 TTTTAAGG
15918137 TTTTAAAGG
1 TTTT-AAGG
* **
15918146 TTTGAAAA
1 TTTTAAGG
15918154 TTTTAAGG
1 TTTTAAGG
15918162 TTTTAAGG
1 TTTTAAGG
* **
15918170 GTTTGGGG
1 TTTTAAGG
* *
15918178 TTTAAAAG
1 TTTTAAGG
15918186 -TTTAAGG
1 TTTTAAGG
15918193 TTTTAAGG
1 TTTTAAGG
15918201 TTTT
1 TTTT
15918205 TAAAAAAGAT
Statistics
Matches: 49, Mismatches: 17, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
7 5 0.10
8 38 0.78
9 6 0.12
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (8 bp):
TTTTAAGG
Found at i:15918690 original size:4 final size:4
Alignment explanation
Indices: 15918681--15918714 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
15918671 TTACTCATTA
*
15918681 TTAT TTAT TTAT TTATT TTAT TTAT TTAA TTAT T
1 TTAT TTAT TTAT TTA-T TTAT TTAT TTAT TTAT T
15918715 ATTAGAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:15918700 original size:13 final size:13
Alignment explanation
Indices: 15918684--15918708 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15918674 CTCATTATTA
15918684 TTTATTTATTTAT
1 TTTATTTATTTAT
15918697 TTTATTTATTTA
1 TTTATTTATTTA
15918709 ATTATTATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTATTTAT
Found at i:15918701 original size:17 final size:17
Alignment explanation
Indices: 15918681--15918714 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15918671 TTACTCATTA
*
15918681 TTATTTATTTATTTATT
1 TTATTTATTTAATTATT
15918698 TTATTTATTTAATTATT
1 TTATTTATTTAATTATT
15918715 ATTAGAAAAA
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:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATTTATTTAATTATT
Found at i:15920079 original size:26 final size:28
Alignment explanation
Indices: 15920050--15920104 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
15920040 AAGTAGTGGG
*
15920050 CTTGGGCCC-AACAAAT-GAAATTAGGC
1 CTTGGGCCCAAACAAATCGAAATGAGGC
*
15920076 CTTGGGCCCAAATAAATCGAAATGAGGC
1 CTTGGGCCCAAACAAATCGAAATGAGGC
15920104 C
1 C
15920105 CGATTCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 9 0.36
27 6 0.24
28 10 0.40
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (28 bp):
CTTGGGCCCAAACAAATCGAAATGAGGC
Found at i:15920512 original size:35 final size:35
Alignment explanation
Indices: 15920473--15920542 Score: 81
Period size: 35 Copynumber: 2.0 Consensus size: 35
15920463 AAAATGACTA
15920473 AGATTAAATTAC-AGGTCAAAAAATGAAA-ATGATCG
1 AGATTAAATTACGA-GTCAAAAAAT-AAATATGATCG
* * *
15920508 AGATTGAATTGCGAGTCAAAGAATAAATATGATCG
1 AGATTAAATTACGAGTCAAAAAATAAATATGATCG
15920543 GGACTGGGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
34 3 0.10
35 26 0.87
36 1 0.03
ACGTcount: A:0.47, C:0.09, G:0.20, T:0.24
Consensus pattern (35 bp):
AGATTAAATTACGAGTCAAAAAATAAATATGATCG
Found at i:15920593 original size:35 final size:35
Alignment explanation
Indices: 15920554--15920644 Score: 114
Period size: 34 Copynumber: 2.6 Consensus size: 35
15920544 GACTGGGTCA
** *
15920554 CAAGTCAAAGAATAAATGTGACTGGGATTGAACTG
1 CAAGTCAAAGAATAAAAATGACTGGGATTAAACTG
*
15920589 CAAGTC-ATGAATAAAAATGACTGGGATTAAACTG
1 CAAGTCAAAGAATAAAAATGACTGGGATTAAACTG
*
15920623 CAAGTC-AGGAAATAAAAATGAC
1 CAAGTCAAAG-AATAAAAATGAC
15920645 CAGGATTGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
34 32 0.64
35 18 0.36
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.21
Consensus pattern (35 bp):
CAAGTCAAAGAATAAAAATGACTGGGATTAAACTG
Found at i:15920610 original size:34 final size:34
Alignment explanation
Indices: 15920554--15920665 Score: 125
Period size: 35 Copynumber: 3.2 Consensus size: 34
15920544 GACTGGGTCA
**
15920554 CAAGTCAAAGAATAAATGTGACTGGGATTGAACTG
1 CAAGTC-AAGAATAAAAATGACTGGGATTGAACTG
* *
15920589 CAAGTCATGAATAAAAATGACTGGGATTAAACTG
1 CAAGTCAAGAATAAAAATGACTGGGATTGAACTG
* ** *
15920623 CAAGTCAGGAAATAAAAATGACCAGGATTGAATTG
1 CAAGTCAAG-AATAAAAATGACTGGGATTGAACTG
*
15920658 AAAGTCAA
1 CAAGTCAA
15920666 AAACTGAAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
34 32 0.49
35 33 0.51
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.21
Consensus pattern (34 bp):
CAAGTCAAGAATAAAAATGACTGGGATTGAACTG
Found at i:15920651 original size:35 final size:34
Alignment explanation
Indices: 15920578--15920689 Score: 109
Period size: 35 Copynumber: 3.2 Consensus size: 34
15920568 AATGTGACTG
* **
15920578 GGATTGAACTGCAAGTCATG-AATAAAAATGACTG
1 GGATTAAACTGCAAGTCA-GAAATAAAAATGACCA
15920612 GGATTAAACTGCAAGTCAGGAAATAAAAATGACCA
1 GGATTAAACTGCAAGTCA-GAAATAAAAATGACCA
* * * * * *
15920647 GGATTGAATTGAAAGTCAAAAACTGAAAATGATCA
1 GGATTAAACTGCAAGTCAGAAA-TAAAAATGACCA
15920682 GGATTAAA
1 GGATTAAA
15920690 TCGTGAGTTA
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
34 21 0.32
35 44 0.68
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.21
Consensus pattern (34 bp):
GGATTAAACTGCAAGTCAGAAATAAAAATGACCA
Found at i:15921247 original size:35 final size:35
Alignment explanation
Indices: 15921141--15921274 Score: 114
Period size: 35 Copynumber: 3.9 Consensus size: 35
15921131 AATGATTGGG
* ** **
15921141 ATTGAACTACAAGTCAAGGAA-AAATATGACTGGG
1 ATTGAACCACAAGTCAAATAATAAATATGACTGAA
* * *
15921175 ATTGAACCGCAAGTCAAAAAATGAAA-ATGA-TACAA
1 ATTGAACCACAAGTCAAATAAT-AAATATGACT-GAA
15921210 ATT-AAGCCACAAGTCAAATAATAAATATGACTGAA
1 ATTGAA-CCACAAGTCAAATAATAAATATGACTGAA
***
15921245 ATTGAACTGTAAGTCAAATAATAAATATGA
1 ATTGAACCACAAGTCAAATAATAAATATGA
15921275 TCAGGACTGA
Statistics
Matches: 80, Mismatches: 13, Indels: 13
0.75 0.12 0.12
Matches are distributed among these distances:
34 23 0.29
35 51 0.64
36 6 0.08
ACGTcount: A:0.50, C:0.12, G:0.16, T:0.22
Consensus pattern (35 bp):
ATTGAACCACAAGTCAAATAATAAATATGACTGAA
Found at i:15921288 original size:70 final size:69
Alignment explanation
Indices: 15921149--15921295 Score: 163
Period size: 70 Copynumber: 2.1 Consensus size: 69
15921139 GGATTGAACT
* ** *
15921149 ACAAGTCAAGGAAAAATATGACTGGGATTGAACCGCAAGTCAAAAAATGAAAATGATACAAATTA
1 ACAAGTCAAAGAAAAATATGACTGAAATTGAACCGCAAGTCAAAAAATGAAAATGATACAAACTA
15921214 AGCC
66 AGCC
* * * * *
15921218 ACAAGTCAAATAATAAATATGACTGAAATTGAACTGTAAGTCAAATAAT-AAATATGAT-CAGGA
1 ACAAGTCAAAGAA-AAATATGACTGAAATTGAACCGCAAGTCAAAAAATGAAA-ATGATACA-AA
*
15921281 CTGAGCC
63 CTAAGCC
15921288 ACAAGTCA
1 ACAAGTCA
15921296 CGAATAAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
69 16 0.25
70 49 0.75
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.20
Consensus pattern (69 bp):
ACAAGTCAAAGAAAAATATGACTGAAATTGAACCGCAAGTCAAAAAATGAAAATGATACAAACTA
AGCC
Found at i:15921294 original size:35 final size:35
Alignment explanation
Indices: 15921214--15921295 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 35
15921204 ATACAAATTA
* *
15921214 AGCCACAAGTCAAATAATAAATATGACTGAAATTG
1 AGCCACAAGTCAAATAATAAATATGACAGAAACTG
* *** *
15921249 AACTGTAAGTCAAATAATAAATATGATCAG-GACTG
1 AGCCACAAGTCAAATAATAAATATGA-CAGAAACTG
15921284 AGCCACAAGTCA
1 AGCCACAAGTCA
15921296 CGAATAAAAA
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
35 33 0.94
36 2 0.06
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (35 bp):
AGCCACAAGTCAAATAATAAATATGACAGAAACTG
Found at i:15921396 original size:20 final size:19
Alignment explanation
Indices: 15921367--15921408 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
15921357 ACAAGTTGGG
15921367 AATTGAAAAT-GATTAGAATA
1 AATTGAAAATCGA--AGAATA
*
15921387 AATTGCAAATCGAAGAATA
1 AATTGAAAATCGAAGAATA
15921406 AAT
1 AAT
15921409 ATGTTCGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
20 9 0.45
21 2 0.10
ACGTcount: A:0.55, C:0.05, G:0.14, T:0.26
Consensus pattern (19 bp):
AATTGAAAATCGAAGAATA
Found at i:15933551 original size:15 final size:17
Alignment explanation
Indices: 15933518--15933555 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
15933508 TTTGATAATC
*
15933518 ATTTTTTTATATATTTT
1 ATTTTTTTATATATATT
15933535 ATTTTTTTAT-T-TATT
1 ATTTTTTTATATATATT
15933550 ATTTTT
1 ATTTTT
15933556 GGTTATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
16 1 0.05
17 10 0.50
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
ATTTTTTTATATATATT
Found at i:15951200 original size:23 final size:21
Alignment explanation
Indices: 15951148--15951203 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
15951138 GGGGTTGCGG
*
15951148 TTTGA-TTTTAAGATTTAGGT
1 TTTGAGTTTTAAAATTTAGGT
*
15951168 TTTAAGGTTTTAAAATTTTAGGGT
1 TTTGA-GTTTTAAAA-TTTA-GGT
15951192 TTTGAGTTTTAA
1 TTTGAGTTTTAA
15951204 GTGTTTAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 4 0.14
22 7 0.24
23 11 0.38
24 7 0.24
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.54
Consensus pattern (21 bp):
TTTGAGTTTTAAAATTTAGGT
Found at i:15951517 original size:3 final size:3
Alignment explanation
Indices: 15951467--15951499 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
15951457 TTATAAAATT
15951467 TTA TTA TTA TTA TTA TTA TTA TTA CTTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT
15951500 TGTTTTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15951647 original size:15 final size:15
Alignment explanation
Indices: 15951627--15951660 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
15951617 TTTGATAATA
15951627 TTTTTTATATT-TTAT
1 TTTTTTAT-TTATTAT
15951642 TTTTTTATTTATTAT
1 TTTTTTATTTATTAT
15951657 TTTT
1 TTTT
15951661 GGTTATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 16 0.89
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTATTTATTAT
Found at i:15951848 original size:17 final size:17
Alignment explanation
Indices: 15951826--15951864 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
15951816 CTTATTACTC
15951826 ATTATTTATA-TTTATTT
1 ATTATTT-TACTTTATTT
15951843 ATTATTTTACTTTATTT
1 ATTATTTTACTTTATTT
15951860 -TTATT
1 ATTATT
15951865 AATTATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTATTTTACTTTATTT
Found at i:15956982 original size:4 final size:4
Alignment explanation
Indices: 15956973--15957008 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
15956963 AAGTATTTAA
*
15956973 AAAT AAAT AAAT AAAT AAAC AAAT AAAT AAAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAA
15957009 CATAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:15956998 original size:16 final size:16
Alignment explanation
Indices: 15956977--15957022 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
15956967 ATTTAAAAAT
15956977 AAATAAATAAATAAAC
1 AAATAAATAAATAAAC
15956993 AAATAAATAAAATAAAC
1 AAATAAAT-AAATAAAC
*
15957010 ATA-AAAT-AATAAA
1 AAATAAATAAATAAA
15957023 AATACCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 6 0.21
16 12 0.43
17 10 0.36
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (16 bp):
AAATAAATAAATAAAC
Found at i:15957016 original size:20 final size:20
Alignment explanation
Indices: 15956971--15957023 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
15956961 AAAAGTATTT
*
15956971 AAAAATAAAT-AAATAAATA
1 AAAAATAAATAAAATAAACA
15956990 AACAAATAAATAAAATAAACA
1 AA-AAATAAATAAAATAAACA
*
15957011 TAAAAT-AATAAAA
1 AAAAATAAATAAAA
15957024 ATACCAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 9 0.30
20 12 0.40
21 9 0.30
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (20 bp):
AAAAATAAATAAAATAAACA
Found at i:15957026 original size:20 final size:17
Alignment explanation
Indices: 15956981--15957023 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
15956971 AAAAATAAAT
*
15956981 AAAT-AAATAAACAAAT
1 AAATAAAATAAACAAAA
15956997 AAATAAAATAAACATAAA
1 AAATAAAATAAACA-AAA
15957015 ATAATAAAA
1 A-AATAAAA
15957024 ATACCAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 9 0.39
18 3 0.13
19 7 0.30
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (17 bp):
AAATAAAATAAACAAAA
Found at i:15958405 original size:52 final size:53
Alignment explanation
Indices: 15958306--15958495 Score: 180
Period size: 51 Copynumber: 3.7 Consensus size: 53
15958296 TCCTTTAAAC
* * * * *
15958306 AGAGGTTTAATAACTTTAAAAA-ATTAAAATA-AAAATAGACTCATCTAA-TA
1 AGAGGCTTAACAACTTTAAAAACTTTAAAATAGAAAATAGACTCCTCTAACCA
15958356 AGAGGCTTAACAACTTTAAAAACTTTAAAATAGAAAATAGACTCCTCTAACCA
1 AGAGGCTTAACAACTTTAAAAACTTTAAAATAGAAAATAGACTCCTCTAACCA
* * * **
15958409 A-AGGCTCAACAA-TTTTAAAACTTTAAAATATG-AAATAGACTCCTTTGTCCA
1 AGAGGCTTAACAACTTTAAAAACTTTAAAATA-GAAAATAGACTCCTCTAACCA
* * *
15958460 TA-A-ACTCAACAACTTTAAAAACTTTTAAATATGAAA
1 -AGAGGCTTAACAACTTTAAAAACTTTAAAATA-GAAA
15958496 TGGGTTCTTC
Statistics
Matches: 120, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
50 20 0.17
51 49 0.41
52 47 0.39
53 4 0.03
ACGTcount: A:0.48, C:0.15, G:0.08, T:0.29
Consensus pattern (53 bp):
AGAGGCTTAACAACTTTAAAAACTTTAAAATAGAAAATAGACTCCTCTAACCA
Found at i:15958468 original size:51 final size:52
Alignment explanation
Indices: 15958317--15958496 Score: 183
Period size: 52 Copynumber: 3.5 Consensus size: 52
15958307 GAGGTTTAAT
* * * * * *
15958317 AACTTTAAAAA-ATTAAAATA-AAAATAGACTCATCTAA-TAAGAGGCTTAAC
1 AACTTTAAAAACTTTAAAATATGAAATAGACTCCTCTAACCAA-AGACTCAAC
*
15958367 AACTTTAAAAACTTTAAAATA-GAAAATAGACTCCTCTAACCAAAGGCTCAAC
1 AACTTTAAAAACTTTAAAATATG-AAATAGACTCCTCTAACCAAAGACTCAAC
* * **
15958419 AA-TTTTAAAACTTTAAAATATGAAATAGACTCCTTTGTCCATAA-ACTCAAC
1 AACTTTAAAAACTTTAAAATATGAAATAGACTCCTCTAACCA-AAGACTCAAC
*
15958470 AACTTTAAAAACTTTTAAATATGAAAT
1 AACTTTAAAAACTTTAAAATATGAAAT
15958497 GGGTTCTTCT
Statistics
Matches: 112, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
50 11 0.10
51 49 0.44
52 50 0.45
53 2 0.02
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.29
Consensus pattern (52 bp):
AACTTTAAAAACTTTAAAATATGAAATAGACTCCTCTAACCAAAGACTCAAC
Found at i:15959492 original size:17 final size:18
Alignment explanation
Indices: 15959488--15959527 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
15959478 TTTTAGTTTA
*
15959488 ATTTTGGCTTTAATTTT-
1 ATTTTAGCTTTAATTTTG
*
15959505 ATTTTAGTTTTAATTTTG
1 ATTTTAGCTTTAATTTTG
15959523 ATTTT
1 ATTTT
15959528 TGGTTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.20, C:0.03, G:0.10, T:0.68
Consensus pattern (18 bp):
ATTTTAGCTTTAATTTTG
Found at i:15959520 original size:12 final size:12
Alignment explanation
Indices: 15959472--15959547 Score: 57
Period size: 11 Copynumber: 6.3 Consensus size: 12
15959462 AGCCCAAAAA
*
15959472 TTTTGATTTTAG
1 TTTTAATTTTAG
*
15959484 -TTTAATTTTGG
1 TTTTAATTTTAG
*
15959495 CTTTAATTTTA-
1 TTTTAATTTTAG
* *
15959506 TTTTAGTTTTAA
1 TTTTAATTTTAG
* *
15959518 TTTTGATTTTTGG
1 TTTT-AATTTTAG
15959531 TTTTTAATTTTAG
1 -TTTTAATTTTAG
15959544 TTTT
1 TTTT
15959548 TATTATTTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
11 18 0.36
12 17 0.34
13 11 0.22
14 4 0.08
ACGTcount: A:0.18, C:0.01, G:0.12, T:0.68
Consensus pattern (12 bp):
TTTTAATTTTAG
Found at i:15960520 original size:17 final size:16
Alignment explanation
Indices: 15960500--15960562 Score: 54
Period size: 17 Copynumber: 3.7 Consensus size: 16
15960490 TATTTTCCAT
15960500 TTTCTTTTATTTTTTGA
1 TTTCTTTT-TTTTTTGA
* *
15960517 TTTCGATTTTCTTTTGA
1 TTTC-TTTTTTTTTTGA
*
15960534 TTTTTTTTCTTTTTTGGA
1 TTTCTTTT-TTTTTT-GA
*
15960552 TTTATTTTTTT
1 TTTCTTTTTTT
15960563 AATTTTTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
16 3 0.08
17 22 0.59
18 12 0.32
ACGTcount: A:0.10, C:0.06, G:0.08, T:0.76
Consensus pattern (16 bp):
TTTCTTTTTTTTTTGA
Found at i:15960520 original size:24 final size:25
Alignment explanation
Indices: 15960493--15960539 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
15960483 GCTTTTCTAT
15960493 TTTCCATTTTCTTTT-ATTTTTTGA
1 TTTCCATTTTCTTTTGATTTTTTGA
*
15960517 TTTCGATTTTCTTTTGATTTTTT
1 TTTCCATTTTCTTTTGATTTTTT
15960540 TTCTTTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.11, C:0.11, G:0.06, T:0.72
Consensus pattern (25 bp):
TTTCCATTTTCTTTTGATTTTTTGA
Found at i:15960711 original size:21 final size:21
Alignment explanation
Indices: 15960671--15960771 Score: 102
Period size: 21 Copynumber: 4.9 Consensus size: 21
15960661 ATGATTGTTA
* *
15960671 ATTAATTACATGATACTTTAT
1 ATTAATTGCATGATAATTTAT
*
15960692 -TATAATTGCATAATAATTTAT
1 AT-TAATTGCATGATAATTTAT
*
15960713 ATTATTTGCATGAT-ATATTAT
1 ATTAATTGCATGATAAT-TTAT
15960734 ATT-ATTGCATGAT-ATTTAT
1 ATTAATTGCATGATAATTTAT
* *
15960753 ATTATTTGCATAATAATTT
1 ATTAATTGCATGATAATTT
15960772 TTGCATAATA
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
19 7 0.10
20 22 0.33
21 37 0.55
22 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.07, T:0.50
Consensus pattern (21 bp):
ATTAATTGCATGATAATTTAT
Found at i:15960743 original size:20 final size:20
Alignment explanation
Indices: 15960641--15960763 Score: 94
Period size: 21 Copynumber: 6.0 Consensus size: 20
15960631 TATGATGTAT
15960641 ATATATATATATTTATTAGCATG
1 ATATAT-TATA-TTATT-GCATG
* *
15960664 AT-TGTTA-ATTAATTACATG
1 ATATATTATATT-ATTGCATG
* *
15960683 ATACT-TTATTATAATTGCATA
1 ATA-TATTA-TATTATTGCATG
15960704 ATA-ATTTATATTATTTGCATG
1 ATATA-TTATATTA-TTGCATG
15960725 ATATATTATATTATTGCATG
1 ATATATTATATTATTGCATG
15960745 ATAT-TTATATTATTTGCAT
1 ATATATTATATTA-TTGCAT
15960764 AATAATTTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 23
0.73 0.06 0.20
Matches are distributed among these distances:
19 16 0.19
20 28 0.34
21 32 0.39
22 5 0.06
23 2 0.02
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (20 bp):
ATATATTATATTATTGCATG
Found at i:15960762 original size:61 final size:62
Alignment explanation
Indices: 15960648--15960771 Score: 157
Period size: 61 Copynumber: 2.0 Consensus size: 62
15960638 TATATATATA
*
15960648 TATATTTATTAGCATGATTGTTAATTAATTACATGATACTTTATTATAATTGCATAATAATT
1 TATATTTATTAGCATGATTATTAATTAATTACATGATACTTTATTATAATTGCATAATAATT
* * *
15960710 TATA-TTATTTGCATGATATATTATATT-ATTGCATGATA-TTTA-TATTATTTGCATAATAATT
1 TATATTTATTAGCATGAT-TATTA-ATTAATTACATGATACTTTATTA-TAATTGCATAATAATT
15960771 T
1 T
15960772 TTGCATAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
60 2 0.04
61 32 0.58
62 18 0.33
63 3 0.05
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.51
Consensus pattern (62 bp):
TATATTTATTAGCATGATTATTAATTAATTACATGATACTTTATTATAATTGCATAATAATT
Found at i:15960776 original size:14 final size:14
Alignment explanation
Indices: 15960757--15960787 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
15960747 ATTTATATTA
15960757 TTTGCATAATAATT
1 TTTGCATAATAATT
*
15960771 TTTGCATAATAGTT
1 TTTGCATAATAATT
15960785 TTT
1 TTT
15960788 TTTTTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.55
Consensus pattern (14 bp):
TTTGCATAATAATT
Found at i:15962134 original size:14 final size:14
Alignment explanation
Indices: 15962115--15962142 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15962105 TGCTTGTAAA
15962115 TTTATATATTATTT
1 TTTATATATTATTT
15962129 TTTATATATTATTT
1 TTTATATATTATTT
15962143 GCATAGTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTATATATTATTT
Found at i:15965415 original size:13 final size:13
Alignment explanation
Indices: 15965399--15965435 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
15965389 GATGAAAAGT
15965399 GCAAAAAAAAAAA
1 GCAAAAAAAAAAA
*
15965412 GCAAAAAAAAAAG
1 GCAAAAAAAAAAA
*
15965425 GGAAAAAAAAA
1 GCAAAAAAAAA
15965436 GAAATTGGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (13 bp):
GCAAAAAAAAAAA
Found at i:15965417 original size:12 final size:12
Alignment explanation
Indices: 15965402--15965436 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
15965392 GAAAAGTGCA
15965402 AAAAAAAAAAGC
1 AAAAAAAAAAGC
*
15965414 AAAAAAAAAAGG
1 AAAAAAAAAAGC
*
15965426 GAAAAAAAAAG
1 AAAAAAAAAAG
15965437 AAATTGGTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGC
Found at i:15966925 original size:46 final size:46
Alignment explanation
Indices: 15966816--15967027 Score: 170
Period size: 46 Copynumber: 4.6 Consensus size: 46
15966806 AATCTTTTGT
* *
15966816 ATGAGAATATTTGAAATTTT-GAT-TGTAAATCTCTA-AAATTTTTTAA
1 ATGAGAATCTTTGAAATTTTGGATGTG-AAA-C-CTATAAAGTTTTTAA
* ** * * *
15966862 GTGTCAGTCATTGAAATTTTAGATGTGAAACCCTA-AAAGTTTTCT-A
1 ATGAGAATCTTTGAAATTTTGGATGTGAAA-CCTATAAAGTTTT-TAA
* *
15966908 ATGAGAATCTTTAAAATTTTGGATGTG-AAGCTATAAAGTTTTTGAA
1 ATGAGAATCTTTGAAATTTTGGATGTGAAACCTATAAAGTTTTT-AA
* * *
15966954 A-GAGAACCTTTGAAATTTTGGATGT-AAATCTATAAAATATTTTAA
1 ATGAGAATCTTTGAAATTTTGGATGTGAAACCTATAAAGT-TTTTAA
* *
15966999 ATGTGAATCTTTGAAATTTTGGATATGAA
1 ATGAGAATCTTTGAAATTTTGGATGTGAA
15967028 TCCCTAAGTT
Statistics
Matches: 133, Mismatches: 23, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
44 4 0.03
45 45 0.34
46 72 0.54
47 10 0.08
48 2 0.02
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (46 bp):
ATGAGAATCTTTGAAATTTTGGATGTGAAACCTATAAAGTTTTTAA
Found at i:15966970 original size:45 final size:44
Alignment explanation
Indices: 15966872--15967027 Score: 161
Period size: 45 Copynumber: 3.4 Consensus size: 44
15966862 GTGTCAGTCA
* *
15966872 TTGAAATTTTAGATGTGAAACCCTA-AAAGTTTTCTAATGAGAATCT
1 TTGAAATTTTGGATGTG-AA-CCTATAAAGTTTT-TAAAGAGAATCT
* * *
15966918 TTAAAATTTTGGATGTGAAGCTATAAAGTTTTTGAAAGAGAACCT
1 TTGAAATTTTGGATGTGAACCTATAAAGTTTTT-AAAGAGAATCT
* * * *
15966963 TTGAAATTTTGGATGTAAATCTATAAAATATTTTAAATGTGAATCT
1 TTGAAATTTTGGATGTGAACCTATAAAGT-TTTTAAA-GAGAATCT
*
15967009 TTGAAATTTTGGATATGAA
1 TTGAAATTTTGGATGTGAA
15967028 TCCCTAAGTT
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
44 4 0.04
45 47 0.51
46 42 0.45
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (44 bp):
TTGAAATTTTGGATGTGAACCTATAAAGTTTTTAAAGAGAATCT
Found at i:15967027 original size:22 final size:22
Alignment explanation
Indices: 15966912--15967029 Score: 83
Period size: 22 Copynumber: 5.2 Consensus size: 22
15966902 TTTCTAATGA
15966912 GAATCTTTAAAATTTTGGATGT
1 GAATCTTTAAAATTTTGGATGT
* * * * * *
15966934 GAAGCTATAAAGTTTTTGAAAGA
1 GAATCTTTAAA-ATTTTGGATGT
* *
15966957 GAACCTTTGAAATTTTGGATGT
1 GAATCTTTAAAATTTTGGATGT
* * **
15966979 AAATCTATAAAATATTTTAAATGT
1 GAATCT-TTAAA-ATTTTGGATGT
* *
15967003 GAATCTTTGAAATTTTGGATAT
1 GAATCTTTAAAATTTTGGATGT
15967025 GAATC
1 GAATC
15967030 CCTAAGTTTT
Statistics
Matches: 68, Mismatches: 25, Indels: 6
0.69 0.25 0.06
Matches are distributed among these distances:
22 33 0.49
23 21 0.31
24 14 0.21
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.40
Consensus pattern (22 bp):
GAATCTTTAAAATTTTGGATGT
Found at i:15967290 original size:18 final size:17
Alignment explanation
Indices: 15967267--15967497 Score: 81
Period size: 17 Copynumber: 13.4 Consensus size: 17
15967257 GAGTTTTTAC
*
15967267 AATTCTTGCGAATTTAAA
1 AATTCTTGCGAATCT-AA
* *
15967285 AATTCTTTCGAAACTAA
1 AATTCTTGCGAATCTAA
* * * * *
15967302 AATTTTTACAAATTTTA
1 AATTCTTGCGAATCTAA
15967319 AATTCTTGCGAATCTGAA
1 AATTCTTGCGAATCT-AA
* * * *
15967337 AATTTTTGCAAAACTGA
1 AATTCTTGCGAATCTAA
* *
15967354 AATTATTGTGAATCTTAA
1 AATTCTTGCGAATC-TAA
* **
15967372 AATTATTTTGAATCTAA
1 AATTCTTGCGAATCTAA
* * **
15967389 AACTT-TGGCAAAT-TTG
1 AA-TTCTTGCGAATCTAA
* * *
15967405 AATTCTTACAAATGTGAA
1 AATTCTTGCGAATCT-AA
*
15967423 AA-TCATGCGAATCTAAA
1 AATTCTTGCGAATCT-AA
* **
15967440 AATTTTTATGAATCTAAA
1 AATTCTTGCGAATCT-AA
* * *
15967458 AATTTTTGTGAAACTAA
1 AATTCTTGCGAATCTAA
* *
15967475 AATTCTTACGAACCTAA
1 AATTCTTGCGAATCTAA
15967492 AATTCT
1 AATTCT
15967498 AAGAATCTTG
Statistics
Matches: 157, Mismatches: 49, Indels: 15
0.71 0.22 0.07
Matches are distributed among these distances:
15 2 0.01
16 9 0.06
17 78 0.50
18 68 0.43
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.39
Consensus pattern (17 bp):
AATTCTTGCGAATCTAA
Found at i:15967339 original size:35 final size:34
Alignment explanation
Indices: 15967284--15967375 Score: 94
Period size: 35 Copynumber: 2.6 Consensus size: 34
15967274 GCGAATTTAA
* * ** *
15967284 AAATTCTTTCGAAACTAAAATTTTTACAAATTTT
1 AAATTCTTGCGAATCTAAAATTTTTACAAAACTG
*
15967318 AAATTCTTGCGAATCTGAAAATTTTTGCAAAACTG
1 AAATTCTTGCGAATCT-AAAATTTTTACAAAACTG
* *
15967353 AAATTATTGTGAATCTTAAAATT
1 AAATTCTTGCGAATC-TAAAATT
15967376 ATTTTGAATC
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
34 14 0.29
35 33 0.69
36 1 0.02
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (34 bp):
AAATTCTTGCGAATCTAAAATTTTTACAAAACTG
Found at i:15967458 original size:17 final size:18
Alignment explanation
Indices: 15967431--15967476 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
15967421 AAAATCATGC
15967431 GAATCTAAAAATTTTTAT
1 GAATCTAAAAATTTTTAT
*
15967449 GAATCTAAAAATTTTTGT
1 GAATCTAAAAATTTTTAT
*
15967467 GAAACTAAAA
1 GAATCTAAAA
15967477 TTCTTACGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
GAATCTAAAAATTTTTAT
Found at i:15969782 original size:15 final size:15
Alignment explanation
Indices: 15969758--15969787 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15969748 TTGACTGAAT
15969758 TTGAAACTAGATTTG
1 TTGAAACTAGATTTG
*
15969773 TTGAAGCTAGATTTG
1 TTGAAACTAGATTTG
15969788 AAATTGGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (15 bp):
TTGAAACTAGATTTG
Found at i:15969836 original size:18 final size:18
Alignment explanation
Indices: 15969809--15969846 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
15969799 AAAGTTTATA
* *
15969809 CAGATGCAGTTGTAATTG
1 CAGATACAGTTGCAATTG
15969827 CAGATACAGTTGCAATTG
1 CAGATACAGTTGCAATTG
15969845 CA
1 CA
15969847 AATGCAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (18 bp):
CAGATACAGTTGCAATTG
Found at i:15969852 original size:24 final size:24
Alignment explanation
Indices: 15969806--15969852 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
15969796 TTTAAAGTTT
* * *
15969806 ATACAGATGCAGTTGTAATTGCAG
1 ATACAGATGCAATTGCAAATGCAG
*
15969830 ATACAGTTGCAATTGCAAATGCA
1 ATACAGATGCAATTGCAAATGCA
15969853 AAACCATTGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (24 bp):
ATACAGATGCAATTGCAAATGCAG
Found at i:15972445 original size:42 final size:44
Alignment explanation
Indices: 15972393--15972494 Score: 149
Period size: 42 Copynumber: 2.4 Consensus size: 44
15972383 CAATTCCTAT
* *
15972393 CTTTTTATTCCTTACTACC-TCATTTACATGTTGATTTTTTA-C
1 CTTTTCATTCCTTACTACCATCAATTACATGTTGATTTTTTATC
15972435 CTTTTCATTCCTTACT-CCATCAATTACATGTTGATTTTTTATC
1 CTTTTCATTCCTTACTACCATCAATTACATGTTGATTTTTTATC
*
15972478 C-TTTCATTCCCTACTAC
1 CTTTTCATTCCTTACTAC
15972495 TTTAGCTACA
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
41 2 0.04
42 49 0.91
43 3 0.06
ACGTcount: A:0.20, C:0.25, G:0.04, T:0.51
Consensus pattern (44 bp):
CTTTTCATTCCTTACTACCATCAATTACATGTTGATTTTTTATC
Found at i:15973805 original size:42 final size:42
Alignment explanation
Indices: 15973746--15973874 Score: 159
Period size: 42 Copynumber: 3.1 Consensus size: 42
15973736 TAAATAGCCA
* * * *
15973746 AAAACCCTAACTTTAAATTCAAGGAATTAAGAACAACAGTAG
1 AAAACCTTAACTATAAATTCAAGCAATTAAGAACAACAATAG
* * *
15973788 AAAACTTTAACTATAAATTCAAGCAATTAAGAACAACAACAT
1 AAAACCTTAACTATAAATTCAAGCAATTAAGAACAACAATAG
* ** *
15973830 AAAACCTTAACAATAAATTTGAGTAATTAAGAACAACAATAG
1 AAAACCTTAACTATAAATTCAAGCAATTAAGAACAACAATAG
15973872 AAA
1 AAA
15973875 TCCATAAATC
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.54, C:0.15, G:0.09, T:0.22
Consensus pattern (42 bp):
AAAACCTTAACTATAAATTCAAGCAATTAAGAACAACAATAG
Found at i:15975384 original size:40 final size:41
Alignment explanation
Indices: 15975304--15975398 Score: 122
Period size: 40 Copynumber: 2.3 Consensus size: 41
15975294 TGTTAACTAA
* *
15975304 TTGCATGATACTTTATTATAATTGCTTGATAATTTATATTAT
1 TTGCATGATA-TTTATTATAATTACATGATAATTTATATTAT
*
15975346 TTGCATGATATATTA-TATTATTACATGAT-ATTTATATTAT
1 TTGCATGATAT-TTATTATAATTACATGATAATTTATATTAT
*
15975386 TTGCATAATATTT
1 TTGCATGATATTT
15975399 TGTTTATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
39 2 0.04
40 21 0.44
41 12 0.25
42 13 0.27
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (41 bp):
TTGCATGATATTTATTATAATTACATGATAATTTATATTAT
Found at i:15975398 original size:20 final size:20
Alignment explanation
Indices: 15975304--15975398 Score: 104
Period size: 21 Copynumber: 4.7 Consensus size: 20
15975294 TGTTAACTAA
*
15975304 TTGCATGATACTTTAT-TATAA
1 TTGCATGATA-TTTATAT-TAT
*
15975325 TTGCTTGATAATTTATATTAT
1 TTGCATGAT-ATTTATATTAT
15975346 TTGCATGATATATTATATTA-
1 TTGCATGATAT-TTATATTAT
*
15975366 TTACATGATATTTATATTAT
1 TTGCATGATATTTATATTAT
*
15975386 TTGCATAATATTT
1 TTGCATGATATTT
15975399 TGTTTATTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
19 8 0.12
20 23 0.36
21 31 0.48
22 2 0.03
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (20 bp):
TTGCATGATATTTATATTAT
Found at i:15975454 original size:17 final size:18
Alignment explanation
Indices: 15975421--15975459 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
15975411 TTGATTTTCC
15975421 TCAAAATAAAAAGAATTT
1 TCAAAATAAAAAGAATTT
15975439 TCAAAA-AAAATA-AATTT
1 TCAAAATAAAA-AGAATTT
15975456 TCAA
1 TCAA
15975460 TCATGCCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.28
Consensus pattern (18 bp):
TCAAAATAAAAAGAATTT
Found at i:15975654 original size:17 final size:17
Alignment explanation
Indices: 15975616--15975655 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
15975606 ATATTGGAAG
15975616 ATAT-TTTTTAAAATAA
1 ATATATTTTTAAAATAA
15975632 AT-TATTTTTATAAA-AA
1 ATATATTTTTA-AAATAA
15975648 ATATATTT
1 ATATATTT
15975656 GTGAATCTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.05
16 12 0.57
17 8 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATATTTTTAAAATAA
Found at i:15978483 original size:20 final size:21
Alignment explanation
Indices: 15978460--15978526 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
15978450 ACCAGCAGTG
15978460 AAAAACACACAAAACAAAGAAA
1 AAAAACACA-AAAACAAAGAAA
* *
15978482 AAAAACCCAAAAACAAATAAA
1 AAAAACACAAAAACAAAGAAA
* *
15978503 AAAATCA-AAAATAAAAAGAAA
1 AAAAACACAAAA-ACAAAGAAA
15978524 AAA
1 AAA
15978527 GCAGAAAATC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
20 4 0.11
21 26 0.68
22 8 0.21
ACGTcount: A:0.79, C:0.13, G:0.03, T:0.04
Consensus pattern (21 bp):
AAAAACACAAAAACAAAGAAA
Found at i:15978689 original size:32 final size:31
Alignment explanation
Indices: 15978653--15978721 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
15978643 AATTTCTAGA
*
15978653 TTTCGACGAAATTTTTCGACATTGG-TGAAATT
1 TTTCGACG-AATTTTTCGACATCGGTTG-AATT
* * *
15978685 TTTCGATGAGTTTTTCGACGTCGGTTGAATT
1 TTTCGACGAATTTTTCGACATCGGTTGAATT
15978716 TTTCGA
1 TTTCGA
15978722 TAGGTTTCCC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 23 0.72
32 9 0.28
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.43
Consensus pattern (31 bp):
TTTCGACGAATTTTTCGACATCGGTTGAATT
Found at i:15978700 original size:31 final size:31
Alignment explanation
Indices: 15978664--15978722 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
15978654 TTCGACGAAA
*
15978664 TTTTTCGACATTGG-TGAAATTTTTCGATGAG
1 TTTTTCGACATCGGTTG-AATTTTTCGATGAG
*
15978695 TTTTTCGACGTCGGTTGAATTTTTCGAT
1 TTTTTCGACATCGGTTGAATTTTTCGAT
15978723 AGGTTTCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 23 0.92
32 2 0.08
ACGTcount: A:0.19, C:0.12, G:0.22, T:0.47
Consensus pattern (31 bp):
TTTTTCGACATCGGTTGAATTTTTCGATGAG
Found at i:15979380 original size:60 final size:60
Alignment explanation
Indices: 15979312--15979436 Score: 207
Period size: 60 Copynumber: 2.1 Consensus size: 60
15979302 AAAAGTAAAA
* * * *
15979312 TTTC-TAAAAATACAAATTATCAAGAAAAGTATTTTGATGAAAAGTTGAAAGTATCAATT
1 TTTCTTAAAAATAAAAATTATCAAGAAAAATATTTTAAGGAAAAGTTGAAAGTATCAATT
15979371 TTTCTTAAAAATAAAAATTATCAAGAAAAATATTTTAAGGAAAAGTTGAAAGTATCAATT
1 TTTCTTAAAAATAAAAATTATCAAGAAAAATATTTTAAGGAAAAGTTGAAAGTATCAATT
15979431 TTTCTT
1 TTTCTT
15979437 GTATAAAAAC
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
59 4 0.07
60 57 0.93
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.36
Consensus pattern (60 bp):
TTTCTTAAAAATAAAAATTATCAAGAAAAATATTTTAAGGAAAAGTTGAAAGTATCAATT
Found at i:15983089 original size:12 final size:12
Alignment explanation
Indices: 15983072--15983110 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
15983062 GAGTCCTTTT
15983072 ATGAAAAATGAA
1 ATGAAAAATGAA
15983084 ATGAAAAA-GAA
1 ATGAAAAATGAA
15983095 A-GAAAAAGTGAA
1 ATGAAAAA-TGAA
15983107 ATGA
1 ATGA
15983111 TGGGTCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 6 0.25
11 4 0.17
12 12 0.50
13 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.13
Consensus pattern (12 bp):
ATGAAAAATGAA
Found at i:15983388 original size:12 final size:12
Alignment explanation
Indices: 15983368--15983437 Score: 65
Period size: 12 Copynumber: 5.9 Consensus size: 12
15983358 TGGGTGAAAG
*
15983368 AGAAAAAAAAAA
1 AGAAGAAAAAAA
15983380 AGAAGAAAAAAA
1 AGAAGAAAAAAA
*
15983392 AGAATG-AAAAAG
1 AGAA-GAAAAAAA
* *
15983404 ATAAGAAAAGAA
1 AGAAGAAAAAAA
15983416 AGAA-AAGAAAAA
1 AGAAGAA-AAAAA
15983428 AG-AGAAAAAA
1 AGAAGAAAAAA
15983438 TGGAAATAAG
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
11 8 0.17
12 38 0.81
13 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (12 bp):
AGAAGAAAAAAA
Found at i:15983394 original size:9 final size:9
Alignment explanation
Indices: 15983364--15983437 Score: 69
Period size: 9 Copynumber: 8.1 Consensus size: 9
15983354 AAAATGGGTG
*
15983364 AAAGAGAAA
1 AAAGAAAAA
15983373 AAA-AAAAA
1 AAAGAAAAA
*
15983381 GAAGAAAAA
1 AAAGAAAAA
*
15983390 AAAGAATGAA
1 AAAGAA-AAA
*
15983400 AAAGATAAGA
1 AAAGA-AAAA
*
15983410 AAAGAAAGA
1 AAAGAAAAA
15983419 AAAGAAAAA
1 AAAGAAAAA
*
15983428 AGAGAAAAA
1 AAAGAAAAA
15983437 A
1 A
15983438 TGGAAATAAG
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
8 6 0.11
9 34 0.63
10 13 0.24
11 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.03
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:15983401 original size:24 final size:23
Alignment explanation
Indices: 15983371--15983437 Score: 73
Period size: 24 Copynumber: 2.9 Consensus size: 23
15983361 GTGAAAGAGA
15983371 AAAAAAAAAAGAAGAAAAAAAAG
1 AAAAAAAAAAGAAGAAAAAAAAG
* * * *
15983394 AATGAAAAAGATAAGAAAAGAAAG
1 AA-AAAAAAAAGAAGAAAAAAAAG
15983418 AAAAGAAAAAAG-AGAAAAAA
1 AAAA-AAAAAAGAAGAAAAAA
15983438 TGGAAATAAG
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
23 10 0.29
24 24 0.71
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (23 bp):
AAAAAAAAAAGAAGAAAAAAAAG
Found at i:15983443 original size:9 final size:9
Alignment explanation
Indices: 15983364--15983453 Score: 57
Period size: 9 Copynumber: 10.1 Consensus size: 9
15983354 AAAATGGGTG
15983364 AAAGAGAAA
1 AAAGAGAAA
15983373 AAA-A-AAA
1 AAAGAGAAA
*
15983380 AGAAGAAAAA
1 A-AAGAGAAA
15983390 AAAGA-ATGAA
1 AAAGAGA--AA
*
15983400 AAAGATAAGA
1 AAAGAGAA-A
*
15983410 AAAGA-AAG
1 AAAGAGAAA
15983418 AAA-AGAAA
1 AAAGAGAAA
15983426 AAAGAGAAA
1 AAAGAGAAA
15983435 AAATG-GAAA
1 AAA-GAGAAA
*
15983444 TAAGAGAAA
1 AAAGAGAAA
15983453 A
1 A
15983454 TGAAAACTCA
Statistics
Matches: 66, Mismatches: 4, Indels: 22
0.72 0.04 0.24
Matches are distributed among these distances:
7 5 0.08
8 13 0.20
9 29 0.44
10 18 0.27
11 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (9 bp):
AAAGAGAAA
Found at i:15983666 original size:15 final size:16
Alignment explanation
Indices: 15983646--15983679 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
15983636 TCCTGGATTA
15983646 ATTGTTTGAATAT-TC
1 ATTGTTTGAATATCTC
15983661 ATTGTTTGAATATCTC
1 ATTGTTTGAATATCTC
15983677 ATT
1 ATT
15983680 CAGCTCATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (16 bp):
ATTGTTTGAATATCTC
Found at i:15984599 original size:25 final size:25
Alignment explanation
Indices: 15984571--15984704 Score: 177
Period size: 25 Copynumber: 5.5 Consensus size: 25
15984561 GAAATCTTTT
15984571 AATGAGAATCTTTAAGACGTTTTCA
1 AATGAGAATCTTTAAGACGTTTTCA
* *
15984596 AATGAAAATCTTTAAGACGTTTCCA
1 AATGAGAATCTTTAAGACGTTTTCA
*
15984621 AATGAGAATCTTTAAGATGTTTTCA
1 AATGAGAATCTTTAAGACGTTTTCA
*
15984646 AATGAGAATCTTT--GA-GTCTT-A
1 AATGAGAATCTTTAAGACGTTTTCA
* * *
15984667 AATAAGGATCTTTAAGACATTTTCA
1 AATGAGAATCTTTAAGACGTTTTCA
15984692 AATGAGAATCTTT
1 AATGAGAATCTTT
15984705 GAATTTCAAA
Statistics
Matches: 93, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
21 12 0.13
22 4 0.04
23 4 0.04
24 3 0.03
25 70 0.75
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (25 bp):
AATGAGAATCTTTAAGACGTTTTCA
Found at i:15984694 original size:46 final size:47
Alignment explanation
Indices: 15984575--15984725 Score: 175
Period size: 46 Copynumber: 3.2 Consensus size: 47
15984565 TCTTTTAATG
* *
15984575 AGAATCTTTAAGACGTTTTCAAATGAAAATCTTTAAGACGTTTCCAAATG
1 AGAATCTTTAAGACGTTTTCAAATGAGAATCTTT--GACGTTT-CAAATA
*
15984625 AGAATCTTTAAGATGTTTTCAAATGAGAATCTTTGA-GTCTT-AAATA
1 AGAATCTTTAAGACGTTTTCAAATGAGAATCTTTGACGT-TTCAAATA
* * *
15984671 AGGATCTTTAAGACATTTTCAAATGAGAATCTTTGA-ATTTCAAATTA
1 AGAATCTTTAAGACGTTTTCAAATGAGAATCTTTGACGTTTCAAA-TA
15984718 AG-ATCTTT
1 AGAATCTTT
15984726 GAGGTGTGAA
Statistics
Matches: 91, Mismatches: 7, Indels: 10
0.84 0.06 0.09
Matches are distributed among these distances:
45 2 0.02
46 47 0.52
47 6 0.07
48 4 0.04
50 32 0.35
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (47 bp):
AGAATCTTTAAGACGTTTTCAAATGAGAATCTTTGACGTTTCAAATA
Found at i:15984891 original size:21 final size:23
Alignment explanation
Indices: 15984862--15984915 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 23
15984852 ACTTGAATGG
*
15984862 ATGAAAATCTCTAAA-ATT-CAA
1 ATGAGAATCTCTAAATATTACAA
* *
15984883 ATGAGAATCTTTAAATGTTACAA
1 ATGAGAATCTCTAAATATTACAA
*
15984906 ATGTGAATCT
1 ATGAGAATCT
15984916 TGAGATCTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 13 0.48
22 2 0.07
23 12 0.44
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (23 bp):
ATGAGAATCTCTAAATATTACAA
Found at i:15985170 original size:42 final size:42
Alignment explanation
Indices: 15985105--15985291 Score: 195
Period size: 42 Copynumber: 4.5 Consensus size: 42
15985095 ACGATTGTCA
*
15985105 AGGAGC-ATTTATTTTTCAAAGTTGTGATTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTTGTGGTTGCCTCTGTTTAG
* * *
15985146 AGGAACAATTTA-TTTTCTAAAGTTGCGGTTACCTCTGTTTAG
1 AGGAGCAATTTATTTTTC-AAAGTTGTGGTTGCCTCTGTTTAG
* * * *
15985188 AGGAGCAATATATTTTTCAAAATTATGGTTGCCTCTATTTAG
1 AGGAGCAATTTATTTTTCAAAGTTGTGGTTGCCTCTGTTTAG
* * * * * *
15985230 AGGAGC-ATTTATTTTTCAAAGTCGTTG-AGCTTCTATTTAA
1 AGGAGCAATTTATTTTTCAAAGTTGTGGTTGCCTCTGTTTAG
*
15985270 AGGAGC-ATTTATTTCTCAAAGT
1 AGGAGCAATTTATTTTTCAAAGT
15985292 CATTGAGCCT
Statistics
Matches: 123, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
40 31 0.25
41 26 0.21
42 61 0.50
43 5 0.04
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (42 bp):
AGGAGCAATTTATTTTTCAAAGTTGTGGTTGCCTCTGTTTAG
Found at i:15985274 original size:40 final size:40
Alignment explanation
Indices: 15985218--15985309 Score: 139
Period size: 40 Copynumber: 2.3 Consensus size: 40
15985208 AATTATGGTT
* * *
15985218 GCCTCTATTTAGAGGAGCATTTATTTTTCAAAGTCGTTGA
1 GCCTCTATTTAAAGGAGCATTTATTTCTCAAAGTCATTGA
*
15985258 GCTTCTATTTAAAGGAGCATTTATTTCTCAAAGTCATTGA
1 GCCTCTATTTAAAGGAGCATTTATTTCTCAAAGTCATTGA
15985298 GCCTCTACTTTA
1 GCCTCTA-TTTA
15985310 TGAGCTTTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 42 0.91
41 4 0.09
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.40
Consensus pattern (40 bp):
GCCTCTATTTAAAGGAGCATTTATTTCTCAAAGTCATTGA
Found at i:15986979 original size:58 final size:57
Alignment explanation
Indices: 15986910--15987103 Score: 248
Period size: 60 Copynumber: 3.3 Consensus size: 57
15986900 GAAAAAATAT
* * *
15986910 AAAATAGAATTTTTAAAAAGCATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTA
1 AAAATAAAATTTCTAAAAA-AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTA
*
15986968 AAAATAAAATTT-TCAAAAAAATAAATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTA
1 AAAATAAAATTTCT-AAAAAAAT---TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTA
* * *
15987028 AAAATAAAGTTCCTAAAAAATATTTTTGAGGAAAATTTGAAAGTATCAATTTTTCTT-
1 AAAATAAAATTTCTAAAAAA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTA
*
15987085 AAAGTAAAATTTCTAAAAA
1 AAAATAAAATTTCTAAAAA
15987104 TACAAATTAT
Statistics
Matches: 120, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
57 19 0.16
58 48 0.40
60 50 0.42
61 3 0.03
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (57 bp):
AAAATAAAATTTCTAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTA
Found at i:15987004 original size:60 final size:59
Alignment explanation
Indices: 15986933--15987103 Score: 247
Period size: 58 Copynumber: 2.9 Consensus size: 59
15986923 TAAAAAGCAT
*
15986933 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTCAAAAAAATAAA
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCCAAAAAAAT-AA
* * * *
15986993 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAGTTCCTAAAAAATAT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCCAAAAAAATAA
* * *
15987051 TTTTGAGGAAAATTTGAAAGTATCAATTTTTCTT-AAAGTAAAATTTCTAAAAA
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCCAAAAA
15987104 TACAAATTAT
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
57 4 0.04
58 43 0.43
59 13 0.13
60 39 0.39
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.36
Consensus pattern (59 bp):
TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCCAAAAAAATAA
Found at i:15997234 original size:16 final size:15
Alignment explanation
Indices: 15997211--15997262 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
15997201 CATAAGTATT
15997211 TAAAATAAATAAATA
1 TAAAATAAATAAATA
15997226 TATAAATAAATAAA-A
1 TA-AAATAAATAAATA
*
15997241 TAAACATAAAAAAATA
1 TAAA-ATAAATAAATA
15997257 -AAAATA
1 TAAAATA
15997263 TTAGAATTCG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.15
15 16 0.48
16 12 0.36
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (15 bp):
TAAAATAAATAAATA
Found at i:15997256 original size:14 final size:15
Alignment explanation
Indices: 15997211--15997258 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
15997201 CATAAGTATT
15997211 TAAA-ATAAATAAATA
1 TAAACATAAATAAA-A
15997226 TATAA-ATAAATAAAA
1 TA-AACATAAATAAAA
15997241 TAAACATAAA-AAAA
1 TAAACATAAATAAAA
15997255 TAAA
1 TAAA
15997259 AATATTAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 10 0.32
15 10 0.32
16 11 0.35
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (15 bp):
TAAACATAAATAAAA
Found at i:15997712 original size:19 final size:19
Alignment explanation
Indices: 15997669--15997714 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
15997659 AAATCTTCGT
*
15997669 CAAAAAATTCAACAAAATC
1 CAAAAAATTCAAAAAAATC
** *
15997688 TTAAAATTTCAAAAAAATC
1 CAAAAAATTCAAAAAAATC
15997707 CAAAAAAT
1 CAAAAAAT
15997715 CGTTAAAAAA
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.63, C:0.15, G:0.00, T:0.22
Consensus pattern (19 bp):
CAAAAAATTCAAAAAAATC
Found at i:15999077 original size:21 final size:21
Alignment explanation
Indices: 15999035--15999079 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
15999025 AACTAAAAAT
*
15999035 AATTAAATAAATTTAATATAA
1 AATTAAATAAATTCAATATAA
*
15999056 AATTAAAATAAATTCACT-TAA
1 AATT-AAATAAATTCAATATAA
15999077 AAT
1 AAT
15999080 GGGATTTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (21 bp):
AATTAAATAAATTCAATATAA
Found at i:16002240 original size:32 final size:34
Alignment explanation
Indices: 16002173--16002240 Score: 86
Period size: 36 Copynumber: 2.0 Consensus size: 34
16002163 GCATGCAACA
*
16002173 GGAATGAACAATGATTAGTTAGTCAAAGTAGCATTT
1 GGAATGAACAATGATTA--TAGTCAAAGTAACATTT
*
16002209 GGAATGAACAATGATTA-A-TTAAAGTAACATTT
1 GGAATGAACAATGATTATAGTCAAAGTAACATTT
16002241 TTCATTCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 12 0.40
33 1 0.03
36 17 0.57
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (34 bp):
GGAATGAACAATGATTATAGTCAAAGTAACATTT
Found at i:16009451 original size:16 final size:15
Alignment explanation
Indices: 16009428--16009459 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
16009418 TAATTAAAAG
16009428 TAATTATAAAATTAA
1 TAATTATAAAATTAA
16009443 TAATATATAAAATTAA
1 TAAT-TATAAAATTAA
16009459 T
1 T
16009460 TAAAAAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATTATAAAATTAA
Found at i:16013558 original size:102 final size:100
Alignment explanation
Indices: 16013449--16013656 Score: 287
Period size: 102 Copynumber: 2.0 Consensus size: 100
16013439 CAAGCTACCG
16013449 AAGATGATGGGATTAAGCCTGCCAAAACCAATAAAAAACTAACAGATAAAC-AGAGAGAGGGAAA
1 AAGATGATGGGATTAAGCCTG-C----CCAATAAAAAACTAACAGATAAACAAGAGAGAGGGAAA
*
16013513 AAGCCCCTTACTCC-TACTTTTCCTTGACTAT-ACAACCA
61 AAGCCCCTTACTCCTTACTTGTCCTTGACTATGACAACCA
16013551 AAGATGATGGGATTAAGCCTGCCCAATAAAAAACTAACAGATAAACAGAGAGAGAGAGGGAAAAA
1 AAGATGATGGGATTAAGCCTGCCCAATAAAAAACTAACAGATAAAC--A-AGAGAGAGGGAAAAA
* * *
16013616 GCTCCTTGCTCCTTACTTGTCCTTGATTATGACAACCA
63 GCCCCTTACTCCTTACTTGTCCTTGACTATGACAACCA
16013654 AAG
1 AAG
16013657 CACTGAGACA
Statistics
Matches: 96, Mismatches: 4, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
97 24 0.25
101 26 0.27
102 36 0.38
103 10 0.10
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (100 bp):
AAGATGATGGGATTAAGCCTGCCCAATAAAAAACTAACAGATAAACAAGAGAGAGGGAAAAAGCC
CCTTACTCCTTACTTGTCCTTGACTATGACAACCA
Found at i:16019939 original size:13 final size:14
Alignment explanation
Indices: 16019889--16019940 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 14
16019879 AACAATTTTT
16019889 ATATT-TAAATTCA
1 ATATTATAAATTCA
16019902 ATACTTATAAATT-A
1 ATA-TTATAAATTCA
* *
16019916 GTATTAAAAATTCA
1 ATATTATAAATTCA
16019930 ATATT-TAAATT
1 ATATTATAAATT
16019941 TTTAACCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
13 16 0.50
14 10 0.31
15 6 0.19
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (14 bp):
ATATTATAAATTCA
Found at i:16022367 original size:20 final size:21
Alignment explanation
Indices: 16022344--16022403 Score: 52
Period size: 20 Copynumber: 2.9 Consensus size: 21
16022334 AATTTTCATC
16022344 TTAAAATTAATAGTTATTA-T
1 TTAAAATTAATAGTTATTATT
* *
16022364 TTAATATT-ATAAGTTTTATATT
1 TTAAAATTAAT-AGTTAT-TATT
* *
16022386 TTCAAATTAATATTTATT
1 TTAAAATTAATAGTTATT
16022404 GTAACAAGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 2 0.07
20 12 0.40
21 3 0.10
22 11 0.37
23 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (21 bp):
TTAAAATTAATAGTTATTATT
Found at i:16024966 original size:13 final size:15
Alignment explanation
Indices: 16024948--16024980 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16024938 TTTATAATTC
16024948 AAAAAAT-TT-GAGA
1 AAAAAATGTTAGAGA
16024961 AAAAAATGTTAGAGA
1 AAAAAATGTTAGAGA
16024976 AAAAA
1 AAAAA
16024981 TGTCAAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 2 0.11
15 9 0.50
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (15 bp):
AAAAAATGTTAGAGA
Found at i:16025036 original size:22 final size:22
Alignment explanation
Indices: 16025011--16025057 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
16025001 GTATATGTGA
* * *
16025011 TATTATATATAATAGAAAATGT
1 TATTATAGATAACAAAAAATGT
16025033 TATTATAGATAACAAAAAATGT
1 TATTATAGATAACAAAAAATGT
16025055 TAT
1 TAT
16025058 GATGAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (22 bp):
TATTATAGATAACAAAAAATGT
Found at i:16026050 original size:11 final size:10
Alignment explanation
Indices: 16026034--16026279 Score: 119
Period size: 10 Copynumber: 25.2 Consensus size: 10
16026024 TCTTTAAAAC
16026034 AAAATTCATAA
1 AAAATTC-TAA
16026045 AAAATTC-AA
1 AAAATTCTAA
*
16026054 AAAGTTCTAA
1 AAAATTCTAA
16026064 AAAATTCTAA
1 AAAATTCTAA
* * *
16026074 AATATTTTTA
1 AAAATTCTAA
**
16026084 AAAATTAAAA
1 AAAATTCTAA
16026094 AAAATT-TAA
1 AAAATTCTAA
16026103 AATAATT-TAA
1 AA-AATTCTAA
* * *
16026113 AGCAATTTTTAT
1 A--AAATTCTAA
16026125 AAAA-T-TAA
1 AAAATTCTAA
16026133 AAAATTC-AA
1 AAAATTCTAA
*
16026142 AAAAATCT-A
1 AAAATTCTAA
*
16026151 AAAATTTTGAA
1 AAAATTCT-AA
* * *
16026162 ATAATTTTTA
1 AAAATTCTAA
16026172 AAAATTCT-A
1 AAAATTCTAA
*
16026181 AAAATTTTATA
1 AAAATTCTA-A
*
16026192 AAAATTGT-A
1 AAAATTCTAA
**
16026201 AATTTTCTAA
1 AAAATTCTAA
16026211 AATAATT-TCAA
1 AA-AATTCT-AA
16026222 AAAATAT-TAA
1 AAAAT-TCTAA
16026232 AAAATTC--A
1 AAAATTCTAA
16026240 AAAATT-TAA
1 AAAATTCTAA
*
16026249 AAATTTCTGAA
1 AAAATTCT-AA
16026260 AAAATT-T-A
1 AAAATTCTAA
16026268 AAAATTCTAA
1 AAAATTCTAA
16026278 AA
1 AA
16026280 GCTTTTAAAA
Statistics
Matches: 182, Mismatches: 30, Indels: 47
0.70 0.12 0.18
Matches are distributed among these distances:
8 20 0.11
9 51 0.28
10 66 0.36
11 41 0.23
12 4 0.02
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (10 bp):
AAAATTCTAA
Found at i:16026075 original size:20 final size:19
Alignment explanation
Indices: 16026034--16026279 Score: 139
Period size: 20 Copynumber: 12.6 Consensus size: 19
16026024 TCTTTAAAAC
*
16026034 AAAATTCATAAAAAATTCAA
1 AAAATTC-TAAAAAATTTAA
*
16026054 AAAGTTCTAAAAAATTCTAA
1 AAAATTCTAAAAAATT-TAA
* * * *
16026074 AATATTTTTAAAAATTAAAA
1 AAAATTCTAAAAAATT-TAA
16026094 AAAATT-TAAAATAATTTAA
1 AAAATTCTAAAA-AATTTAA
* * *
16026113 AGCAATTTTTATAAAA-TTAA
1 A--AAATTCTAAAAAATTTAA
* *
16026133 AAAATTCAAAAAAATCT-A
1 AAAATTCTAAAAAATTTAA
* * *
16026151 AAAATTTTGAAATAATTTTTA
1 AAAATTCT-AAA-AAATTTAA
*
16026172 AAAATTCTAAAAATTTTATA
1 AAAATTCTAAAAAATTTA-A
* **
16026192 AAAATTGT-AAATTTTCTAA
1 AAAATTCTAAAAAATT-TAA
16026211 AATAATT-TCAAAAAATATTAA
1 AA-AATTCT-AAAAAAT-TTAA
16026232 AAAATTC--AAAAATTTAA
1 AAAATTCTAAAAAATTTAA
*
16026249 AAATTTCTGAAAAAATTT-A
1 AAAATTCT-AAAAAATTTAA
16026268 AAAATTCTAAAA
1 AAAATTCTAAAA
16026280 GCTTTTAAAA
Statistics
Matches: 177, Mismatches: 30, Indels: 40
0.72 0.12 0.16
Matches are distributed among these distances:
17 10 0.06
18 26 0.15
19 44 0.25
20 69 0.39
21 23 0.13
22 5 0.03
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAATTCTAAAAAATTTAA
Found at i:16026110 original size:10 final size:9
Alignment explanation
Indices: 16026042--16026328 Score: 107
Period size: 10 Copynumber: 30.0 Consensus size: 9
16026032 ACAAAATTCA
16026042 TAAAAAATT
1 TAAAAAATT
* *
16026051 CAAAAAGTT
1 TAAAAAATT
16026060 CTAAAAAATT
1 -TAAAAAATT
*
16026070 CTAAAATATTT
1 -TAAAA-AATT
*
16026081 TTAAAAATT
1 TAAAAAATT
*
16026090 AAAAAAAATT
1 -TAAAAAATT
16026100 TAAAATAATT
1 TAAAA-AATT
*
16026110 TAAAGCAATTTT
1 TAAA--AA-ATT
*
16026122 TATAAAA-T
1 TAAAAAATT
16026130 TAAAAAATT
1 TAAAAAATT
* *
16026139 CAAAAAAATC
1 -TAAAAAATT
*
16026149 TAAAAATTT
1 TAAAAAATT
*
16026158 TGAAATAATTT
1 T-AAA-AAATT
*
16026169 TTAAAAATT
1 TAAAAAATT
*
16026178 CTAAAAATTT
1 -TAAAAAATT
16026188 TATAAAAATT
1 TA-AAAAATT
**
16026198 GT-AAATTTT
1 -TAAAAAATT
16026207 CTAAAATAATT
1 -TAAAA-AATT
16026218 TCAAAAAATAT
1 T-AAAAAAT-T
16026229 TAAAAAA-T
1 TAAAAAATT
*
16026237 TCAAAAATT
1 TAAAAAATT
*
16026246 TAAAAATTT
1 TAAAAAATT
16026255 CTGAAAAAATT
1 -T-AAAAAATT
16026266 T-AAAAATT
1 TAAAAAATT
**
16026274 CTAAAAGCTTT
1 -TAAAA-AATT
**
16026285 TAAAACTTT
1 TAAAAAATT
*
16026294 TTAAAAATT
1 TAAAAAATT
** *
16026303 TTCAAAATG
1 TAAAAAATT
16026312 T-AAAAATT
1 TAAAAAATT
*
16026320 AAAAAAATT
1 TAAAAAATT
16026329 CTAGAATATT
Statistics
Matches: 210, Mismatches: 43, Indels: 50
0.69 0.14 0.17
Matches are distributed among these distances:
8 26 0.12
9 68 0.32
10 82 0.39
11 28 0.13
12 6 0.03
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.36
Consensus pattern (9 bp):
TAAAAAATT
Found at i:16026133 original size:48 final size:47
Alignment explanation
Indices: 16026080--16026186 Score: 126
Period size: 49 Copynumber: 2.2 Consensus size: 47
16026070 CTAAAATATT
*
16026080 TTTAAAAATTAAAAAAAATTTAAAATAATTT-AAAGCAATTTTTATAAAA
1 TTTAAAAATTAAAAAAAATCTAAAA-AATTTGAAA-CAATTTTTA-AAAA
* * * *
16026129 TTAAAAAATTCAAAAAAATCTAAAAATTTTGAAATAATTTTTAAAAA
1 TTTAAAAATTAAAAAAAATCTAAAAAATTTGAAACAATTTTTAAAAA
16026176 TTCTAAAAATT
1 TT-TAAAAATT
16026187 TTATAAAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
47 6 0.12
48 19 0.38
49 25 0.50
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (47 bp):
TTTAAAAATTAAAAAAAATCTAAAAAATTTGAAACAATTTTTAAAAA
Found at i:16026289 original size:28 final size:26
Alignment explanation
Indices: 16026221--16026289 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 26
16026211 AATAATTTCA
*
16026221 AAAAATATTAAAAAATTCAAAAATTT
1 AAAAATTTTAAAAAATTCAAAAATTT
*
16026247 AAAAATTTCTGAAAAAATTTAAAAATTCT
1 AAAAATTT-T-AAAAAATTCAAAAATT-T
*
16026276 AAAAGCTTTTAAAA
1 AAAA-ATTTTAAAA
16026290 CTTTTTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 7 0.19
27 1 0.03
28 19 0.53
29 6 0.17
30 3 0.08
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (26 bp):
AAAAATTTTAAAAAATTCAAAAATTT
Found at i:16026293 original size:9 final size:9
Alignment explanation
Indices: 16026063--16026319 Score: 99
Period size: 9 Copynumber: 26.8 Consensus size: 9
16026053 AAAAGTTCTA
*
16026063 AAAAATTCT
1 AAAAATTTT
16026072 AAAATATTTTT
1 AAAA-A-TTTT
**
16026083 AAAAATTAA
1 AAAAATTTT
*
16026092 AAAAAATTT
1 AAAAATTTT
*
16026101 AAAATAATTT
1 AAAA-ATTTT
16026111 AAAGCAATTTTT
1 AAA--AA-TTTT
*
16026123 ATAAAA-TTA
1 A-AAAATTTT
**
16026132 AAAAATTCA
1 AAAAATTTT
* *
16026141 AAAAAATCT
1 AAAAATTTT
16026150 AAAAATTTT
1 AAAAATTTT
16026159 GAAATAATTTTT
1 -AAA-AA-TTTT
*
16026171 AAAAATTCT
1 AAAAATTTT
16026180 AAAAATTTTAT
1 AAAAA-TTT-T
*
16026191 AAAAATTGT
1 AAAAATTTT
*
16026200 -AAATTTTCT
1 AAAAATTT-T
*
16026209 AAAATAATTTCA
1 -AAA-AATTT-T
*
16026221 AAAAATATT
1 AAAAATTTT
* *
16026230 AAAAAATTC
1 AAAAATTTT
16026239 AAAAA-TTT
1 AAAAATTTT
16026247 AAAAATTTCT
1 AAAAATTT-T
*
16026257 GAAAAAATTT
1 -AAAAATTTT
*
16026267 AAAAATTCT
1 AAAAATTTT
*
16026276 AAAAGCTTTT
1 AAAA-ATTTT
*
16026286 AAAACTTTTT
1 AAAA-ATTTT
16026296 AAAAATTTT
1 AAAAATTTT
* *
16026305 CAAAA-TGT
1 AAAAATTTT
16026313 AAAAATT
1 AAAAATT
16026320 AAAAAAATTC
Statistics
Matches: 189, Mismatches: 37, Indels: 44
0.70 0.14 0.16
Matches are distributed among these distances:
8 22 0.12
9 78 0.41
10 40 0.21
11 33 0.17
12 14 0.07
13 2 0.01
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (9 bp):
AAAAATTTT
Found at i:16026733 original size:21 final size:21
Alignment explanation
Indices: 16026689--16026733 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
16026679 ATATTTTTTC
**
16026689 TTATTTTCAGTTTTTTAAGTT
1 TTATTTTCAGTTTTTTAAACT
* *
16026710 TTATTTTTATTTTTTTAAACT
1 TTATTTTCAGTTTTTTAAACT
16026731 TTA
1 TTA
16026734 AGAAAATTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.69
Consensus pattern (21 bp):
TTATTTTCAGTTTTTTAAACT
Found at i:16026816 original size:20 final size:19
Alignment explanation
Indices: 16026780--16026818 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
16026770 TTTTAAAAAA
*
16026780 TTTTCAAAATTAAATTTTT
1 TTTTCAAAATGAAATTTTT
*
16026799 TTTTCAAAAATGATATTTTT
1 TTTTC-AAAATGAAATTTTT
16026819 ATAATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTTCAAAATGAAATTTTT
Found at i:16026906 original size:10 final size:10
Alignment explanation
Indices: 16026851--16027475 Score: 89
Period size: 10 Copynumber: 62.5 Consensus size: 10
16026841 TATTTTTAAT
16026851 TTTTTTATAAA
1 TTTTTTA-AAA
*
16026862 -TTTTAAAAA
1 TTTTTTAAAA
**
16026871 AATTTTAAAA
1 TTTTTTAAAA
16026881 TTTTTTAAAA
1 TTTTTTAAAA
*
16026891 TTTTTTACAA
1 TTTTTTAAAA
*
16026901 TTTTTT-AGA
1 TTTTTTAAAA
* *
16026910 TTTGTTT-TAT
1 TTT-TTTAAAA
*
16026920 TTTTTTAGAA
1 TTTTTTAAAA
* **
16026930 -TTTTCAATT
1 TTTTTTAAAA
16026939 TTTTTTGAGAAA
1 TTTTTT-A-AAA
*
16026951 --TTTT-AGA
1 TTTTTTAAAA
**
16026958 TTTTTTTGAA
1 TTTTTTAAAA
* *
16026968 TATTTAAAAA
1 TTTTTTAAAA
* *
16026978 CTTTTTAGAA
1 TTTTTTAAAA
16026988 TTTTTATAAAA
1 TTTTT-TAAAA
** **
16026999 AATTTTAGTA
1 TTTTTTAAAA
*
16027009 TTTTTTATAA
1 TTTTTTAAAA
*
16027019 TTTTTTGAAA
1 TTTTTTAAAA
16027029 ----TTAAAA
1 TTTTTTAAAA
16027035 TTTTTTTATAAA
1 -TTTTTTA-AAA
16027047 ---TTTAAAA
1 TTTTTTAAAA
**
16027054 AGTTTTAGAAA
1 TTTTTTA-AAA
*
16027065 TATTTTAAGAA
1 TTTTTTAA-AA
*
16027076 TTTTTTTCATAA
1 -TTTTTT-AAAA
* *
16027088 CTTTTGAAAA
1 TTTTTTAAAA
**
16027098 -TTTTTAGCA
1 TTTTTTAAAA
16027107 TTGTTTT-AAA
1 TT-TTTTAAAA
16027117 TCTTTTT--AA
1 T-TTTTTAAAA
* *
16027126 GTTTTTAACA
1 TTTTTTAAAA
*
16027136 TTTTTT-GAA
1 TTTTTTAAAA
*
16027145 GTTTTTAAAA
1 TTTTTTAAAA
16027155 -TTTTTAGAAA
1 TTTTTTA-AAA
*
16027165 -TTATTAAAA
1 TTTTTTAAAA
*
16027174 -TTTTTAGAA
1 TTTTTTAAAA
* *
16027183 TTTATAAAAA
1 TTTTTTAAAA
*
16027193 CTTTTTAAATA
1 TTTTTTAAA-A
*
16027204 TGTTTTTGAGAA
1 T-TTTTT-AAAA
16027216 TTTTCTT-AAA
1 TTTT-TTAAAA
*
16027226 TATTTTGAAAA
1 T-TTTTTAAAA
* *
16027237 -ATTTTAGAA
1 TTTTTTAAAA
16027246 TTTTTT---A
1 TTTTTTAAAA
16027253 TTTTTTGAAAA
1 TTTTTT-AAAA
* *
16027264 -ATTTTAGAA
1 TTTTTTAAAA
**
16027273 TTTTTT-ATT
1 TTTTTTAAAA
16027282 TTTTTAAACTAAAA
1 TTTTT----TAAAA
16027296 TTTATTTTATAAA
1 -TT-TTTTA-AAA
* *
16027309 -TTTTGACAA
1 TTTTTTAAAA
*
16027318 TATTTTTAAATTT
1 T-TTTTTAAA--A
16027331 TTTTTTCAAAA
1 TTTTTT-AAAA
16027342 -TTTTTAAAA
1 TTTTTTAAAA
*
16027351 TTTTTTAGAA
1 TTTTTTAAAA
*
16027361 TTGTTTAAAA
1 TTTTTTAAAA
16027371 TTTTGTT--AA
1 TTTT-TTAAAA
16027380 TGTTTTTAAAA
1 T-TTTTTAAAA
*
16027391 -ATTTTAGAAA
1 TTTTTTA-AAA
*
16027401 -TTTTTAGAA
1 TTTTTTAAAA
**
16027410 TTTTGAAAAA
1 TTTTTTAAAA
** *
16027420 AGTTTAAAAA
1 TTTTTTAAAA
*
16027430 TTTTTTAGAA
1 TTTTTTAAAA
*
16027440 -TTTTTAATA
1 TTTTTTAAAA
* *
16027449 TTTTTTGAGAT
1 TTTTTT-AAAA
16027460 TTTTTATAAAA
1 TTTTT-TAAAA
16027471 TTTTT
1 TTTTT
16027476 GAATTAAAAT
Statistics
Matches: 430, Mismatches: 118, Indels: 132
0.63 0.17 0.19
Matches are distributed among these distances:
6 5 0.01
7 12 0.03
8 9 0.02
9 88 0.20
10 206 0.48
11 65 0.15
12 28 0.07
13 11 0.03
14 1 0.00
15 2 0.00
16 3 0.01
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:16026942 original size:20 final size:21
Alignment explanation
Indices: 16026919--16026964 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
16026909 ATTTGTTTTA
16026919 TTTTTTT-AG-AATTTTCA-AT
1 TTTTTTTGAGAAATTTT-AGAT
16026938 TTTTTTTGAGAAATTTTAGAT
1 TTTTTTTGAGAAATTTTAGAT
16026959 TTTTTT
1 TTTTTT
16026965 GAATATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.29
20 3 0.12
21 14 0.58
ACGTcount: A:0.24, C:0.02, G:0.09, T:0.65
Consensus pattern (21 bp):
TTTTTTTGAGAAATTTTAGAT
Found at i:16027146 original size:19 final size:19
Alignment explanation
Indices: 16027110--16027191 Score: 80
Period size: 19 Copynumber: 4.4 Consensus size: 19
16027100 TTTAGCATTG
16027110 TTTT-AAATCTTTTT-AAGT
1 TTTTAAAAT-TTTTTGAAGT
*
16027128 TTTTAACATTTTTTGAAGT
1 TTTTAAAATTTTTTGAAGT
* *
16027147 TTTTAAAATTTTTAGAAAT
1 TTTTAAAATTTTTTGAAGT
* *
16027166 TATTAAAATTTTTAGAA-T
1 TTTTAAAATTTTTTGAAGT
*
16027184 TTATAAAA
1 TTTTAAAA
16027192 ACTTTTTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
18 16 0.29
19 39 0.71
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (19 bp):
TTTTAAAATTTTTTGAAGT
Found at i:16027192 original size:19 final size:19
Alignment explanation
Indices: 16027151--16027199 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
16027141 TGAAGTTTTT
*
16027151 AAAATTTTTAGAAATTATT
1 AAAATTTTTAGAAATTATA
*
16027170 AAAATTTTTAGAATTTATA
1 AAAATTTTTAGAAATTATA
16027189 AAAACTTTTTA
1 AAAA-TTTTTA
16027200 AATATGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 21 0.78
20 6 0.22
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (19 bp):
AAAATTTTTAGAAATTATA
Found at i:16027263 original size:26 final size:27
Alignment explanation
Indices: 16027228--16027285 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
16027218 TTCTTAAATA
16027228 TTTTGAAAAATTTTAGAATTTTTTATT
1 TTTTGAAAAATTTTAGAATTTTTTATT
16027255 TTTTGAAAAATTTTAGAATTTTTTATT
1 TTTTGAAAAATTTTAGAATTTTTTATT
16027282 TTTT
1 TTTT
16027286 TAAACTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (27 bp):
TTTTGAAAAATTTTAGAATTTTTTATT
Found at i:16043598 original size:9 final size:9
Alignment explanation
Indices: 16043581--16043720 Score: 92
Period size: 8 Copynumber: 16.7 Consensus size: 9
16043571 TGGATCAATT
16043581 TTATT-TTA
1 TTATTATTA
*
16043589 TTTTTATTA
1 TTATTATTA
16043598 TTATTATTA
1 TTATTATTA
*
16043607 -TAATATGGTA
1 TTATTAT--TA
* *
16043617 -TATCACTA
1 TTATTATTA
16043625 TTATTA-TA
1 TTATTATTA
16043633 TTATTATTA
1 TTATTATTA
16043642 TGGTATTA-TA
1 T--TATTATTA
*
16043652 TTA-TACTA
1 TTATTATTA
16043660 -TATTA-TA
1 TTATTATTA
16043667 TTATTATTA
1 TTATTATTA
16043676 -TATTA-TA
1 TTATTATTA
*
16043683 CTA-TATTA
1 TTATTATTA
16043691 -TATTA-TA
1 TTATTATTA
16043698 TTA-TATTA
1 TTATTATTA
16043706 TTATTATTA
1 TTATTATTA
16043715 TTATTA
1 TTATTA
16043721 GTATATCACT
Statistics
Matches: 108, Mismatches: 7, Indels: 33
0.73 0.05 0.22
Matches are distributed among these distances:
7 16 0.15
8 48 0.44
9 31 0.29
10 8 0.07
11 5 0.05
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (9 bp):
TTATTATTA
Found at i:16043600 original size:3 final size:3
Alignment explanation
Indices: 16043581--16043720 Score: 92
Period size: 3 Copynumber: 50.0 Consensus size: 3
16043571 TGGATCAATT
* * * *
16043581 TTA TT- TTA TTT TTA TTA TTA TTA TTA -TA ATA TGGTA -TA TCA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T--TA TTA TTA TTA
*
16043625 TTA TTA -TA TTA TTA TTA TGGTA TTA -TA TTA -TA CTA -TA TTA -TA
1 TTA TTA TTA TTA TTA TTA T--TA TTA TTA TTA TTA TTA TTA TTA TTA
*
16043667 TTA TTA TTA -TA TTA -TA CTA -TA TTA -TA TTA -TA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16043709 TTA TTA TTA TTA
1 TTA TTA TTA TTA
16043721 GTATATCACT
Statistics
Matches: 112, Mismatches: 7, Indels: 36
0.72 0.05 0.23
Matches are distributed among these distances:
2 28 0.25
3 79 0.71
5 5 0.04
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:16043636 original size:5 final size:5
Alignment explanation
Indices: 16043626--16043718 Score: 105
Period size: 5 Copynumber: 17.2 Consensus size: 5
16043616 ATATCACTAT
*
16043626 TATTA TATTA TTATTA TGGTATTA TATTA TACTA TATTA TATTA TTATTA
1 TATTA TATTA -TATTA ---TATTA TATTA TATTA TATTA TATTA -TATTA
*
16043676 TATTA TACTA TATTA TATTA TATTA TATTA TTATTA TTATTA T
1 TATTA TATTA TATTA TATTA TATTA TATTA -TATTA -TATTA T
16043719 TAGTATATCA
Statistics
Matches: 78, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
5 52 0.67
6 21 0.27
8 5 0.06
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:16043674 original size:26 final size:26
Alignment explanation
Indices: 16043629--16043706 Score: 122
Period size: 26 Copynumber: 2.9 Consensus size: 26
16043619 TCACTATTAT
16043629 TATATTATTATTATGGTATTATATTATAC
1 TATATTA-TATTAT--TATTATATTATAC
16043658 TATATTATATTATTATTATATTATAC
1 TATATTATATTATTATTATATTATAC
16043684 TATATTATATTA-TATTATATTAT
1 TATATTATATTATTATTATATTAT
16043707 TATTATTATT
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
25 11 0.22
26 25 0.51
28 6 0.12
29 7 0.14
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (26 bp):
TATATTATATTATTATTATATTATAC
Found at i:16043711 original size:31 final size:32
Alignment explanation
Indices: 16043621--16043712 Score: 125
Period size: 31 Copynumber: 2.8 Consensus size: 32
16043611 ATGGTATATC
*
16043621 ACTATTATTATATTATTATTATGGTATTATATTAT
1 ACTA-TATTATATTATTATTAT--TATTATACTAT
16043656 ACTATATTATATTATTATTA-TATTATACTAT
1 ACTATATTATATTATTATTATTATTATACTAT
*
16043687 ATTATATTATATTA-TATTATTATTAT
1 ACTATATTATATTATTATTATTATTAT
16043713 TATTATTAGT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
30 5 0.09
31 29 0.54
34 16 0.30
35 4 0.07
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (32 bp):
ACTATATTATATTATTATTATTATTATACTAT
Found at i:16044641 original size:24 final size:23
Alignment explanation
Indices: 16044609--16044706 Score: 67
Period size: 23 Copynumber: 4.2 Consensus size: 23
16044599 AGGTTTCTTT
*
16044609 TTTTCATTTTATTTTTATTTTTTA
1 TTTTGATTTTA-TTTTATTTTTTA
* * *
16044633 TTTTGATTTGATTTGATTTTATA
1 TTTTGATTTTATTTTATTTTTTA
* **
16044656 TTTTTAGCTTATTTTA-TTTTTA
1 TTTTGATTTTATTTTATTTTTTA
*
16044678 GTTTT--TTTTATTTTTTTGGTTTTA
1 -TTTTGATTTTATTTTATT--TTTTA
16044702 TTTTG
1 TTTTG
16044707 GAGAAATTTC
Statistics
Matches: 56, Mismatches: 13, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
21 7 0.12
22 6 0.11
23 29 0.52
24 14 0.25
ACGTcount: A:0.15, C:0.02, G:0.08, T:0.74
Consensus pattern (23 bp):
TTTTGATTTTATTTTATTTTTTA
Found at i:16044669 original size:28 final size:28
Alignment explanation
Indices: 16044621--16044674 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
16044611 TTCATTTTAT
**
16044621 TTTTATTTTTTATTTTGATTTGATTTGA
1 TTTTATTTTTTAGCTTGATTTGATTTGA
*
16044649 TTTTATATTTTTAGCTT-ATTTTATTT
1 TTTTAT-TTTTTAGCTTGATTTGATTT
16044675 TTAGTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 14 0.64
29 8 0.36
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.72
Consensus pattern (28 bp):
TTTTATTTTTTAGCTTGATTTGATTTGA
Found at i:16044675 original size:16 final size:16
Alignment explanation
Indices: 16044654--16044692 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
16044644 TTTGATTTTA
16044654 TATTTTTAGCTTATTT
1 TATTTTTAGCTTATTT
* *
16044670 TATTTTTAGTTTTTTT
1 TATTTTTAGCTTATTT
16044686 TATTTTT
1 TATTTTT
16044693 TTGGTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (16 bp):
TATTTTTAGCTTATTT
Found at i:16048544 original size:18 final size:17
Alignment explanation
Indices: 16048521--16048562 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
16048511 TATGCTCCAC
16048521 CAAAAAAAAAAGAGAAAA
1 CAAAAAAAAAAGA-AAAA
*
16048539 CAAAAAACAAAGAAAAA
1 CAAAAAAAAAAGAAAAA
*
16048556 GAAAAAA
1 CAAAAAA
16048563 GAAGAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (17 bp):
CAAAAAAAAAAGAAAAA
Done.