Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008803.1 Hibiscus syriacus cultivar Beakdansim tig00111954_pilon, 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: 1826237
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 9
Found at i:1383416 original size:26 final size:26
Alignment explanation
Indices: 1383387--1383589 Score: 165
Period size: 26 Copynumber: 8.5 Consensus size: 26
1383377 CGCATTAACA
1383387 CATCCATTT-ATGCATTTTAATTATGG
1 CATCC-TTTCATGCATTTTAATTATGG
*
1383413 CATCCTTTCATGC--CTT-A--AT-G
1 CATCCTTTCATGCATTTTAATTATGG
*
1383433 CATCCTTTCATGCCTTTTAATTATGG
1 CATCCTTTCATGCATTTTAATTATGG
*
1383459 CATCCTTTCATGCATTTTAATTATGT
1 CATCCTTTCATGCATTTTAATTATGG
*
1383485 CATCCTTTCATGC--CTT-A--AT-G
1 CATCCTTTCATGCATTTTAATTATGG
** *
1383505 CATCCTTTCATTTATTTTCATTATGG
1 CATCCTTTCATGCATTTTAATTATGG
* *
1383531 AATCCTTTCATGC--CTT-A--AT-G
1 CATCCTTTCATGCATTTTAATTATGG
* *
1383551 CATCCTTTAATACATTTTAATTATGG
1 CATCCTTTCATGCATTTTAATTATGG
1383577 CATCCTTTCATGC
1 CATCCTTTCATGC
1383590 CTTAATGCAT
Statistics
Matches: 139, Mismatches: 19, Indels: 38
0.71 0.10 0.19
Matches are distributed among these distances:
20 36 0.26
21 6 0.04
22 6 0.04
23 6 0.04
24 6 0.04
25 9 0.06
26 70 0.50
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (26 bp):
CATCCTTTCATGCATTTTAATTATGG
Found at i:1383477 original size:72 final size:72
Alignment explanation
Indices: 1383387--1383663 Score: 249
Period size: 72 Copynumber: 3.9 Consensus size: 72
1383377 CGCATTAACA
*
1383387 CATCCATTT-ATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCCTTTT
1 CATCC-TTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTT
1383451 AATTATGG
65 AATTATGG
* ** *
1383459 CATCCTTTCATGCATTTTAATTATGTCATCCTTTCATGCCTTAATGCATCCTTTCATTTATTTTC
1 CATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTA
1383524 ATTATGG
66 ATTATGG
* * * * *
1383531 AATCCTTTCATGC--CTT-A--AT-GCATCCTTTAATACATTTTAATTATGGCATCCTTTCATGC
1 CATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGC--CTT-A--AT-GCATCCTTTCATGC
*
1383590 --CTT-A--AT-G
60 ATTTTAATTATGG
* * * *
1383597 CAT-CATTCTATGCATTTTCATTATGGAATCCTTTCATGCCTTAATGCATCATTTCATGCATTTT
1 CATCCTTTC-ATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTT
1383661 AAT
65 AAT
1383664 CCTTTCATGC
Statistics
Matches: 164, Mismatches: 23, Indels: 38
0.73 0.10 0.17
Matches are distributed among these distances:
65 4 0.02
66 31 0.19
67 6 0.04
68 6 0.04
69 6 0.04
70 6 0.04
71 7 0.04
72 98 0.60
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.45
Consensus pattern (72 bp):
CATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTA
ATTATGG
Found at i:1383508 original size:46 final size:46
Alignment explanation
Indices: 1383458--1383707 Score: 311
Period size: 46 Copynumber: 5.6 Consensus size: 46
1383448 TTTAATTATG
**
1383458 GCATCCTTTCATGCATTTTAATTATGTCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTTAATTATGGAATCCTTTCATGCCTTAAT
** *
1383504 GCATCCTTTCATTTATTTTCATTATGGAATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTTAATTATGGAATCCTTTCATGCCTTAAT
* * *
1383550 GCATCCTTTAATACATTTTAATTATGGCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTTAATTATGGAATCCTTTCATGCCTTAAT
* *
1383596 GCAT-CATTCTATGCATTTTCATTATGGAATCCTTTCATGCCTTAAT
1 GCATCCTTTC-ATGCATTTTAATTATGGAATCCTTTCATGCCTTAAT
*
1383642 GCATCATTTCATGCA---T--TT-T--AATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTTAATTATGGAATCCTTTCATGCCTTAAT
* *
1383680 GCATCCATTCATGCATTTTAATCATGGA
1 GCATCCTTTCATGCATTTTAATTATGGA
1383708 TTCGATTTAG
Statistics
Matches: 174, Mismatches: 20, Indels: 20
0.81 0.09 0.09
Matches are distributed among these distances:
38 32 0.18
40 1 0.01
41 3 0.02
43 2 0.01
44 1 0.01
45 3 0.02
46 129 0.74
47 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.44
Consensus pattern (46 bp):
GCATCCTTTCATGCATTTTAATTATGGAATCCTTTCATGCCTTAAT
Found at i:1383666 original size:38 final size:38
Alignment explanation
Indices: 1383623--1383702 Score: 144
Period size: 38 Copynumber: 2.1 Consensus size: 38
1383613 TTCATTATGG
1383623 AATCCTTTCATGCCTTAATGCAT-CATTTCATGCATTTT
1 AATCCTTTCATGCCTTAATGCATCCA-TTCATGCATTTT
1383661 AATCCTTTCATGCCTTAATGCATCCATTCATGCATTTT
1 AATCCTTTCATGCCTTAATGCATCCATTCATGCATTTT
1383699 AATC
1 AATC
1383703 ATGGATTCGA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 39 0.95
39 2 0.05
ACGTcount: A:0.25, C:0.25, G:0.07, T:0.42
Consensus pattern (38 bp):
AATCCTTTCATGCCTTAATGCATCCATTCATGCATTTT
Found at i:1388376 original size:47 final size:46
Alignment explanation
Indices: 1388304--1388476 Score: 253
Period size: 47 Copynumber: 3.8 Consensus size: 46
1388294 TATAAAATCC
* *
1388304 CTTACCATTT-ATCCCATAAGATCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1388349 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTT-AATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
1388396 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCCATATA
1 CTTACCATTT-AATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
1388443 CTTGCCA-TTAA-TCCAAAAGCTCGTAAGCTTATTT
1 CTTACCATTTAATTCCATAAGCTCGTAAGCTTATTT
1388477 GTATGCTTAC
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
44 22 0.18
45 12 0.10
46 2 0.02
47 84 0.70
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.36
Consensus pattern (46 bp):
CTTACCATTTAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:1388686 original size:59 final size:59
Alignment explanation
Indices: 1388585--1388713 Score: 177
Period size: 59 Copynumber: 2.2 Consensus size: 59
1388575 CGTAGTGCTA
* * **
1388585 TCCCGAATATGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAG
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
* * ** *
1388644 TCCCGAATATGACACATAAGGTCGTGCCCATCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
1388703 TCCCGAATATG
1 TCCCGAATATG
1388714 CAGCCTGCTG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
Found at i:1390343 original size:14 final size:15
Alignment explanation
Indices: 1390319--1390347 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1390309 ACAGAAATGT
1390319 AAAATCATTTTCCAG
1 AAAATCATTTTCCAG
1390334 AAAA-CATTTTCCAG
1 AAAATCATTTTCCAG
1390348 TGTTTGGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (15 bp):
AAAATCATTTTCCAG
Found at i:1395695 original size:179 final size:177
Alignment explanation
Indices: 1395346--1395723 Score: 454
Period size: 179 Copynumber: 2.1 Consensus size: 177
1395336 ATACTCTTTG
* * ** * *
1395346 TATAGGTATCGACACTTTTGTCCAATATGCTTCTCAACAATTTGCACGCACAAAGTATTGATATA
1 TATA-GTATCGATACTTTTGTCCAATATGCTTCTCAAAAACATGCACGCACAAAGTATCGATACA
** * *
1395411 TGTATAACAAGTATCAATACTTATAATTTCGAAACCGATTACTTTAAAGTTATAGGTAAATTTAC
65 CATATAACAAGTATCAATACTTATAATTTCGAAACCGATTACTTTAAAGTAATAGATAAATTTAC
** *
1395476 AATGTCAACGGTAAAAGTCTACCGGGTTAATGACAATAGGCATAAACA
130 AATGAAAACGGTAAAAATCTACCGGGTTAATGACAATAGGCATAAACA
* *
1395524 TATAGTATCGATACTTTTAGTCCAGTATGCTTCTCAAAAAACATGCACGCAGAAAGTATCGATAC
1 TATAGTATCGATACTTTT-GTCCAATATGCTTCTC-AAAAACATGCACGCACAAAGTATCGATAC
* * * * *
1395589 ACATATTATAAGTAT-AGATA-TCTATATTTTTGAAACCGATTACTTTAAAGTAATAGATAATTT
64 ACATATAACAAGTATCA-ATACT-TATAATTTCGAAACCGATTACTTTAAAGTAATAGATAAATT
* * * *
1395652 TACAATGAAAACGGTAAAAATCTATCGGTTTAATGATAATAGGCGTAAACA
127 TACAATGAAAACGGTAAAAATCTACCGGGTTAATGACAATAGGCATAAACA
* *
1395703 TAAAGTATTGATACTCTTTGT
1 TATAGTATCGATACT-TTTGT
1395724 ATAGGTATCA
Statistics
Matches: 169, Mismatches: 26, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
177 13 0.08
178 21 0.12
179 132 0.78
180 3 0.02
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (177 bp):
TATAGTATCGATACTTTTGTCCAATATGCTTCTCAAAAACATGCACGCACAAAGTATCGATACAC
ATATAACAAGTATCAATACTTATAATTTCGAAACCGATTACTTTAAAGTAATAGATAAATTTACA
ATGAAAACGGTAAAAATCTACCGGGTTAATGACAATAGGCATAAACA
Found at i:1395892 original size:198 final size:198
Alignment explanation
Indices: 1395627--1396069 Score: 559
Period size: 198 Copynumber: 2.2 Consensus size: 198
1395617 TTTGAAACCG
* * * *
1395627 ATTACTTTAAAGTAATAGATAATTTTACAATGAAAACGGTAAAAATCTATCGGTTTAATGATAAT
1 ATTACTTTAAAGTAATAGGTAA-TTTACAATGTAAACGGTAAAAAGCTATCGGTCTAATGATAAT
* * *
1395692 AGGCGTAAACATAAAGTATTGATACTCTTTGTATAGGTATCAATACTTTTAGTCTAGTATGCTTC
65 AGGCATAAACATAAAGTATCGATACTCTTTGTATAGGTATCAATACTTTTAGTCCAGTATGCTTC
** * * * * * *
1395757 TC-AACAATTTGCACGTACAAAGTATTGATACATGTATAACAAGTATTGATACCTATAATTTTGA
130 TCAAACAACATGCACGCAGAAAGTATCGATACACGTATAATAAGTATAGATACCTATAATTTTGA
1395821 AACT
195 AACT
* * * *
1395825 AATTACTTTAAAGTTATAGGTTATTTACAATGTCAAA-GGTAAAAGGCTATTGGTCTAATGATAA
1 -ATTACTTTAAAGTAATAGGTAATTTACAATGT-AAACGGTAAAAAGCTATCGGTCTAATGATAA
* *
1395889 TAGGCATAAACATAAAGTATCGATACTCTTTGTATAGGTATCCATACTTTTAGTCCAATATGCTT
64 TAGGCATAAACATAAAGTATCGATACTCTTTGTATAGGTATCAATACTTTTAGTCCAGTATGCTT
* * * * *
1395954 CTCAAACAACATG-ACCGCAGAAAGTATCAATACACGTATCATAAGTATCGATACTTATAATTTC
129 CTCAAACAACATGCA-CGCAGAAAGTATCGATACACGTATAATAAGTATAGATACCTATAATTTT
*
1396018 AAAACCT
193 GAAA-CT
*
1396025 ATTACTTTAAAGTAATAGGTAAATTGACAATGTAAACGGTAAAAA
1 ATTACTTTAAAGTAATAGGT-AATTTACAATGTAAACGGTAAAAA
1396070 AATATTCATA
Statistics
Matches: 208, Mismatches: 30, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
198 96 0.46
199 93 0.45
200 19 0.09
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (198 bp):
ATTACTTTAAAGTAATAGGTAATTTACAATGTAAACGGTAAAAAGCTATCGGTCTAATGATAATA
GGCATAAACATAAAGTATCGATACTCTTTGTATAGGTATCAATACTTTTAGTCCAGTATGCTTCT
CAAACAACATGCACGCAGAAAGTATCGATACACGTATAATAAGTATAGATACCTATAATTTTGAA
ACT
Found at i:1395913 original size:377 final size:376
Alignment explanation
Indices: 1395235--1395915 Score: 1069
Period size: 377 Copynumber: 1.8 Consensus size: 376
1395225 TATCAGTACT
* * *
1395235 TATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAACTTTACAATGAAAATGGTAAAAATCTA
1 TATAATTTTGAAACCGATTACTTTAAAGTAATAGATAACTTTACAATGAAAACGGTAAAAATCTA
*
1395300 TCGGCTTAATGATAATAAACGAAACATAAAGTATCGATACTCTTTGTATAGGTATCGACACTTTT
66 TCGGCTTAATGATAATAAACGAAACATAAAGTATCGATACTCTTTGTATAGGTATCAACACTTTT
*
1395365 GTCCAATATGCTTCTCAACAATTTGCACGCACAAAGTATTGATATATGTATAACAAGTATCAATA
131 GTCCAATATGCTTCTCAACAATTTGCACGCACAAAGTATTGATACATGTATAACAAGTATCAATA
* * * *
1395430 CTTATAATTTCGAAACCGATTACTTTAAAGTTATAGGTAAATTTACAATGTCAACGGTAAAAGTC
196 CCTATAATTTCGAAACCAATTACTTTAAAGTTATAGGTAAATTTACAATGTCAAAGGTAAAAGGC
*
1395495 TACCGGGTTAATGACAATAGGCATAAACATATAGTATCGATACTTTTAGTCCAGTATGCTTCTCA
261 TACCGGGTTAATGACAATAGGCATAAACATAAAGTATCGATACTTTTAGTCCAGTATGCTTCTCA
1395560 AAAAACATGCACGCAGAAAGTATCGATACACATATTATAAGTATAGATATC
326 AAAAACATGCACGCAGAAAGTATCGATACACATATTATAAGTATAGATATC
* *
1395611 TATATTTTTGAAACCGATTACTTTAAAGTAATAGATAATTTTACAATGAAAACGGTAAAAATCTA
1 TATAATTTTGAAACCGATTACTTTAAAGTAATAGATAACTTTACAATGAAAACGGTAAAAATCTA
* ** * *
1395676 TCGGTTTAATGATAATAGGCGTAAACATAAAGTATTGATACTCTTTGTATAGGTATCAATACTTT
66 TCGGCTTAATGATAATAAACG-AAACATAAAGTATCGATACTCTTTGTATAGGTATCAACACTTT
* * * **
1395741 TAGTCTAGTATGCTTCTCAACAATTTGCACGTACAAAGTATTGATACATGTATAACAAGTATTGA
130 T-GTCCAATATGCTTCTCAACAATTTGCACGCACAAAGTATTGATACATGTATAACAAGTATCAA
* * *
1395806 TACCTATAATTTTGAAACTAATTACTTTAAAGTTATAGGT-TATTTACAATGTCAAAGGTAAAAG
194 TACCTATAATTTCGAAACCAATTACTTTAAAGTTATAGGTAAATTTACAATGTCAAAGGTAAAAG
** *
1395870 GCTA-TTGGTCTAATGATAATAGGCATAAACATAAAGTATCGATACT
259 GCTACCGGGT-TAATGACAATAGGCATAAACATAAAGTATCGATACT
1395916 CTTTGTATAG
Statistics
Matches: 274, Mismatches: 28, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
376 81 0.30
377 100 0.36
378 93 0.34
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (376 bp):
TATAATTTTGAAACCGATTACTTTAAAGTAATAGATAACTTTACAATGAAAACGGTAAAAATCTA
TCGGCTTAATGATAATAAACGAAACATAAAGTATCGATACTCTTTGTATAGGTATCAACACTTTT
GTCCAATATGCTTCTCAACAATTTGCACGCACAAAGTATTGATACATGTATAACAAGTATCAATA
CCTATAATTTCGAAACCAATTACTTTAAAGTTATAGGTAAATTTACAATGTCAAAGGTAAAAGGC
TACCGGGTTAATGACAATAGGCATAAACATAAAGTATCGATACTTTTAGTCCAGTATGCTTCTCA
AAAAACATGCACGCAGAAAGTATCGATACACATATTATAAGTATAGATATC
Found at i:1396262 original size:18 final size:18
Alignment explanation
Indices: 1396204--1396267 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
1396194 TGAGACACAG
* *
1396204 TTCTTCTCAACCAAAACC
1 TTCTTCTCAACCAAGATC
*
1396222 TTCTTCTCAACCAAGGTC
1 TTCTTCTCAACCAAGATC
* *
1396240 ATCTTCACAACCAAGATC
1 TTCTTCTCAACCAAGATC
*
1396258 TTCTTTTCAA
1 TTCTTCTCAA
1396268 GTAAGAGCTT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.30, C:0.33, G:0.05, T:0.33
Consensus pattern (18 bp):
TTCTTCTCAACCAAGATC
Found at i:1402715 original size:178 final size:179
Alignment explanation
Indices: 1402484--1402850 Score: 528
Period size: 178 Copynumber: 2.1 Consensus size: 179
1402474 TTCATAACAT
* * *
1402484 GTATCGATACTTATAATTTTGAAACCTATTTCTTTAAAGTAATAAGTAAATTTACAATGTAAATA
1 GTATCGATACTGATAATTTTGAAACCGATTACTTTAAAGTAATAAGTAAATTTACAATGTAAATA
* * *
1402549 GTAAAAATCTACTGGTTTAATGATAATA-GACGTAAACAAAAAGTATCGATGCTTATTATATAGT
66 GTAAAAATCTACCGGTTTAATGATAATAGGA-GTAAACAAAAAGCATCGATACTTATTATATAGT
*
1402613 ATCGATACTTTTATTCCAGT-ATGCATCTCAAACAATTTGCACGT-AAAAA-
130 ATCGATACTTTTATTCCA-TAATGCATCTCAAACAATTTCCAC-TAAAAAAG
* * * *
1402662 GTATCGATACGTGA-AATTTTGAAACCGATTACTTTAAAGTTATACGTAAATTTACTATGTAAGT
1 GTATCGATAC-TGATAATTTTGAAACCGATTACTTTAAAGTAATAAGTAAATTTACAATGTAAAT
* * * *
1402726 GGTAAAAATCTACCGGTTTAATGATAATAGGAGTAAACATAAAGCATCGATATTTATTATATATT
65 AGTAAAAATCTACCGGTTTAATGATAATAGGAGTAAACAAAAAGCATCGATACTTATTATATAGT
1402791 ATCGATACTTTTATTCCATAATGCATCTCAAACAATTTCCACTAAAAAAG
130 ATCGATACTTTTATTCCATAATGCATCTCAAACAATTTCCACTAAAAAAG
1402841 GTATCGATAC
1 GTATCGATAC
1402851 ACATGTATAA
Statistics
Matches: 169, Mismatches: 15, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
177 2 0.01
178 153 0.91
179 14 0.08
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (179 bp):
GTATCGATACTGATAATTTTGAAACCGATTACTTTAAAGTAATAAGTAAATTTACAATGTAAATA
GTAAAAATCTACCGGTTTAATGATAATAGGAGTAAACAAAAAGCATCGATACTTATTATATAGTA
TCGATACTTTTATTCCATAATGCATCTCAAACAATTTCCACTAAAAAAG
Found at i:1403027 original size:200 final size:200
Alignment explanation
Indices: 1402659--1403028 Score: 489
Period size: 200 Copynumber: 1.9 Consensus size: 200
1402649 TTGCACGTAA
* * * *
1402659 AAAGTATCGATACGTGAAATTTTGAAACCGATTACTTTAAAGTTATACGTAAATTTACTATGTAA
1 AAAGTATCGATACGAGAAATTTCGAAACCGAATACTTTAAAGTTATACGTAAATTTACAATGTAA
**
1402724 GTGGTAAAAATCTACCGGTTTAATGATAATAGGAGTAAACATAAAGCATCGATATTTATTATATA
66 ACGGTAAAAATCTACCGGTTTAATGATAATAGGAGTAAACATAAAGCATCGATATTTATTATATA
* * *
1402789 TTATCGATACTTTTATTCCATAATGCATCTCAAACAATTTCCACTAAAAAAGGTATCGATACACA
131 GTATCAATACTTTTATTCAATAATGCATCTCAAACAATTTCCACTAAAAAAGGTATCGATACACA
1402854 TGTAT
196 TGTAT
* * *
1402859 AAAGTATCGATACGAGGAATTTCGAAATCGAATACTTTAAAGTTATAGGTAAATTTACAATGTAA
1 AAAGTATCGATACGAGAAATTTCGAAACCGAATACTTTAAAGTTATACGTAAATTTACAATGTAA
* * * * *
1402924 ACGGTGAAAATCTATCGGTTTAATGATAATAGGCA-TAAACATCAAGTATTGATATGTT-TTGA-
66 ACGGTAAAAATCTACCGGTTTAATGATAATAGG-AGTAAACATAAAGCATCGATAT-TTATT-AT
* *
1402986 ATAGGTATCAATACTTTTAGTTCAAT-GTGCTTCTC-AACAATTT
128 ATA-GTATCAATACTTTTA-TTCAATAATGCATCTCAAACAATTT
1403029 GCACGCACAA
Statistics
Matches: 146, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
200 117 0.80
201 24 0.16
202 5 0.03
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (200 bp):
AAAGTATCGATACGAGAAATTTCGAAACCGAATACTTTAAAGTTATACGTAAATTTACAATGTAA
ACGGTAAAAATCTACCGGTTTAATGATAATAGGAGTAAACATAAAGCATCGATATTTATTATATA
GTATCAATACTTTTATTCAATAATGCATCTCAAACAATTTCCACTAAAAAAGGTATCGATACACA
TGTAT
Found at i:1403225 original size:21 final size:21
Alignment explanation
Indices: 1403193--1403244 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
1403183 ACATGTAACG
*
1403193 AATTTCAC-AAAACCGATTGGA
1 AATTTGACAAAAACCGATT-GA
* *
1403214 AA-TTGACAAAAATCGGTTGA
1 AATTTGACAAAAACCGATTGA
1403234 AATTTGACAAA
1 AATTTGACAAA
1403245 CTGGTTGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.25
Consensus pattern (21 bp):
AATTTGACAAAAACCGATTGA
Found at i:1403580 original size:198 final size:193
Alignment explanation
Indices: 1403376--1403739 Score: 505
Period size: 198 Copynumber: 1.9 Consensus size: 193
1403366 AAATGTCTCA
* *
1403376 AAAGTATCGATACCTTAGACACATGTATTGATACATGACAATATAACAGGTTGAAGTTTGACAAA
1 AAAGTATCGATACCTTAGACACATGTATCGATACATGACAATATAACAGGTTGAAGTTTAACAAA
** * *
1403441 ACCGGTTTCAATTTGACAAAAACCAGTAAAGAGATATCGGA-ATGGTTGAAATTTGTATCCATAC
66 ACCAATTTCAATTTGA-AAAAA-CAGTAAAGAGATATCGGATAT-GTTG-AA--TGTATCAATAA
* *
1403505 TTTTATAAGTATATGCACCAAAGTATCGATACTTTAGGAATTTTAAAGAATTTCAATAATAGCGC
125 TGTTATAACTATATGCACCAAAGTATCGATACTTTAGGAATTTTAAAGAATTTCAATAATAGCGC
1403570 CTAC
190 CTAC
*
1403574 AAAGTATCGATACCTTAGACACATGTATCGATACATGATAATATAACAGGTTGAAGTTTAACAAA
1 AAAGTATCGATACCTTAGACACATGTATCGATACATGACAATATAACAGGTTGAAGTTTAACAAA
* * * ** *
1403639 ACTAATTTTAATTTGAAAAAACTGTAACTAGATATTGGATATGTTGAATGTATCAATAATGTTAT
66 ACCAATTTCAATTTGAAAAAACAGTAAAGAGATATCGGATATGTTGAATGTATCAATAATGTTAT
* * *
1403704 AACTATATGTATCATAGTATCGATACTTTAGGAATT
131 AACTATATGCACCAAAGTATCGATACTTTAGGAATT
1403740 GAAAAGAAAT
Statistics
Matches: 147, Mismatches: 18, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
193 46 0.31
195 2 0.01
196 18 0.12
197 7 0.05
198 74 0.50
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (193 bp):
AAAGTATCGATACCTTAGACACATGTATCGATACATGACAATATAACAGGTTGAAGTTTAACAAA
ACCAATTTCAATTTGAAAAAACAGTAAAGAGATATCGGATATGTTGAATGTATCAATAATGTTAT
AACTATATGCACCAAAGTATCGATACTTTAGGAATTTTAAAGAATTTCAATAATAGCGCCTAC
Found at i:1407583 original size:20 final size:20
Alignment explanation
Indices: 1407560--1407598 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1407550 AAAGAACAGT
1407560 TTCTAGGAAGATTGAACATG
1 TTCTAGGAAGATTGAACATG
1407580 TTCTAGGAAGATTGAACAT
1 TTCTAGGAAGATTGAACAT
1407599 CGTACAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (20 bp):
TTCTAGGAAGATTGAACATG
Found at i:1408413 original size:23 final size:23
Alignment explanation
Indices: 1408387--1408455 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
1408377 CACCACAGCT
* *
1408387 CGTATAATTACACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
1408410 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
1408433 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
1408456 TATAATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:1408642 original size:103 final size:103
Alignment explanation
Indices: 1408471--1408791 Score: 597
Period size: 103 Copynumber: 3.1 Consensus size: 103
1408461 TAATGTCCAT
* * *
1408471 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATATGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1408536 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
1408574 AAGGACCACATATCATTCCTTAAGAATCATATACATATTCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1408639 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
1408677 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1408742 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
1408780 AAGGACCACATA
1 AAGGACCACATA
1408792 GACCCTCGAC
Statistics
Matches: 213, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 213 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:1410158 original size:21 final size:21
Alignment explanation
Indices: 1410133--1410178 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1410123 TTCTGGTTCT
* *
1410133 CTTGAGGGGGTATCGGTTCCC
1 CTTGAAGGGGTATCGATTCCC
*
1410154 CTTGAATGGGTATCGATTCCC
1 CTTGAAGGGGTATCGATTCCC
1410175 CTTG
1 CTTG
1410179 CCCAGAAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.13, C:0.24, G:0.30, T:0.33
Consensus pattern (21 bp):
CTTGAAGGGGTATCGATTCCC
Found at i:1411071 original size:22 final size:25
Alignment explanation
Indices: 1411043--1411095 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
1411033 ATTTATATAT
1411043 AATATATATAAT-T-T-TTTTTGAA
1 AATATATATAATATATATTTTTGAA
1411065 AATATATATAATATATAGTTTTTGAA
1 AATATATATAATATATA-TTTTTGAA
1411091 AATAT
1 AATAT
1411096 TTTGAGAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 12 0.44
23 1 0.04
24 1 0.04
26 13 0.48
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (25 bp):
AATATATATAATATATATTTTTGAA
Found at i:1411120 original size:39 final size:36
Alignment explanation
Indices: 1411058--1411309 Score: 337
Period size: 39 Copynumber: 7.0 Consensus size: 36
1411048 ATATAATTTT
1411058 TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
1 TTTTGAAAATATATATAATATATAG-TTTTGAAAATA
1411095 TTTTGAGAATATATATATAATATATAGTTTTTGAAAATA
1 TTTTGA-AA-ATATATATAATATATAG-TTTTGAAAATA
1411134 TTTTGAAAACATATATATAATATATAGTTTTGAAAATA
1 TTTTG-AAA-ATATATATAATATATAGTTTTGAAAATA
1411172 TTTTGAAAATATATATAATATATA-----G------
1 TTTTGAAAATATATATAATATATAGTTTTGAAAATA
1411197 TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
1 TTTTGAAAATATATATAATATATAG-TTTTGAAAATA
1411234 TTTTGAAAACATATATATAATATATAGTTTTTGAAAATA
1 TTTTG-AAA-ATATATATAATATATAG-TTTTGAAAATA
1411273 TTTTGAAAATATATATAATATATAGTTTTGAAAATA
1 TTTTGAAAATATATATAATATATAGTTTTGAAAATA
1411309 T
1 T
1411310 ATATAATATA
Statistics
Matches: 197, Mismatches: 1, Indels: 35
0.85 0.00 0.15
Matches are distributed among these distances:
25 24 0.12
31 2 0.01
36 28 0.14
37 31 0.16
38 24 0.12
39 87 0.44
40 1 0.01
ACGTcount: A:0.46, C:0.01, G:0.08, T:0.45
Consensus pattern (36 bp):
TTTTGAAAATATATATAATATATAGTTTTGAAAATA
Found at i:1411211 original size:139 final size:134
Alignment explanation
Indices: 1411043--1411309 Score: 462
Period size: 139 Copynumber: 2.0 Consensus size: 134
1411033 ATTTATATAT
* * *
1411043 AATATATATAATTTTTTTTGAAAATATATATAATATATAGTTTTTGAAAATATTTTGAGAATATA
1 AATATATATAATTTGTTTTGAAAATATATATAATATATAGTTTTTGAAAATATTTTGAAAACATA
1411108 TATATAATATATAGTTTTTGAAAATATTTTGAAAACATATATATAATATATAGTTTTGAAAATAT
66 TATATAATATATAGTTTTTGAAAATATTTTG-AAA-ATATATATAATATATAGTTTTGAAAATAT
1411173 TTTGAA
129 TTTGAA
1411179 AATATATATAATATATAGTTTTGAAAATATATATAATATATAGTTTTTGAAAATATTTTGAAAAC
1 AATATATATAAT-T-T-GTTTTGAAAATATATATAATATATAGTTTTTGAAAATATTTTGAAAAC
1411244 ATATATATAATATATAGTTTTTGAAAATATTTTGAAAATATATATAATATATAGTTTTGAAAATA
63 ATATATATAATATATAGTTTTTGAAAATATTTTGAAAATATATATAATATATAGTTTTGAAAATA
1411309 T
128 T
1411310 ATATAATATA
Statistics
Matches: 125, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
136 12 0.10
137 30 0.24
138 4 0.03
139 79 0.63
ACGTcount: A:0.46, C:0.01, G:0.08, T:0.45
Consensus pattern (134 bp):
AATATATATAATTTGTTTTGAAAATATATATAATATATAGTTTTTGAAAATATTTTGAAAACATA
TATATAATATATAGTTTTTGAAAATATTTTGAAAATATATATAATATATAGTTTTGAAAATATTT
TGAA
Found at i:1411310 original size:23 final size:24
Alignment explanation
Indices: 1411273--1411330 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 24
1411263 TTTGAAAATA
1411273 TTTTGAAAATATATATAATATA-T
1 TTTTGAAAATATATATAATATAGT
1411296 AGTTTTGAAAATATATATAATATAGT
1 --TTTTGAAAATATATATAATATAGT
1411322 TTTTGAAAA
1 TTTTGAAAA
1411331 CATTTTGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 9 0.28
25 22 0.69
26 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.45
Consensus pattern (24 bp):
TTTTGAAAATATATATAATATAGT
Found at i:1411328 original size:60 final size:66
Alignment explanation
Indices: 1411172--1411373 Score: 194
Period size: 64 Copynumber: 3.2 Consensus size: 66
1411162 TTTGAAAATA
* * * * * * *
1411172 TTTTGAAAATATATATAATATATAG-TTTTGAAAATATATAT-AATATATAGTTTTTGAA-A-AT
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACAT-TTTGAAAACATA-TATATAAATATAT
1411233 A--
64 ATG
*
1411234 TTTTGAAAACATATATATAATATATAGTTTTTGAAAATATTTTG-AAA-ATATATAT-AATATAT
1 TTTTG-AAA-ATATATATAATATATAGTTTTTGAAAACATTTTGAAAACATATATATAAATATAT
1411296 A-G
64 ATG
*
1411298 TTTTGAAAATATATAT-A-ATATAGTTTTTGAAAACATTTTGAAAACATGTATATAAATATATAT
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTTGAAAACATATATATAAATATATAT
*
1411361 T
66 G
1411362 TTTTGAAAATAT
1 TTTTGAAAATAT
1411374 TTTATATTTT
Statistics
Matches: 122, Mismatches: 7, Indels: 20
0.82 0.05 0.13
Matches are distributed among these distances:
60 22 0.18
61 6 0.05
62 24 0.20
63 20 0.16
64 38 0.31
65 12 0.10
ACGTcount: A:0.46, C:0.01, G:0.08, T:0.45
Consensus pattern (66 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTTGAAAACATATATATAAATATATAT
G
Found at i:1411356 original size:139 final size:140
Alignment explanation
Indices: 1411058--1411376 Score: 456
Period size: 139 Copynumber: 2.3 Consensus size: 140
1411048 ATATAATTTT
* *
1411058 TTTTGAAAATATATAT-AATATATAGTTTTTGAAAATATTTTGAGAATATATATATAATATATAG
1 TTTTGAAAATATATATAAATATATAGTTTTTGAAAATATTTTGAAAACATATATATAATATATAG
*
1411122 TTTTTGAAAATATTTTGAAAACATATATATAATATATAGTTTTGAAAATATTTTGAAAATATATA
66 TTTTTGAAAATATTTTGAAAACATATATATAATATATAGTTTTGAAAATATTATGAAAATATATA
*
1411187 TAATATATAG
131 TAATATACAG
1411197 TTTTGAAAATATATAT-AATATATAGTTTTTGAAAATATTTTGAAAACATATATATAATATATAG
1 TTTTGAAAATATATATAAATATATAGTTTTTGAAAATATTTTGAAAACATATATATAATATATAG
* *
1411261 TTTTTGAAAATATTTTG-AAA-ATATATATAATATATAGTTTTGAAAATATATAT-AATATAGTT
66 TTTTTGAAAATATTTTGAAAACATATATATAATATATAGTTTTGAAAATAT-TATGAAAATA-TA
*
1411323 TTTGAA-A-ACA-
129 TAT-AATATACAG
* *
1411333 TTTTGAAAACATGTATATAAATATATATTTTTTGAAAATATTTT
1 TTTTG-AAA-ATATATATAAATATATAGTTTTTGAAAATATTTT
1411377 ATATTTTATA
Statistics
Matches: 165, Mismatches: 9, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
136 5 0.03
137 39 0.24
138 16 0.10
139 105 0.64
ACGTcount: A:0.45, C:0.01, G:0.08, T:0.45
Consensus pattern (140 bp):
TTTTGAAAATATATATAAATATATAGTTTTTGAAAATATTTTGAAAACATATATATAATATATAG
TTTTTGAAAATATTTTGAAAACATATATATAATATATAGTTTTGAAAATATTATGAAAATATATA
TAATATACAG
Found at i:1411389 original size:101 final size:100
Alignment explanation
Indices: 1411095--1411376 Score: 478
Period size: 100 Copynumber: 2.8 Consensus size: 100
1411085 TTTGAAAATA
1411095 TTTTGAGAATATATATATAATATATAGTTTTTGAAAATATTTTGAAAACATATATATAATATATA
1 TTTTGA-AA-ATATATATAATATATAGTTTTTGAAAATATTTTGAAAACATATATATAATATATA
*
1411160 GTTTTGAAAATATTTTGAAAATATATATAATATATAG
64 TTTTTGAAAATATTTTGAAAATATATATAATATATAG
1411197 TTTTGAAAATATATATAATATATAGTTTTTGAAAATATTTTGAAAACATATATATAATATATAGT
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAATATTTTGAAAACATATATATAATATATA-T
1411262 TTTTGAAAATATTTTGAAAATATATATAATATATAG
65 TTTTGAAAATATTTTGAAAATATATATAATATATAG
* *
1411298 TTTTGAAAATATATAT-A-ATATAGTTTTTGAAAACATTTTGAAAACATGTATATAAATATATAT
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAATATTTTGAAAACATATATAT-AATATATA-
1411361 TTTTTGAAAATATTTT
64 TTTTTGAAAATATTTT
1411377 ATATTTTATA
Statistics
Matches: 174, Mismatches: 4, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
99 34 0.20
100 80 0.46
101 54 0.31
102 6 0.03
ACGTcount: A:0.45, C:0.01, G:0.08, T:0.45
Consensus pattern (100 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAAATATTTTGAAAACATATATATAATATATATT
TTTGAAAATATTTTGAAAATATATATAATATATAG
Found at i:1411409 original size:14 final size:14
Alignment explanation
Indices: 1411370--1411412 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
1411360 TTTTTTGAAA
1411370 ATATTTTATATTTTAT
1 ATATTTT-TA-TTTAT
1411386 ATATTATTTATTTAT
1 ATATT-TTTATTTAT
*
1411401 TTATTTTTATTT
1 ATATTTTTATTT
1411413 GTTTTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 7 0.28
15 9 0.36
16 7 0.28
17 2 0.08
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
ATATTTTTATTTAT
Found at i:1411429 original size:11 final size:11
Alignment explanation
Indices: 1411371--1411430 Score: 52
Period size: 11 Copynumber: 5.1 Consensus size: 11
1411361 TTTTTGAAAA
1411371 TATTTTATATTT
1 TATTTTAT-TTT
1411383 TATATATTATTTAT
1 TAT-T-TTATTT-T
1411397 T-TATTTATTTT
1 TAT-TTTATTTT
1411408 TATTTGT-TTTT
1 TATTT-TATTTT
1411419 TATTTTATTTT
1 TATTTTATTTT
1411430 T
1 T
1411431 TCATTCGGTC
Statistics
Matches: 42, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
10 1 0.02
11 18 0.43
12 11 0.26
13 6 0.14
14 6 0.14
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.77
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:1418570 original size:21 final size:21
Alignment explanation
Indices: 1418546--1418604 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 21
1418536 GGGTGCAAAA
*
1418546 GGAATCGATACCCCTTGAAGG
1 GGAACCGATACCCCTTGAAGG
*
1418567 GGAACCGATTCCCCCTTTGAAGG
1 GGAACCGA-TACCCC-TTGAAGG
*
1418590 GGAACCGATTCCCCT
1 GGAACCGATACCCCT
1418605 GGAGGGACTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 8 0.24
22 10 0.30
23 15 0.45
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.20
Consensus pattern (21 bp):
GGAACCGATACCCCTTGAAGG
Found at i:1418590 original size:23 final size:22
Alignment explanation
Indices: 1418556--1418603 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 22
1418546 GGAATCGATA
1418556 CCCCTTGAAGGGGAACCGATTC
1 CCCCTTGAAGGGGAACCGATTC
1418578 CCCCTTTGAAGGGGAACCGATTC
1 CCCC-TTGAAGGGGAACCGATTC
1418601 CCC
1 CCC
1418604 TGGAGGGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.21, C:0.35, G:0.25, T:0.19
Consensus pattern (22 bp):
CCCCTTGAAGGGGAACCGATTC
Found at i:1420424 original size:20 final size:21
Alignment explanation
Indices: 1420386--1420424 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
1420376 TTTGAATGCG
* *
1420386 TTTGGATTGTTTTACTTTGGT
1 TTTGGATTGTTTGAATTTGGT
1420407 TTTGGA-TGTTTGAATTTG
1 TTTGGATTGTTTGAATTTG
1420425 TTATATATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.13, C:0.03, G:0.26, T:0.59
Consensus pattern (21 bp):
TTTGGATTGTTTGAATTTGGT
Found at i:1421104 original size:22 final size:22
Alignment explanation
Indices: 1421076--1421124 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1421066 CGATTCCCCC
**
1421076 CCCCCCCAATAGGGTATTGATT
1 CCCCCCCAATAGGGTACCGATT
*
1421098 CCCCCCCAATGGGGTACCGATT
1 CCCCCCCAATAGGGTACCGATT
1421120 CCCCC
1 CCCCC
1421125 TGAATGGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.18, C:0.43, G:0.18, T:0.20
Consensus pattern (22 bp):
CCCCCCCAATAGGGTACCGATT
Found at i:1422305 original size:20 final size:19
Alignment explanation
Indices: 1422272--1422333 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
1422262 CAATTTAATC
1422272 TTTTTTATTTATTTATTTA
1 TTTTTTATTTATTTATTTA
* *
1422291 TTTTTTCTTTAATTTCTTTAA
1 TTTTTTATTT-ATTTATTT-A
1422312 TGTTTATTA-TTATTT-TTTA
1 T-TTT-TTATTTATTTATTTA
1422331 TTT
1 TTT
1422334 ATATATTTCG
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
18 2 0.06
19 11 0.31
20 10 0.28
21 6 0.17
22 5 0.14
23 2 0.06
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTTATTTATTTATTTA
Found at i:1428445 original size:230 final size:230
Alignment explanation
Indices: 1427932--1428511 Score: 788
Period size: 230 Copynumber: 2.5 Consensus size: 230
1427922 TTCAGATTTC
* *
1427932 GAGTTAACTTT-AACTTCACAACGAAAGATATTGAACTCGAAAGCGATGCAATTTACAAGAGTGG
1 GAGTTAA-TTTCAACTTCACATCGAAAGATATTGAACTCGAAAG-GAAGCAATTTACAAGAGTGG
* * * * *
1427996 ATTTCAACTTTACAACGAAAGACATCCAATTCAACGCTCAACTTCACAGCGAATGAGCCATCCAT
64 ATTTCAACTTCACAACGAAGGACATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCAC
* * ** *
1428061 GATTTCAACTTCACGAAGAAGGATATCGTACCCAAAAGATTGACCCAACTTCTCGAATAATAAGT
129 AATTTCAACTTCACGAAGAAGGATATCATACCCAAAAGATTGACCCAACTTCAAGAAGAATAAGT
* * *
1428126 TATCTGTGATACAACAATGAAAAACCAGTTTCATTCA
194 CATATGTGACACAACAATGAAAAACCAGTTTCATTCA
* * * *
1428163 AAGTTAATTTCAACTTCACAGT-GAAAGATATTGACCTCTAAAGCAAGCAATTTACAAGAGTGGA
1 GAGTTAATTTCAACTTCACA-TCGAAAGATATTGAACTCGAAAGGAAGCAATTTACAAGAGTGGA
* * * * * * **
1428227 TTTTAACTTCACAACGAAGGATATCTAACTCAAAGCTCAACTGCACAACAAATGATTCATCCACA
65 TTTCAACTTCACAACGAAGGACATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCACA
* * * *
1428292 ATTTCAACTTCAGGACGAAGGATATCATACCCAAAAGATTGACCCAACTTCAAGACGAATGAGTC
130 ATTTCAACTTCACGAAGAAGGATATCATACCCAAAAGATTGACCCAACTTCAAGAAGAATAAGTC
1428357 ATATGTGACACAACAATGAAAAA-CAGTTTCATTCA
195 ATATGTGACACAACAATGAAAAACCAGTTTCATTCA
* *
1428392 GAGTTAATTTCAACTTCACATCGAAAGATATTGAACTGGAAAGTGACGCAATTTACAAGAGTGGA
1 GAGTTAATTTCAACTTCACATCGAAAGATATTGAACTCGAAAG-GAAGCAATTTACAAGAGTGGA
* *
1428457 TTTCAAGTTCATAACGAAGGACATCCAATTCAAAGCTCAACTTCACAACGAATGA
65 TTTCAACTTCACAACGAAGGACATCCAATTCAAAGCTCAACTTCACAACGAATGA
1428512 CATCCAATTC
Statistics
Matches: 300, Mismatches: 45, Indels: 9
0.85 0.13 0.03
Matches are distributed among these distances:
228 1 0.00
229 49 0.16
230 216 0.72
231 34 0.11
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (230 bp):
GAGTTAATTTCAACTTCACATCGAAAGATATTGAACTCGAAAGGAAGCAATTTACAAGAGTGGAT
TTCAACTTCACAACGAAGGACATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCACAA
TTTCAACTTCACGAAGAAGGATATCATACCCAAAAGATTGACCCAACTTCAAGAAGAATAAGTCA
TATGTGACACAACAATGAAAAACCAGTTTCATTCA
Found at i:1428514 original size:34 final size:34
Alignment explanation
Indices: 1428459--1428545 Score: 131
Period size: 34 Copynumber: 2.6 Consensus size: 34
1428449 AGAGTGGATT
* * *
1428459 TCAAGTTCATAACGAAGGACATCCAATTCAAAGC
1 TCAACTTCACAACGAATGACATCCAATTCAAAGC
1428493 TCAACTTCACAACGAATGACATCCAATTCAAAGC
1 TCAACTTCACAACGAATGACATCCAATTCAAAGC
1428527 TCAACTTCACAGA-GAATGA
1 TCAACTTCACA-ACGAATGA
1428546 GTTATCCACG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
34 48 0.98
35 1 0.02
ACGTcount: A:0.41, C:0.25, G:0.13, T:0.21
Consensus pattern (34 bp):
TCAACTTCACAACGAATGACATCCAATTCAAAGC
Found at i:1428709 original size:264 final size:264
Alignment explanation
Indices: 1428231--1428775 Score: 763
Period size: 264 Copynumber: 2.1 Consensus size: 264
1428221 AGTGGATTTT
* *
1428231 AACTTCACAACGAAGGATATCTAACTCAAAGCTCAACTGCACAACAAATGATTCATCCACAATTT
1 AACTTCACAACGAAGGACATCCAACTCAAAGCTCAACTGCACAACAAATGATTCATCCACAATTT
* * *
1428296 CAACTTCAGGACGAAGGATATCATACCCAAAAGATTGACCCAACTTCAAGACGAATGAGTCATAT
66 CAACTTCAAGAAGAAGGATATCATACCCAAAAGATTGACCCAACTTCAAGACAAATGAGTCATAT
* * *
1428361 GTGACACAACAATGAAAAACAGTTTCATTCAGAGTTAATTTCAACTTCACATCGAAAGATATTGA
131 GTGACACAACAATGAAAAACAGTTTCATTCAGAGTCAATTTCAACTTCAAAGCGAAAGATATTGA
* * * * *
1428426 ACTGGAAAGTGACGCAATTTACAAGAGTGGATTTCAAGTTCATAACGAAGGACATCCAATTCAAA
196 ACTGGAAAGCGACGCAATTTACAAGAGTGAATTTCAACTTCACAACGAAGGAAATCCAATTCAAA
1428491 GCTC
261 GCTC
* * * * *
1428495 AACTTCACAACGAATGACATCCAATTCAAAGCTCAACTTCACAGA-GAATGAGTT-ATCCACGAT
1 AACTTCACAACGAAGGACATCCAACTCAAAGCTCAACTGCACA-ACAAATGA-TTCATCCACAAT
* *
1428558 TTCAACTTCAAGAAGAAGGATATCGTACCCAAAAGATTGACCCAACTTCACGA-AAATGAGTCAT
64 TTCAACTTCAAGAAGAAGGATATCATACCCAAAAGATTGACCCAACTTCAAGACAAATGAGTCAT
* *
1428622 CTGTGACACAACAATGAAAAACCAGTTTCATTCAGAGTCAATTTCAACTTTAAAGCGAAAGATAT
129 ATGTGACACAACAATGAAAAA-CAGTTTCATTCAGAGTCAATTTCAACTTCAAAGCGAAAGATAT
** * * * * *
1428687 TGTCCTTGAAAGCGATGCAATTTACAAGAGTGAATTTCAACTTTACAACGAATGAAATCCAATTT
193 TGAACTGGAAAGCGACGCAATTTACAAGAGTGAATTTCAACTTCACAACGAAGGAAATCCAATTC
*
1428752 GAAGCTC
258 AAAGCTC
*
1428759 AACTTCACAGCGAAGGA
1 AACTTCACAACGAAGGA
1428776 GCCATCCATG
Statistics
Matches: 246, Mismatches: 32, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
263 30 0.12
264 213 0.87
265 3 0.01
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (264 bp):
AACTTCACAACGAAGGACATCCAACTCAAAGCTCAACTGCACAACAAATGATTCATCCACAATTT
CAACTTCAAGAAGAAGGATATCATACCCAAAAGATTGACCCAACTTCAAGACAAATGAGTCATAT
GTGACACAACAATGAAAAACAGTTTCATTCAGAGTCAATTTCAACTTCAAAGCGAAAGATATTGA
ACTGGAAAGCGACGCAATTTACAAGAGTGAATTTCAACTTCACAACGAAGGAAATCCAATTCAAA
GCTC
Found at i:1429761 original size:22 final size:22
Alignment explanation
Indices: 1429733--1429778 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
1429723 GTTCCATTTA
*
1429733 ATATATATAATTTTTTGAAAAT
1 ATATATATAAGTTTTTGAAAAT
*
1429755 ATATATATTAGTTTTTGAAAAT
1 ATATATATAAGTTTTTGAAAAT
1429777 AT
1 AT
1429779 TTTGAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (22 bp):
ATATATATAAGTTTTTGAAAAT
Found at i:1429807 original size:39 final size:37
Alignment explanation
Indices: 1429745--1430069 Score: 352
Period size: 39 Copynumber: 9.1 Consensus size: 37
1429735 ATATATAATT
1429745 TTTTG-AAA-ATATAT-ATAT-TAGTTTTTGAAAATA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
*
1429778 TTTTGAAAACATATATATAATATATAG-TTTTGAAAGTA
1 TTTTG-AAA-ATATATATAATATATAGTTTTTGAAAATA
1429816 TTTTGAAAATATATATAATATATA------G------
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
*
1429841 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
*
1429878 TTTTGAAAACATATATATAATATATGGTTTTTGAAAATATA
1 TTTTG-AAA-ATATATATAATATATAGTTTTTG-AAA-ATA
*
1429919 TTTTCAAAATATATATAATATATAG-TTTT-AAAATA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
*
1429954 TTTTGAAAAT-TATAT-A-ATATAGTTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
*
1429988 TTTTGGAAACATATATATAATATATAGTTTTTAAAAATA
1 TTTT-GAAA-ATATATATAATATATAGTTTTTGAAAATA
1430027 TTTTGAAAATATATATATAATATATAGTTTTTGAAAATA
1 TTTTG-AAA-ATATATATAATATATAGTTTTTGAAAATA
1430066 TTTT
1 TTTT
1430070 ATATTTATTT
Statistics
Matches: 251, Mismatches: 11, Indels: 54
0.79 0.03 0.17
Matches are distributed among these distances:
25 24 0.10
31 2 0.01
32 6 0.02
33 10 0.04
34 14 0.06
35 18 0.07
36 22 0.09
37 19 0.08
38 28 0.11
39 96 0.38
40 6 0.02
41 6 0.02
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
Found at i:1429844 original size:25 final size:26
Alignment explanation
Indices: 1429816--1429875 Score: 113
Period size: 25 Copynumber: 2.3 Consensus size: 26
1429806 TTTGAAAGTA
1429816 TTTTGAAAATATATATAATATATAG-
1 TTTTGAAAATATATATAATATATAGT
1429841 TTTTGAAAATATATATAATATATAGT
1 TTTTGAAAATATATATAATATATAGT
1429867 TTTTGAAAA
1 TTTTGAAAA
1429876 CATTTTGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 25 0.74
26 9 0.26
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (26 bp):
TTTTGAAAATATATATAATATATAGT
Found at i:1429992 original size:110 final size:115
Alignment explanation
Indices: 1429841--1430069 Score: 364
Period size: 110 Copynumber: 2.0 Consensus size: 115
1429831 TAATATATAG
*
1429841 TTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTTGAAAACATATATATAATATATGGT
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTTGAAAACATATATATAATATATAGT
*
1429906 TTTTGAAAATATATTTT-CAAA-ATATATATAATATATAG-TTTT-AAAATA
66 TTTT-AAAA-ATATTTTGAAAATATATATATAATATATAGTTTTTGAAAATA
*
1429954 TTTTGAAAAT-TATAT-A-ATATAGTTTTTGAAAACATTTTGGAAACATATATATAATATATAGT
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTTGAAAACATATATATAATATATAGT
1430016 TTTTAAAAATATTTTGAAAATATATATATAATATATAGTTTTTGAAAATA
66 TTTTAAAAATATTTTGAAAATATATATATAATATATAGTTTTTGAAAATA
1430066 TTTT
1 TTTT
1430070 ATATTTATTT
Statistics
Matches: 109, Mismatches: 3, Indels: 9
0.90 0.02 0.07
Matches are distributed among these distances:
108 7 0.06
109 7 0.06
110 65 0.60
111 5 0.05
112 15 0.14
113 10 0.09
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (115 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTTGAAAACATATATATAATATATAGT
TTTTAAAAATATTTTGAAAATATATATATAATATATAGTTTTTGAAAATA
Found at i:1431458 original size:21 final size:21
Alignment explanation
Indices: 1431402--1431459 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
1431392 TTCCAATTTA
*
1431402 ATTTTTTTATTT-TTTCTTTG
1 ATTTTTTTATTTATTTCATTG
1431422 ATTTATTTAATATTTATTATCATT-
1 ATTT-TTT--TATTTATT-TCATTG
1431446 ATTTTTTTATTTAT
1 ATTTTTTTATTTAT
1431460 ATATTTCACA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
20 4 0.12
21 10 0.31
23 8 0.25
24 6 0.19
25 4 0.12
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.72
Consensus pattern (21 bp):
ATTTTTTTATTTATTTCATTG
Found at i:1433186 original size:2 final size:2
Alignment explanation
Indices: 1433179--1433213 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1433169 AAATGTATCG
1433179 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1433214 TATATATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1434853 original size:24 final size:26
Alignment explanation
Indices: 1434821--1434875 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
1434811 AGTTCCATTT
*
1434821 AATATATAT-ATATA-ATTTTTTGAA
1 AATATATATAATATATAGTTTTTGAA
1434845 AATATATATAATATATAGTTTTTGAA
1 AATATATATAATATATAGTTTTTGAA
1434871 AATAT
1 AATAT
1434876 TTTGAGAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 9 0.32
25 5 0.18
26 14 0.50
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (26 bp):
AATATATATAATATATAGTTTTTGAA
Found at i:1434878 original size:11 final size:11
Alignment explanation
Indices: 1434864--1435104 Score: 75
Period size: 11 Copynumber: 19.9 Consensus size: 11
1434854 AATATATAGT
1434864 TTTTGAAAATA
1 TTTTGAAAATA
*
1434875 TTTTGAGAATA
1 TTTTGAAAATA
* * *
1434886 -TAT-ATATTA
1 TTTTGAAAATA
1434895 GTTTTTGAAAATA
1 -TT-TTGAAAATA
1434908 TTTTGAAAACATA
1 TTTTG-AAA-ATA
*
1434921 TATAT-AATATATA
1 T-TTTGAA-A-ATA
*
1434934 GTTTTGAAAGTA
1 -TTTTGAAAATA
1434946 TTTTGAAAATA
1 TTTTGAAAATA
*
1434957 TATAT-AATATATA
1 T-TTTGAA-A-ATA
1434970 GTTTTGAAAATA
1 -TTTTGAAAATA
1434982 TTTTGAAAATA
1 TTTTGAAAATA
1434993 TATATAT-AATATATA
1 T-T-T-TGAA-A-ATA
1435008 GTTTGTGAAAATA
1 -TTT-TGAAAATA
1435021 TTTTGAAAACATA
1 TTTTG-AAA-ATA
*
1435034 TATAT-AATATATA
1 T-TTTGAA-A-ATA
1435047 GTTTTTGAAAATA
1 --TTTTGAAAATA
1435060 TTTTGAAAATA
1 TTTTGAAAATA
*
1435071 TATAT-AATATATA
1 T-TTTGAA-A-ATA
1435084 GTTTT-AAAATA
1 -TTTTGAAAATA
1435095 TTTTGAAAAT
1 TTTTGAAAAT
1435105 TATATAATAT
Statistics
Matches: 176, Mismatches: 20, Indels: 68
0.67 0.08 0.26
Matches are distributed among these distances:
9 4 0.02
10 6 0.03
11 63 0.36
12 29 0.16
13 45 0.26
14 19 0.11
15 9 0.05
16 1 0.01
ACGTcount: A:0.45, C:0.01, G:0.09, T:0.45
Consensus pattern (11 bp):
TTTTGAAAATA
Found at i:1434878 original size:39 final size:37
Alignment explanation
Indices: 1434838--1435210 Score: 534
Period size: 39 Copynumber: 10.1 Consensus size: 37
1434828 ATATATAATT
1434838 TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
*
1434875 TTTTG-AGA-ATATAT-ATAT-TAGTTTTTGAAAATA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
*
1434908 TTTTGAAAACATATATATAATATATAG-TTTTGAAAGTA
1 TTTTG-AAA-ATATATATAATATATAGTTTTTGAAAATA
1434946 TTTTGAAAATATATATAATATATAG-TTTTGAAAATA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
*
1434982 TTTTGAAAATATATATATAATATATAGTTTGTGAAAATA
1 TTTTG-AAA-ATATATATAATATATAGTTTTTGAAAATA
1435021 TTTTGAAAACATATATATAATATATAGTTTTTGAAAATA
1 TTTTG-AAA-ATATATATAATATATAGTTTTTGAAAATA
1435060 TTTTGAAAATATATATAATATATAG-TTTT-AAAATA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
*
1435095 TTTTGAAAAT-TATAT-A-ATATAGTTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
*
1435129 TTTTGAAAACATATATATAATATATAGTTTTTGAAAACA
1 TTTTG-AAA-ATATATATAATATATAGTTTTTGAAAATA
1435168 TTTTGAAAAAATATATATAATATATAGTTTTTGAAAATA
1 TTTTG--AAAATATATATAATATATAGTTTTTGAAAATA
1435207 TTTT
1 TTTT
1435211 ATTTTATTTT
Statistics
Matches: 310, Mismatches: 9, Indels: 32
0.88 0.03 0.09
Matches are distributed among these distances:
32 6 0.02
33 25 0.08
34 19 0.06
35 26 0.08
36 41 0.13
37 39 0.13
38 40 0.13
39 110 0.35
40 4 0.01
ACGTcount: A:0.45, C:0.01, G:0.09, T:0.45
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAAATA
Found at i:1436819 original size:100 final size:99
Alignment explanation
Indices: 1436645--1436854 Score: 350
Period size: 100 Copynumber: 2.1 Consensus size: 99
1436635 TTATTTATAT
*
1436645 ATTTCGCAATTTAATATTTCTTTTAATTTGTTAGGGACATTTTGAATCGATCAAAGGTAAGTAAT
1 ATTTCGCAATTTAATATTTCTTTTAACTTGTTAGGGACATTTTGAATCGATCAAAGGTAAGTAAT
1436710 TTGAATCGAGTCTTTAAA-TTTAATTTAAATTTCA
66 TTGAATCGAGTCTTTAAATTTTAATTT-AATTTCA
* * *
1436744 AGTTTCGCAATTTAATATTTCTTTTGACTTGTTATGGACATTTTGAATCGATCAAATGTAAGTAA
1 A-TTTCGCAATTTAATATTTCTTTTAACTTGTTAGGGACATTTTGAATCGATCAAAGGTAAGTAA
1436809 TTTGAATCGAGTCTTTAAATTTTAATTTAATTTCA
65 TTTGAATCGAGTCTTTAAATTTTAATTTAATTTCA
*
1436844 ATTTTGCAATT
1 ATTTCGCAATT
1436855 AAGACAACCG
Statistics
Matches: 104, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
99 10 0.10
100 86 0.83
101 8 0.08
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.46
Consensus pattern (99 bp):
ATTTCGCAATTTAATATTTCTTTTAACTTGTTAGGGACATTTTGAATCGATCAAAGGTAAGTAAT
TTGAATCGAGTCTTTAAATTTTAATTTAATTTCA
Found at i:1439234 original size:2 final size:2
Alignment explanation
Indices: 1439227--1439251 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1439217 ATGTATCGAT
1439227 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
1439252 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1439531 original size:130 final size:127
Alignment explanation
Indices: 1439261--1439581 Score: 360
Period size: 130 Copynumber: 2.5 Consensus size: 127
1439251 ATATATATAT
* ** * *
1439261 ATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTTAATTTCCAATGAAAACAGTAAAA
1 ATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACAGTAAAA
* * *
1439326 GTCAATCGGTATAATGATAATAGGCGTAAACATCAAGTATCAATACACATGTATAAAGTATCG
66 GTCAACCGGTATAATGAAAATAGGCATAAACATCAAGTATCAATACACA-GTATAAAGTATCG
* ** *
1439389 ATACGTGGAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACAG-AAAA
1 ATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACAGTAAAA
* * ** ***
1439453 CCTTTCTACCGGTATAATGAAAATAGGCATAAATTTACAAGTATCGATATTTTCA-TAT-AAGTA
66 ---GTCAACCGGTATAATGAAAATAGGCATAAACAT-CAAGTATC-A-ATACACAGTATAAAGTA
1439516 TCG
125 TCG
* * *
1439519 ATTCTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGAAAATTAACAATGTACACGGTAA
1 ATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACAGTAA
1439582 TATGTTGATA
Statistics
Matches: 160, Mismatches: 26, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
127 4 0.03
128 51 0.32
130 87 0.54
131 13 0.08
132 1 0.01
133 4 0.03
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (127 bp):
ATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACAGTAAAA
GTCAACCGGTATAATGAAAATAGGCATAAACATCAAGTATCAATACACAGTATAAAGTATCG
Found at i:1439972 original size:226 final size:225
Alignment explanation
Indices: 1439579--1440186 Score: 871
Period size: 226 Copynumber: 2.7 Consensus size: 225
1439569 ATGTACACGG
* *
1439579 TAATATGTTGATAATACTGATAACAAATCAAGTAATTAAACTATTTTGTTATCATCAGATTTCTA
1 TAATATGTTGATAATACTGATAACAAATCAAGTAATTAACCTATTTTGTTATCATCGGATTTCTA
* * *
1439644 AGGCCCATCGGCTTTAAACAGGTGCTACCTATTACATTAAATAAGTGCTACTTGTTATGTTATTA
66 AGGCCCATCGGCTTTAAACAAGCGCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATTA
* * * * *
1439709 TGGTTGATAATGTGTCCAGCAATTAACCTATTTTGTTATGGTCGGATTTCTAAGGCTTAATCAGC
131 TGGTTGATAATGTTTCCAGTAATTAACCTATTTTGTTATCGTCGAATTTCTAAGGCTCAATCAGC
* *
1439774 TTATACTTTGGTAACATTTTAGGAGATACC
196 TTAAACTTTGGTAACAGTTTAGGAGATACC
* * *
1439804 TAATATGATGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCATGGGATTTCTA
1 TAATATGTTGATAATACTGATAACAAATCAAGTAATTAACCTATTTTGTTATCATCGGATTTCTA
* * * **
1439869 AGGCCTCATCAGCTTTAAACATGCGCTACCTATTACATTAAATAAACATTACTTGTTATGTTATT
66 AGGCC-CATCGGCTTTAAACAAGCGCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATT
* *
1439934 ATGGTTGATAATGTTTCCAATAATTAACCTATTTTGTTATCGTCGAATTTCTAAGGCTCCATCAG
130 ATGGTTGATAATGTTTCCAGTAATTAACCTATTTTGTTATCGTCGAATTTCTAAGGCTCAATCAG
* * *
1439999 CTTAAACTTTGGTAACCGTTTAGGCGCTACC
195 CTTAAACTTTGGTAACAGTTTAGGAGATACC
* * *
1440030 TAATACGTTGATAATATTGATAACAAATCAAGTAATTAACCTA-TTTGTTATCGTCGGATTTCTA
1 TAATATGTTGATAATACTGATAACAAATCAAGTAATTAACCTATTTTGTTATCATCGGATTTCTA
* * * * *
1440094 AGGCCCAATCGGCTTTAAA-AAGTCACTACCTATTACGTTACATAAGCGCTACCT-ATATGTTAT
66 AGGCCC-ATCGGCTTTAAACAAG-CGCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTAT
1440157 TATGGTTGATAATGTTTCCAGTAATTAACC
129 TATGGTTGATAATGTTTCCAGTAATTAACC
1440187 GGTTTCCAGT
Statistics
Matches: 339, Mismatches: 41, Indels: 7
0.88 0.11 0.02
Matches are distributed among these distances:
224 40 0.12
225 124 0.37
226 175 0.52
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.38
Consensus pattern (225 bp):
TAATATGTTGATAATACTGATAACAAATCAAGTAATTAACCTATTTTGTTATCATCGGATTTCTA
AGGCCCATCGGCTTTAAACAAGCGCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATTA
TGGTTGATAATGTTTCCAGTAATTAACCTATTTTGTTATCGTCGAATTTCTAAGGCTCAATCAGC
TTAAACTTTGGTAACAGTTTAGGAGATACC
Found at i:1440191 original size:18 final size:18
Alignment explanation
Indices: 1440170--1440208 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
1440160 GGTTGATAAT
1440170 GTTTCCAGTAATTAACCG
1 GTTTCCAGTAATTAACCG
*
1440188 GTTTCCAGTAATTAACGG
1 GTTTCCAGTAATTAACCG
1440206 GTT
1 GTT
1440209 ATGTTAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (18 bp):
GTTTCCAGTAATTAACCG
Found at i:1443932 original size:22 final size:24
Alignment explanation
Indices: 1443907--1443963 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 24
1443897 TATAAATATT
1443907 AAAAAATA-TAATTATAATGACAA
1 AAAAAATATTAATTATAATGACAA
*
1443930 AAAATAATATTTATTATAATGACAA
1 AAAA-AATATTAATTATAATGACAA
1443955 AAAATAATA
1 AAAA-AATA
1443964 ACTTCAATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 4 0.13
24 4 0.13
25 23 0.74
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (24 bp):
AAAAAATATTAATTATAATGACAA
Found at i:1444020 original size:16 final size:17
Alignment explanation
Indices: 1444001--1444032 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1443991 AATATTTTTA
1444001 ATTAT-ATTTAATCATT
1 ATTATAATTTAATCATT
1444017 ATTATAATTTAATCAT
1 ATTATAATTTAATCAT
1444033 AATAATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTATAATTTAATCATT
Found at i:1444216 original size:47 final size:47
Alignment explanation
Indices: 1444158--1444256 Score: 180
Period size: 47 Copynumber: 2.1 Consensus size: 47
1444148 AATCATTAGT
* *
1444158 ATAATTTGATCAACATTTGATTTAGTATTTCTAGTAAAAATGTTAAA
1 ATAATTAGATCAACATTTGATTTAATATTTCTAGTAAAAATGTTAAA
1444205 ATAATTAGATCAACATTTGATTTAATATTTCTAGTAAAAATGTTAAA
1 ATAATTAGATCAACATTTGATTTAATATTTCTAGTAAAAATGTTAAA
1444252 ATAAT
1 ATAAT
1444257 ATTGATTTAG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.41
Consensus pattern (47 bp):
ATAATTAGATCAACATTTGATTTAATATTTCTAGTAAAAATGTTAAA
Found at i:1444262 original size:37 final size:38
Alignment explanation
Indices: 1444221--1444294 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 38
1444211 AGATCAACAT
1444221 TTGATTTAATATTTCTAGTAAAAATGTT-AAAATAATA
1 TTGATTTAATATTTCTAGTAAAAATGTTAAAAATAATA
* *
1444258 TTGATTTAGTATTTGTAGTAAAAATGTTAAAAATAAT
1 TTGATTTAATATTTCTAGTAAAAATGTTAAAAATAAT
1444295 TATTTTAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 26 0.76
38 8 0.24
ACGTcount: A:0.45, C:0.01, G:0.11, T:0.43
Consensus pattern (38 bp):
TTGATTTAATATTTCTAGTAAAAATGTTAAAAATAATA
Found at i:1444341 original size:16 final size:16
Alignment explanation
Indices: 1444300--1444350 Score: 75
Period size: 16 Copynumber: 3.1 Consensus size: 16
1444290 ATAATTATTT
1444300 TAATTTTAATAATAATAA
1 TAATTTTAAT-ATAAT-A
*
1444318 TAACTTTAATATAATA
1 TAATTTTAATATAATA
1444334 TAATTTTAATATAATA
1 TAATTTTAATATAATA
1444350 T
1 T
1444351 GTCACAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 17 0.55
17 5 0.16
18 9 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATTTTAATATAATA
Found at i:1446334 original size:23 final size:23
Alignment explanation
Indices: 1446308--1446351 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
1446298 ATTTGAATGA
*
1446308 ATGTGATTAATATCAATATTTCT
1 ATGTGAATAATATCAATATTTCT
1446331 ATGTGAATAATATCAATATTT
1 ATGTGAATAATATCAATATTT
1446352 TATTTAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (23 bp):
ATGTGAATAATATCAATATTTCT
Found at i:1446814 original size:20 final size:20
Alignment explanation
Indices: 1446782--1446830 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
1446772 CAAAGGTAGT
*
1446782 CGATACTCCCTATAATAGTAC
1 CGATAC-CCCTATAAGAGTAC
1446803 CGATACCCCTATAAGAGTAC
1 CGATACCCCTATAAGAGTAC
*
1446823 CAATACCC
1 CGATACCC
1446831 TCTGTCCTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.35, C:0.33, G:0.10, T:0.22
Consensus pattern (20 bp):
CGATACCCCTATAAGAGTAC
Found at i:1447356 original size:5 final size:5
Alignment explanation
Indices: 1447328--1447488 Score: 62
Period size: 5 Copynumber: 30.4 Consensus size: 5
1447318 AAGTAAGTAG
* * *
1447328 AAATAA AAATA AAACA AAAT- AAATA AAATGA TAACAT- GAGTA AAAATA
1 AAAT-A AAATA AAATA AAATA AAATA AAAT-A -AA-ATA AAATA A-AATA
* * * *
1447376 TAATA AAACA AAAAA AGAATAA AAAATA AACA-A AAATA AAACA AGAATA
1 AAATA AAATA AAATA A-AAT-A -AAATA AA-ATA AAATA AAATA A-AATA
* * *
1447425 AAA-A CAAAGAA AAATA AAATA AAATA AAATA AAA-A TAATA AAAAA ATAATA
1 AAATA -AAA-TA AAATA AAATA AAATA AAATA AAATA AAATA AAATA A-AATA
*
1447476 TAAATA ATATA AA
1 -AAATA AAATA AA
1447489 TATATATAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 37
0.67 0.11 0.21
Matches are distributed among these distances:
4 10 0.09
5 70 0.60
6 26 0.22
7 8 0.07
8 3 0.03
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.17
Consensus pattern (5 bp):
AAATA
Found at i:1447399 original size:11 final size:10
Alignment explanation
Indices: 1447385--1447475 Score: 76
Period size: 10 Copynumber: 8.9 Consensus size: 10
1447375 ATAATAAAAC
*
1447385 AAAAAAAGAA
1 AAAAAAATAA
*
1447395 TAAAAAATAA
1 AAAAAAATAA
*
1447405 ACAAAAATAA
1 AAAAAAATAA
*
1447415 AACAAGAATAA
1 AA-AAAAATAA
* *
1447426 AAACAAAGAA
1 AAAAAAATAA
1447436 AAATAAAATAA
1 AAA-AAAATAA
*
1447447 AATAAAAT-A
1 AAAAAAATAA
*
1447456 AAAATAATAA
1 AAAAAAATAA
1447466 AAAAATAATA
1 AAAAA-AATA
1447476 TAAATAATAT
Statistics
Matches: 62, Mismatches: 15, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
9 7 0.11
10 35 0.56
11 20 0.32
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.13
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:1447400 original size:28 final size:28
Alignment explanation
Indices: 1447380--1447453 Score: 89
Period size: 27 Copynumber: 2.7 Consensus size: 28
1447370 AAAATATAAT
* *
1447380 AAAACAAAAAAAGAATAAAAAATAAACA
1 AAAATAAAACAAGAATAAAAAATAAACA
* *
1447408 AAAATAAAACAAGAAT-AAAAACAAAGA
1 AAAATAAAACAAGAATAAAAAATAAACA
*
1447435 AAAATAAAATAA-AATAAAA
1 AAAATAAAACAAGAATAAAA
1447454 TAAAAATAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
26 3 0.08
27 23 0.57
28 14 0.35
ACGTcount: A:0.81, C:0.05, G:0.04, T:0.09
Consensus pattern (28 bp):
AAAATAAAACAAGAATAAAAAATAAACA
Found at i:1447480 original size:9 final size:9
Alignment explanation
Indices: 1447468--1447497 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
1447458 AATAATAAAA
1447468 AAATAATAT
1 AAATAATAT
1447477 AAATAATAT
1 AAATAATAT
1447486 AAATATATAT
1 AAATA-ATAT
1447496 AA
1 AA
1447498 TAAGATATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 14 0.70
10 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AAATAATAT
Found at i:1447500 original size:22 final size:20
Alignment explanation
Indices: 1447441--1447500 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 20
1447431 AAGAAAAATA
* *
1447441 AAATAAAATAAAATAAAAAT
1 AAATAATATAAAATAATAAT
1447461 -AATAA-A-AAAATAAT-AT
1 AAATAATATAAAATAATAAT
1447477 AAATAATATAAATATATATAAT
1 AAATAATATAAA-ATA-ATAAT
1447499 AA
1 AA
1447501 GATATGGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
16 2 0.06
17 12 0.36
18 2 0.06
19 8 0.24
20 3 0.09
21 2 0.06
22 4 0.12
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
AAATAATATAAAATAATAAT
Found at i:1447722 original size:15 final size:16
Alignment explanation
Indices: 1447682--1447716 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1447672 TAATGGTAAT
*
1447682 AATAAAAATAAAAAGA
1 AATAAATATAAAAAGA
1447698 AATAAATATAAAAA-A
1 AATAAATATAAAAAGA
1447713 AATA
1 AATA
1447717 TGTATATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (16 bp):
AATAAATATAAAAAGA
Found at i:1447790 original size:19 final size:19
Alignment explanation
Indices: 1447766--1447802 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1447756 ATAAGTAATA
1447766 AAATAAAAATAAAATAAAC
1 AAATAAAAATAAAATAAAC
* *
1447785 AAATAATAATAATATAAA
1 AAATAAAAATAAAATAAA
1447803 TAATAATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (19 bp):
AAATAAAAATAAAATAAAC
Found at i:1447794 original size:3 final size:3
Alignment explanation
Indices: 1447752--1447817 Score: 61
Period size: 3 Copynumber: 22.7 Consensus size: 3
1447742 TATTAACAAA
*
1447752 AAT AAT AAGT AAT AA- AAT AAA AAT AA- AAT AA- ACA- AAT AAT AAT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
1447795 AAT -AT AAAT AAT AAT AAT AAT AA
1 AAT AAT -AAT AAT AAT AAT AAT AA
1447818 ATGATTAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
2 8 0.15
3 41 0.76
4 5 0.09
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:1448730 original size:17 final size:17
Alignment explanation
Indices: 1448707--1448765 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
1448697 AACAATAATA
1448707 AATATAAATACATATAT
1 AATATAAATACATATAT
* *
1448724 TATATAATATA-ATTTAT
1 AATATAA-ATACATATAT
*
1448741 AATGTAAATACATTATAT
1 AATATAAATACA-TATAT
*
1448759 AACATAA
1 AATATAA
1448766 TAATAGTTGA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
16 3 0.09
17 17 0.53
18 12 0.38
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (17 bp):
AATATAAATACATATAT
Found at i:1449214 original size:32 final size:32
Alignment explanation
Indices: 1449173--1449246 Score: 130
Period size: 32 Copynumber: 2.3 Consensus size: 32
1449163 ATCCTTTGTC
*
1449173 GTGAAGTTGAAATCGTGGATGGCTCTTTCGCT
1 GTGAAGTTGAAATCGTGGATGGCTCCTTCGCT
1449205 GTGAAGTTGAAATCGTGGATGGCTCCTTCGCT
1 GTGAAGTTGAAATCGTGGATGGCTCCTTCGCT
*
1449237 ATGAAGTTGA
1 GTGAAGTTGA
1449247 GCCTTGAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.22, C:0.15, G:0.31, T:0.32
Consensus pattern (32 bp):
GTGAAGTTGAAATCGTGGATGGCTCCTTCGCT
Found at i:1450319 original size:60 final size:62
Alignment explanation
Indices: 1450246--1450410 Score: 190
Period size: 65 Copynumber: 2.6 Consensus size: 62
1450236 GAAGTTGAGT
* * * * **
1450246 TTTGAATTAGATATCCTTCGTTGTGAAGTTGAAATCCAA-GGGT-TGTTTCACCAAATTGTT
1 TTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATGAGTAAGTTTCACCAAATTGAC
* * * * *
1450306 TTTGGGTTGGATATCCTTCGTCGTGAAGTTAAAATCTAATCTTTAGTAAGTTTCACCAAATTGAC
1 TTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAA---TGAGTAAGTTTCACCAAATTGAC
1450371 TTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAT
1 TTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAT
1450411 CTTGAGTAAA
Statistics
Matches: 85, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
60 33 0.39
62 1 0.01
64 2 0.02
65 49 0.58
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (62 bp):
TTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATGAGTAAGTTTCACCAAATTGAC
Found at i:1450386 original size:65 final size:65
Alignment explanation
Indices: 1450290--1450419 Score: 197
Period size: 65 Copynumber: 2.0 Consensus size: 65
1450280 TCCAAGGGTT
** * * *
1450290 GTTTCACCAAATTGTTTTTGGGTTGGATATCCTTCGTCGTGAAGTTAAAATCTAATCTTTAGTAA
1 GTTTCACCAAATTGACTTTGAGTTGGATATCCTTCGTCGTGAAGTTAAAATCCAATCTTGAGTAA
* *
1450355 GTTTCACCAAATTGACTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGAGTAA
1 GTTTCACCAAATTGACTTTGAGTTGGATATCCTTCGTCGTGAAGTTAAAATCCAATCTTGAGTAA
1450420 ATTGTGTAGC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (65 bp):
GTTTCACCAAATTGACTTTGAGTTGGATATCCTTCGTCGTGAAGTTAAAATCCAATCTTGAGTAA
Found at i:1451250 original size:7 final size:7
Alignment explanation
Indices: 1451238--1451282 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
1451228 ACCTTATTTC
1451238 TTTTCTT
1 TTTTCTT
1451245 TTTTC-T
1 TTTTCTT
*
1451251 CTTTCTT
1 TTTTCTT
*
1451258 TTTTCTC
1 TTTTCTT
1451265 TTTTCTT
1 TTTTCTT
*
1451272 TTCTCTT
1 TTTTCTT
1451279 TTTT
1 TTTT
1451283 TTCAATATAG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 5 0.16
7 26 0.84
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTCTT
Found at i:1451259 original size:12 final size:12
Alignment explanation
Indices: 1451234--1451284 Score: 68
Period size: 12 Copynumber: 4.2 Consensus size: 12
1451224 ACCCACCTTA
1451234 TTTCT-TTTCTTT
1 TTTCTCTTT-TTT
1451246 TTTCTCTTTCTTT
1 TTTCTCTTT-TTT
*
1451259 TTTCTCTTTTCT
1 TTTCTCTTTTTT
1451271 TTTCTCTTTTTT
1 TTTCTCTTTTTT
1451283 TT
1 TT
1451285 CAATATAGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
12 20 0.56
13 16 0.44
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTCTCTTTTTT
Found at i:1451263 original size:20 final size:20
Alignment explanation
Indices: 1451238--1451281 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1451228 ACCTTATTTC
*
1451238 TTTTCTTTTTTCTCTTTCT-T
1 TTTTCTCTTTTCT-TTTCTCT
1451258 TTTTCTCTTTTCTTTTCTCT
1 TTTTCTCTTTTCTTTTCTCT
1451278 TTTT
1 TTTT
1451282 TTTCAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTCTCTTTTCTTTTCTCT
Found at i:1451267 original size:27 final size:24
Alignment explanation
Indices: 1451236--1451284 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 24
1451226 CCACCTTATT
1451236 TCTTTTCTTTTTTCTCTTTCTTTTTTC
1 TCTTTTC--TTTTCTCTTT-TTTTTTC
1451263 TCTTTTCTTTTCTCTTTTTTTT
1 TCTTTTCTTTTCTCTTTTTTTT
1451285 CAATATAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 5 0.23
25 10 0.45
27 7 0.32
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (24 bp):
TCTTTTCTTTTCTCTTTTTTTTTC
Found at i:1457001 original size:20 final size:20
Alignment explanation
Indices: 1456976--1457033 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
1456966 TTTCAAAGTG
1456976 ATGCATCGATGCACCAATCC
1 ATGCATCGATGCACCAATCC
1456996 ATGCATCGATGCACCAATCC
1 ATGCATCGATGCACCAATCC
* *
1457016 ATTCAACGATGCACCAAT
1 ATGCATCGATGCACCAAT
1457034 TAATTTTTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.33, G:0.14, T:0.21
Consensus pattern (20 bp):
ATGCATCGATGCACCAATCC
Found at i:1457102 original size:45 final size:46
Alignment explanation
Indices: 1457053--1457141 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 46
1457043 AAACATCGAA
* * *
1457053 TGCATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGAACATGCATCGATGCACTCAG
1457098 TGCATTTGATGCATCGATGCACAAGAACATGCATCGATGCACTC
1 TGCATTTGATGCATCGATGCACAAGAACATGCATCGATGCACTC
1457142 TGGCTTTTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 21 0.52
46 19 0.47
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAAGAACATGCATCGATGCACTCAG
Found at i:1457684 original size:93 final size:93
Alignment explanation
Indices: 1457525--1457710 Score: 372
Period size: 93 Copynumber: 2.0 Consensus size: 93
1457515 ATTGTATTCA
1457525 CTTTTGAGTGTTCTTTTCTTTGTTCTATAATTGTGCAAACAATCTACCTTGTGAGGATTTCCTTG
1 CTTTTGAGTGTTCTTTTCTTTGTTCTATAATTGTGCAAACAATCTACCTTGTGAGGATTTCCTTG
1457590 TAAGTTTACAAATTTGTAATATTCTCTT
66 TAAGTTTACAAATTTGTAATATTCTCTT
1457618 CTTTTGAGTGTTCTTTTCTTTGTTCTATAATTGTGCAAACAATCTACCTTGTGAGGATTTCCTTG
1 CTTTTGAGTGTTCTTTTCTTTGTTCTATAATTGTGCAAACAATCTACCTTGTGAGGATTTCCTTG
1457683 TAAGTTTACAAATTTGTAATATTCTCTT
66 TAAGTTTACAAATTTGTAATATTCTCTT
1457711 TGAGAAAGTG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.23, C:0.15, G:0.14, T:0.48
Consensus pattern (93 bp):
CTTTTGAGTGTTCTTTTCTTTGTTCTATAATTGTGCAAACAATCTACCTTGTGAGGATTTCCTTG
TAAGTTTACAAATTTGTAATATTCTCTT
Found at i:1465852 original size:45 final size:46
Alignment explanation
Indices: 1465803--1465891 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 46
1465793 AAACATCGAA
* *
1465803 TGCATTTTATGCATCGATACAC-ATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATACACAAGACCATGCATCGATGCACTCAG
*
1465848 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTC
1 TGCATTTGATGCATCGATACACAAGACCATGCATCGATGCACTC
1465892 TGGCTTTTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 20 0.50
46 20 0.50
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (46 bp):
TGCATTTGATGCATCGATACACAAGACCATGCATCGATGCACTCAG
Found at i:1468782 original size:100 final size:100
Alignment explanation
Indices: 1468609--1468804 Score: 383
Period size: 100 Copynumber: 2.0 Consensus size: 100
1468599 ATCAAAGGGA
1468609 ACTATTTGAAGCTACCTTGCTTGCTTCTTGAATCCATCCATAATAACTTCTAACTCAGTTACGGT
1 ACTATTTGAAGCTACCTTGCTTGCTTCTTGAATCCATCCATAATAACTTCTAACTCAGTTACGGT
1468674 CTTGTCATCTCGTTCTTACCATTTCTGAAGACTTC
66 CTTGTCATCTCGTTCTTACCATTTCTGAAGACTTC
1468709 ACTATTTGAAGCTACCTTGCTTGCTTCTTGAATCCATCCATAATAACTTCTAACTCAGTTACGGT
1 ACTATTTGAAGCTACCTTGCTTGCTTCTTGAATCCATCCATAATAACTTCTAACTCAGTTACGGT
*
1468774 CTTTTCATCTCGTTCTTACCATTTCTGAAGA
66 CTTGTCATCTCGTTCTTACCATTTCTGAAGA
1468805 GACTTCTCTA
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 95 1.00
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (100 bp):
ACTATTTGAAGCTACCTTGCTTGCTTCTTGAATCCATCCATAATAACTTCTAACTCAGTTACGGT
CTTGTCATCTCGTTCTTACCATTTCTGAAGACTTC
Found at i:1471707 original size:11 final size:11
Alignment explanation
Indices: 1471707--1471780 Score: 57
Period size: 11 Copynumber: 6.7 Consensus size: 11
1471697 AAAGAATAAA
1471707 AATAAAAAAAG
1 AATAAAAAAAG
*
1471718 AATAAAACAAG
1 AATAAAAAAAG
1471729 AATAAAAACAAAG
1 AAT-AAAA-AAAG
1471742 AA-AAACAAATAG
1 AATAAA-AAA-AG
* *
1471754 AAGAAAAACAG
1 AATAAAAAAAG
1471765 --T-AAAAAAG
1 AATAAAAAAAG
1471773 AATAAAAA
1 AATAAAAA
1471781 TAATATATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
8 6 0.12
10 1 0.02
11 24 0.48
12 11 0.22
13 8 0.16
ACGTcount: A:0.77, C:0.05, G:0.09, T:0.08
Consensus pattern (11 bp):
AATAAAAAAAG
Found at i:1471707 original size:28 final size:28
Alignment explanation
Indices: 1471674--1471745 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
1471664 GTAACATGAG
1471674 TAAAAATATAACAAAACAA-AAAAAAAGAA
1 TAAAAATA-AA-AAAACAATAAAAAAAGAA
* *
1471703 TAAAAATAAAAAAAGAATAAAACAAGAA
1 TAAAAATAAAAAAACAATAAAAAAAGAA
*
1471731 TAAAAACAAAGAAAA
1 TAAAAATAAA-AAAA
1471746 ACAAATAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 6 0.16
28 20 0.53
29 12 0.32
ACGTcount: A:0.79, C:0.06, G:0.06, T:0.10
Consensus pattern (28 bp):
TAAAAATAAAAAAACAATAAAAAAAGAA
Found at i:1471952 original size:3 final size:3
Alignment explanation
Indices: 1471944--1472130 Score: 130
Period size: 3 Copynumber: 63.7 Consensus size: 3
1471934 ATAAAAAGAA
* * * *
1471944 AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AGT ACA- AAT AAA AAGA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AA-T
* * * *
1471990 AAT AAT -AT AAT -AT ATAT AAAT AAT AAT GTAT AA- ACAA AAT ATT AAC
1 AAT AAT AAT AAT AAT A-AT -AAT AAT AAT -AAT AAT A-AT AAT AAT AAT
1472036 AA- AAT AAT AAT AA- AAT AA- AAT AAT AAAT AAT AA- ACAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT A-AT AAT AAT
1472078 ATAT AAT AA- AAT -AT AA- AAT -AT AAT AAT AAT AAT AAT AAT AAT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1472120 AAT AAT AAT AA
1 AAT AAT AAT AA
1472131 AAAGGATTAA
Statistics
Matches: 150, Mismatches: 12, Indels: 44
0.73 0.06 0.21
Matches are distributed among these distances:
2 22 0.15
3 112 0.75
4 15 0.10
5 1 0.01
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:1472038 original size:11 final size:11
Alignment explanation
Indices: 1472022--1472130 Score: 50
Period size: 10 Copynumber: 10.2 Consensus size: 11
1472012 ATAATGTATA
*
1472022 AACAAAATATT
1 AACAAAATAAT
1472033 AACAAAATAAT
1 AACAAAATAAT
*
1472044 AATAAAATAA-
1 AACAAAATAAT
* *
1472054 AATAATA-AAT
1 AACAAAATAAT
*
1472064 AATAAACATAAT
1 AACAAA-ATAAT
*
1472076 -A-AATATAAT
1 AACAAAATAAT
*
1472085 AA-AATATAA-
1 AACAAAATAAT
* *
1472094 AATATAATAAT
1 AACAAAATAAT
*
1472105 AATAATAATAAT
1 AACAA-AATAAT
*
1472117 AATAATAATAAT
1 AACAA-AATAAT
1472129 AA
1 AA
1472131 AAAGGATTAA
Statistics
Matches: 83, Mismatches: 8, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
9 9 0.11
10 26 0.31
11 25 0.30
12 23 0.28
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (11 bp):
AACAAAATAAT
Found at i:1472069 original size:46 final size:43
Alignment explanation
Indices: 1471937--1472112 Score: 140
Period size: 46 Copynumber: 3.8 Consensus size: 43
1471927 AAGTAGAATA
* *
1471937 AAAAGAAAATAATAATAGTAATAATAATAATAATAATAGTAC-AAAT
1 AAAA-AAAATAATAATA-AAATAA-AATAATAATAATA-AACAAAAT
*
1471983 AAAAAGAAATAAT-ATAATATATATAAATAATAATGTATAAACAAAAT
1 AAAAA-AAATAATAATAA-A-ATA-AAATAATAAT-AATAAACAAAAT
* *
1472030 ATTAACAAAATAATAATAAAATAAAATAATAAATAATAAACATAAT
1 A--AAAAAAATAATAATAAAATAAAATAAT-AATAATAAACAAAAT
* * * *
1472076 AAATATAATAAAATATAAAATATAATAATAATAATAA
1 AAAAAAAATAATA-ATAAAATAAAATAATAATAATAA
1472113 TAATAATAAT
Statistics
Matches: 109, Mismatches: 10, Indels: 24
0.76 0.07 0.17
Matches are distributed among these distances:
44 17 0.16
45 19 0.17
46 43 0.39
47 15 0.14
48 8 0.07
49 7 0.06
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (43 bp):
AAAAAAAATAATAATAAAATAAAATAATAATAATAAACAAAAT
Found at i:1473770 original size:16 final size:17
Alignment explanation
Indices: 1473751--1473788 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
1473741 AATTCGAATC
1473751 ATTTTAAATTTAAATT-
1 ATTTTAAATTTAAATTA
* *
1473767 ATTTTAACTTTATATTA
1 ATTTTAAATTTAAATTA
1473784 ATTTT
1 ATTTT
1473789 GAGTTTAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTAAATTTAAATTA
Found at i:1477424 original size:6 final size:6
Alignment explanation
Indices: 1477413--1477442 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
1477403 TAATTAATTA
1477413 AAATAT AAATAT AAATAT AAATAT AAATAT
1 AAATAT AAATAT AAATAT AAATAT AAATAT
1477443 TAGATGAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAATAT
Found at i:1479187 original size:26 final size:26
Alignment explanation
Indices: 1479158--1479209 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
1479148 TCATCGTCCC
1479158 CCGATTGAGAAGGTTTTCCTTTAGAA
1 CCGATTGAGAAGGTTTTCCTTTAGAA
1479184 CCGATTGAGAAGGTTTTCCTTTAGAA
1 CCGATTGAGAAGGTTTTCCTTTAGAA
1479210 TTCACCTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (26 bp):
CCGATTGAGAAGGTTTTCCTTTAGAA
Found at i:1482495 original size:19 final size:19
Alignment explanation
Indices: 1482460--1482496 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1482450 AATTTTATAA
* *
1482460 AATGGTTATTAATTTATCG
1 AATGGTTATAAAATTATCG
1482479 AATGGTTATAAAATTATC
1 AATGGTTATAAAATTATC
1482497 TTTAGATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (19 bp):
AATGGTTATAAAATTATCG
Found at i:1482581 original size:31 final size:32
Alignment explanation
Indices: 1482544--1482615 Score: 80
Period size: 31 Copynumber: 2.3 Consensus size: 32
1482534 ATTTATCAGT
*
1482544 TTTTATAATT-A-TT-ATAATATTAAAATACTTA
1 TTTTATAATTAATTTGATAA-ATT-AAATAATTA
*
1482575 TTTTAT-ATTAATTTGATAAATTTAATAATTA
1 TTTTATAATTAATTTGATAAATTAAATAATTA
1482606 TTTTATAATT
1 TTTTATAATT
1482616 TAAAAATGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
30 3 0.09
31 20 0.57
32 8 0.23
33 4 0.11
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (32 bp):
TTTTATAATTAATTTGATAAATTAAATAATTA
Found at i:1483624 original size:33 final size:35
Alignment explanation
Indices: 1483595--1483665 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
1483585 TTTTTATATT
*
1483595 TTTAA-TTTTGTAAAAAGT-TATAAATTTTATGAA
1 TTTAATTTTTGTAAAAAATATATAAATTTTATGAA
* *
1483628 TTTAATTTTTTTAAAAAATATATAAATTTTCT-AA
1 TTTAATTTTTGTAAAAAATATATAAATTTTATGAA
1483662 TTTA
1 TTTA
1483666 TTAAAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 5 0.15
34 17 0.52
35 11 0.33
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (35 bp):
TTTAATTTTTGTAAAAAATATATAAATTTTATGAA
Found at i:1483652 original size:35 final size:32
Alignment explanation
Indices: 1483586--1483665 Score: 88
Period size: 34 Copynumber: 2.4 Consensus size: 32
1483576 CATTAAATCT
* *
1483586 TTTTATATTTTTAATTTTGTAAAAAGTTATAAA
1 TTTTATA-ATTTAATTTTGTAAAAAATTATAAA
*
1483619 TTTTATGAATTTAATTTTTTTAAAAAATATATAAA
1 TTTTAT-AATTTAA-TTTTGTAAAAAAT-TATAAA
*
1483654 TTTTCTAATTTA
1 TTTTATAATTTA
1483666 TTAAAAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
33 11 0.28
34 18 0.45
35 11 0.28
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (32 bp):
TTTTATAATTTAATTTTGTAAAAAATTATAAA
Found at i:1483709 original size:32 final size:31
Alignment explanation
Indices: 1483659--1483718 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
1483649 ATAAATTTTC
1483659 TAATTTATTAAAAAATAAATATATAATAAGGA
1 TAATTTATTAAAAAATAAAT-TATAATAAGGA
* *
1483691 TAATTTGATT-AAATATAAATTCTAATAA
1 TAATTT-ATTAAAAAATAAATTATAATAA
1483719 TATTTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 7 0.28
32 15 0.60
33 3 0.12
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (31 bp):
TAATTTATTAAAAAATAAATTATAATAAGGA
Found at i:1484712 original size:19 final size:20
Alignment explanation
Indices: 1484660--1484712 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
1484650 TTAAATATCT
1484660 TTATTAAA-ATATTATTTAA
1 TTATTAAATATATTATTTAA
* *
1484679 ATATATAAATAATATTA-TTCA
1 TTAT-TAAAT-ATATTATTTAA
1484700 TTATTAAATATAT
1 TTATTAAATATAT
1484713 AAAATTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 7 0.25
20 9 0.32
21 6 0.21
22 6 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTATTAAATATATTATTTAA
Found at i:1484725 original size:30 final size:30
Alignment explanation
Indices: 1484668--1484814 Score: 105
Period size: 29 Copynumber: 5.0 Consensus size: 30
1484658 CTTTATTAAA
1484668 ATATTATTTAAATATAT-AAA-TAATATTAT
1 ATATTA-TTAAATATATAAAATTAATATTAT
**
1484697 -TCATTATTAAATATATAAAATTTTTATTAT
1 AT-ATTATTAAATATATAAAATTAATATTAT
1484727 ATATTATTAAA-ATA-AAAATATAATATCT-T
1 ATATTATTAAATATATAAAAT-TAATAT-TAT
** *
1484756 ATATTATTATAATATA-ATTGATT-ATTTTAT
1 ATATTATTA-AATATATA-AAATTAATATTAT
* * *
1484786 ATAATATTAAAAATATAATATT-ATATTAT
1 ATATTATTAAATATATAAAATTAATATTAT
1484815 TATAAATCTT
Statistics
Matches: 95, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
28 16 0.17
29 39 0.41
30 32 0.34
31 6 0.06
32 2 0.02
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (30 bp):
ATATTATTAAATATATAAAATTAATATTAT
Found at i:1484794 original size:15 final size:16
Alignment explanation
Indices: 1484756--1484809 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 16
1484746 ATAATATCTT
1484756 ATATTATTATAATATA
1 ATATTATTATAATATA
*
1484772 ATTGATTATT-TTATATA
1 A-T-ATTATTATAATATA
*
1484789 ATATTA--AAAATATA
1 ATATTATTATAATATA
1484803 ATATTAT
1 ATATTAT
1484810 ATTATTATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
14 11 0.35
15 4 0.13
16 2 0.06
17 8 0.26
18 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
ATATTATTATAATATA
Found at i:1485083 original size:42 final size:42
Alignment explanation
Indices: 1485019--1485138 Score: 186
Period size: 42 Copynumber: 2.9 Consensus size: 42
1485009 ATTAATTACA
* *
1485019 TTCCGGAAAACCAATTACGTGAAACAACCACGGGAAAATATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAATATT
* *
1485061 TTCCGGAAAACGAATTATGTGAAACAAACACGGAAAAATATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAATATT
* *
1485103 TTCCGAAAAACGAATTACGTGAAATAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
1485139 TTCGGGAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.19
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAATATT
Found at i:1487467 original size:20 final size:20
Alignment explanation
Indices: 1487442--1487481 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1487432 TTCTCGCCGG
1487442 TTCAATGTTCTAATGTGTAA
1 TTCAATGTTCTAATGTGTAA
1487462 TTCAATGTTCTAATGTGTAA
1 TTCAATGTTCTAATGTGTAA
1487482 ATGAAACCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (20 bp):
TTCAATGTTCTAATGTGTAA
Found at i:1492652 original size:149 final size:149
Alignment explanation
Indices: 1492480--1492876 Score: 668
Period size: 149 Copynumber: 2.7 Consensus size: 149
1492470 ACTATTTATT
* *
1492480 ATTATATTAATGAATTTGCCTTATAATTTTTTAATTGAATTGATGTTTGATTAAACTAAATTTAA
1 ATTATATAAATGAATTTGCCTTATAATTTTTTAGTTGAATTGATGTTTGATTAAACTAAATTTAA
* *
1492545 TAGAAAATGGTTGAAAATTATTTAGAGAAATAATGCTTTAAATTACTTAGGAATTTATTGTAATT
66 TAGAAAATGGTTGAAAATTATTTAGAGAAATAATGATTTAAATTACTTAGAAATTTATTGTAATT
*
1492610 TTCTATTATATATGATAAA
131 TTCTACTATATATGATAAA
*
1492629 ATTATATAAATGAATTTGTCTTATAATTTTTTAGTTGAATTGATGTTTGATTAAACTAAATTTAA
1 ATTATATAAATGAATTTGCCTTATAATTTTTTAGTTGAATTGATGTTTGATTAAACTAAATTTAA
* * *
1492694 TAGAAAATGGTAGAAAATTATTTAGAGAAATGATGATTTAAATTATTTAGAAATTTATTGTAATT
66 TAGAAAATGGTTGAAAATTATTTAGAGAAATAATGATTTAAATTACTTAGAAATTTATTGTAATT
*
1492759 TTCTGCTATATATGATAAA
131 TTCTACTATATATGATAAA
1492778 ATTATATAAATGAATTTGCCTTATAATTGTTTTAGTTGAATTGATGTTTGATTAAACTAAATTTA
1 ATTATATAAATGAATTTGCCTTATAATT-TTTTAGTTGAATTGATGTTTGATTAAACTAAATTTA
* * *
1492843 ATAAAAAATGATTGAAAATTATTTAGAGATATAA
65 ATAGAAAATGGTTGAAAATTATTTAGAGAAATAA
1492877 ATGAATTTGC
Statistics
Matches: 231, Mismatches: 16, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
149 166 0.72
150 65 0.28
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (149 bp):
ATTATATAAATGAATTTGCCTTATAATTTTTTAGTTGAATTGATGTTTGATTAAACTAAATTTAA
TAGAAAATGGTTGAAAATTATTTAGAGAAATAATGATTTAAATTACTTAGAAATTTATTGTAATT
TTCTACTATATATGATAAA
Found at i:1492940 original size:89 final size:90
Alignment explanation
Indices: 1492781--1492956 Score: 318
Period size: 89 Copynumber: 2.0 Consensus size: 90
1492771 TGATAAAATT
*
1492781 ATATAAATGAATTTGCCTTATAATTGTTTTAGTTGAATTGATGTTTGATTAAACTAAATTTAATA
1 ATATAAATGAATTTGCCTTATAATTGTTTTAGTTGAATTGATGTTTGATTAAACTAAATTTAACA
1492846 AAAAATGATTGAAAATTATTTAGAG
66 AAAAATGATTGAAAATTATTTAGAG
1492871 ATATAAATGAATTTGCCTTATAATT-TTTTAGTTGAATTGATGTTTGATTAAACTAAATTTAACA
1 ATATAAATGAATTTGCCTTATAATTGTTTTAGTTGAATTGATGTTTGATTAAACTAAATTTAACA
* *
1492935 GAAAATGGTTGAAAATTATTTA
66 AAAAATGATTGAAAATTATTTA
1492957 TAGAAATGAT
Statistics
Matches: 83, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
89 58 0.70
90 25 0.30
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.43
Consensus pattern (90 bp):
ATATAAATGAATTTGCCTTATAATTGTTTTAGTTGAATTGATGTTTGATTAAACTAAATTTAACA
AAAAATGATTGAAAATTATTTAGAG
Found at i:1496541 original size:31 final size:31
Alignment explanation
Indices: 1496503--1496656 Score: 251
Period size: 31 Copynumber: 5.0 Consensus size: 31
1496493 CCCGAAGGAC
* *
1496503 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
1496534 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1496565 CAGTCCATATGTCCCG-A-AACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1496594 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
1496625 AAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1496656 C
1 C
1496657 CCTCGACCCT
Statistics
Matches: 116, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
29 28 0.24
30 2 0.02
31 85 0.73
32 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:1496599 original size:60 final size:62
Alignment explanation
Indices: 1496516--1496656 Score: 250
Period size: 60 Copynumber: 2.3 Consensus size: 62
1496506 TCCATAGATT
* *
1496516 CCGAAGAACCTAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAACAGTCCATATGTC
1 CCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAAAAGTCCATATGTC
1496578 CCG-A-AACATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAAAAGTCCATATGTC
1 CCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAAAAGTCCATATGTC
1496638 CCGAAGAACATAGGTAAAC
1 CCGAAGAACATAGGTAAAC
1496657 CCTCGACCCT
Statistics
Matches: 75, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
60 57 0.76
61 2 0.03
62 16 0.21
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.18
Consensus pattern (62 bp):
CCGAAGAACATAGGTAAACAGTCCATATGTCCCGAAGAACATAGGTAAAAAGTCCATATGTC
Found at i:1497231 original size:19 final size:21
Alignment explanation
Indices: 1497189--1497231 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
1497179 TTCATAATCA
1497189 CATATTCATATAGTTTATTAT
1 CATATTCATATAGTTTATTAT
*
1497210 CATA-TCATATGGTTTA-TAT
1 CATATTCATATAGTTTATTAT
1497229 CAT
1 CAT
1497232 CATAACATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 11 0.52
21 4 0.19
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.49
Consensus pattern (21 bp):
CATATTCATATAGTTTATTAT
Found at i:1497240 original size:22 final size:20
Alignment explanation
Indices: 1497195--1497241 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
1497185 ATCACATATT
*
1497195 CATATAGTTTATTATCATAT
1 CATATAGTTTATTATCATAA
*
1497215 CATATGGTTTATATCATCATAA
1 CATATAGTTTAT-T-ATCATAA
1497237 CATAT
1 CATAT
1497242 CACACATTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.48
21 1 0.04
22 11 0.48
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (20 bp):
CATATAGTTTATTATCATAA
Found at i:1497454 original size:20 final size:20
Alignment explanation
Indices: 1497426--1497473 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
1497416 CACTAGTCCA
*
1497426 TTTTAATCTATTATCTTCCC
1 TTTTTATCTATTATCTTCCC
*
1497446 TTTTTATCTCTTATCTTCCC
1 TTTTTATCTATTATCTTCCC
1497466 TTTTTATC
1 TTTTTATC
1497474 GATCTTACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.25, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTATCTATTATCTTCCC
Found at i:1497719 original size:21 final size:20
Alignment explanation
Indices: 1497689--1497732 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
1497679 TTTTGTTCGT
* *
1497689 TTGAAGGGTATCGGTTCCCC
1 TTGAAGGGTACCGATTCCCC
1497709 TTGAATGGGTACCGATTCCCC
1 TTGAA-GGGTACCGATTCCCC
1497730 TTG
1 TTG
1497733 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (20 bp):
TTGAAGGGTACCGATTCCCC
Found at i:1502870 original size:12 final size:12
Alignment explanation
Indices: 1502853--1502917 Score: 51
Period size: 12 Copynumber: 5.1 Consensus size: 12
1502843 AAAAAAATTA
1502853 ATTAAATAAAAT
1 ATTAAATAAAAT
1502865 ATTAAACAATTAAAAT
1 ATT--A-AA-TAAAAT
*
1502881 AATTAAATAAATT
1 -ATTAAATAAAAT
*
1502894 ACTAAA-AAAAT
1 ATTAAATAAAAT
*
1502905 ACTAAATAAAAT
1 ATTAAATAAAAT
1502917 A
1 A
1502918 AAATATACCT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
11 10 0.23
12 14 0.32
13 5 0.11
14 3 0.07
15 3 0.07
16 6 0.14
17 3 0.07
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (12 bp):
ATTAAATAAAAT
Found at i:1502909 original size:11 final size:12
Alignment explanation
Indices: 1502884--1502917 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
1502874 TTAAAATAAT
*
1502884 TAAATAAATTAC
1 TAAATAAAATAC
1502896 TAAA-AAAATAC
1 TAAATAAAATAC
1502907 TAAATAAAATA
1 TAAATAAAATA
1502918 AAATATACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (12 bp):
TAAATAAAATAC
Found at i:1508839 original size:14 final size:15
Alignment explanation
Indices: 1508793--1508884 Score: 59
Period size: 14 Copynumber: 6.2 Consensus size: 15
1508783 AAAATACAGA
*
1508793 AAATT-AAATGTTGG
1 AAATTAAAATGCTGG
*
1508807 AAATTAAAAAGGACT-G
1 AAATT-AAAATG-CTGG
1508823 AAA-TAAAATGCTGG
1 AAATTAAAATGCTGG
* *
1508837 AAAATTAAAA-GGTAGA
1 -AAATTAAAATGCT-GG
* *
1508853 AAAATAAAATACT-G
1 AAATTAAAATGCTGG
1508867 AAATTAAAATGCTGG
1 AAATTAAAATGCTGG
1508882 AAA
1 AAA
1508885 AATAAATAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 17
0.67 0.13 0.20
Matches are distributed among these distances:
13 2 0.03
14 22 0.38
15 18 0.31
16 15 0.26
17 1 0.02
ACGTcount: A:0.55, C:0.04, G:0.17, T:0.23
Consensus pattern (15 bp):
AAATTAAAATGCTGG
Found at i:1508887 original size:30 final size:31
Alignment explanation
Indices: 1508823--1508890 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 31
1508813 AAAAGGACTG
* *
1508823 AAATAAAATGCTGGAAAATTAAAAGGTAGAA
1 AAATAAAATACTGGAAAATTAAAAGCTAGAA
*
1508854 AAATAAAATACT-G-AAATTAAAATGCTGGAA
1 AAATAAAATACTGGAAAATTAAAA-GCTAGAA
1508884 AAATAAA
1 AAATAAA
1508891 TAAAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 9 0.27
30 13 0.39
31 11 0.33
ACGTcount: A:0.60, C:0.04, G:0.15, T:0.21
Consensus pattern (31 bp):
AAATAAAATACTGGAAAATTAAAAGCTAGAA
Found at i:1508891 original size:15 final size:16
Alignment explanation
Indices: 1508823--1508890 Score: 70
Period size: 16 Copynumber: 4.4 Consensus size: 16
1508813 AAAAGGACTG
1508823 AAATAAAATGCTGGAA
1 AAATAAAATGCTGGAA
* * *
1508839 AATTAAAA-GGTAGAA
1 AAATAAAATGCTGGAA
*
1508854 AAATAAAATACT-G-A
1 AAATAAAATGCTGGAA
*
1508868 AATTAAAATGCTGGAA
1 AAATAAAATGCTGGAA
1508884 AAATAAA
1 AAATAAA
1508891 TAAAATAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
14 11 0.28
15 14 0.35
16 15 0.38
ACGTcount: A:0.60, C:0.04, G:0.15, T:0.21
Consensus pattern (16 bp):
AAATAAAATGCTGGAA
Found at i:1509126 original size:32 final size:32
Alignment explanation
Indices: 1509047--1509204 Score: 221
Period size: 32 Copynumber: 4.9 Consensus size: 32
1509037 TTAGTTTGTG
* *
1509047 CAATAAAATAAACTGTTA-ATAAGTTAGTA-AGAA
1 CAATAAAATAAA-AGTTAGA-ATGTTAGTACA-AA
**
1509080 CAATAAAAATAAAAGTTAGAATGTTAGTATGAA
1 CAAT-AAAATAAAAGTTAGAATGTTAGTACAAA
1509113 CAATAAAATAAAAGTTAGAATGTTAGTACAAA
1 CAATAAAATAAAAGTTAGAATGTTAGTACAAA
1509145 CAATAAAATAAAAGTTAGAATGTTAGTACAAA
1 CAATAAAATAAAAGTTAGAATGTTAGTACAAA
*
1509177 CAATAAAATAAAATTTAGAATGTTAGTA
1 CAATAAAATAAAAGTTAGAATGTTAGTA
1509205 AGTTAGAAAA
Statistics
Matches: 116, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
32 85 0.73
33 22 0.19
34 9 0.08
ACGTcount: A:0.55, C:0.05, G:0.13, T:0.27
Consensus pattern (32 bp):
CAATAAAATAAAAGTTAGAATGTTAGTACAAA
Found at i:1510595 original size:122 final size:123
Alignment explanation
Indices: 1510416--1510755 Score: 378
Period size: 123 Copynumber: 2.8 Consensus size: 123
1510406 CAATCTTGAT
* * * *
1510416 ATAATTTGGTATTGAAGACGACACTGCTCATCCATGTTGAAGAGATCTAGTCACTTTTAGATAAA
1 ATAATTTGGTGTTGAAGATGACACTGCTCATCCATGTTGAAGAGATCTAGCCGCTTTTAGATAAA
* * * * * * *
1510481 TCGTTTGTTGAAGATGAC-ATTGTTTCTTCTCG-TTGAGTAAGTTGAGTTAATCTAAAA
66 TAGTTTGTTGAAGATGACGA-TGTTCCTTCTCGTTTGAATAAATCGAGTCAATCCAAAA
*
1510538 ATAATTTGGTGTTGAAGATGACACTGCTCATCCATGTTGAAGAGATCTGGCCGCTTTTAGATAAA
1 ATAATTTGGTGTTGAAGATGACACTGCTCATCCATGTTGAAGAGATCTAGCCGCTTTTAGATAAA
* * * ** *
1510603 TAGTTTGTTGCAGATGACGATGTTCCTTTTCGTTTGAATAAATCGGGTCAATCCGGAG
66 TAGTTTGTTGAAGATGACGATGTTCCTTCTCGTTTGAATAAATCGAGTCAATCCAAAA
** * * ** * * *
1510661 ATAATACGATGTTGAAGATGACTCTGCTCATCTGTGTTGAAGAGTTCTAGCCGCTTTCAGGTAAA
1 ATAATTTGGTGTTGAAGATGACACTGCTCATCCATGTTGAAGAGATCTAGCCGCTTTTAGATAAA
* * * *
1510726 TTGTTTGCTGAAGATGAAGATGTTCATTCT
66 TAGTTTGTTGAAGATGACGATGTTCCTTCT
1510756 TGTTAAGGAA
Statistics
Matches: 182, Mismatches: 34, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
122 86 0.47
123 96 0.53
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (123 bp):
ATAATTTGGTGTTGAAGATGACACTGCTCATCCATGTTGAAGAGATCTAGCCGCTTTTAGATAAA
TAGTTTGTTGAAGATGACGATGTTCCTTCTCGTTTGAATAAATCGAGTCAATCCAAAA
Found at i:1511424 original size:101 final size:100
Alignment explanation
Indices: 1511304--1511539 Score: 246
Period size: 102 Copynumber: 2.3 Consensus size: 100
1511294 GGTGAGATAA
**
1511304 AATTTTGTTTTGAGTGAAAC-ATTTCAAAATTTGCGTTTCAAGGGAAAACTATCTCAA-TCGAGA
1 AATTTTGTTTCAAGTGAAACAATTTCAAAATTTGCGTTTCAAGGGAAAACTATCTCAACTC-A-A
* * **
1511367 AGAAATTTGTTTTTAAGAAAAACAATCTCAAATGTTATC
64 AGAAATTAGTTTTT-AG-AAAACAATCTCAAACGAGATC
** ** **
1511406 AA-TTTGTTTCAAGTGAAACAATTT-AATTTTTTTTGTTTTGAGGGAAAACTATCTCAAGCTCAA
1 AATTTTGTTTCAAGTGAAACAATTTCAA-AATTTGCGTTTCAAGGGAAAACTATCTCAA-CTCAA
* * * *
1511469 CGAAATTAGTTTTTAGGAAACTATCTCAAGCGAGATC
64 AGAAATTAGTTTTTAGAAAACAATCTCAAACGAGATC
1511506 AATTTTGTTTCAAGTGAAACAATTTCAAAATTTG
1 AATTTTGTTTCAAGTGAAACAATTTCAAAATTTG
1511540 GGAAAAGCTT
Statistics
Matches: 109, Mismatches: 19, Indels: 13
0.77 0.13 0.09
Matches are distributed among these distances:
100 17 0.16
101 44 0.40
102 45 0.41
103 1 0.01
104 2 0.02
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (100 bp):
AATTTTGTTTCAAGTGAAACAATTTCAAAATTTGCGTTTCAAGGGAAAACTATCTCAACTCAAAG
AAATTAGTTTTTAGAAAACAATCTCAAACGAGATC
Found at i:1513778 original size:25 final size:24
Alignment explanation
Indices: 1513750--1513807 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
1513740 TCTTCAACAA
1513750 TTTGAAAAAT-ATCAATTAAAAGAAT
1 TTTGAAAAATGATCAA-TAAAA-AAT
* *
1513775 TTTGAAAAATGTTTAATAAAAAAT
1 TTTGAAAAATGATCAATAAAAAAT
1513799 TTTGAAAAA
1 TTTGAAAAA
1513808 ATATTGCCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 12 0.40
25 15 0.50
26 3 0.10
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (24 bp):
TTTGAAAAATGATCAATAAAAAAT
Found at i:1517928 original size:26 final size:28
Alignment explanation
Indices: 1517877--1517928 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
1517867 TTTATATCAA
*
1517877 AGATAAAAATAAAAATAAAAATATAACG
1 AGATAAAAATAAAAATAAAAAGATAACG
*
1517905 AGAT-AAAAT-AAAATAATAAGATAA
1 AGATAAAAATAAAAATAAAAAGATAA
1517929 AAAAAGACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.59
27 5 0.23
28 4 0.18
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.19
Consensus pattern (28 bp):
AGATAAAAATAAAAATAAAAAGATAACG
Found at i:1521679 original size:2 final size:2
Alignment explanation
Indices: 1521672--1521702 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1521662 ATTATATCGT
1521672 TA 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 TA T
1521703 TAATGATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1523713 original size:6 final size:6
Alignment explanation
Indices: 1523705--1524024 Score: 424
Period size: 6 Copynumber: 53.3 Consensus size: 6
1523695 AACAGTGAAT
*
1523705 GATAAT GATAAC GATAAC GATAAC GATAAC GATAAC GATAAC GATAAC
1 GATAAC GATAAC GATAAC GATAAC GATAAC GATAAC GATAAC GATAAC
1523753 GATAAC GATAAC GATAAC GATAAC GATAAC GATAAC GATAAC GATAAC
1 GATAAC GATAAC GATAAC GATAAC GATAAC GATAAC GATAAC GATAAC
* * * *
1523801 GATAAC GATAAC GATAAC GATAAC GATAAC GAGAAC TAGAAC GAGAAC
1 GATAAC GATAAC GATAAC GATAAC GATAAC GATAAC GATAAC GATAAC
* * * * * * *
1523849 GAGAAC GAGAAC GAGAAC GAGAAC GAGAAC GAGAAC GATAAC GACAAC
1 GATAAC GATAAC GATAAC GATAAC GATAAC GATAAC GATAAC GATAAC
* * * * *
1523897 GATAAC GACAAG GATAAC GACAAC GATAAC GACAAC GATAAC GACAAC
1 GATAAC GATAAC GATAAC GATAAC GATAAC GATAAC GATAAC GATAAC
* * * *
1523945 GATAAC GACAAC GATAAC GACAAC GATAAC GACAAC GATAAC GACAAC
1 GATAAC GATAAC GATAAC GATAAC GATAAC GATAAC GATAAC GATAAC
* * *
1523993 GATAAC GACAAC GATAAC GACAAC GACAAC GA
1 GATAAC GATAAC GATAAC GATAAC GATAAC GA
1524025 CAATGACAAC
Statistics
Matches: 286, Mismatches: 28, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 286 1.00
ACGTcount: A:0.50, C:0.20, G:0.20, T:0.11
Consensus pattern (6 bp):
GATAAC
Found at i:1524025 original size:6 final size:6
Alignment explanation
Indices: 1523714--1524129 Score: 310
Period size: 6 Copynumber: 69.3 Consensus size: 6
1523704 TGATAATGAT
* * * * * * * *
1523714 AACGAT AACGAT AACGAT AACGAT AACGAT AACGAT AACGAT AACGAT
1 AACGAC AACGAC AACGAC AACGAC AACGAC AACGAC AACGAC AACGAC
* * * * * * * *
1523762 AACGAT AACGAT AACGAT AACGAT AACGAT AACGAT AACGAT AACGAT
1 AACGAC AACGAC AACGAC AACGAC AACGAC AACGAC AACGAC AACGAC
* * * * * * * * *
1523810 AACGAT AACGAT AACGAT AACGAG AACTAG AACGAG AACGAG AACGAG
1 AACGAC AACGAC AACGAC AACGAC AACGAC AACGAC AACGAC AACGAC
* * * * * *
1523858 AACGAG AACGAG AACGAG AACGAG AACGAT AACGAC AACGAT AACGAC
1 AACGAC AACGAC AACGAC AACGAC AACGAC AACGAC AACGAC AACGAC
* * * * *
1523906 AAGGAT AACGAC AACGAT AACGAC AACGAT AACGAC AACGAT AACGAC
1 AACGAC AACGAC AACGAC AACGAC AACGAC AACGAC AACGAC AACGAC
* * * *
1523954 AACGAT AACGAC AACGAT AACGAC AACGAT AACGAC AACGAT AACGAC
1 AACGAC AACGAC AACGAC AACGAC AACGAC AACGAC AACGAC AACGAC
* * * *
1524002 AACGAT AACGAC AACGAC AACGAC AATGAC AACGAC AATGAC AATGAC
1 AACGAC AACGAC AACGAC AACGAC AACGAC AACGAC AACGAC AACGAC
* * * * * * ** *
1524050 AATGAC AATGAC AATGAC AATGAC AATGAC AATGAC AATAAC AATGAC
1 AACGAC AACGAC AACGAC AACGAC AACGAC AACGAC AACGAC AACGAC
* * * * *
1524098 AATGAC AATGAC AATGAC AATGAC AATGAC AA
1 AACGAC AACGAC AACGAC AACGAC AACGAC AA
1524130 TGATAATGAC
Statistics
Matches: 378, Mismatches: 32, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 378 1.00
ACGTcount: A:0.50, C:0.20, G:0.19, T:0.11
Consensus pattern (6 bp):
AACGAC
Found at i:1524154 original size:6 final size:6
Alignment explanation
Indices: 1524011--1524150 Score: 226
Period size: 6 Copynumber: 23.3 Consensus size: 6
1524001 CAACGATAAC
* * *
1524011 GACAAC GACAAC GACAAT GACAAC GACAAT GACAAT GACAAT GACAAT
1 GACAAT GACAAT GACAAT GACAAT GACAAT GACAAT GACAAT GACAAT
*
1524059 GACAAT GACAAT GACAAT GACAAT GACAAT AACAAT GACAAT GACAAT
1 GACAAT GACAAT GACAAT GACAAT GACAAT GACAAT GACAAT GACAAT
* *
1524107 GACAAT GACAAT GACAAT GACAAT GATAAT GACAAT GATAAT GA
1 GACAAT GACAAT GACAAT GACAAT GACAAT GACAAT GACAAT GA
1524151 TAATTGTGTT
Statistics
Matches: 126, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 126 1.00
ACGTcount: A:0.51, C:0.17, G:0.16, T:0.16
Consensus pattern (6 bp):
GACAAT
Found at i:1528951 original size:3 final size:3
Alignment explanation
Indices: 1528943--1528972 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1528933 ACAAATGGCA
1528943 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1528973 GGTTAATGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1530449 original size:21 final size:21
Alignment explanation
Indices: 1530420--1530461 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1530410 GGAATTATTA
*
1530420 TAATATTTTAAAATTAATAAT
1 TAATATTTTAAAATAAATAAT
* *
1530441 TAATTTTTTATAATAAATAAT
1 TAATATTTTAAAATAAATAAT
1530462 ATTAATTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TAATATTTTAAAATAAATAAT
Done.