Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, 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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 31 of 77
Found at i:6249620 original size:24 final size:24
Alignment explanation
Indices: 6249588--6249636 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
6249578 CAAGGGCTGA
6249588 AGCAATGGCAGCATTCCCCACAGG
1 AGCAATGGCAGCATTCCCCACAGG
6249612 AGCAATGGCAGCATTCCCCACAGG
1 AGCAATGGCAGCATTCCCCACAGG
6249636 A
1 A
6249637 CCAAGAGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.33, G:0.24, T:0.12
Consensus pattern (24 bp):
AGCAATGGCAGCATTCCCCACAGG
Found at i:6249647 original size:21 final size:23
Alignment explanation
Indices: 6249594--6249641 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
6249584 CTGAAGCAAT
*
6249594 GGCAGCATTCCCCACAGGAGCAA
1 GGCAGCATTCCCCACAGGACCAA
6249617 TGGCAGCATTCCCCACAGGACCAA
1 -GGCAGCATTCCCCACAGGACCAA
6249641 G
1 G
6249642 AGCATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.29, C:0.35, G:0.25, T:0.10
Consensus pattern (23 bp):
GGCAGCATTCCCCACAGGACCAA
Found at i:6250437 original size:44 final size:44
Alignment explanation
Indices: 6250371--6250455 Score: 136
Period size: 44 Copynumber: 1.9 Consensus size: 44
6250361 CTAATGATGG
*
6250371 TTTACTTCTTACAAGAGAATGATTTTACCAGACATTATTTATCT
1 TTTACTTCTTACAAGAGAATGATTTTACAAGACATTATTTATCT
*
6250415 TTTACTTCTTACGAAG-GCATGATTTTACAAGACATTATTTA
1 TTTACTTCTTAC-AAGAGAATGATTTTACAAGACATTATTTA
6250456 GACAAGCCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 35 0.92
45 3 0.08
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (44 bp):
TTTACTTCTTACAAGAGAATGATTTTACAAGACATTATTTATCT
Found at i:6257268 original size:22 final size:22
Alignment explanation
Indices: 6257240--6257284 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
6257230 TTTTAAATTT
*
6257240 TATTATTT-TCATATCCTTTTTA
1 TATTATTTGT-ATATCATTTTTA
6257262 TATTATTTGTATATCATTTTTA
1 TATTATTTGTATATCATTTTTA
6257284 T
1 T
6257285 TGTATTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.64
Consensus pattern (22 bp):
TATTATTTGTATATCATTTTTA
Found at i:6257290 original size:22 final size:21
Alignment explanation
Indices: 6257240--6257298 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
6257230 TTTTAAATTT
* *
6257240 TATTATTTTCATATCCTTTTTA
1 TATTATTAT-ATATCATTTTTA
*
6257262 TATTATTTGTATATCATTTTTA
1 TATTA-TTATATATCATTTTTA
6257284 T-TGTATTATATATCA
1 TAT-TATTATATATCA
6257299 AATTATTAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 10 0.31
22 19 0.59
23 3 0.09
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.61
Consensus pattern (21 bp):
TATTATTATATATCATTTTTA
Found at i:6257736 original size:27 final size:26
Alignment explanation
Indices: 6257697--6257773 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 26
6257687 AAAAAACTTA
* * * *
6257697 TAGAAATTTAAAATTTTGAAATATTTT
1 TAGAAATTAAAAATTTT-AAAAAATAT
*
6257724 TAGAAATTAAAAAATTTAAAAAATAT
1 TAGAAATTAAAAATTTTAAAAAATAT
*
6257750 TA-AAACTTAAAAATTTTTAAAAAT
1 TAGAAA-TTAAAAATTTTAAAAAAT
6257774 CTCAAAATGT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
25 3 0.07
26 24 0.57
27 15 0.36
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (26 bp):
TAGAAATTAAAAATTTTAAAAAATAT
Found at i:6257780 original size:26 final size:26
Alignment explanation
Indices: 6257730--6257780 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
6257720 TTTTTAGAAA
*
6257730 TTAAAAAATTTAAAAAATATTAAAAC
1 TTAAAAAATTTAAAAAATATCAAAAC
* * *
6257756 TTAAAAATTTTTAAAAATCTCAAAA
1 TTAAAAAATTTAAAAAATATCAAAA
6257781 TGTTATTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (26 bp):
TTAAAAAATTTAAAAAATATCAAAAC
Found at i:6257797 original size:19 final size:18
Alignment explanation
Indices: 6257733--6257799 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
6257723 TTAGAAATTA
* **
6257733 AAAAATTTAAAAAATATT
1 AAAAATTCAAAATTTATT
* *
6257751 AAAACTTAAAAATTT-TT
1 AAAAATTCAAAATTTATT
6257768 AAAAATCTCAAAATGTTATT
1 AAAAAT-TCAAAAT-TTATT
6257788 AAAAATTCAAAA
1 AAAAATTCAAAA
6257800 AAATTTCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
17 7 0.17
18 17 0.43
19 8 0.20
20 8 0.20
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.33
Consensus pattern (18 bp):
AAAAATTCAAAATTTATT
Found at i:6257865 original size:15 final size:17
Alignment explanation
Indices: 6257828--6257867 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
6257818 TGAAAAAATA
6257828 AAAAATAATAATTTCAAT
1 AAAAATAATAATTTC-AT
6257846 AAAAATAATAATTTC-T
1 AAAAATAATAATTTCAT
6257862 AAAAAT
1 AAAAAT
6257868 TCAAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 7 0.32
18 15 0.68
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAATAATAATTTCAT
Found at i:6257937 original size:27 final size:25
Alignment explanation
Indices: 6257907--6257961 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
6257897 AATTTTTTTG
* *
6257907 AAAATATTGAAATTTAAAAATATAT
1 AAAAAATTTAAATTTAAAAATATAT
* * *
6257932 AAAAAATTTTAATTTGAAAATTTAT
1 AAAAAATTTAAATTTAAAAATATAT
6257957 AAAAA
1 AAAAA
6257962 GAATTCTTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (25 bp):
AAAAAATTTAAATTTAAAAATATAT
Found at i:6258194 original size:11 final size:10
Alignment explanation
Indices: 6258168--6258291 Score: 50
Period size: 10 Copynumber: 12.8 Consensus size: 10
6258158 ATTTCTATTA
*
6258168 TTTTCAATTT
1 TTTTAAATTT
*
6258178 TTTTAAGTTT
1 TTTTAAATTT
6258188 TTGTTAAATTT
1 TT-TTAAATTT
6258199 TTTT--ATTT
1 TTTTAAATTT
***
6258207 TAACAAATTTT
1 TTTTAAA-TTT
6258218 TTATTAAA--T
1 TT-TTAAATTT
6258227 TTTT--ATTT
1 TTTTAAATTT
*
6258235 TTTT-CA-TT
1 TTTTAAATTT
*
6258243 TTTTATATTT
1 TTTTAAATTT
*
6258253 TTATTAAA-AT
1 TT-TTAAATTT
* *
6258263 TTTGAGATTTT
1 TTTTA-AATTT
6258274 TTTTAAATTT
1 TTTTAAATTT
6258284 TTTTAAAT
1 TTTTAAAT
6258292 ATTTCAATTT
Statistics
Matches: 84, Mismatches: 17, Indels: 26
0.66 0.13 0.20
Matches are distributed among these distances:
6 1 0.01
8 18 0.21
9 7 0.08
10 33 0.39
11 22 0.26
12 3 0.04
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.67
Consensus pattern (10 bp):
TTTTAAATTT
Found at i:6258285 original size:20 final size:18
Alignment explanation
Indices: 6258212--6258285 Score: 62
Period size: 20 Copynumber: 4.0 Consensus size: 18
6258202 TATTTTAACA
6258212 AATTTTTTATTAAATTTTT
1 AATTTTTT-TTAAATTTTT
* *
6258231 -A-TTTTTTTCATTTTTT
1 AATTTTTTTTAAATTTTT
* *
6258247 ATATTTTTATTAAAATTTTG
1 A-ATTTTT-TTTAAATTTTT
6258267 AGATTTTTTTTAAATTTTT
1 A-ATTTTTTTTAAATTTTT
6258286 TTAAATATTT
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
16 8 0.19
17 5 0.12
18 2 0.05
19 13 0.31
20 14 0.33
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.69
Consensus pattern (18 bp):
AATTTTTTTTAAATTTTT
Found at i:6258301 original size:29 final size:31
Alignment explanation
Indices: 6258241--6258302 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
6258231 ATTTTTTTCA
* *
6258241 TTTTTTATATTTTTATTAAAATTTTGAGATT
1 TTTTTTAAATTTTTATTAAAATTTTCAGATT
6258272 TTTTTTAAATTTTT-TT-AAATATTTCA-ATT
1 TTTTTTAAATTTTTATTAAAAT-TTTCAGATT
6258301 TT
1 TT
6258303 ATGATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 9 0.32
30 6 0.21
31 13 0.46
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (31 bp):
TTTTTTAAATTTTTATTAAAATTTTCAGATT
Found at i:6259431 original size:2 final size:2
Alignment explanation
Indices: 6259426--6259456 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6259416 ATACACACAC
6259426 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6259457 GGTGCAACTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6261754 original size:13 final size:14
Alignment explanation
Indices: 6261736--6261764 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6261726 AATTCCCTTT
6261736 AAATTTAA-ACCCA
1 AAATTTAATACCCA
6261749 AAATTTAATACCCA
1 AAATTTAATACCCA
6261763 AA
1 AA
6261765 TCCTAAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATTTAATACCCA
Found at i:6262917 original size:23 final size:23
Alignment explanation
Indices: 6262867--6262917 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
6262857 TTTATGACTT
*
6262867 AATT-TTGAAAATTTGAAATTTA
1 AATTCTTGAAAATTTGAAATTCA
*
6262889 ATTTCTTGAAAATTTTG-AATTCA
1 AATTCTTGAAAA-TTTGAAATTCA
6262912 AATTCT
1 AATTCT
6262918 AAAACATGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 3 0.12
23 17 0.71
24 4 0.17
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (23 bp):
AATTCTTGAAAATTTGAAATTCA
Found at i:6263131 original size:18 final size:18
Alignment explanation
Indices: 6263110--6263147 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
6263100 AAAGTTTTTA
*
6263110 ATGAATTGATGATAAG-AT
1 ATGAATTAAT-ATAAGCAT
6263128 ATGAATTAATATAAGCAT
1 ATGAATTAATATAAGCAT
6263146 AT
1 AT
6263148 AATCCATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.47, C:0.03, G:0.16, T:0.34
Consensus pattern (18 bp):
ATGAATTAATATAAGCAT
Found at i:6265088 original size:20 final size:21
Alignment explanation
Indices: 6265044--6265089 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6265034 GCATGAAAAA
** *
6265044 TAAAATATACCAAATATATAT
1 TAAAATATAAAAAATATAAAT
6265065 TAAAATATAAAAAAT-TAAAT
1 TAAAATATAAAAAATATAAAT
6265085 TAAAA
1 TAAAA
6265090 AAGCATGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAAATATAAAAAATATAAAT
Found at i:6266305 original size:67 final size:70
Alignment explanation
Indices: 6266135--6266306 Score: 215
Period size: 73 Copynumber: 2.5 Consensus size: 70
6266125 CCGCATATAT
* * * * *
6266135 TTTGTTTTTGCCGCATCTTGGAAAGCTGTTGATGGAAGCTGGTTTTATAAACTTTTATTTTTTAT
1 TTTGTTTTTGCTGCATCTTGGAAAGCTATTGATGGAAGCTGGTTTCAGAAAC---TATTTTTGAT
6266200 TTTTTTGG
63 TTTTTTGG
*
6266208 TTTGTTTTTGCTGCATCTTGGAAAGCTATTGATGGAAGCTGGTTTCAGAAAC-CTTTTTGA-TTT
1 TTTGTTTTTGCTGCATCTTGGAAAGCTATTGATGGAAGCTGGTTTCAGAAACTATTTTTGATTTT
6266271 TTT-G
66 TTTGG
* * *
6266275 TTTGTTTTTGCTTCACCTTGGAAAGTTATTGA
1 TTTGTTTTTGCTGCATCTTGGAAAGCTATTGA
6266307 ACTCTTTATG
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
67 30 0.33
68 6 0.07
69 6 0.07
73 48 0.53
ACGTcount: A:0.19, C:0.11, G:0.21, T:0.49
Consensus pattern (70 bp):
TTTGTTTTTGCTGCATCTTGGAAAGCTATTGATGGAAGCTGGTTTCAGAAACTATTTTTGATTTT
TTTGG
Found at i:6268703 original size:22 final size:22
Alignment explanation
Indices: 6268666--6268717 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 22
6268656 CAATCAATAG
6268666 ATTAGAACACAAATCCAACATAAA
1 ATTA-AACACAAATCC-ACATAAA
*
6268690 ATTAAAC-CAAATCCACATAGA
1 ATTAAACACAAATCCACATAAA
*
6268711 ATAAAAC
1 ATTAAAC
6268718 TTGAACCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 12 0.46
22 7 0.27
23 3 0.12
24 4 0.15
ACGTcount: A:0.58, C:0.21, G:0.04, T:0.17
Consensus pattern (22 bp):
ATTAAACACAAATCCACATAAA
Found at i:6271616 original size:24 final size:24
Alignment explanation
Indices: 6271576--6271624 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
6271566 AAAACACATC
* *
6271576 ATATTATGATTATAAATA-AATTA
1 ATATTATAATTAAAAATATAATTA
6271599 ATATTAATAATTAAAAATATAATTA
1 ATATT-ATAATTAAAAATATAATTA
6271624 A
1 A
6271625 AAAAAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 11 0.50
25 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
ATATTATAATTAAAAATATAATTA
Found at i:6271789 original size:56 final size:56
Alignment explanation
Indices: 6271723--6271872 Score: 164
Period size: 56 Copynumber: 2.7 Consensus size: 56
6271713 AAAATATAAT
*
6271723 AAAAAATTAAAATATACAAGTTTATATTGAC-AGGCGA-TAATTATTGGTACAAGTAA
1 AAAAAATTAAAATATACAAGTTTATATTGACGA-GC-ATTAATTATCGGTACAAGTAA
* * * * * *
6271779 AAAAAATTAAAATATACAAATCTATACTGACGAGCATTAATTGTCGGTATAGGTAA
1 AAAAAATTAAAATATACAAGTTTATATTGACGAGCATTAATTATCGGTACAAGTAA
* * *
6271835 AAAAAATT-AAACATACATGTTTATATTGATG-GCATTAA
1 AAAAAATTAAAATATACAAGTTTATATTGACGAGCATTAA
6271873 CCATTGATAA
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
54 7 0.09
55 18 0.23
56 53 0.67
57 1 0.01
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.31
Consensus pattern (56 bp):
AAAAAATTAAAATATACAAGTTTATATTGACGAGCATTAATTATCGGTACAAGTAA
Found at i:6284470 original size:96 final size:97
Alignment explanation
Indices: 6284368--6284565 Score: 267
Period size: 96 Copynumber: 2.1 Consensus size: 97
6284358 ATTAAGAGAC
* *
6284368 TTTTTTTCTTGTTGTGAAATTTACCTCGATATGTTTAATTTTAG-CTATTGTAACCAGTTTAGA-
1 TTTTTTTCCTGTTGTGAAATTTACCTCAATATGTTTAATTTTAGTC-ATTGTAACCAGTTTAGAT
* *
6284431 TTAAGATTTACATCAAATGGATATGAAAA-TGAT
65 TTAA-AGTTACATCAAATAGATATGAAAATTGAT
* * ***
6284464 TTTTTTTCCTGTTGTGAGATTTACCTTAATATGTTTAATTTTAGTCATTGTAGTTAGTTTAGATT
1 TTTTTTTCCTGTTGTGAAATTTACCTCAATATGTTTAATTTTAGTCATTGTAACCAGTTTAGATT
*
6284529 TAAAGTTACATCAAATAGATATGAAAATTGCT
66 TAAAGTTACATCAAATAGATATGAAAATTGAT
6284561 TTTTT
1 TTTTT
6284566 AAATGGATGA
Statistics
Matches: 89, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
96 76 0.85
97 13 0.15
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.47
Consensus pattern (97 bp):
TTTTTTTCCTGTTGTGAAATTTACCTCAATATGTTTAATTTTAGTCATTGTAACCAGTTTAGATT
TAAAGTTACATCAAATAGATATGAAAATTGAT
Found at i:6298803 original size:29 final size:29
Alignment explanation
Indices: 6298739--6298805 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
6298729 TTGTATGTCC
* * *
6298739 AAAATTCAATAAAATTGTGAGTACAGTGA
1 AAAATTCAACAAAATTGTAAGTACAGTAA
* *
6298768 AAGATTCAACAAAATTG-AAGTGCAGTTAA
1 AAAATTCAACAAAATTGTAAGTACAG-TAA
6298797 AAAATTCAA
1 AAAATTCAA
6298806 TATTGACCCA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
28 6 0.19
29 25 0.81
ACGTcount: A:0.51, C:0.09, G:0.15, T:0.25
Consensus pattern (29 bp):
AAAATTCAACAAAATTGTAAGTACAGTAA
Found at i:6300667 original size:2 final size:2
Alignment explanation
Indices: 6300660--6300684 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6300650 ATGGTTGAGT
6300660 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 T
6300685 TAATTTTAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6300897 original size:64 final size:64
Alignment explanation
Indices: 6300823--6300943 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 64
6300813 ATTGTCTTAC
* *
6300823 TCATTTAAAAATATTACATCTAGATTATATAGGTTCT-AAAGA-CAATTTTTTAAAATTCATTTA
1 TCATTTAAAAAT-TAACATCTAGATCATATAGGTTCTGAAA-ATCAATTTTTTAAAATTCATTTA
6300886 T
64 T
* * *
6300887 TCATTTAAAAATTAATATTTAGATCATATAGGTTCTGAAAATGAATTTTTTAAAATT
1 TCATTTAAAAATTAACATCTAGATCATATAGGTTCTGAAAATCAATTTTTTAAAATT
6300944 ATCTTTTACA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
63 21 0.42
64 29 0.58
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (64 bp):
TCATTTAAAAATTAACATCTAGATCATATAGGTTCTGAAAATCAATTTTTTAAAATTCATTTAT
Found at i:6300959 original size:64 final size:63
Alignment explanation
Indices: 6300843--6300961 Score: 154
Period size: 64 Copynumber: 1.9 Consensus size: 63
6300833 ATATTACATC
* *
6300843 TAGATTATATAGGTTCTAAAGACAATTTTTTAAAATTCATTTATTCATTTAAAAATTAATATT
1 TAGATCATATAGGTTCTAAAGACAATTTTTTAAAATTCATTTATTCAATTAAAAATTAATATT
*
6300906 TAGATCATATAGGTTCTGAAA-ATGAATTTTTTAAAATT-ATCTT-TTACAATTAAAAA
1 TAGATCATATAGGTTCT-AAAGA-CAATTTTTTAAAATTCAT-TTATT-CAATTAAAAA
6300962 ACATTATTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
63 21 0.43
64 28 0.57
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.44
Consensus pattern (63 bp):
TAGATCATATAGGTTCTAAAGACAATTTTTTAAAATTCATTTATTCAATTAAAAATTAATATT
Found at i:6301398 original size:13 final size:13
Alignment explanation
Indices: 6301380--6301405 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6301370 ATAATTTAAA
6301380 AAATTTTAATAAT
1 AAATTTTAATAAT
6301393 AAATTTTAATAAT
1 AAATTTTAATAAT
6301406 TTTTTCATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTTTAATAAT
Found at i:6301786 original size:29 final size:30
Alignment explanation
Indices: 6301754--6301811 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
6301744 TAATTAATTT
*
6301754 ATAATTTAAATATTATATTAAAT-TTTTAA
1 ATAATTTAAATATTATACTAAATATTTTAA
6301783 ATAATTTAAATATTATACTAAATATTTTA
1 ATAATTTAAATATTATACTAAATATTTTA
6301812 TTATAATTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (30 bp):
ATAATTTAAATATTATACTAAATATTTTAA
Found at i:6302151 original size:21 final size:22
Alignment explanation
Indices: 6302125--6302167 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
6302115 CAAGTTTCAT
6302125 AACTCTTAT-T-TTTACTATTAA
1 AACTCTTATATCTTTA-TATTAA
6302146 AACTCTTATATCTTTATATTAA
1 AACTCTTATATCTTTATATTAA
6302168 TGATATCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 7 0.35
23 4 0.20
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (22 bp):
AACTCTTATATCTTTATATTAA
Found at i:6302310 original size:18 final size:16
Alignment explanation
Indices: 6302287--6302338 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
6302277 TTGAAACCAT
6302287 AATTAAAAATAATTATAA
1 AATTAAAAAT-A-TATAA
*
6302305 AATTAATAATATATAA
1 AATTAAAAATATATAA
6302321 AATTAATAAA-A-ATAA
1 AATTAA-AAATATATAA
6302336 AAT
1 AAT
6302339 GTTAATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 7 0.23
16 12 0.39
17 3 0.10
18 9 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATTAAAAATATATAA
Found at i:6302319 original size:16 final size:16
Alignment explanation
Indices: 6302294--6302338 Score: 67
Period size: 15 Copynumber: 2.9 Consensus size: 16
6302284 CATAATTAAA
6302294 AATAAT-TATAAAATT
1 AATAATATATAAAATT
6302309 AATAATATATAAAATT
1 AATAATATATAAAATT
*
6302325 AATAA-AAATAAAAT
1 AATAATATATAAAAT
6302339 GTTAATAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 14 0.50
16 14 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAATATATAAAATT
Found at i:6302519 original size:21 final size:21
Alignment explanation
Indices: 6302455--6302566 Score: 78
Period size: 21 Copynumber: 5.5 Consensus size: 21
6302445 TATTTTTTAT
6302455 TAATT-TTCATATA-TAATAAA
1 TAATTATT-ATATATTAATAAA
*
6302475 T-ATTTTTAT-TATGTAA-AAA
1 TAATTATTATATAT-TAATAAA
6302494 TTAATTATTATATATTAATAAA
1 -TAATTATTATATATTAATAAA
*
6302516 TAA-TATTTATATTTTAATAAA
1 TAATTA-TTATATATTAATAAA
* *
6302537 T-ATAATTATTTATTAA-AATA
1 TAATTATTATATATTAATAA-A
*
6302557 TAAATATTAT
1 TAATTATTAT
6302567 TTTAATTATT
Statistics
Matches: 74, Mismatches: 7, Indels: 21
0.73 0.07 0.21
Matches are distributed among these distances:
18 2 0.03
19 10 0.14
20 21 0.28
21 35 0.47
22 6 0.08
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (21 bp):
TAATTATTATATATTAATAAA
Found at i:6302596 original size:27 final size:26
Alignment explanation
Indices: 6302532--6302599 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
6302522 TTATATTTTA
*
6302532 ATAAATATAA--TTATTTATTAAAAT
1 ATAAATATAATTTTAATTATTAAAAT
*
6302556 ATAAATATTATTTTAATTATTAAAAT
1 ATAAATATAATTTTAATTATTAAAAT
6302582 ATAAAATATAATTTTAAT
1 AT-AAATATAATTTTAAT
6302600 AAAATATCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.24
26 15 0.39
27 14 0.37
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
ATAAATATAATTTTAATTATTAAAAT
Found at i:6302657 original size:15 final size:15
Alignment explanation
Indices: 6302637--6302732 Score: 61
Period size: 15 Copynumber: 6.3 Consensus size: 15
6302627 TAATAATTAG
6302637 AAATTTATATTTTTA
1 AAATTTATATTTTTA
**
6302652 AAATTTA-AAATTTA
1 AAATTTATATTTTTA
6302666 AAATTTATGATATTTTTA
1 AAA-TT-T-ATATTTTTA
* *
6302684 AACTTTATAATTTTA
1 AAATTTATATTTTTA
** * *
6302699 TGATTGA-ATTTTAA
1 AAATTTATATTTTTA
*
6302713 AATATTTATATTTTAA
1 AA-ATTTATATTTTTA
6302729 AAAT
1 AAAT
6302733 ATTTTTTATT
Statistics
Matches: 60, Mismatches: 15, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
14 13 0.22
15 26 0.43
16 11 0.18
17 3 0.05
18 7 0.12
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (15 bp):
AAATTTATATTTTTA
Found at i:6302690 original size:7 final size:7
Alignment explanation
Indices: 6302648--6302672 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6302638 AATTTATATT
6302648 TTTAAAA
1 TTTAAAA
6302655 TTTAAAA
1 TTTAAAA
6302662 TTTAAAA
1 TTTAAAA
6302669 TTTA
1 TTTA
6302673 TGATATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
TTTAAAA
Found at i:6308358 original size:37 final size:37
Alignment explanation
Indices: 6308317--6308392 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 37
6308307 GGATAGGTGT
6308317 TTGAATAATATCT-GTATCTATTTATGGTTCATTCCAC
1 TTGAATAATAT-TGGTATCTATTTATGGTTCATTCCAC
* *
6308354 TTGAATAATATTGGTATCTATTTATGTTTCATTGCAC
1 TTGAATAATATTGGTATCTATTTATGGTTCATTCCAC
6308391 TT
1 TT
6308393 TTCTTATTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 1 0.03
37 35 0.97
ACGTcount: A:0.26, C:0.13, G:0.12, T:0.49
Consensus pattern (37 bp):
TTGAATAATATTGGTATCTATTTATGGTTCATTCCAC
Found at i:6314152 original size:15 final size:15
Alignment explanation
Indices: 6314129--6314159 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6314119 ATATGCTAGG
6314129 AGGCATTTGCAATCT
1 AGGCATTTGCAATCT
*
6314144 AGGCTTTTGCAATCT
1 AGGCATTTGCAATCT
6314159 A
1 A
6314160 AGTAACCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (15 bp):
AGGCATTTGCAATCT
Found at i:6316073 original size:83 final size:83
Alignment explanation
Indices: 6315982--6316147 Score: 287
Period size: 83 Copynumber: 2.0 Consensus size: 83
6315972 AACATAGTCT
6315982 AATGGCAATGCAGAATATCAAGTAAACATGATATTAATAAATTCCCCATAGCAAATCACATATAA
1 AATGGCAATGCAGAATATCAAGTAAACATGATATTAATAAATTCCCCATAGCAAATCACATATAA
6316047 TTCCACCACATAACAAGC
66 TTCCACCACATAACAAGC
* * * *
6316065 AATGGCAATGCAGAATATCAAGTAAACATGCTATTAATAAATTCCCGATGGTAAATCACATATAA
1 AATGGCAATGCAGAATATCAAGTAAACATGATATTAATAAATTCCCCATAGCAAATCACATATAA
*
6316130 TTCCACCACATAATAAGC
66 TTCCACCACATAACAAGC
6316148 TTATAATAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 78 1.00
ACGTcount: A:0.45, C:0.20, G:0.11, T:0.24
Consensus pattern (83 bp):
AATGGCAATGCAGAATATCAAGTAAACATGATATTAATAAATTCCCCATAGCAAATCACATATAA
TTCCACCACATAACAAGC
Found at i:6318202 original size:30 final size:28
Alignment explanation
Indices: 6318168--6318224 Score: 69
Period size: 30 Copynumber: 2.0 Consensus size: 28
6318158 TAGATGATGC
6318168 TATTTAATAAATTTAACTTTTTAATATTAG
1 TATTTAATAAATTTAA-TTTTTAA-ATTAG
* * *
6318198 TATTTTATAATTTTTATTTTTAAATTA
1 TATTTAATAAATTTAATTTTTAAATTA
6318225 AAATATCCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.17
29 7 0.29
30 13 0.54
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (28 bp):
TATTTAATAAATTTAATTTTTAAATTAG
Found at i:6321754 original size:21 final size:18
Alignment explanation
Indices: 6321736--6321771 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6321726 AATGATTTAA
6321736 ATTTATAATAATAAAATTT
1 ATTTATAA-AATAAAATTT
*
6321755 TTTTATAAAATAAAATT
1 ATTTATAAAATAAAATT
6321772 ATGAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTATAAAATAAAATTT
Found at i:6331235 original size:35 final size:35
Alignment explanation
Indices: 6331196--6331262 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
6331186 ACATACATGC
*
6331196 CTGGTAGATATCTTACTAGATGAAGTTTACAATGG
1 CTGGTAGATATCTTACTAGATAAAGTTTACAATGG
6331231 CTGGTAGATATCTTACTAGATAAAGTTTACAA
1 CTGGTAGATATCTTACTAGATAAAGTTTACAA
6331263 AAAATGGCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (35 bp):
CTGGTAGATATCTTACTAGATAAAGTTTACAATGG
Found at i:6331845 original size:2 final size:2
Alignment explanation
Indices: 6331838--6331868 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6331828 ACCATTTAAA
6331838 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
6331869 TCATATCTAA
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6335056 original size:16 final size:17
Alignment explanation
Indices: 6335024--6335057 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
6335014 TATGCATTTC
6335024 AAATTTAATTGTAAAAT
1 AAATTTAATTGTAAAAT
6335041 AAATTTAATT-TAAAAT
1 AAATTTAATTGTAAAAT
6335057 A
1 A
6335058 TCTTATTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
AAATTTAATTGTAAAAT
Found at i:6337543 original size:12 final size:12
Alignment explanation
Indices: 6337516--6337550 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
6337506 TACTTGCCTC
*
6337516 AAATATAATCTTA
1 AAATAT-ATGTTA
6337529 AAATATATGTTA
1 AAATATATGTTA
6337541 AAATATATGT
1 AAATATATGT
6337551 ATATTCATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (12 bp):
AAATATATGTTA
Found at i:6338073 original size:34 final size:35
Alignment explanation
Indices: 6338012--6338086 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 35
6338002 TTTGATTTCA
* *
6338012 AATTGAAATAAATACAATAACAACATAT-AAATTT
1 AATTAAAAGAAATACAATAACAACATATGAAATTT
* * * *
6338046 AGTTAAAAGAAATATAATATCATCATATGAAATTT
1 AATTAAAAGAAATACAATAACAACATATGAAATTT
6338081 AATTAA
1 AATTAA
6338087 TTAAAATAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
34 22 0.67
35 11 0.33
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.32
Consensus pattern (35 bp):
AATTAAAAGAAATACAATAACAACATATGAAATTT
Found at i:6339637 original size:35 final size:35
Alignment explanation
Indices: 6339592--6339661 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
6339582 GGGAAAAAAT
*
6339592 TTGTCAAAAACAAATAATGATATGACCAAGCCAAA
1 TTGTCAAAAACAAATAATCATATGACCAAGCCAAA
* *
6339627 TTGTCCAAAACAAATAATCATATGACCAATCCAAA
1 TTGTCAAAAACAAATAATCATATGACCAAGCCAAA
6339662 ATATAGTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.50, C:0.20, G:0.09, T:0.21
Consensus pattern (35 bp):
TTGTCAAAAACAAATAATCATATGACCAAGCCAAA
Found at i:6341699 original size:3 final size:3
Alignment explanation
Indices: 6341691--6341722 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6341681 ACTTTGAATT
6341691 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6341723 TTGTTTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6343084 original size:6 final size:6
Alignment explanation
Indices: 6343073--6343136 Score: 60
Period size: 6 Copynumber: 10.7 Consensus size: 6
6343063 ATATTATTTT
* * *
6343073 TAAATA TAAATA TAAATA TAAA-A TTAA-A TAAATA TAAAAA TATATTAA
1 TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TA-AAT-A
*
6343121 TATATA TAAATA TAAA
1 TAAATA TAAATA TAAA
6343137 ATTAAATTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
5 8 0.17
6 34 0.72
7 2 0.04
8 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
TAAATA
Found at i:6343094 original size:18 final size:18
Alignment explanation
Indices: 6343073--6343136 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 18
6343063 ATATTATTTT
6343073 TAAATATAAATATAAATA
1 TAAATATAAATATAAATA
*
6343091 TAAA-ATTAA-ATAAATA
1 TAAATATAAATATAAATA
* * *
6343107 TAAAAATATATTAATATATA
1 TAAATATA-AAT-ATAAATA
6343127 TAAATATAAA
1 TAAATATAAA
6343137 ATTAAATTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
16 11 0.31
17 6 0.17
18 5 0.14
19 1 0.03
20 13 0.36
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAATATAAATATAAATA
Found at i:6343122 original size:16 final size:16
Alignment explanation
Indices: 6343082--6343142 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
6343072 TTAAATATAA
*
6343082 ATATAAATATAAAATT
1 ATATAAATATAAAAAT
*
6343098 AAATAAATATAAAAAT
1 ATATAAATATAAAAAT
*
6343114 ATATTAATATATATAAAT
1 ATA-TAA-ATATAAAAAT
6343132 ATA-AAAT-TAAA
1 ATATAAATATAAA
6343143 TTAATAATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
14 3 0.08
15 2 0.05
16 18 0.47
17 3 0.08
18 12 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATAAATATAAAAAT
Found at i:6343128 original size:42 final size:40
Alignment explanation
Indices: 6343077--6343167 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 40
6343067 TATTTTTAAA
*
6343077 TATAAATATAAATATAAAATTAAATAAAT-ATAAAAATATAT
1 TATATATATAAATATAAAATTAAATAAATAATAAAAA-AT-T
*
6343118 TAATATATATAAATATAAAATTAAATTAATAATAAAAAATT
1 T-ATATATATAAATATAAAATTAAATAAATAATAAAAAATT
6343159 TATATATAT
1 TATATATAT
6343168 TGAGTATGGT
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
40 8 0.17
41 3 0.07
42 28 0.61
43 7 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (40 bp):
TATATATATAAATATAAAATTAAATAAATAATAAAAAATT
Found at i:6343142 original size:12 final size:11
Alignment explanation
Indices: 6343072--6343143 Score: 53
Period size: 12 Copynumber: 6.5 Consensus size: 11
6343062 AATATTATTT
6343072 TTAAATATAAA
1 TTAAATATAAA
6343083 TATAAATATAAAA
1 T-TAAATAT-AAA
6343096 TT-AA-ATAAA
1 TTAAATATAAA
* *
6343105 TATAAAAATATA
1 T-TAAATATAAA
*
6343117 TT-AATATATA
1 TTAAATATAAA
6343127 -TAAATATAAAA
1 TTAAATAT-AAA
6343138 TTAAAT
1 TTAAAT
6343144 TAATAATAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
9 5 0.10
10 15 0.30
11 8 0.16
12 18 0.36
13 4 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TTAAATATAAA
Found at i:6344055 original size:47 final size:47
Alignment explanation
Indices: 6343983--6344076 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
6343973 ATTTGAGGTC
*
6343983 ATGTGATCATAATAACCATATTTAAAATACCAAAGTTTACCTATTGT
1 ATGTGATCATAATAACCATACTTAAAATACCAAAGTTTACCTATTGT
* *
6344030 ATGTGATTATAGTAACCATACTTAAAATACCAAAGTTTACCTATTGT
1 ATGTGATCATAATAACCATACTTAAAATACCAAAGTTTACCTATTGT
6344077 GACAAATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (47 bp):
ATGTGATCATAATAACCATACTTAAAATACCAAAGTTTACCTATTGT
Found at i:6347209 original size:30 final size:30
Alignment explanation
Indices: 6347175--6347233 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
6347165 TGATCTAAAA
*
6347175 AACAAAAAGAAATCATTGACTAAAGGCTTG
1 AACAAAAAGAAATCATTGACTAAAAGCTTG
*
6347205 AACAAAAGGAAATCATTGACTAAAAGCTT
1 AACAAAAAGAAATCATTGACTAAAAGCTT
6347234 AAATCGATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.20
Consensus pattern (30 bp):
AACAAAAAGAAATCATTGACTAAAAGCTTG
Found at i:6351162 original size:23 final size:23
Alignment explanation
Indices: 6351097--6351167 Score: 56
Period size: 23 Copynumber: 3.0 Consensus size: 23
6351087 TAAATGATGG
*
6351097 AAAAAATGATAATTTCATT-AATAAT
1 AAAAAAT-ATAA--TCATTAAAAAAT
* *
6351122 AATAAATAT-ATGATTTAAAAAAT
1 AAAAAATATAATCA-TTAAAAAAT
*
6351145 AAAAAATATAATCATTAACAAAT
1 AAAAAATATAATCATTAAAAAAT
6351168 CCTAAAATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
21 2 0.05
22 2 0.05
23 22 0.59
24 5 0.14
25 6 0.16
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (23 bp):
AAAAAATATAATCATTAAAAAAT
Found at i:6354371 original size:265 final size:267
Alignment explanation
Indices: 6353920--6354516 Score: 610
Period size: 266 Copynumber: 2.2 Consensus size: 267
6353910 ATAAGAGCAT
* * * * * * * * *
6353920 AAAGGCAAGAAAAATGCTAGAACTGTGAAAAAATGAGGGCCTTAGGCATGTTTTATCTAGGTAAG
1 AAAGGCAA-AAAAATGCTAGAAATGTGAAGAAATAAGGGTCTCAAGCATGCTTTATATAGGTAAA
* ** * * ** * *
6353985 GCTCAAATTGGATGAGTAGTCCAAATTGAGCCACGTCATAGTACATGAACTTAAGATGACCTGAA
65 GCTCAAATAGGATGAACAGTCCAAATTGAACCACGACATAGTACACAAACTGAAGATGACCTAAA
* * * ** * *
6354050 GTTAGATAAATCTGATCTAAAAGACATATTAAAATTTAATAAGCATATTAAGGTAAT-AAATAGA
130 GTTAGAAAAATCTAATCTAAAAGACATAATAAAAAATAAGAAACATATTAAGGTAATCAAA-AGA
*
6354114 GAGAAAAAAT-AT-GAGAC-AAAAAAAGC-TAAAAAAGCTTGAAAGAT-TG-ATAAAAAATAAGT
194 GA-AAAAAATGATCGA-ACAAAAAAAAGCTTAAAAAA-CTTGAAAGATCAGTA-AAAAAAT-AGT
*
6354173 TGACATGA-AG-CGA
254 TG-CATGAGAGTAGA
6354186 AAAGGCAAATAAAATGCTAGAAATGTGAAGAAATAAGGGTCTCAAGCATGCTTTATATAGGTAAA
1 AAAGGCAAA-AAAATGCTAGAAATGTGAAGAAATAAGGGTCTCAAGCATGCTTTATATAGGTAAA
* * *
6354251 GCTCAAATAGGATGAACGGTTCAAATTGAACCAC-ACATAGTACACAAA-TCGAGGATGACCTAA
65 GCTCAAATAGGATGAACAGTCCAAATTGAACCACGACATAGTACACAAACT-GAAGATGACCTAA
* * *
6354314 AGTTAGAAAAA-CTTAAAT-TAAAAGACATAATAAAAAATAGGAAACTTATTGAGGTAATCAAAA
129 AGTTAGAAAAATC-T-AATCTAAAAGACATAATAAAAAATAAGAAACATATTAAGGTAATCAAAA
* * *
6354377 GAGAAAAAAATGGTCGAACAAAAAAAAGCTTAAAAAACTTGCAAGATCAGTAAAAAAATATTTGC
192 GAGAAAAAAATGATCGAACAAAAAAAAGCTTAAAAAACTTGAAAGATCAGTAAAAAAATAGTTGC
6354442 ATGAGAGTAGA
257 ATGAGAGTAGA
* * * *
6354453 AAA-GCAAAAAAAAATGCTAGAAGTGTGAAGAAATAAGGGTTTCAAGCATGCTTTTTATACGTAA
1 AAAGGC--AAAAAAATGCTAGAAATGTGAAGAAATAAGGGTCTCAAGCATGCTTTATATAGGTAA
6354517 GACTCAGATT
Statistics
Matches: 276, Mismatches: 40, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
264 9 0.03
265 78 0.28
266 115 0.42
267 70 0.25
268 4 0.01
ACGTcount: A:0.48, C:0.11, G:0.19, T:0.23
Consensus pattern (267 bp):
AAAGGCAAAAAAATGCTAGAAATGTGAAGAAATAAGGGTCTCAAGCATGCTTTATATAGGTAAAG
CTCAAATAGGATGAACAGTCCAAATTGAACCACGACATAGTACACAAACTGAAGATGACCTAAAG
TTAGAAAAATCTAATCTAAAAGACATAATAAAAAATAAGAAACATATTAAGGTAATCAAAAGAGA
AAAAAATGATCGAACAAAAAAAAGCTTAAAAAACTTGAAAGATCAGTAAAAAAATAGTTGCATGA
GAGTAGA
Found at i:6356381 original size:27 final size:28
Alignment explanation
Indices: 6356320--6356383 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
6356310 ATCTTTTTAT
*
6356320 TTAATTAATTTTAAAGTATAATTTAAAA
1 TTAATTAATTTTAAAGTAAAATTTAAAA
6356348 TTAAATT-ATTTTAAA-TAAAATTT--AA
1 TT-AATTAATTTTAAAGTAAAATTTAAAA
6356373 TTAA-TAATTTT
1 TTAATTAATTTT
6356384 TATTTTTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
23 1 0.03
24 7 0.21
25 4 0.12
27 7 0.21
28 10 0.30
29 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (28 bp):
TTAATTAATTTTAAAGTAAAATTTAAAA
Found at i:6357153 original size:16 final size:16
Alignment explanation
Indices: 6357134--6357172 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
6357124 AAAACTCCCC
6357134 AAACTACAAATAAATA
1 AAACTACAAATAAATA
*
6357150 AAACTATAAATAAATA
1 AAACTACAAATAAATA
6357166 AAA-TACA
1 AAACTACA
6357173 TAGTCCAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 3 0.14
16 18 0.86
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (16 bp):
AAACTACAAATAAATA
Found at i:6361290 original size:248 final size:250
Alignment explanation
Indices: 6360849--6361352 Score: 913
Period size: 248 Copynumber: 2.0 Consensus size: 250
6360839 ATTTTTGCTA
6360849 AAAATTTATTCTTTTTAAGTTTTCACTCACTTGAATAACCCTGCTTTACAGTGTTCTATTAACTT
1 AAAATTTATTCTTTTTAAGTTTTCACTCACTTGAATAACCCTGCTTTACAGTGTTCTATTAACTT
*
6360914 ATGCAAAAGTTAATTCATGCAATATAAGGAAATAAGAATAATGATAGAGACTGGTATCCTAATGA
66 ATGCAAAAGTTAATTCATGCAATATAAAGAAATAAGAATAATGATAGAGACTGGTATCCTAATGA
*
6360979 ACATATAGTGCTAACCTGAGGTTTAACTTCTATAAAAGTGTTGGCCATTCTTAATTGAAACTAGC
131 ACATATAGTGCTAACCTGAGGTTTAACTTCTACAAAAGTGTTGGCCATTCTTAATTGAAACTAGC
6361044 TCATTAGCAAAAACACTTTCGAGGTGATCTAAAAGCTCTTTAGCCCAGCAAAATC
196 TCATTAGCAAAAACACTTTCGAGGTGATCTAAAAGCTCTTTAGCCCAGCAAAATC
* * *
6361099 CAAATTTATTCTTTTTAAGTTTTCACTCATTTGAATAA-TCTGCTTTACAGTGTTCTATTAACTT
1 AAAATTTATTCTTTTTAAGTTTTCACTCACTTGAATAACCCTGCTTTACAGTGTTCTATTAACTT
* *
6361163 ATGCAAACGTTAATTCATGTAATATAAAGAAATAA-AATAATGATAGAGACTGGTATCCTAATGA
66 ATGCAAAAGTTAATTCATGCAATATAAAGAAATAAGAATAATGATAGAGACTGGTATCCTAATGA
*
6361227 ACATGTAGTGCTAACCTGAGGTTTAACTTCTACAAAAGTGTTGGCCATTCTTAATTGAAACTAGC
131 ACATATAGTGCTAACCTGAGGTTTAACTTCTACAAAAGTGTTGGCCATTCTTAATTGAAACTAGC
*
6361292 TCATTAGCAAGAACACTTTCGAGGTGATCTAAAAGCTCTTTAGCCCAGCAAAATC
196 TCATTAGCAAAAACACTTTCGAGGTGATCTAAAAGCTCTTTAGCCCAGCAAAATC
6361347 AAAATT
1 AAAATT
6361353 CAAGTTTAGC
Statistics
Matches: 244, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
248 151 0.62
249 57 0.23
250 36 0.15
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (250 bp):
AAAATTTATTCTTTTTAAGTTTTCACTCACTTGAATAACCCTGCTTTACAGTGTTCTATTAACTT
ATGCAAAAGTTAATTCATGCAATATAAAGAAATAAGAATAATGATAGAGACTGGTATCCTAATGA
ACATATAGTGCTAACCTGAGGTTTAACTTCTACAAAAGTGTTGGCCATTCTTAATTGAAACTAGC
TCATTAGCAAAAACACTTTCGAGGTGATCTAAAAGCTCTTTAGCCCAGCAAAATC
Found at i:6364184 original size:24 final size:23
Alignment explanation
Indices: 6364147--6364191 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
6364137 CTTTTTAATG
*
6364147 TAATTAAATTATTTTTTAATAAAA
1 TAATTAAATCA-TTTTTAATAAAA
*
6364171 TAATTTAATCATTTTTAATAA
1 TAATTAAATCATTTTTAATAA
6364192 TTTAAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TAATTAAATCATTTTTAATAAAA
Found at i:6379062 original size:8 final size:8
Alignment explanation
Indices: 6379049--6379079 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
6379039 CCATGTACCA
6379049 AAAAAAAT
1 AAAAAAAT
6379057 AAAAAAAT
1 AAAAAAAT
6379065 AAAAAAAAT
1 -AAAAAAAT
6379074 AAAAAA
1 AAAAAA
6379080 CTACCCTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:6379062 original size:9 final size:9
Alignment explanation
Indices: 6379048--6379079 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
6379038 TCCATGTACC
6379048 AAAAAAAAT
1 AAAAAAAAT
6379057 -AAAAAAAT
1 AAAAAAAAT
6379065 AAAAAAAAT
1 AAAAAAAAT
6379074 AAAAAA
1 AAAAAA
6379080 CTACCCTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:6382425 original size:23 final size:24
Alignment explanation
Indices: 6382399--6382452 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
6382389 TTTTGTTTGA
**
6382399 TTTATTTATTATTTTTTTAA-TTT
1 TTTATTTATTATAATTTTAACTTT
*
6382422 TTTATGTATTATAATTTTAACTTT
1 TTTATTTATTATAATTTTAACTTT
6382446 TATTATT
1 T-TTATT
6382453 ATACGTAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 17 0.68
24 4 0.16
25 4 0.16
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTATTTATTATAATTTTAACTTT
Found at i:6385769 original size:33 final size:33
Alignment explanation
Indices: 6385727--6385793 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
6385717 GTTTTCACAT
6385727 TACTTAACATTTCAACCTTATATAACTATTGAA
1 TACTTAACATTTCAACCTTATATAACTATTGAA
**
6385760 TACTTAACATTTCAACCTTATATCTCTATTGAA
1 TACTTAACATTTCAACCTTATATAACTATTGAA
6385793 T
1 T
6385794 TATATATGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.42
Consensus pattern (33 bp):
TACTTAACATTTCAACCTTATATAACTATTGAA
Found at i:6386734 original size:2 final size:2
Alignment explanation
Indices: 6386723--6386752 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6386713 CCTTGTATGT
6386723 TA TA -A 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
6386753 GTGTGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6386757 original size:2 final size:2
Alignment explanation
Indices: 6386752--6386794 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
6386742 TATATATATA
* * * *
6386752 TG TG TG TG TG TG TG TG TG TG TG TA TA TG TA TG TT TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
6386794 T
1 T
6386795 ATGTCTATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.07, C:0.00, G:0.40, T:0.53
Consensus pattern (2 bp):
TG
Found at i:6388704 original size:13 final size:13
Alignment explanation
Indices: 6388686--6388716 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
6388676 TCAATGTAAG
6388686 ATGTTAAATCAAA
1 ATGTTAAATCAAA
6388699 ATGTTAAATCAAA
1 ATGTTAAATCAAA
6388712 ATGTT
1 ATGTT
6388717 TTGAAGATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (13 bp):
ATGTTAAATCAAA
Found at i:6392441 original size:16 final size:16
Alignment explanation
Indices: 6392404--6392455 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
6392394 TAGAGGGTTT
6392404 TAAAATTTTTAA-AAAA
1 TAAAA-TTTTAAGAAAA
*
6392420 -ATAATTTTAAGAAAA
1 TAAAATTTTAAGAAAA
*
6392435 TAAAATTTGAAGAAAA
1 TAAAATTTTAAGAAAA
*
6392451 CAAAA
1 TAAAA
6392456 ATAAAACCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 6 0.20
15 7 0.23
16 17 0.57
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (16 bp):
TAAAATTTTAAGAAAA
Found at i:6401843 original size:14 final size:14
Alignment explanation
Indices: 6401824--6401858 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
6401814 AAACTTAAGT
6401824 GAAGATGAAATATA
1 GAAGATGAAATATA
6401838 GAAGATGAAATATA
1 GAAGATGAAATATA
6401852 GAAGATG
1 GAAGATG
6401859 GAAGTAGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.26, T:0.20
Consensus pattern (14 bp):
GAAGATGAAATATA
Found at i:6401953 original size:7 final size:7
Alignment explanation
Indices: 6401941--6401967 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
6401931 AGCTGAAGTG
6401941 TGGAAGA
1 TGGAAGA
6401948 TGGAAGA
1 TGGAAGA
6401955 TGGAAGA
1 TGGAAGA
6401962 TGGAAG
1 TGGAAG
6401968 TAACCGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.44, T:0.15
Consensus pattern (7 bp):
TGGAAGA
Found at i:6403140 original size:8 final size:7
Alignment explanation
Indices: 6403127--6403187 Score: 50
Period size: 8 Copynumber: 8.1 Consensus size: 7
6403117 TATTTTGAAT
6403127 ATTTTAAA
1 ATTTT-AA
6403135 ATTTTATA
1 ATTTTA-A
*
6403143 TTTTTAA
1 ATTTTAA
*
6403150 ATATTAA
1 ATTTTAA
*
6403157 ATTTGTTA
1 ATTT-TAA
6403165 ATTTTAA
1 ATTTTAA
6403172 TATTTTAA
1 -ATTTTAA
*
6403180 TTTTTAA
1 ATTTTAA
6403187 A
1 A
6403188 AAATAAAATA
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
7 18 0.43
8 24 0.57
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (7 bp):
ATTTTAA
Found at i:6403184 original size:15 final size:16
Alignment explanation
Indices: 6403118--6403186 Score: 65
Period size: 15 Copynumber: 4.4 Consensus size: 16
6403108 GAAAACCAAT
*
6403118 ATTTTGAATATTTTAAA
1 ATTTT-AATATTTTTAA
6403135 ATTTT-ATATTTTTAA
1 ATTTTAATATTTTTAA
*
6403150 ATATTAA-ATTTGTT-A
1 ATTTTAATATTT-TTAA
6403165 ATTTTAATA-TTTTAA
1 ATTTTAATATTTTTAA
*
6403180 TTTTTAA
1 ATTTTAA
6403187 AAAATAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
14 2 0.05
15 33 0.75
16 4 0.09
17 5 0.11
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
ATTTTAATATTTTTAA
Found at i:6403305 original size:16 final size:18
Alignment explanation
Indices: 6403245--6403311 Score: 84
Period size: 18 Copynumber: 3.8 Consensus size: 18
6403235 TTAAAAAAAA
* **
6403245 AATATTTTGATTTTTTAG
1 AATATTTTAATTTTTTTT
*
6403263 AAAATTTTAATTTTTTTT
1 AATATTTTAATTTTTTTT
6403281 AATATTTTAATTTTTTTT
1 AATATTTTAATTTTTTTT
6403299 AA-A-TTTAATTTTT
1 AATATTTTAATTTTT
6403312 AAAGTTTTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
16 10 0.23
17 1 0.02
18 33 0.75
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
AATATTTTAATTTTTTTT
Found at i:6403681 original size:18 final size:17
Alignment explanation
Indices: 6403653--6403702 Score: 68
Period size: 18 Copynumber: 3.0 Consensus size: 17
6403643 TTAAATATTG
6403653 AAAAAAA-ATAAAAAAT
1 AAAAAAATATAAAAAAT
*
6403669 AAAAAATATATAAAAATT
1 AAAAAA-ATATAAAAAAT
6403687 AAAAAAAT-TAAAAAAT
1 AAAAAAATATAAAAAAT
6403703 TTTATTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 13 0.43
17 3 0.10
18 14 0.47
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAAAAATATAAAAAAT
Found at i:6403683 original size:27 final size:27
Alignment explanation
Indices: 6403645--6403702 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
6403635 TTTTTCATTT
6403645 AAATATTGAAAAA-AAATAAAAAATAAA
1 AAATATTGAAAAATAAA-AAAAAATAAA
* *
6403672 AAATATAT-AAAAATTAAAAAAATTAAA
1 AAATAT-TGAAAAATAAAAAAAAATAAA
6403699 AAAT
1 AAAT
6403703 TTTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 24 0.89
28 3 0.11
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (27 bp):
AAATATTGAAAAATAAAAAAAAATAAA
Found at i:6403703 original size:8 final size:8
Alignment explanation
Indices: 6403654--6403703 Score: 57
Period size: 8 Copynumber: 6.0 Consensus size: 8
6403644 TAAATATTGA
*
6403654 AAAAAAAT
1 AAAAAATT
6403662 AAAAAA-T
1 AAAAAATT
6403669 AAAAAATAT
1 AAAAAAT-T
6403678 ATAAAAATT
1 A-AAAAATT
6403687 AAAAAAATT
1 -AAAAAATT
6403696 AAAAAATT
1 AAAAAATT
6403704 TTATTAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
7 7 0.18
8 14 0.37
9 10 0.26
10 7 0.18
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
AAAAAATT
Found at i:6403703 original size:17 final size:17
Alignment explanation
Indices: 6403653--6403703 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
6403643 TTAAATATTG
*
6403653 AAAAAAAATAAAAAA-T
1 AAAAAAATTAAAAAATT
6403669 -AAAAAATATATAAAAATT
1 AAAAAAAT-TA-AAAAATT
6403687 AAAAAAATTAAAAAATT
1 AAAAAAATTAAAAAATT
6403704 TTATTAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 6 0.20
16 2 0.07
17 12 0.40
18 3 0.10
19 7 0.23
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAAAAATTAAAAAATT
Found at i:6404001 original size:25 final size:26
Alignment explanation
Indices: 6403957--6404023 Score: 91
Period size: 25 Copynumber: 2.6 Consensus size: 26
6403947 AAAAAAATTC
*
6403957 TAAAAAATTCCAAATGTTAATTTTTTT
1 TAAAAAATT-AAAATGTTAATTTTTTT
6403984 TAAAAAATTAAAAT-TTAATTTTTTT
1 TAAAAAATTAAAATGTTAATTTTTTT
* *
6404009 TAAAACATAAAAATG
1 TAAAAAATTAAAATG
6404024 ATTTTTATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 23 0.64
26 4 0.11
27 9 0.25
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.43
Consensus pattern (26 bp):
TAAAAAATTAAAATGTTAATTTTTTT
Found at i:6404235 original size:20 final size:20
Alignment explanation
Indices: 6404174--6404236 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
6404164 CCATTCAAGT
6404174 TGCCATGTTAGCAAAGTGAA
1 TGCCATGTTAGCAAAGTGAA
* * *
6404194 TACCTTGTTAGCAAGGTGAA
1 TGCCATGTTAGCAAAGTGAA
* *
6404214 TGCCATGTCAGCAAAGTCAA
1 TGCCATGTTAGCAAAGTGAA
6404234 TGC
1 TGC
6404237 TCACTTCATC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (20 bp):
TGCCATGTTAGCAAAGTGAA
Found at i:6404265 original size:20 final size:20
Alignment explanation
Indices: 6404242--6404279 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6404232 AATGCTCACT
6404242 TCATCAAATCAACAATCATA
1 TCATCAAATCAACAATCATA
* *
6404262 TCATTAAATCAACTATCA
1 TCATCAAATCAACAATCA
6404280 CTTTAGCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (20 bp):
TCATCAAATCAACAATCATA
Found at i:6409466 original size:21 final size:21
Alignment explanation
Indices: 6409442--6409485 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
6409432 CTTCATCATT
6409442 TTGAATAACAAG-ATCACCAAC
1 TTGAATAAC-AGTATCACCAAC
* *
6409463 TTGAGTATCAGTATCACCAAC
1 TTGAATAACAGTATCACCAAC
6409484 TT
1 TT
6409486 ACGAAATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (21 bp):
TTGAATAACAGTATCACCAAC
Found at i:6413078 original size:314 final size:309
Alignment explanation
Indices: 6412128--6413084 Score: 1124
Period size: 314 Copynumber: 3.0 Consensus size: 309
6412118 AGAAAAAATG
* * * *
6412128 CCTTAAATAAATTTCTTTTAAAAATTGTTTGGGATTATTAAAGGCATCTTTTAGTAGAAAATGCC
1 CCTTCAAT-AATTTCTTTTAAAAATTGTTTGAGATTATTAAAGGCGTCTTTTAGTAGAAAATACC
* * * * *
6412193 TTCAGTAATCTAC-TAGTAAAATTTTCAGGGGATTATTGAAGGTGTTTTTGCAAAAAAAATG-TC
65 TTCAATAATCT-CTTAGTAAAATTTTAAGGGGATTATTGAAGG-CTTTTT-CCAGAAAAATGCT-
* * * * *
6412256 TTCACTAA-TTTCTTCTACTTTTTTAAAGAAATTTATTGAAGGTATTTTTTTGTATAATACGCCA
126 TTCACTAATTTTC-TCTAATTTTTTGAAGGAATTTATTGAAGG--TGTTTCTGTATAATACG-CA
* *
6412320 TCAATAATTTCCTCTATTTTTTATTAGGAGAATATCAGTGAAGGTGATTTTCTACTAAAAAAGCT
187 TCAATAATTTCCTCTA-TTTTTATTAGGAGAATATCAGTGAAGGCGATTTTCTACTAAAAATGCT
* * * *
6412385 TTCAATAATTCAATCTAATTTTTAAGAAGAATTTATTGAAGTCATTTTTTACATCATACA
251 TTCAATAATTCACTCTAATTTTTAAGAGGAATTTATTGAAGGCATTTTTT-GATCATACA
* * *
6412445 CCTTCAATAATTTCTTTTAAAAATTGTTTGAGATTTTTAAAGACGTCTTTTAGTAGAAAACACCT
1 CCTTCAATAATTTCTTTTAAAAATTGTTTGAGATTATTAAAGGCGTCTTTTAGTAGAAAATACCT
* * *
6412510 TCAATAATCTGTTAGTAAAATTTTAAGAGGATTATTGAATGTGCTTTTGT-CAGAAAAATGCCTT
66 TCAATAATCTCTTAGTAAAATTTTAAGGGGATTATTGAA-G-GCTTTT-TCCAGAAAAATGCTTT
* *
6412574 CA-TAATTTCCTCTAATTTTTTGAAAGAATTTATTGAAGGTGTTTTCTGTATAATACGTGC-TCA
128 CACTAATTTTCTCTAATTTTTTGAAGGAATTTATTGAAGGTG-TTTCTGTATAATAC--GCATCA
* * * * *
6412637 ATAA-TTCTCTCTATTTTTGTCAGGAGAATATTAGTGAAGGCGATTTTCTACTAAATATGCCTTC
190 ATAATTTC-CTCTATTTTTATTAGGAGAATATCAGTGAAGGCGATTTTCTACTAAAAATGCTTTC
* * ** * *
6412701 AATAATTCACTCTAATTTTTAAGAGAAATTTATTGAAGG-GTTTTTTGAGGAAAAACG
254 AATAATTCACTCTAATTTTTAAGAGGAATTTATTGAAGGCATTTTTTGA--TCATACA
* * * * * *
6412758 CCTTCAATAATTTCTTTTTACAAATTTTTTAAGATTATTAAAGGTGTCTTTTAGTAAAAAATATC
1 CCTTCAATAATTTC-TTTTAAAAATTGTTTGAGATTATTAAAGGCGTCTTTTAGTAGAAAATACC
6412823 TTCAATAATCTCTTAGTAAAATTTTAAGGGGATTATTGAAGGCATTTTTACCAGAAAAATGCTTT
65 TTCAATAATCTCTTAGTAAAATTTTAAGGGGATTATTGAAGGC-TTTTT-CCAGAAAAATGCTTT
* **
6412888 CACTAATTTTCTCTAATATTTTGAAGGAATTTATTGAAGGTGTTTCTACATAATACGCATTCAAT
128 CACTAATTTTCTCTAATTTTTTGAAGGAATTTATTGAAGGTGTTTCTGTATAATACGCA-TCAAT
* * *
6412953 AATTTCCTGC-ATTTTTATTA-AAGGAATATCAGTAAAGGCGATTTTTTACTAAAAATGCTTTCA
192 AATTTCCT-CTATTTTTATTAGGA-GAATATCAGTGAAGGCGATTTTCTACTAAAAATGCTTTCA
**
6413016 ATAATTCACTCTAATTTTTAAGAGGAATTTATAAAAGGCATTTTTTGTATCATACA
255 ATAATTCACTCTAATTTTTAAGAGGAATTTATTGAAGGCATTTTTTG-ATCATACA
6413072 CCTTCAATAATTT
1 CCTTCAATAATTT
6413085 TTGTACAGAA
Statistics
Matches: 544, Mismatches: 72, Indels: 51
0.82 0.11 0.08
Matches are distributed among these distances:
311 1 0.00
312 11 0.02
313 106 0.19
314 234 0.43
315 76 0.14
316 102 0.19
317 12 0.02
318 2 0.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (309 bp):
CCTTCAATAATTTCTTTTAAAAATTGTTTGAGATTATTAAAGGCGTCTTTTAGTAGAAAATACCT
TCAATAATCTCTTAGTAAAATTTTAAGGGGATTATTGAAGGCTTTTTCCAGAAAAATGCTTTCAC
TAATTTTCTCTAATTTTTTGAAGGAATTTATTGAAGGTGTTTCTGTATAATACGCATCAATAATT
TCCTCTATTTTTATTAGGAGAATATCAGTGAAGGCGATTTTCTACTAAAAATGCTTTCAATAATT
CACTCTAATTTTTAAGAGGAATTTATTGAAGGCATTTTTTGATCATACA
Found at i:6413668 original size:28 final size:29
Alignment explanation
Indices: 6413635--6413701 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 29
6413625 AATATTGTGG
* *
6413635 TTTGCTTAATGGTATTGTATGATATT-AT
1 TTTGCTGAATGATATTGTATGATATTGAT
6413663 TTTGCTGAATGATATTGTATGATATTGA-
1 TTTGCTGAATGATATTGTATGATATTGAT
*
6413691 TTTGTTGAATG
1 TTTGCTGAATG
6413702 GTGTTTTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
28 34 0.97
29 1 0.03
ACGTcount: A:0.25, C:0.03, G:0.21, T:0.51
Consensus pattern (29 bp):
TTTGCTGAATGATATTGTATGATATTGAT
Found at i:6413740 original size:25 final size:25
Alignment explanation
Indices: 6413688--6413740 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
6413678 TGTATGATAT
* *
6413688 TGATTTGTTGAATGGTGTTTTTGAA
1 TGATTTGTTGAATGGCGTTTCTGAA
*
6413713 TGATTTGTTGAATGGCGTTTCTGTA
1 TGATTTGTTGAATGGCGTTTCTGAA
6413738 TGA
1 TGA
6413741 GTATGATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.19, C:0.04, G:0.28, T:0.49
Consensus pattern (25 bp):
TGATTTGTTGAATGGCGTTTCTGAA
Found at i:6415384 original size:21 final size:21
Alignment explanation
Indices: 6415355--6415399 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
6415345 ATAAGTTTAA
*
6415355 TATTAATTT-GTTTATTATATT
1 TATTAATTTAGTTT-TAATATT
*
6415376 TATTGATTTAGTTTTAATATT
1 TATTAATTTAGTTTTAATATT
6415397 TAT
1 TAT
6415400 ATTTCATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (21 bp):
TATTAATTTAGTTTTAATATT
Found at i:6417192 original size:124 final size:125
Alignment explanation
Indices: 6417042--6417308 Score: 351
Period size: 124 Copynumber: 2.1 Consensus size: 125
6417032 TAACAAAATG
* * *
6417042 TTATTGAAAGCATTTTTTTACTAAACTGCCTTCAATAATCCCTAATAAAAATTTATTG-TGTGGA
1 TTATTGAAGGCA-TTTTTGACTAAACTGCATTCAATAATCCCTAATAAAAATTTATTGAT-TGGA
** *
6417106 TTATTAAAGGCA-TTTAGGCCAAAAATGCCTTCAAGAATC-CATTCTAACTTTCTGTATGGA
64 TTATTAAAGGCATTTTAGGCCAAAAACACCTTCAAGAATCTCATTCAAACTTTCTGTATGGA
* *
6417166 TTATTGAAGGTATTTTTGACTAAAACTGCATTCAATAATCCCTCATAAAAATTTATTGATTGGAT
1 TTATTGAAGGCATTTTTGACT-AAACTGCATTCAATAATCCCTAATAAAAATTTATTGATTGGAT
* * ** * * *
6417231 TATTGAAGGCATTTTTGGCCAAAAACACCTTCAAGAATCTGTTTCAAATTTTTTTTATGGA
65 TATTAAAGGCATTTTAGGCCAAAAACACCTTCAAGAATCTCATTCAAACTTTCTGTATGGA
6417292 TTATTGAAGGCATTTTT
1 TTATTGAAGGCATTTTT
6417309 TTACTGAAAA
Statistics
Matches: 123, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
123 8 0.07
124 59 0.48
125 25 0.20
126 31 0.25
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.39
Consensus pattern (125 bp):
TTATTGAAGGCATTTTTGACTAAACTGCATTCAATAATCCCTAATAAAAATTTATTGATTGGATT
ATTAAAGGCATTTTAGGCCAAAAACACCTTCAAGAATCTCATTCAAACTTTCTGTATGGA
Found at i:6417236 original size:64 final size:64
Alignment explanation
Indices: 6417042--6417308 Score: 203
Period size: 64 Copynumber: 4.3 Consensus size: 64
6417032 TAACAAAATG
* * * *
6417042 TTATTGAAAGCATTTTTTTACT-AAACTGCCTTCAATAATCCCTAATAAAAATTTATTGTGTGGA
1 TTATTGAAGGCA-TTTTTGACTAAAACTGCCTTCAATAATCCCTCATAAAAATTTATTGTATGGA
* * * * * * * * *
6417106 TTATTAAAGGCA-TTTAGGCCAAAAATGCCTTCAAGAATCCATTC-T--AACTTT-CTGTATGGA
1 TTATTGAAGGCATTTTTGACTAAAACTGCCTTCAATAATCC-CTCATAAAAATTTATTGTATGGA
* *
6417166 TTATTGAAGGTATTTTTGACTAAAACTGCATTCAATAATCCCTCATAAAAATTTATTG-ATTGGA
1 TTATTGAAGGCATTTTTGACTAAAACTGCCTTCAATAATCCCTCATAAAAATTTATTGTA-TGGA
* * * * ** ** * *
6417230 TTATTGAAGGCATTTTTGGCCAAAAAC-ACCTTCAAGAAT--CTGTTTCAAATTTTTTTTATGGA
1 TTATTGAAGGCATTTTT-GACTAAAACTGCCTTCAATAATCCCTCATAAAAATTTATTGTATGGA
6417292 TTATTGAAGGCATTTTT
1 TTATTGAAGGCATTTTT
6417309 TTACTGAAAA
Statistics
Matches: 157, Mismatches: 36, Indels: 22
0.73 0.17 0.10
Matches are distributed among these distances:
60 19 0.12
61 28 0.18
62 36 0.23
63 25 0.16
64 42 0.27
65 7 0.04
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.39
Consensus pattern (64 bp):
TTATTGAAGGCATTTTTGACTAAAACTGCCTTCAATAATCCCTCATAAAAATTTATTGTATGGA
Found at i:6420450 original size:2 final size:2
Alignment explanation
Indices: 6420439--6420470 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
6420429 GTTTGTATGT
6420439 TA TA -A TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6420471 AATAACATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6426788 original size:24 final size:24
Alignment explanation
Indices: 6426756--6426804 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
6426746 TAGACCAAAT
6426756 CCATTTAAAAGCCTAATATATGGC
1 CCATTTAAAAGCCTAATATATGGC
*
6426780 CCATTTAAAAGCCTAATATTTGGC
1 CCATTTAAAAGCCTAATATATGGC
6426804 C
1 C
6426805 TATAATGTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (24 bp):
CCATTTAAAAGCCTAATATATGGC
Found at i:6429913 original size:19 final size:19
Alignment explanation
Indices: 6429889--6429928 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
6429879 ATATACCTTG
*
6429889 TAAATATTAAA-TTTGAAGA
1 TAAATA-TAAACTTTCAAGA
6429908 TAAATATAAACTTTCAAGA
1 TAAATATAAACTTTCAAGA
6429927 TA
1 TA
6429929 GAATTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (19 bp):
TAAATATAAACTTTCAAGA
Found at i:6432637 original size:2 final size:2
Alignment explanation
Indices: 6432632--6432682 Score: 54
Period size: 2 Copynumber: 26.5 Consensus size: 2
6432622 TGAATTAATT
* *
6432632 TA TA TA TA -A T- TCA TA TA TA TA TA TA TA TA AA TA AA TA T- TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6432672 TA TA TA TA TA T
1 TA TA TA TA TA T
6432683 GAATTCGAGC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
1 3 0.07
2 37 0.90
3 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:6438040 original size:7 final size:8
Alignment explanation
Indices: 6437978--6438043 Score: 51
Period size: 8 Copynumber: 7.8 Consensus size: 8
6437968 ATATCTATAT
6437978 TTTTAATA
1 TTTTAATA
*
6437986 TTTTAAAA
1 TTTTAATA
*
6437994 TTTTATATT
1 TTTTA-ATA
6438003 TTTTAATA
1 TTTTAATA
**
6438011 TTAATTTGCTA
1 -T--TTTAATA
6438022 TTTTAATA
1 TTTTAATA
*
6438030 TTTTAATT
1 TTTTAATA
6438038 TTTTAA
1 TTTTAA
6438044 AATAAAATCA
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
8 32 0.71
9 7 0.16
10 1 0.02
11 5 0.11
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (8 bp):
TTTTAATA
Found at i:6438072 original size:28 final size:26
Alignment explanation
Indices: 6438027--6438079 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
6438017 TGCTATTTTA
*
6438027 ATATTTTAATTTTTTAAAATAAAATC
1 ATATTTTAATTCTTTAAAATAAAATC
*
6438053 ATATTCTTAATTACTTTAAAATCAAAT
1 ATATT-TTAATT-CTTTAAAATAAAAT
6438080 TTGTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 5 0.22
27 6 0.26
28 12 0.52
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (26 bp):
ATATTTTAATTCTTTAAAATAAAATC
Found at i:6438169 original size:37 final size:38
Alignment explanation
Indices: 6438083--6438169 Score: 90
Period size: 37 Copynumber: 2.3 Consensus size: 38
6438073 ATCAAATTTG
* * *
6438083 TTTTTTTAAAAAATAAATATTTAGATTTTTTATTTTTTA
1 TTTTTTTAAAATATAAATATTTA-ATTTTTAATTTTTAA
* *
6438122 -TTTTTAAAAATATTAA-ATTT-ATTTTTAATATTTTAA
1 TTTTTTTAAAATATAAATATTTAATTTTTAAT-TTTTAA
6438158 TTTTTTTAAAAT
1 TTTTTTTAAAAT
6438170 TTCATTTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
35 8 0.20
36 5 0.12
37 14 0.35
38 13 0.32
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (38 bp):
TTTTTTTAAAATATAAATATTTAATTTTTAATTTTTAA
Found at i:6438180 original size:31 final size:31
Alignment explanation
Indices: 6438136--6438205 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 31
6438126 TAAAAATATT
6438136 AAATTTATTTTTAATA-TTTTA-ATTTTTTTA
1 AAATTTATTTTTAA-AGTTTTATATTTTTTTA
*
6438166 AAATTTCATTTTTAAAGTTTTATTTTTTTTTTA
1 AAATTT-ATTTTTAAAGTTTTA-TATTTTTTTA
6438199 AAATTTA
1 AAATTTA
6438206 ACACTTTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
30 7 0.20
31 13 0.37
32 1 0.03
33 14 0.40
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (31 bp):
AAATTTATTTTTAAAGTTTTATATTTTTTTA
Found at i:6438567 original size:19 final size:19
Alignment explanation
Indices: 6438531--6438571 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
6438521 TTTAAAAATT
*
6438531 TAAAAATATAGAAATTTTC
1 TAAAAACATAGAAATTTTC
*
6438550 TAAAAACATA-AAACTTT-
1 TAAAAACATAGAAATTTTC
6438567 TAAAA
1 TAAAA
6438572 TAAAGAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.25
18 6 0.30
19 9 0.45
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (19 bp):
TAAAAACATAGAAATTTTC
Found at i:6438582 original size:36 final size:35
Alignment explanation
Indices: 6438523--6438591 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
6438513 CTTTTTCATT
* * *
6438523 TAAAAATTTAAAAATATAGAAATTTTCTAAAAACA
1 TAAAAATTTAAAAATAAAGAAATTCTATAAAAACA
* *
6438558 TAAAACTTTTAAAATAAAGAAAATTCTATAAAAA
1 TAAAAATTTAAAAATAAAG-AAATTCTATAAAAA
6438592 AAAGTAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
35 16 0.57
36 12 0.43
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (35 bp):
TAAAAATTTAAAAATAAAGAAATTCTATAAAAACA
Found at i:6439809 original size:77 final size:77
Alignment explanation
Indices: 6439723--6439882 Score: 250
Period size: 77 Copynumber: 2.1 Consensus size: 77
6439713 ACAAACCTAA
* *
6439723 TCGAGTGAGCTAGAGTTGAACTTGAGCTTGAAAATTAAAATTTAGTTAAGCTTAAACAGAGTTTC
1 TCGAGTGAGCTAGAGTTGAACTTGAGCTTAAAAATTAAAATTTAGTTAAGCTCAAACAGAGTTTC
6439788 -AAGTAATGAATT
66 GAA-TAATGAATT
* * *
6439800 TCGAGTGAGCTAGAGTTGAGCTTGAGCTTAAAAATTAAAATTTGGTTAAGCTCAAATAGAGTTTC
1 TCGAGTGAGCTAGAGTTGAACTTGAGCTTAAAAATTAAAATTTAGTTAAGCTCAAACAGAGTTTC
6439865 GAATAATGAATT
66 GAATAATGAATT
*
6439877 TTGAGT
1 TCGAGT
6439883 CAAACTCAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
77 74 0.97
78 2 0.03
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (77 bp):
TCGAGTGAGCTAGAGTTGAACTTGAGCTTAAAAATTAAAATTTAGTTAAGCTCAAACAGAGTTTC
GAATAATGAATT
Found at i:6444683 original size:15 final size:15
Alignment explanation
Indices: 6444665--6444694 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6444655 AGAGGAGAAA
6444665 AAAGTGGAGGTCATT
1 AAAGTGGAGGTCATT
*
6444680 AAAGTTGAGGTCATT
1 AAAGTGGAGGTCATT
6444695 TTTTCCACTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (15 bp):
AAAGTGGAGGTCATT
Found at i:6449670 original size:20 final size:20
Alignment explanation
Indices: 6449645--6449684 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6449635 TTACTTATTA
6449645 ATTTATTATATAATAATTTT
1 ATTTATTATATAATAATTTT
* *
6449665 ATTTATTATTTCATAATTTT
1 ATTTATTATATAATAATTTT
6449685 TAAATAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTATTATATAATAATTTT
Found at i:6454250 original size:20 final size:20
Alignment explanation
Indices: 6454225--6454263 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6454215 ATATGTTTTT
*
6454225 TATTTATTGCTTTTTTTCTC
1 TATTTATTACTTTTTTTCTC
6454245 TATTTATTACTTTTTTTCT
1 TATTTATTACTTTTTTTCT
6454264 TAATTATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.13, G:0.03, T:0.72
Consensus pattern (20 bp):
TATTTATTACTTTTTTTCTC
Found at i:6454270 original size:19 final size:20
Alignment explanation
Indices: 6454228--6454271 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
6454218 TGTTTTTTAT
* *
6454228 TTATTGCTTTTTTTCTCTAT
1 TTATTACTTTTTTTCTCTAA
6454248 TTATTACTTTTTTTCT-TAA
1 TTATTACTTTTTTTCTCTAA
6454267 TTATT
1 TTATT
6454272 CAAGTTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.16, C:0.11, G:0.02, T:0.70
Consensus pattern (20 bp):
TTATTACTTTTTTTCTCTAA
Found at i:6455040 original size:52 final size:52
Alignment explanation
Indices: 6454954--6455110 Score: 192
Period size: 52 Copynumber: 3.0 Consensus size: 52
6454944 TATAACCATA
* *
6454954 CAAACTTG-CTCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCT-ATTAAGAATCCATCTCCTCTTAGAATTCTTCTCCTGCAAGT
* * *
6455006 CAAACTTGCCTATTAAGAATCCATTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCATCTCCTCTTAGAATTCTTCTCCTGCAAGT
* * * **
6455058 CAAACTTACCTATTAAGAATCC-TCTTTCTCTTGGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCATC-TCCTCTTAGAATTCTTCTCCTGCAAGT
6455110 C
1 C
6455111 TTCTTGTCCA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 1 0.01
52 89 0.97
53 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.39
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCATCTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:6455450 original size:24 final size:24
Alignment explanation
Indices: 6455406--6455454 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
6455396 CTTCCCAAAC
6455406 CTTTAGCTCTTCTCACATCTCGAA
1 CTTTAGCTCTTCTCACATCTCGAA
*
6455430 CTTTCAGCTCTTC-CACGTCTCGAA
1 CTTT-AGCTCTTCTCACATCTCGAA
6455454 C
1 C
6455455 CTTCGACTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.18, C:0.37, G:0.10, T:0.35
Consensus pattern (24 bp):
CTTTAGCTCTTCTCACATCTCGAA
Found at i:6455549 original size:31 final size:31
Alignment explanation
Indices: 6455508--6455592 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
6455498 TTCGAACCTT
* * *
6455508 CAGCTTTGATAGCACTTGTTGGGGAACACCA
1 CAGCTCTGATACCATTTGTTGGGGAACACCA
*
6455539 CAGCTCTGATACCATTTGTTGGGGATCACCA
1 CAGCTCTGATACCATTTGTTGGGGAACACCA
6455570 CAGCTCTGATACCATTTGTTGGG
1 CAGCTCTGATACCATTTGTTGGG
6455593 CTAAAAGCCT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (31 bp):
CAGCTCTGATACCATTTGTTGGGGAACACCA
Found at i:6456163 original size:52 final size:52
Alignment explanation
Indices: 6456077--6456233 Score: 192
Period size: 52 Copynumber: 3.0 Consensus size: 52
6456067 TATAACCATA
* *
6456077 CAAACTTG-CTCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCT-ATTAAGAATCCATCTCCTCTTAGAATTCTTCTCCTGCAAGT
* * *
6456129 CAAACTTGCCTATTAAGAATCCATTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCATCTCCTCTTAGAATTCTTCTCCTGCAAGT
* * * **
6456181 CAAACTTACCTATTAAGAATCC-TCTTTCTCTTGGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCATC-TCCTCTTAGAATTCTTCTCCTGCAAGT
6456233 C
1 C
6456234 TTCTTGTCCA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 1 0.01
52 89 0.97
53 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.39
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCATCTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:6458396 original size:2 final size:2
Alignment explanation
Indices: 6458389--6458430 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
6458379 GACCTACCCC
*
6458389 TA TA TA TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6458431 CTCGAACCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6459953 original size:62 final size:60
Alignment explanation
Indices: 6459799--6459986 Score: 202
Period size: 62 Copynumber: 3.1 Consensus size: 60
6459789 AGTGTTTCTG
* * * *
6459799 TAATTATGATACAAGA-TATTATAATAATTTTAATCAATTATGATAAGAAGAATA-TTTTG
1 TAATTATGATAAAAGAGTATTATAATAATTTTAA-CAATTATGATAAGAGGGATATTTTTA
* *
6459858 TAATTATGATAGAAA-ATGTATTATAATAATTTTAACATCTTATGATAATAGGGATATTTTTA
1 TAATTATGATA-AAAGA-GTATTATAATAATTTTAACA-ATTATGATAAGAGGGATATTTTTA
* * * * *
6459920 TAATTATGATAATAAGAGCATTATAGTAATTTTATCAAATTTTGATAAGAGGGATATTATTA
1 TAATTATGATAA-AAGAGTATTATAATAATTTTAAC-AATTATGATAAGAGGGATATTTTTA
6459982 TAATT
1 TAATT
6459987 TTAACTAATT
Statistics
Matches: 108, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
59 12 0.11
60 4 0.04
61 32 0.30
62 58 0.54
63 2 0.02
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.42
Consensus pattern (60 bp):
TAATTATGATAAAAGAGTATTATAATAATTTTAACAATTATGATAAGAGGGATATTTTTA
Found at i:6460351 original size:131 final size:130
Alignment explanation
Indices: 6460111--6460352 Score: 272
Period size: 131 Copynumber: 1.8 Consensus size: 130
6460101 AATAAGATTT
* * *
6460111 ATAATTTAATATGTAGTTAATTTTATATTAAATTAAAATTTAATATATGTAATTTAATAAGAATA
1 ATAATTTAATATGTAATTAATTTTATATTAAATTAAAATTTAATACA-GTAAATTAATAAGAATA
** *** * **
6460176 TTATTACAATTTTTTGATAAAATGCCACACGTCAAATTTTTATGAAACGATGATAAAGGTATTTT
65 TTACAACAATTTTCAAATAAAATGACACACGTCAAATTCCTATGAAACGATGATAAAGGTATTTT
6460241 A
130 A
* *
6460242 ATAATTTAATATGTAATTATTTTTTATTATTATATTAAAATTTAATACA-TAAATTAA-AAGAGA
1 ATAATTTAATATGTAATTA-ATTTTA-TATTAAATTAAAATTTAATACAGTAAATTAATAAGA-A
* ** * *
6460305 TATTACAATAATTTTCAAATAAAATGATGCATGTCAACTTCCTATGAA
63 TATTACAACAATTTTCAAATAAAATGACACACGTCAAATTCCTATGAA
6460353 GTAATTATGA
Statistics
Matches: 90, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
130 4 0.04
131 61 0.68
132 5 0.06
133 20 0.22
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (130 bp):
ATAATTTAATATGTAATTAATTTTATATTAAATTAAAATTTAATACAGTAAATTAATAAGAATAT
TACAACAATTTTCAAATAAAATGACACACGTCAAATTCCTATGAAACGATGATAAAGGTATTTTA
Found at i:6460495 original size:61 final size:61
Alignment explanation
Indices: 6460422--6460576 Score: 176
Period size: 61 Copynumber: 2.6 Consensus size: 61
6460412 TTTGGTAGGA
*
6460422 GGACATTTTTATAATTATGATATAAGAGA-ATTATAATAATTTTGGTTA-ATCATGACAGTAG
1 GGACATTTTTATAATTATGATATAAGAGATATTATAATAATTTTAG-TACATCATGACA-TAG
* * ** *
6460483 GGACATTTTTATAATTAT-A-ATAGGAGGATCATTATAATAATTTTAGTACATTATGGTATAT
1 GGACATTTTTATAATTATGATATAAGA-GAT-ATTATAATAATTTTAGTACATCATGACATAG
*
6460544 GGATATTTTTATAATTATGATATAA-AGATATTA
1 GGACATTTTTATAATTATGATATAAGAGATATTA
6460577 ATTATAGTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
59 5 0.06
60 7 0.09
61 42 0.52
62 23 0.29
63 3 0.04
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.42
Consensus pattern (61 bp):
GGACATTTTTATAATTATGATATAAGAGATATTATAATAATTTTAGTACATCATGACATAG
Found at i:6460725 original size:58 final size:57
Alignment explanation
Indices: 6460577--6460736 Score: 148
Period size: 58 Copynumber: 2.8 Consensus size: 57
6460567 AAAGATATTA
* * * *
6460577 ATTATAGTAATTTATCATTTTTGAGAAGGGTATTTTCGTTATTTAAGACAAAAGAGAC
1 ATTATAGTAATTTATCATTTAT-AAAAGGGTATTTTCATCATTTAAGACAAAAGAGAC
* * *
6460635 ATTATAATAATTTGA-CATTTATAAGAGAGGTATTTTTATCATTTAAGA-ATGAAAGA-AC
1 ATTATAGTAATTT-ATCATTTATAAAAG-GGTATTTTCATCATTTAAGACA--AAAGAGAC
* * *
6460693 TTTATAGTAATTTATCATTTAAAATAAGGGTA-TTTCGTCATTTA
1 ATTATAGTAATTTATCATTTATAA-AAGGGTATTTTCATCATTTA
6460737 CATGAGAAGG
Statistics
Matches: 83, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
57 15 0.18
58 60 0.72
59 8 0.10
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.41
Consensus pattern (57 bp):
ATTATAGTAATTTATCATTTATAAAAGGGTATTTTCATCATTTAAGACAAAAGAGAC
Found at i:6464102 original size:31 final size:31
Alignment explanation
Indices: 6464067--6464125 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
6464057 AGTAAATACT
6464067 AGCTATTGTTGGAGAAATTATGATAATGAGG
1 AGCTATTGTTGGAGAAATTATGATAATGAGG
*
6464098 AGCTATTGTTGGAGAAATTATTATAATG
1 AGCTATTGTTGGAGAAATTATGATAATG
6464126 TGGTTATCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (31 bp):
AGCTATTGTTGGAGAAATTATGATAATGAGG
Found at i:6464431 original size:15 final size:15
Alignment explanation
Indices: 6464411--6464440 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6464401 AATGAATCAT
6464411 TATAGTCACAAGAGG
1 TATAGTCACAAGAGG
6464426 TATAGTCACAAGAGG
1 TATAGTCACAAGAGG
6464441 AAGTAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (15 bp):
TATAGTCACAAGAGG
Found at i:6467535 original size:95 final size:92
Alignment explanation
Indices: 6467394--6467569 Score: 209
Period size: 92 Copynumber: 1.9 Consensus size: 92
6467384 CAAATCATAT
6467394 TAAAATATTATTTTTATATTAAATTTATATATTTATAAATCATAAATAATTAA-ATTTAAAATTA
1 TAAAATATTATTTTTATATTAAATTTATATATTTATAAATCATAAAT-A-TAATATTT--AATTA
*
6467458 ATTTAATAATTTTAATTAAATATAATATTTA
62 AATTAATAATTTTAATTAAATATAATATTTA
* *
6467489 TAAAATATTAATTTTTGATA-TAAA-TTATAT-TTTA-ATTATACATAAATATAATATTTTATTA
1 TAAAATATT-ATTTTT-ATATTAAATTTATATATTTATA-AAT-CATAAATATAATATTTAATTA
*
6467550 AATTAATATTTTTAATTAAA
62 AATTAATAATTTTAATTAAA
6467570 ATATTAAATA
Statistics
Matches: 72, Mismatches: 4, Indels: 13
0.81 0.04 0.15
Matches are distributed among these distances:
92 22 0.31
93 4 0.06
94 11 0.15
95 22 0.31
96 10 0.14
97 3 0.04
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (92 bp):
TAAAATATTATTTTTATATTAAATTTATATATTTATAAATCATAAATATAATATTTAATTAAATT
AATAATTTTAATTAAATATAATATTTA
Found at i:6467562 original size:17 final size:18
Alignment explanation
Indices: 6467461--6467617 Score: 62
Period size: 17 Copynumber: 8.3 Consensus size: 18
6467451 AAAATTAATT
6467461 TAATAATTTTAATTAAATA
1 TAAT-ATTTTAATTAAATA
*
6467480 TAATA-TTT-ATAAAATA
1 TAATATTTTAATTAAATA
*
6467496 TTAAT-TTTTGATATAAAT-
1 -TAATATTTTAAT-TAAATA
6467514 T-ATATTTTAATTATACATAAATA
1 TAATATTTT-A--AT---TAAATA
6467537 TAATATTTT-ATTAAAT-
1 TAATATTTTAATTAAATA
6467553 TAATATTTTTAATTAAAATA
1 TAATA-TTTTAATT-AAATA
*
6467573 TTAAATAATAATTTTATT-AATA
1 -T-AAT-AT--TTTAATTAAATA
*
6467595 TAATATATATAATTAAATA
1 TAATAT-TTTAATTAAATA
6467614 -AATA
1 TAATA
6467618 ATAAAAAATC
Statistics
Matches: 110, Mismatches: 6, Indels: 45
0.68 0.04 0.28
Matches are distributed among these distances:
16 14 0.13
17 24 0.22
18 16 0.15
19 18 0.16
20 7 0.06
21 2 0.02
22 14 0.13
23 2 0.02
24 13 0.12
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (18 bp):
TAATATTTTAATTAAATA
Found at i:6467581 original size:25 final size:25
Alignment explanation
Indices: 6467545--6467592 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
6467535 TATAATATTT
*
6467545 TATTAAATTAATATTTTTAATTAAAA
1 TATTAAATTAATAATTTT-ATTAAAA
6467571 TATTAAA-TAATAATTTTATTAA
1 TATTAAATTAATAATTTTATTAA
6467593 TATAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 9 0.43
26 7 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TATTAAATTAATAATTTTATTAAAA
Found at i:6467621 original size:41 final size:40
Alignment explanation
Indices: 6467491--6467621 Score: 103
Period size: 41 Copynumber: 3.2 Consensus size: 40
6467481 AATATTTATA
* *
6467491 AAATATTAAT-TTTTGATATAAATT-ATAT-TTTAATTATACAT
1 AAATAATAATATTTT-AT-TAAATTAATATATATAATTA-A-AT
* *
6467532 AAAT-ATAATATTTTATTAAATTAATATTTTTAATTAAA-
1 AAATAATAATATTTTATTAAATTAATATATATAATTAAAT
*
6467570 ATATTAAATAATAATTTTATT-AATATAATATATATAATTAAAT
1 A-AAT-AATAAT-ATTTTATTAAAT-TAATATATATAATTAAAT
6467613 AAATAATAA
1 AAATAATAA
6467622 AAAATCCAAT
Statistics
Matches: 76, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
38 1 0.01
39 9 0.12
40 11 0.14
41 29 0.38
42 25 0.33
43 1 0.01
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (40 bp):
AAATAATAATATTTTATTAAATTAATATATATAATTAAAT
Found at i:6470232 original size:12 final size:12
Alignment explanation
Indices: 6470199--6470232 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6470189 TAGGGAAAAG
*
6470199 TTATTATTATTA
1 TTATTATCATTA
6470211 TTATTATCATTA
1 TTATTATCATTA
*
6470223 TTATTCTCAT
1 TTATTATCAT
6470233 ATAAGCTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATTATCATTA
Found at i:6480197 original size:17 final size:17
Alignment explanation
Indices: 6480175--6480212 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
6480165 GATAGATATA
6480175 TAATTATAT-ATATAACT
1 TAATTATATAATATAA-T
6480192 TAATTATATAATATAAT
1 TAATTATATAATATAAT
6480209 TAAT
1 TAAT
6480213 AAATTTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATTATATAATATAAT
Done.