Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 31 of 113
Found at i:9828144 original size:19 final size:19
Alignment explanation
Indices: 9828105--9828144 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9828095 AAAACCTAAA
* * *
9828105 AAATAATATAATATAATAT
1 AAATAATATAAAAAAAGAT
9828124 AAATAATATAAAAAAAGAT
1 AAATAATATAAAAAAAGAT
9828143 AA
1 AA
9828145 TTGGCTAGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (19 bp):
AAATAATATAAAAAAAGAT
Found at i:9828482 original size:40 final size:41
Alignment explanation
Indices: 9828438--9828571 Score: 184
Period size: 41 Copynumber: 3.3 Consensus size: 41
9828428 TTGAAAAAAT
* * *
9828438 AAATAAAAGGTTCCTTTAAACAGA-GCATAATAACTTT-AGA
1 AAATAAAAGGCTCCTCTAAACAGAGGCACAATAACTTTGA-A
9828478 AAATAAAA-GCTCCTCTAAACAGAGGCACAATAACTTTGAA
1 AAATAAAAGGCTCCTCTAAACAGAGGCACAATAACTTTGAA
* * *
9828518 AAATAAAAGGCTCATCTAATCAAAGGCACAATAACTTTGAA
1 AAATAAAAGGCTCCTCTAAACAGAGGCACAATAACTTTGAA
9828559 AAATAAAAGGCTC
1 AAATAAAAGGCTC
9828572 ATCAACAATC
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
39 13 0.15
40 29 0.34
41 43 0.51
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.22
Consensus pattern (41 bp):
AAATAAAAGGCTCCTCTAAACAGAGGCACAATAACTTTGAA
Found at i:9829097 original size:91 final size:91
Alignment explanation
Indices: 9828985--9829174 Score: 290
Period size: 91 Copynumber: 2.1 Consensus size: 91
9828975 TTTGAAATAA
* * * *
9828985 TCTCATTTGAAGATTTCTTAAAAATTTTTATTTAAGACTCAAAGATTCTCATTTGAGGATTTCTT
1 TCTCA-TTGAAGATTTCTTAAAAATTCTCATTTAAGACTCAAAGATTATCATTTGAGAATTTCTT
9829050 AAAGATTCTCATTTAAGACTCAAAAAT
65 AAAGATTCTCATTTAAGACTCAAAAAT
* *
9829077 TCTCATTGAAGATTTTTTAAAGATTCTCATTTAAGACTCAAAGATTATCATTTGAGAATTTCTTA
1 TCTCATTGAAGATTTCTTAAAAATTCTCATTTAAGACTCAAAGATTATCATTTGAGAATTTCTTA
* * *
9829142 AAGATTTTCATTTAAGATTCAAAGAT
66 AAGATTCTCATTTAAGACTCAAAAAT
9829168 TCTCATT
1 TCTCATT
9829175 TGCGGATTCA
Statistics
Matches: 89, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
91 84 0.94
92 5 0.06
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (91 bp):
TCTCATTGAAGATTTCTTAAAAATTCTCATTTAAGACTCAAAGATTATCATTTGAGAATTTCTTA
AAGATTCTCATTTAAGACTCAAAAAT
Found at i:9829106 original size:45 final size:46
Alignment explanation
Indices: 9828985--9829176 Score: 280
Period size: 46 Copynumber: 4.2 Consensus size: 46
9828975 TTTGAAATAA
* * *
9828985 TCTCATTTGAAGATTTCTTAAAAATTTTTATTTAAGACTCAAAGAT
1 TCTCATTTGAAGATTTCTTAAAGATTCTCATTTAAGACTCAAAGAT
* *
9829031 TCTCATTTGAGGATTTCTTAAAGATTCTCATTTAAGACTCAAAAAT
1 TCTCATTTGAAGATTTCTTAAAGATTCTCATTTAAGACTCAAAGAT
*
9829077 TCTCA-TTGAAGATTTTTTAAAGATTCTCATTTAAGACTCAAAGAT
1 TCTCATTTGAAGATTTCTTAAAGATTCTCATTTAAGACTCAAAGAT
* * *
9829122 TATCATTTG-AGAATTTCTTAAAGATTTTCATTTAAGATTCAAAGAT
1 TCTCATTTGAAG-ATTTCTTAAAGATTCTCATTTAAGACTCAAAGAT
9829168 TCTCATTTG
1 TCTCATTTG
9829177 CGGATTCATA
Statistics
Matches: 131, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
45 43 0.33
46 88 0.67
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (46 bp):
TCTCATTTGAAGATTTCTTAAAGATTCTCATTTAAGACTCAAAGAT
Found at i:9831358 original size:19 final size:21
Alignment explanation
Indices: 9831334--9831384 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
9831324 GATAACAAAT
9831334 GAAATCCTAC-TAC-ATAAAA
1 GAAATCCTACATACTATAAAA
*
9831353 GAAATCCTAACATTACTCTAAAA
1 GAAATCCT-ACA-TACTATAAAA
9831376 GAAATCCTA
1 GAAATCCTA
9831385 AAATGGCAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 8 0.30
20 2 0.07
22 4 0.15
23 13 0.48
ACGTcount: A:0.49, C:0.22, G:0.06, T:0.24
Consensus pattern (21 bp):
GAAATCCTACATACTATAAAA
Found at i:9834629 original size:25 final size:24
Alignment explanation
Indices: 9834579--9834629 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 24
9834569 ACCTAGAGAT
* *
9834579 TTCTAAGAATTTACCATTTGAAAA
1 TTCTAAGAATTCACCATTCGAAAA
* *
9834603 TTCTAAGAATCTCATCATTCGATAA
1 TTCTAAGAAT-TCACCATTCGAAAA
9834628 TT
1 TT
9834630 ATCACATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (24 bp):
TTCTAAGAATTCACCATTCGAAAA
Found at i:9836376 original size:25 final size:26
Alignment explanation
Indices: 9836331--9836380 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
9836321 CACCTAACAG
*
9836331 AAAAATTAAAGATAACTCAAATAAAA
1 AAAAATTAAAGATAACACAAATAAAA
9836357 AAAAATTAAAGATAA-ACAAATAAA
1 AAAAATTAAAGATAACACAAATAAA
9836381 TGAATGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.72, C:0.06, G:0.04, T:0.18
Consensus pattern (26 bp):
AAAAATTAAAGATAACACAAATAAAA
Found at i:9836440 original size:23 final size:23
Alignment explanation
Indices: 9836411--9836457 Score: 67
Period size: 26 Copynumber: 1.9 Consensus size: 23
9836401 GATAATTGAA
9836411 AAAAAAATAATAAATAAATAAAATCC
1 AAAAAAATAAT--A-AAATAAAATCC
9836437 AAAAAAATAATAAAATAAAAT
1 AAAAAAATAATAAAATAAAAT
9836458 AAATAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.43
24 1 0.05
26 11 0.52
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (23 bp):
AAAAAAATAATAAAATAAAATCC
Found at i:9836473 original size:17 final size:17
Alignment explanation
Indices: 9836413--9836473 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 17
9836403 TAATTGAAAA
9836413 AAAAATAATAAATAA-AT
1 AAAAA-AATAAATAATAT
*
9836430 AAAATCCAAAAAAATAATA-
1 AAAA---AAATAAATAATAT
9836449 AAATAAAATAAATAATAT
1 AAA-AAAATAAATAATAT
9836467 AAAAAAA
1 AAAAAAA
9836474 GAACAATTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
17 19 0.53
18 3 0.08
19 11 0.31
20 3 0.08
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAAAAATAAATAATAT
Found at i:9839285 original size:89 final size:89
Alignment explanation
Indices: 9839134--9839303 Score: 322
Period size: 89 Copynumber: 1.9 Consensus size: 89
9839124 CAGAGGAAGA
*
9839134 ATCAATTAGTGGATTGGTATTCATATTTACCCAGTCATGGCAGGAAGGCATGACATTATCAACTC
1 ATCAATTAGTGGATTGGTATTCATATTTACCCAGTCATGGCAGGAAAGCATGACATTATCAACTC
9839199 CATTGCTTCTGTTCCAGTAGGGGT
66 CATTGCTTCTGTTCCAGTAGGGGT
*
9839223 ATCAATTAGTGGATTGGTATTCATATTTACCCAGTCATGGCAGGAAAGCATGACATTCTCAACTC
1 ATCAATTAGTGGATTGGTATTCATATTTACCCAGTCATGGCAGGAAAGCATGACATTATCAACTC
9839288 CATTGCTTCTGTTCCA
66 CATTGCTTCTGTTCCA
9839304 TCACAGCTTT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 79 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (89 bp):
ATCAATTAGTGGATTGGTATTCATATTTACCCAGTCATGGCAGGAAAGCATGACATTATCAACTC
CATTGCTTCTGTTCCAGTAGGGGT
Found at i:9843470 original size:20 final size:20
Alignment explanation
Indices: 9843445--9843484 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
9843435 CTCAATGAAT
*
9843445 TTGCTTATTTGTATGTCTAC
1 TTGCTTATTTGTATATCTAC
9843465 TTGCTTATTTGTATATCTAC
1 TTGCTTATTTGTATATCTAC
9843485 GTTTATAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.15, G:0.12, T:0.55
Consensus pattern (20 bp):
TTGCTTATTTGTATATCTAC
Found at i:9844220 original size:21 final size:21
Alignment explanation
Indices: 9844195--9844236 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9844185 ATATTTTTCA
*
9844195 TAAAT-ATATTTTGTTGTTTTT
1 TAAATAATATATT-TTGTTTTT
9844216 TAAATAATATATTTTGTTTTT
1 TAAATAATATATTTTGTTTTT
9844237 CTTAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (21 bp):
TAAATAATATATTTTGTTTTT
Found at i:9844224 original size:24 final size:23
Alignment explanation
Indices: 9844197--9844242 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
9844187 ATTTTTCATA
*
9844197 AATATATTTTGTTGTTTTTTAAAT
1 AATATATTTTGTT-TTTCTTAAAT
9844221 AATATATTTTGTTTTTCTTAAA
1 AATATATTTTGTTTTTCTTAAA
9844243 ATATAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (23 bp):
AATATATTTTGTTTTTCTTAAAT
Found at i:9844244 original size:24 final size:24
Alignment explanation
Indices: 9844197--9844252 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
9844187 ATTTTTCATA
*
9844197 AATATATTTTGTTGTTTTTTAAAT
1 AATATATTTTGTTGTTTTTAAAAT
9844221 AATATATTTTGTT-TTTCTTAAAAT
1 AATATATTTTGTTGTTT-TTAAAAT
9844245 -ATA-ATTTT
1 AATATATTTT
9844253 ATGTATATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 5 0.17
23 6 0.20
24 19 0.63
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (24 bp):
AATATATTTTGTTGTTTTTAAAAT
Found at i:9844245 original size:21 final size:21
Alignment explanation
Indices: 9844188--9844252 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 21
9844178 TATGTAAATA
*
9844188 TTTTTCAT-AAATATATTTTG
1 TTTTTCTTAAAATATATTTTG
*
9844208 TTGTTTTTTAAATAATATATTTTG
1 TT-TTTCTT-AA-AATATATTTTG
9844232 TTTTTCTTAAAATATAATTTT
1 TTTTTCTTAAAATAT-ATTTT
9844253 ATGTATATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 2 0.05
21 9 0.24
22 7 0.19
23 6 0.16
24 13 0.35
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (21 bp):
TTTTTCTTAAAATATATTTTG
Found at i:9845632 original size:25 final size:25
Alignment explanation
Indices: 9845603--9845654 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
9845593 GAGTTCAAAC
9845603 ATAAATAATTAAATTT-TTATTATAT
1 ATAAA-AATTAAATTTATTATTATAT
* *
9845628 ATAAAAATTGAATTTATTTTTATAT
1 ATAAAAATTAAATTTATTATTATAT
9845653 AT
1 AT
9845655 TAATGAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
ATAAAAATTAAATTTATTATTATAT
Found at i:9845709 original size:5 final size:5
Alignment explanation
Indices: 9845699--9845751 Score: 54
Period size: 5 Copynumber: 10.4 Consensus size: 5
9845689 AATTTTTATC
* * *
9845699 TTAAA TTAAA TTTAAA TTAAA -AAAA TTAAA TTTAA TTAAA TTTAAA TAAAA
1 TTAAA TTAAA -TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA -TTAAA TTAAA
9845750 TT
1 TT
9845752 TTAAATTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
4 3 0.08
5 26 0.67
6 10 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TTAAA
Found at i:9845715 original size:6 final size:6
Alignment explanation
Indices: 9845699--9845785 Score: 67
Period size: 6 Copynumber: 14.7 Consensus size: 6
9845689 AATTTTTATC
* *
9845699 TTAAA- TTAAAT TTAAAT TAAAAAAA TTAAAT TT-AA- TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT T--TAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* *
9845745 TAAAATT TTAAATT TTAAA- TAAAAT TTAAAT TTAAAT TTAA
1 TTAAA-T TTAAA-T TTAAAT TTAAAT TTAAAT TTAAAT TTAA
9845786 TATTATATTA
Statistics
Matches: 66, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
4 2 0.03
5 17 0.26
6 32 0.48
7 11 0.17
8 4 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:9845738 original size:30 final size:31
Alignment explanation
Indices: 9845699--9845776 Score: 99
Period size: 30 Copynumber: 2.6 Consensus size: 31
9845689 AATTTTTATC
9845699 TTAAATTAAATTTAAATTAAAAAAATTAAA-T
1 TTAAATTAAATTTAAATT-AAAAAATTAAATT
**
9845730 TT-AATTAAATTTAAA-TAAAATTTTAAATT
1 TTAAATTAAATTTAAATTAAAAAATTAAATT
*
9845759 TTAAATAAAATTTAAATT
1 TTAAATTAAATTTAAATT
9845777 TAAATTTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 9 0.22
29 4 0.10
30 25 0.61
31 3 0.07
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (31 bp):
TTAAATTAAATTTAAATTAAAAAATTAAATT
Found at i:9845763 original size:19 final size:17
Alignment explanation
Indices: 9845734--9845781 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 17
9845724 TTAAATTTAA
9845734 TTAAATTTAAATAAAATT
1 TTAAATTTAAATAAAA-T
9845752 TTAAATTTTAAATAAAAT
1 TTAAA-TTTAAATAAAAT
9845770 TTAAATTTAAAT
1 TTAAATTTAAAT
9845782 TTAATATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.24
18 11 0.38
19 11 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TTAAATTTAAATAAAAT
Found at i:9845785 original size:30 final size:29
Alignment explanation
Indices: 9845699--9845785 Score: 97
Period size: 30 Copynumber: 2.9 Consensus size: 29
9845689 AATTTTTATC
*
9845699 TTAAATTAAATTTAAATTAAAAAAATTAAAT
1 TTAAATTAAATTTAAATT--AAAATTTAAAT
9845730 TT-AATTAAATTTAAA-TAAAATTTTAAATT
1 TTAAATTAAATTTAAATTAAAA-TTTAAA-T
* *
9845759 TTAAATAAAATTTAAATTTAAATTTAA
1 TTAAATTAAATTTAAATTAAAATTTAA
9845786 TATTATATTA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
27 4 0.08
28 5 0.10
29 4 0.08
30 30 0.61
31 6 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TTAAATTAAATTTAAATTAAAATTTAAAT
Found at i:9847749 original size:12 final size:12
Alignment explanation
Indices: 9847732--9847760 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
9847722 TGGCTGTTGC
9847732 GCTGTAGTGGGA
1 GCTGTAGTGGGA
9847744 GCTGTAGTGGGA
1 GCTGTAGTGGGA
9847756 GCTGT
1 GCTGT
9847761 CATTGCAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.14, C:0.10, G:0.48, T:0.28
Consensus pattern (12 bp):
GCTGTAGTGGGA
Found at i:9851571 original size:2 final size:2
Alignment explanation
Indices: 9851564--9851613 Score: 57
Period size: 2 Copynumber: 25.5 Consensus size: 2
9851554 AGCAACAATA
* * *
9851564 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT CT AT CT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
9851605 CT AT AT AT A
1 AT AT AT AT A
9851614 AAAACATGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:9853117 original size:28 final size:28
Alignment explanation
Indices: 9853083--9853137 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
9853073 AAATTATGTA
*
9853083 TTTTATTATTTTTGTGTAATAAAAATTG
1 TTTTATTATTTTTATGTAATAAAAATTG
9853111 TTTTATTATTTTTATGTAATAAAAATT
1 TTTTATTATTTTTATGTAATAAAAATT
9853138 ATGTATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (28 bp):
TTTTATTATTTTTATGTAATAAAAATTG
Found at i:9855547 original size:53 final size:53
Alignment explanation
Indices: 9855478--9855584 Score: 169
Period size: 53 Copynumber: 2.0 Consensus size: 53
9855468 TTAATAATCA
* * *
9855478 ATAATTAATAATTTTTTAGTAAATCTATAATAATGCAATAATAAATGCATATT
1 ATAATTAATAAGTTTTTAGTAAATATATAATAATACAATAATAAATGCATATT
* *
9855531 ATAATTGATAAGTTTTTAGTAAATATGTAATAATACAATAATAAATGCATATT
1 ATAATTAATAAGTTTTTAGTAAATATATAATAATACAATAATAAATGCATATT
9855584 A
1 A
9855585 CTTTAATGGT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (53 bp):
ATAATTAATAAGTTTTTAGTAAATATATAATAATACAATAATAAATGCATATT
Found at i:9855712 original size:22 final size:22
Alignment explanation
Indices: 9855648--9855714 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 22
9855638 TAAATAAAAA
*
9855648 AACTTAATAA-AAATAAATGAT
1 AACTTAGTAATAAATAAATGAT
* * * *
9855669 AACTTAGTAGTTAATTATTGAT
1 AACTTAGTAATAAATAAATGAT
*
9855691 AACTTAGTAATAAATCAATGAT
1 AACTTAGTAATAAATAAATGAT
9855713 AA
1 AA
9855715 TGTTATACTA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
21 8 0.22
22 28 0.78
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (22 bp):
AACTTAGTAATAAATAAATGAT
Found at i:9855748 original size:22 final size:22
Alignment explanation
Indices: 9855664--9855750 Score: 61
Period size: 22 Copynumber: 4.0 Consensus size: 22
9855654 ATAAAAATAA
* *
9855664 ATGATAACTTAGTAGTTAA-TT
1 ATGATAACTTAATAGTAAATTT
* * **
9855685 ATTGATAACTTAGTAATAAATCA
1 A-TGATAACTTAATAGTAAATTT
* *
9855708 ATGATAA-TGTTATACTAAATTT
1 ATGATAACT-TAATAGTAAATTT
*
9855730 ATGATAATTTAATAGTAAATT
1 ATGATAACTTAATAGTAAATT
9855751 AGTTTTAGAT
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
21 2 0.04
22 47 0.92
23 2 0.04
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (22 bp):
ATGATAACTTAATAGTAAATTT
Found at i:9855809 original size:22 final size:22
Alignment explanation
Indices: 9855778--9855850 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 22
9855768 AATTAATTGA
9855778 TAGTAATAAATAATAAATAATT
1 TAGTAATAAATAATAAATAATT
* *
9855800 TAGTAGTAAATTAATTACA-AATT
1 TAGTAATAAA-TAA-TAAATAATT
**
9855823 T-GTAATAAATAATTGATAATT
1 TAGTAATAAATAATAAATAATT
9855844 TAGTAAT
1 TAGTAAT
9855851 TATTCATTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
20 2 0.05
21 8 0.19
22 21 0.50
23 8 0.19
24 3 0.07
ACGTcount: A:0.51, C:0.01, G:0.08, T:0.40
Consensus pattern (22 bp):
TAGTAATAAATAATAAATAATT
Found at i:9856181 original size:22 final size:22
Alignment explanation
Indices: 9856128--9856207 Score: 97
Period size: 22 Copynumber: 3.6 Consensus size: 22
9856118 AATTAATATC
*
9856128 TTAGTAGTAAATCACTAATAAT
1 TTAGTAGTAAATTACTAATAAT
* * *
9856150 GTAATAGTAAGTTACTAATAAT
1 TTAGTAGTAAATTACTAATAAT
* *
9856172 TTAGTTGTAAATTAATAATAAT
1 TTAGTAGTAAATTACTAATAAT
*
9856194 TTAGTAATAAATTA
1 TTAGTAGTAAATTA
9856208 GTTAATCATT
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (22 bp):
TTAGTAGTAAATTACTAATAAT
Found at i:9856244 original size:22 final size:22
Alignment explanation
Indices: 9856205--9856288 Score: 71
Period size: 22 Copynumber: 3.8 Consensus size: 22
9856195 TAGTAATAAA
* **
9856205 TTAGTTAATCATTGATAATTTT
1 TTAGTAAATCATCAATAATTTT
* *
9856227 TTAGTAAATCATCAATAAATTA
1 TTAGTAAATCATCAATAATTTT
* *
9856249 GTAGTAAATCAAT-TATAATTTT
1 TTAGTAAATC-ATCAATAATTTT
* *
9856271 ATAATAAATCATCAATAA
1 TTAGTAAATCATCAATAA
9856289 CTTAATAATA
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
21 2 0.04
22 44 0.92
23 2 0.04
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (22 bp):
TTAGTAAATCATCAATAATTTT
Found at i:9856268 original size:44 final size:44
Alignment explanation
Indices: 9856199--9856410 Score: 134
Period size: 44 Copynumber: 4.9 Consensus size: 44
9856189 ATAATTTAGT
** *
9856199 AATAAATTAGT--T-AATC-ATTGATAATTTTTTAGTAAATCATC
1 AATAAATTAGTAGTAAATCAATT-ATAATTTAATAATAAATCATC
*
9856240 AATAAATTAGTAGTAAATCAATTATAATTTTATAATAAATCATC
1 AATAAATTAGTAGTAAATCAATTATAATTTAATAATAAATCATC
* * * * * * * ** *
9856284 AATAACTTAATAATAAATCACTAATAA-TGATTGGTAAATCATT
1 AATAAATTAGTAGTAAATCAATTATAATTTAATAATAAATCATC
* * * * *
9856327 AATAACTTAAT-GTCAAATCAATCATAAATTAATAACAAATCATTC
1 AATAAATTAGTAGT-AAATCAATTATAATTTAATAATAAATCA-TC
* * *
9856372 -ATAAATTAGTAGTACATC-ATTGATAGTTTAATAGTAAAT
1 AATAAATTAGTAGTAAATCAATT-ATAATTTAATAATAAAT
9856411 AACTAATAAC
Statistics
Matches: 132, Mismatches: 30, Indels: 15
0.75 0.17 0.08
Matches are distributed among these distances:
41 11 0.08
42 1 0.01
43 35 0.27
44 79 0.60
45 6 0.05
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.37
Consensus pattern (44 bp):
AATAAATTAGTAGTAAATCAATTATAATTTAATAATAAATCATC
Found at i:9856296 original size:22 final size:22
Alignment explanation
Indices: 9856231--9856379 Score: 85
Period size: 22 Copynumber: 6.8 Consensus size: 22
9856221 AATTTTTTAG
* *
9856231 TAAATCATCAATAAATTAGTAG
1 TAAATCATCAATAAATTAATAA
* * *
9856253 TAAATCAAT-TATAATTTTATAA
1 TAAATC-ATCAATAAATTAATAA
*
9856275 TAAATCATCAATAACTTAATAA
1 TAAATCATCAATAAATTAATAA
* * **
9856297 TAAATCA-CTAAT-AATGATTGG
1 TAAATCATC-AATAAATTAATAA
* * *
9856318 TAAATCATTAATAACTTAAT-G
1 TAAATCATCAATAAATTAATAA
9856339 TCAAATCAATC-ATAAATTAATAA
1 T-AAATC-ATCAATAAATTAATAA
*
9856362 CAAATCATTC-ATAAATTA
1 TAAATCA-TCAATAAATTA
9856380 GTAGTACATC
Statistics
Matches: 97, Mismatches: 21, Indels: 18
0.71 0.15 0.13
Matches are distributed among these distances:
21 20 0.21
22 73 0.75
23 4 0.04
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.35
Consensus pattern (22 bp):
TAAATCATCAATAAATTAATAA
Found at i:9856866 original size:67 final size:65
Alignment explanation
Indices: 9856720--9856983 Score: 164
Period size: 67 Copynumber: 4.0 Consensus size: 65
9856710 AGTAATAACA
* * * * **
9856720 TAGTAGTTAATAATTGATAACTTATAATAAATCGATGATGATTTAATAGTAATTCAATTTTAATT
1 TAGTAGTTAATAATTGATAACTTATAATAAATCGATAATAACTTAATAGTAAATCAATGATAATT
** * * *
9856785 TAAAAG-TAATTAATTGATAATTTTAGTAGTAAA-CTATAAATAACTTAATAGTAAATCAATGAT
1 TAGTAGTTAA-TAATTGATAA-CTTA-TAATAAATCGAT-AATAACTTAATAGTAAATCAATGAT
9856848 AATT
62 AATT
* * ** *
9856852 TAGTAGTTAATAATTGAAAACTTAAAAATAAATTAAT-ATAACTTTAATAGTAATTAATC-ATCA
1 TAGTAGTTAATAATTGATAACTT-ATAATAAATCGATAATAAC-TTAATAGT-A--AATCAAT-G
*
9856915 ATAACT
60 ATAATT
* * * * *
9856921 TAATATTTAATCAA-TGATAACTTAATAGTAAATC-ATTGATAATTTAATA-TAAATCAATGATA
1 TAGTAGTTAAT-AATTGATAACTT-ATAATAAATCGA-TAATAACTTAATAGTAAATCAATGATA
9856983 A
63 A
9856984 CTTGATAATA
Statistics
Matches: 154, Mismatches: 29, Indels: 32
0.72 0.13 0.15
Matches are distributed among these distances:
64 3 0.02
65 27 0.18
66 23 0.15
67 47 0.31
68 7 0.05
69 41 0.27
70 6 0.04
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.39
Consensus pattern (65 bp):
TAGTAGTTAATAATTGATAACTTATAATAAATCGATAATAACTTAATAGTAAATCAATGATAATT
Found at i:9856975 original size:21 final size:22
Alignment explanation
Indices: 9856671--9856998 Score: 163
Period size: 22 Copynumber: 14.9 Consensus size: 22
9856661 TAAATGCATA
* *
9856671 ATAACATATTAGTAAATCAATG
1 ATAACTTAATAGTAAATCAATG
* * *
9856693 ATAAGTTAATA-AAAAT-AAGTA
1 ATAACTTAATAGTAAATCAA-TG
* * *
9856714 ATAACATAGTAGTTAAT-AATTG
1 ATAACTTAATAGTAAATCAA-TG
* *
9856736 ATAACTT-ATAATAAATCGATG
1 ATAACTTAATAGTAAATCAATG
* * * *
9856757 ATGATTTAATAGTAATTCAATT
1 ATAACTTAATAGTAAATCAATG
* * * *
9856779 TTAATTTAAAAGT-AATTAATTG
1 ATAACTTAATAGTAAATCAA-TG
* * * *
9856801 ATAATTTTAGTAGTAAA-CTATAA
1 ATAA-CTTAATAGTAAATCAAT-G
9856824 ATAACTTAATAGTAAATCAATG
1 ATAACTTAATAGTAAATCAATG
* * *
9856846 ATAATTTAGTAGTTAAT-AATTG
1 ATAACTTAATAGTAAATCAA-TG
* * * *
9856868 AAAACTTAAAAATAAATTAAT-
1 ATAACTTAATAGTAAATCAATG
*
9856889 ATAACTTTAATAGTAATTAATC-ATCA
1 ATAAC-TTAATAGT-A--AATCAAT-G
* *
9856915 ATAACTTAATATTTAATCAATG
1 ATAACTTAATAGTAAATCAATG
*
9856937 ATAACTTAATAGTAAATCATTG
1 ATAACTTAATAGTAAATCAATG
*
9856959 ATAATTTAATA-TAAATCAATG
1 ATAACTTAATAGTAAATCAATG
* *
9856980 ATAACTTGATAATAAATCA
1 ATAACTTAATAGTAAATCA
9856999 TGGTTCATTT
Statistics
Matches: 225, Mismatches: 62, Indels: 38
0.69 0.19 0.12
Matches are distributed among these distances:
20 2 0.01
21 54 0.24
22 130 0.58
23 20 0.09
24 4 0.02
25 10 0.04
26 5 0.02
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (22 bp):
ATAACTTAATAGTAAATCAATG
Found at i:9856981 original size:43 final size:43
Alignment explanation
Indices: 9856671--9856999 Score: 175
Period size: 43 Copynumber: 7.5 Consensus size: 43
9856661 TAAATGCATA
* * * * * *
9856671 ATAACATATTAGTAAATCAATGATAAGTTAATAAAAAT-AAGTA
1 ATAACTTAATAGTAAATCATTGATAACTTAATATAAATCAA-TG
* * * * *
9856714 ATAACATAGTAGTTAATAATTGATAACTT-ATAATAAATCGATG
1 ATAACTTAATAGTAAATCATTGATAACTTAAT-ATAAATCAATG
* * * * * * *
9856757 ATGATTTAATAGTAATTCAATT-TTAATTTAAAAGT-AATTAATTG
1 ATAACTTAATAGTAAATC-ATTGATAACTTAATA-TAAATCAA-TG
* * **
9856801 ATAATTTTAGTAGTAAA-CTATAAATAACTTAATAGTAAATCAATG
1 ATAA-CTTAATAGTAAATC-ATTGATAACTTAATA-TAAATCAATG
* * * * * * *
9856846 ATAATTTAGTAGTTAATAATTGAAAACTTAAAAATAAATTAAT-
1 ATAACTTAATAGTAAATCATTGATAACTT-AATATAAATCAATG
** *
9856889 ATAACTTTAATAGTAATTAATCATCAATAACTTAATATTTAATCAATG
1 ATAAC-TTAATAGT-A--AATCATTGATAACTTAATA-TAAATCAATG
*
9856937 ATAACTTAATAGTAAATCATTGATAATTTAATATAAATCAATG
1 ATAACTTAATAGTAAATCATTGATAACTTAATATAAATCAATG
* *
9856980 ATAACTTGATAATAAATCAT
1 ATAACTTAATAGTAAATCAT
9857000 GGTTCATTTT
Statistics
Matches: 217, Mismatches: 52, Indels: 34
0.72 0.17 0.11
Matches are distributed among these distances:
42 2 0.01
43 82 0.38
44 64 0.29
45 29 0.13
46 9 0.04
47 26 0.12
48 5 0.02
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (43 bp):
ATAACTTAATAGTAAATCATTGATAACTTAATATAAATCAATG
Found at i:9857078 original size:22 final size:22
Alignment explanation
Indices: 9857053--9857106 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
9857043 TTAAAACCTA
*
9857053 AGTAGTAAATTAATAATAACAT
1 AGTAATAAATTAATAATAACAT
9857075 AGTAATAAATGT-ATAATAACAT
1 AGTAATAAAT-TAATAATAACAT
*
9857097 AATAATAAAT
1 AGTAATAAAT
9857107 CATTGATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.31
Consensus pattern (22 bp):
AGTAATAAATTAATAATAACAT
Found at i:9857115 original size:22 final size:22
Alignment explanation
Indices: 9857066--9857152 Score: 79
Period size: 22 Copynumber: 4.0 Consensus size: 22
9857056 AGTAAATTAA
* *
9857066 TAATAACATAGTAATAAAT-GT
1 TAATAACATAATAATAAATCAT
9857087 ATAATAACATAATAATAAATCAT
1 -TAATAACATAATAATAAATCAT
* * * *
9857110 TGATAA-TTAAGATATAAATTAT
1 TAATAACATAATA-ATAAATCAT
*
9857132 TAATAACTTAATAATAAATCA
1 TAATAACATAATAATAAATCA
9857153 CTAAGAGTTC
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
21 4 0.08
22 43 0.81
23 6 0.11
ACGTcount: A:0.55, C:0.06, G:0.05, T:0.34
Consensus pattern (22 bp):
TAATAACATAATAATAAATCAT
Found at i:9857137 original size:11 final size:11
Alignment explanation
Indices: 9857058--9857150 Score: 59
Period size: 11 Copynumber: 8.5 Consensus size: 11
9857048 ACCTAAGTAG
9857058 TAAATTAATAA
1 TAAATTAATAA
*
9857069 TAACA-TAGTAA
1 TAA-ATTAATAA
9857080 TAAATGT-ATAA
1 TAAAT-TAATAA
9857091 TAACA-TAATAA
1 TAA-ATTAATAA
* * *
9857102 TAAATCATTGA
1 TAAATTAATAA
*
9857113 T-AATTAAGATA
1 TAAATTAATA-A
*
9857124 TAAATTATTAA
1 TAAATTAATAA
*
9857135 TAACTTAATAA
1 TAAATTAATAA
9857146 TAAAT
1 TAAAT
9857151 CACTAAGAGT
Statistics
Matches: 60, Mismatches: 14, Indels: 16
0.67 0.16 0.18
Matches are distributed among these distances:
10 7 0.12
11 44 0.73
12 9 0.15
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (11 bp):
TAAATTAATAA
Found at i:9857170 original size:44 final size:44
Alignment explanation
Indices: 9857079--9857172 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 44
9857069 TAACATAGTA
* * *
9857079 ATAAATGTATAATAACATAATAATAAATCATTGATAATTAAGAT
1 ATAAATGTATAATAACATAATAATAAATCACTAAGAATTAAGAT
* * * *
9857123 ATAAAT-TATTAATAACTTAATAATAAATCACTAAGAGTTCAGTT
1 ATAAATGTA-TAATAACATAATAATAAATCACTAAGAATTAAGAT
9857167 ATAAAT
1 ATAAAT
9857173 AAGTGATAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 2 0.05
44 40 0.95
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (44 bp):
ATAAATGTATAATAACATAATAATAAATCACTAAGAATTAAGAT
Found at i:9857220 original size:22 final size:22
Alignment explanation
Indices: 9857195--9857290 Score: 79
Period size: 22 Copynumber: 4.4 Consensus size: 22
9857185 AGTAACAAAT
*
9857195 TAGTTAATTATTGATAACTTTA
1 TAGTAAATTATTGATAACTTTA
* * *
9857217 TAGTAAATTATCGATAAATTAA
1 TAGTAAATTATTGATAACTTTA
*
9857239 TAATAAATTGATT-ATAACTTTA
1 TAGTAAATT-ATTGATAACTTTA
** * *
9857261 TAACAAATCATT-AGTAACTTAA
1 TAGTAAATTATTGA-TAACTTTA
9857283 TAGTAAAT
1 TAGTAAAT
9857291 CATAAACAAT
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
21 4 0.07
22 53 0.90
23 2 0.03
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (22 bp):
TAGTAAATTATTGATAACTTTA
Found at i:9857388 original size:21 final size:21
Alignment explanation
Indices: 9857341--9857380 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
9857331 AACTCAATAC
9857341 TAATTTAGTAATAAAAATTGA
1 TAATTTAGTAATAAAAATTGA
9857362 TAATTTAGTGAA-AAAAATT
1 TAATTTAGT-AATAAAAATT
9857381 CTAAATTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (21 bp):
TAATTTAGTAATAAAAATTGA
Found at i:9857831 original size:2 final size:2
Alignment explanation
Indices: 9857791--9857816 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9857781 CCAAAAACTA
9857791 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9857817 GAACAATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9862048 original size:14 final size:14
Alignment explanation
Indices: 9862009--9862050 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
9861999 TTTATTAAAG
9862009 TTATTTTAAA-TAT
1 TTATTTTAAATTAT
* *
9862022 ATAATTTATAATTAT
1 TTATTTTA-AATTAT
9862037 TTATTTTAAATTAT
1 TTATTTTAAATTAT
9862051 CAAATAAGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 6 0.26
14 8 0.35
15 9 0.39
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTATTTTAAATTAT
Found at i:9862328 original size:17 final size:19
Alignment explanation
Indices: 9862308--9862347 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
9862298 TATTTTTCCT
9862308 TATATTT-TATT-TTAAAA
1 TATATTTATATTATTAAAA
9862325 TATATTTAATATTATTAAAA
1 TATATTT-ATATTATTAAAA
9862345 TAT
1 TAT
9862348 TAATATTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
19 4 0.20
20 9 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TATATTTATATTATTAAAA
Found at i:9863240 original size:24 final size:24
Alignment explanation
Indices: 9863213--9863262 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
9863203 ATTATTATTA
* * *
9863213 TTATTATATTTGTGATTAAAAAAT
1 TTATTATAATTATAATTAAAAAAT
*
9863237 TTATTATAATTATAATTACAAAAT
1 TTATTATAATTATAATTAAAAAAT
9863261 TT
1 TT
9863263 TAATAAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (24 bp):
TTATTATAATTATAATTAAAAAAT
Found at i:9863961 original size:26 final size:26
Alignment explanation
Indices: 9863932--9863983 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
9863922 TCTCTGAGAG
9863932 ATGCTCTTTGAAGGTAGGCTTCAGCT
1 ATGCTCTTTGAAGGTAGGCTTCAGCT
* * *
9863958 ATGCTCTTTGAGGGTGGGTTTCAGCT
1 ATGCTCTTTGAAGGTAGGCTTCAGCT
9863984 CTATCTTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.15, C:0.17, G:0.31, T:0.37
Consensus pattern (26 bp):
ATGCTCTTTGAAGGTAGGCTTCAGCT
Found at i:9867101 original size:14 final size:14
Alignment explanation
Indices: 9867082--9867117 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
9867072 ATTATAATAT
*
9867082 AATTAAACAATCAA
1 AATTAAACAATAAA
*
9867096 AATTAAATAATAAA
1 AATTAAACAATAAA
9867110 AATTAAAC
1 AATTAAAC
9867118 TTAAATTTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (14 bp):
AATTAAACAATAAA
Found at i:9867608 original size:2 final size:2
Alignment explanation
Indices: 9867601--9867639 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9867591 AATTTCCCCA
9867601 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
9867640 GCAAGAATGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:9878092 original size:41 final size:40
Alignment explanation
Indices: 9878060--9878147 Score: 115
Period size: 40 Copynumber: 2.1 Consensus size: 40
9878050 TTTTAGATAT
* *
9878060 TTTTTATTTAAAAA-ATTTGATACTTTAATTTTTAAAAATA
1 TTTTTA-TTAAAAATAATTGATACTTTAATTTTTTAAAATA
9878100 TTTTTATTAAAAATAATTGATACTTTAATTTTTTCTTAAAATA
1 TTTTTATTAAAAATAATTGATACTTTAA--TTTT-TTAAAATA
9878143 TTTTT
1 TTTTT
9878148 TAAAATATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
39 7 0.17
40 19 0.45
42 4 0.10
43 12 0.29
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (40 bp):
TTTTTATTAAAAATAATTGATACTTTAATTTTTTAAAATA
Found at i:9878152 original size:12 final size:12
Alignment explanation
Indices: 9878130--9878160 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
9878120 TACTTTAATT
9878130 TTTTCTTAAAATA
1 TTTT-TTAAAATA
9878143 TTTTTTAAAATA
1 TTTTTTAAAATA
9878155 TTTTTT
1 TTTTTT
9878161 GTTATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTTTTAAAATA
Found at i:9881282 original size:3 final size:3
Alignment explanation
Indices: 9881274--9881302 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9881264 ACTTTTATAC
9881274 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9881303 ATGATTGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9881494 original size:16 final size:16
Alignment explanation
Indices: 9881469--9881499 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9881459 ATAATTAAAT
9881469 AATTTATTTATTTTTA
1 AATTTATTTATTTTTA
*
9881485 AATTTTTTTATTTTT
1 AATTTATTTATTTTT
9881500 TACAAAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
AATTTATTTATTTTTA
Found at i:9882246 original size:26 final size:24
Alignment explanation
Indices: 9882199--9882244 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
9882189 ACTTACTACG
9882199 TTTTTTAATTTTAATTTTTCTCAA
1 TTTTTTAATTTTAATTTTTCTCAA
9882223 TTTTTTAATATTT-ATTTTTCTC
1 TTTTTTAAT-TTTAATTTTTCTC
9882245 TCTCTTTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTTTAATTTTAATTTTTCTCAA
Found at i:9885598 original size:41 final size:41
Alignment explanation
Indices: 9885512--9885600 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 41
9885502 TGATGAACAG
* *
9885512 GTTGTAAGTTCTAGTTGTTGGTAAAGTATAAGTTCATTTGG
1 GTTGTAAGTTCTAGTTGTTGGTAAAGTATAAGTTCATATGA
* * *
9885553 GTTGTAAGTTCTTGTTGTTGGT-ATGTTATATGTTCAGTAT-A
1 GTTGTAAGTTCTAGTTGTTGGTAAAG-TATAAGTTCA-TATGA
9885594 GTTGTAA
1 GTTGTAA
9885601 CTTTTTTCTA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
40 2 0.05
41 37 0.90
42 2 0.05
ACGTcount: A:0.22, C:0.04, G:0.26, T:0.47
Consensus pattern (41 bp):
GTTGTAAGTTCTAGTTGTTGGTAAAGTATAAGTTCATATGA
Found at i:9889085 original size:41 final size:41
Alignment explanation
Indices: 9889028--9889109 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
9889018 ACAAACAAAC
*
9889028 TATGCTCCAACATTGCCTTTTTATGCACCCATAAAGGCAAT
1 TATGCTCCAACATTGCCTTTTCATGCACCCATAAAGGCAAT
*
9889069 TATGCTCCAACATTGCCTTTTCATGCATCCATAAAGGCAAT
1 TATGCTCCAACATTGCCTTTTCATGCACCCATAAAGGCAAT
9889110 CATTCCTCTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (41 bp):
TATGCTCCAACATTGCCTTTTCATGCACCCATAAAGGCAAT
Found at i:9889467 original size:40 final size:40
Alignment explanation
Indices: 9889407--9889482 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
9889397 ATGTCTGTGT
*
9889407 GAGAGAGAGAGAGAGGAAGAGATGAACATGATTTGTTTGA
1 GAGAGAGAGAGAGAGAAAGAGATGAACATGATTTGTTTGA
*
9889447 GAGATAGAGAGAGAGAAAGAGATGAACATGATTTGT
1 GAGAGAGAGAGAGAGAAAGAGATGAACATGATTTGT
9889483 GTAACATTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.42, C:0.03, G:0.36, T:0.20
Consensus pattern (40 bp):
GAGAGAGAGAGAGAGAAAGAGATGAACATGATTTGTTTGA
Found at i:9893309 original size:23 final size:23
Alignment explanation
Indices: 9893283--9893349 Score: 57
Period size: 23 Copynumber: 2.8 Consensus size: 23
9893273 ATATATTCAG
9893283 TAAATAATTTTTTTTAAA-TAAT
1 TAAATAATTTTTTTTAAATTAAT
* *
9893305 ATAAATTA-TTATTTTAAATTAAT
1 -TAAATAATTTTTTTTAAATTAAT
9893328 TACAATTAATATATTTTTTAAA
1 TA-AA-TAAT-T-TTTTTTAAA
9893350 AAAGATATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
22 11 0.32
23 12 0.35
24 2 0.06
26 1 0.03
27 8 0.24
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (23 bp):
TAAATAATTTTTTTTAAATTAAT
Found at i:9899527 original size:30 final size:31
Alignment explanation
Indices: 9899466--9899542 Score: 104
Period size: 30 Copynumber: 2.5 Consensus size: 31
9899456 AATGTCGTGA
9899466 ATGATATTTAAATTATAATAAAATATTTAAT
1 ATGATATTTAAATTATAATAAAATATTTAAT
* *
9899497 ATGATATTTTAATTGTTAA-AAAAT-TTTAAT
1 ATGATATTTAAATT-ATAATAAAATATTTAAT
*
9899527 ATGATATTTGAATTAT
1 ATGATATTTAAATTAT
9899543 GAATTTATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 1 0.02
30 19 0.46
31 18 0.44
32 3 0.07
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (31 bp):
ATGATATTTAAATTATAATAAAATATTTAAT
Found at i:9913533 original size:24 final size:24
Alignment explanation
Indices: 9913488--9913533 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
9913478 AAAAGCAAAG
* *
9913488 AAAAAAAAAAACTATAGGATATAC
1 AAAAAAAAAAACTAAAGAATATAC
* *
9913512 AAAAAAAAGAAGTAAAGAATAT
1 AAAAAAAAAAACTAAAGAATAT
9913534 TAAAATTTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.70, C:0.04, G:0.11, T:0.15
Consensus pattern (24 bp):
AAAAAAAAAAACTAAAGAATATAC
Found at i:9913687 original size:26 final size:25
Alignment explanation
Indices: 9913658--9913708 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
9913648 ATTATTTTTT
9913658 TAAT-TAAATAAAATTTGTAGAAAATA
1 TAATATAAAT-AAATTTG-AGAAAATA
* *
9913684 TAATATAGATAAATTTGATAAAATA
1 TAATATAAATAAATTTGAGAAAATA
9913709 ATTTCTATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 11 0.50
27 4 0.18
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (25 bp):
TAATATAAATAAATTTGAGAAAATA
Found at i:9914175 original size:26 final size:27
Alignment explanation
Indices: 9914123--9914175 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
9914113 TTTTTAATAA
* * * *
9914123 TTTATTTAATTCTATATTTATATATTT
1 TTTATTAAATTATATATTTAAAAATTT
9914150 TTTATTAAATTAT-TATTTAAAAATTT
1 TTTATTAAATTATATATTTAAAAATTT
9914176 AATTAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (27 bp):
TTTATTAAATTATATATTTAAAAATTT
Found at i:9914488 original size:16 final size:16
Alignment explanation
Indices: 9914447--9914489 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
9914437 ATATAAAAGA
* *
9914447 ATATATTTAATTATTT
1 ATATATTTTATAATTT
* *
9914463 ATTTAATTTATAATTT
1 ATATATTTTATAATTT
9914479 ATATATTTTAT
1 ATATATTTTAT
9914490 TAATAAAAAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATATATTTTATAATTT
Found at i:9914495 original size:20 final size:20
Alignment explanation
Indices: 9914457--9914495 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9914447 ATATATTTAA
* *
9914457 TTATTTATTTAATTTATAAT
1 TTATATATTTAATTAATAAT
*
9914477 TTATATATTTTATTAATAA
1 TTATATATTTAATTAATAA
9914496 AAATATTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATATATTTAATTAATAAT
Found at i:9914545 original size:28 final size:29
Alignment explanation
Indices: 9914470--9914546 Score: 70
Period size: 29 Copynumber: 2.6 Consensus size: 29
9914460 TTTATTTAAT
**
9914470 TTATAATTTATATATTTTATTAATAAAAATA
1 TTAT-ATTTATATATAAT-TTAATAAAAATA
*
9914501 TTAT-TTAATACCT-TAATTTAATAAAAA-A
1 TTATATTTATA--TATAATTTAATAAAAATA
9914529 TTATATTTATATATAATT
1 TTATATTTATATATAATT
9914547 AAGTTATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
27 1 0.03
28 10 0.26
29 20 0.53
30 2 0.05
31 5 0.13
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.51
Consensus pattern (29 bp):
TTATATTTATATATAATTTAATAAAAATA
Found at i:9917461 original size:9 final size:8
Alignment explanation
Indices: 9917445--9917471 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
9917435 GCTAGATTCT
9917445 ATAAAAAA
1 ATAAAAAA
9917453 ATAAAAAA
1 ATAAAAAA
9917461 ATAAAAAA
1 ATAAAAAA
9917469 ATA
1 ATA
9917472 GTACAAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
ATAAAAAA
Found at i:9920680 original size:30 final size:30
Alignment explanation
Indices: 9920646--9920703 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
9920636 AACAGGCTGT
9920646 GACTGAGAAATGGCTTCAAGTGAAGTAGTA
1 GACTGAGAAATGGCTTCAAGTGAAGTAGTA
* *
9920676 GACTGAGCATTGGCTTCAAGTGAAGTAG
1 GACTGAGAAATGGCTTCAAGTGAAGTAG
9920704 GAACTTCAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.31, T:0.24
Consensus pattern (30 bp):
GACTGAGAAATGGCTTCAAGTGAAGTAGTA
Found at i:9929446 original size:37 final size:38
Alignment explanation
Indices: 9929396--9929476 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 38
9929386 TTTAGAACAA
*
9929396 ATTTTTTAAGTAATAATATTAAGTAAATATATTTTA-G
1 ATTTTATAAGTAATAATATTAAGTAAATATATTTTACG
*
9929433 ATTTTATATGTAATAATATTAAGTAAATATATTTTACG
1 ATTTTATAAGTAATAATATTAAGTAAATATATTTTACG
9929471 -TTTTAT
1 ATTTTAT
9929477 TTTAAATTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
37 40 0.98
38 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.51
Consensus pattern (38 bp):
ATTTTATAAGTAATAATATTAAGTAAATATATTTTACG
Found at i:9929772 original size:71 final size:72
Alignment explanation
Indices: 9929498--9930043 Score: 303
Period size: 72 Copynumber: 7.7 Consensus size: 72
9929488 TATGGGTGAC
** * * * * * *
9929498 AACATCCACTACATTTTTTATCTTAAAAAATATGATCTTTGTTTAAAATTTCACAATTTTGAAAA
1 AACATCCACTATGTTTTTTAT-TTTAAAAACATGGTATTTG-TTAAAATTTTAGAATTTTGAAAA
* *
9929563 TATAGTTTT
64 TAAAATTTT
*** ** * *
9929572 AACATATGCTACATTTTTTATTTTAAAAACATGATTTTTGTTAAAATTTTAGAATTTTGCAAAAT
1 AACATCCACTATGTTTTTTATTTTAAAAACATGGTATTTGTTAAAATTTTAGAATTTTG-AAAAT
* *
9929637 AAAGTTTC
65 AAAATTTT
* * * * *
9929645 AACAT--A-TAATGCATTTTTATCTTAAAAATAGGGCATTTGTTAAAATTTTAGAATTTTGAAAA
1 AACATCCACT-ATG-TTTTTTATTTTAAAAACATGGTATTTGTTAAAATTTTAGAATTTTGAAAA
9929707 TAAAATTTT
64 TAAAATTTT
* *
9929716 AACATCCACTTTGTTTTTTATTTTTAAAACATGGTATTTGTTAAAATTTTA-AATTTTGAAAATA
1 AACATCCACTATGTTTTTTATTTTAAAAACATGGTATTTGTTAAAATTTTAGAATTTTGAAAATA
*
9929780 TAATTTT
66 AAATTTT
* * *** * * * * *
9929787 AGCATCCATTACACTTTTTATCTTAAAAATGCAAT--T-TTTATTAAAATTCTAAAAATTTGAAA
1 AACATCCACTATGTTTTTTATTTTAAAAA--C-ATGGTATTTGTTAAAATTTTAGAATTTTGAAA
* *
9929849 GTAAAATTTC
63 ATAAAATTTT
* * *** * * *
9929859 AACA---AC---GTTTTTTATCTCAAAAACA-CAAATTTTGTTAAAATTTCATAATTTTCAAAAT
1 AACATCCACTATGTTTTTTATTTTAAAAACATGGTA-TTTGTTAAAATTTTAGAATTTTGAAAAT
*
9929917 AAAATTTC
65 AAAATTTT
* * ** * * * *
9929925 AACATCTACTATGTTTTTTATCTTAAAAATGTGATATTTGTTAAAATTCTAGAA-TTTCAAAATT
1 AACATCCACTATGTTTTTTATTTTAAAAACATGGTATTTGTTAAAATTTTAGAATTTTGAAAATA
* *
9929989 TAGTTTT
66 AAATTTT
* * * ** * * * *
9929996 AATATCTATTACATTTTTTATTTTAAAAACGTTGTACTTGTTGAAATT
1 AACATCCACTATGTTTTTTATTTTAAAAACATGGTATTTGTTAAAATT
9930044 ATAAATAATA
Statistics
Matches: 372, Mismatches: 79, Indels: 45
0.75 0.16 0.09
Matches are distributed among these distances:
63 1 0.00
64 1 0.00
66 47 0.13
69 3 0.01
70 1 0.00
71 121 0.33
72 139 0.37
73 38 0.10
74 21 0.06
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.45
Consensus pattern (72 bp):
AACATCCACTATGTTTTTTATTTTAAAAACATGGTATTTGTTAAAATTTTAGAATTTTGAAAATA
AAATTTT
Found at i:9929854 original size:143 final size:142
Alignment explanation
Indices: 9929585--9929975 Score: 340
Period size: 143 Copynumber: 2.8 Consensus size: 142
9929575 ATATGCTACA
*
9929585 TTTTTTATTTTAAAAACATGATTTTTGTTAAAATTTTAGAATTTTGCAAAATAAAGTTTCAACAT
1 TTTTTTATTTTAAAAACATGATATTTGTTAAAATTTTAGAATTTTGCAAAATAAAGTTTCAACAT
* * * * * *
9929650 ATAATGCATTTTTATCTTAAAAATAGGGCATTTGTTAAAATTTTAGAATTTTGAAAATAAAATTT
66 ACAATACATTTTTATCTTAAAAAT--GGCATTTATTAAAATTCTAAAAATTTGAAAATAAAATTT
*
9929715 TAACATCCACTTTG
129 CAACATCCACTTTG
* * * *
9929729 TTTTTTATTTTTAAAACATGGTATTTGTTAAAATTTTA-AATTTTG-AAAATATAA-TTTTAGCA
1 TTTTTTATTTTAAAAACATGATATTTGTTAAAATTTTAGAATTTTGCAAAATA-AAGTTTCAACA
* * *
9929791 TCCATTACACTTTTTATCTTAAAAAT-GCAATTTTTATTAAAATTCTAAAAATTTGAAAGTAAAA
65 TACAATACA-TTTTTATCTTAAAAATGGC-A--TTTATTAAAATTCTAAAAATTTGAAAATAAAA
9929855 TTTCAACA---AC---G
126 TTTCAACATCCACTTTG
* * * * * * *
9929866 TTTTTTATCTCAAAAACA-CAAATTTTGTTAAAATTTCATAATTTT-CAAAATAAAATTTCAACA
1 TTTTTTATTTTAAAAACATGATA-TTTGTTAAAATTTTAGAATTTTGCAAAATAAAGTTTCAACA
* ** * *
9929929 T-CTACTATGTTTTTTATCTTAAAAATGTGATATTTGTTAAAATTCTA
65 TAC-AATA-CATTTTTATCTTAAAAATG-G-CATTTATTAAAATTCTA
9929976 GAATTTCAAA
Statistics
Matches: 204, Mismatches: 29, Indels: 34
0.76 0.11 0.13
Matches are distributed among these distances:
136 1 0.00
137 33 0.16
138 52 0.25
140 6 0.03
141 1 0.00
142 17 0.08
143 59 0.29
144 35 0.17
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (142 bp):
TTTTTTATTTTAAAAACATGATATTTGTTAAAATTTTAGAATTTTGCAAAATAAAGTTTCAACAT
ACAATACATTTTTATCTTAAAAATGGCATTTATTAAAATTCTAAAAATTTGAAAATAAAATTTCA
ACATCCACTTTG
Found at i:9929881 original size:66 final size:66
Alignment explanation
Indices: 9929801--9929928 Score: 159
Period size: 66 Copynumber: 1.9 Consensus size: 66
9929791 TCCATTACAC
* ** * * *
9929801 TTTTTATCTTAAAAATGCAATTTTTATTAAAA-TTCTAAAAATTTGAAAGTAAAATTTCAACAAC
1 TTTTTATCTCAAAAACACAAATTTTATTAAAATTTC-AAAAATTTCAAAATAAAATTTCAACAAC
9929865 GT
65 GT
* * *
9929867 TTTTTATCTCAAAAACACAAATTTTGTTAAAATTTCATAATTTTCAAAATAAAATTTCAACA
1 TTTTTATCTCAAAAACACAAATTTTATTAAAATTTCAAAAATTTCAAAATAAAATTTCAACA
9929929 TCTACTATGT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
66 49 0.94
67 3 0.06
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.41
Consensus pattern (66 bp):
TTTTTATCTCAAAAACACAAATTTTATTAAAATTTCAAAAATTTCAAAATAAAATTTCAACAACG
T
Found at i:9930645 original size:7 final size:7
Alignment explanation
Indices: 9930633--9930674 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
9930623 ATAAAATTTT
9930633 AAAAAAC
1 AAAAAAC
9930640 AAAAAAC
1 AAAAAAC
* *
9930647 AGAAAAT
1 AAAAAAC
9930654 AAAAAA-
1 AAAAAAC
*
9930660 TAAAAAC
1 AAAAAAC
9930667 AAAAAAC
1 AAAAAAC
9930674 A
1 A
9930675 TTTTCTTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.83, C:0.10, G:0.02, T:0.05
Consensus pattern (7 bp):
AAAAAAC
Found at i:9933818 original size:3 final size:3
Alignment explanation
Indices: 9933812--9933841 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
9933802 TTAGTTACTT
9933812 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9933842 GTTATTAATT
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):
ATA
Found at i:9942987 original size:29 final size:29
Alignment explanation
Indices: 9942949--9943006 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
9942939 GTATATGAGA
* *
9942949 TTCTTTGATCACAGGGATCATAGGTGATT
1 TTCTTTGATCACAGGAATCATAGATGATT
9942978 TTCTTTGATCACAGGAATCATAGATGATT
1 TTCTTTGATCACAGGAATCATAGATGATT
9943007 GGATATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.38
Consensus pattern (29 bp):
TTCTTTGATCACAGGAATCATAGATGATT
Found at i:9948718 original size:43 final size:43
Alignment explanation
Indices: 9948655--9948741 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
9948645 CACAAATGAG
* *
9948655 GTCAGTATGATGACATATACTTCTTAGGGTATAATTAAAAAAA
1 GTCAGTAGGATGACAAATACTTCTTAGGGTATAATTAAAAAAA
9948698 GTCAGTAGGATGACAAATACTTCTTAGGGTATAATTAAAAAAA
1 GTCAGTAGGATGACAAATACTTCTTAGGGTATAATTAAAAAAA
9948741 G
1 G
9948742 AAATGAGACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (43 bp):
GTCAGTAGGATGACAAATACTTCTTAGGGTATAATTAAAAAAA
Found at i:9952965 original size:16 final size:16
Alignment explanation
Indices: 9952933--9952963 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9952923 TCCTGAAAAG
9952933 ATTATTAAATATATTT
1 ATTATTAAATATATTT
9952949 ATTATTAAA-ATATTT
1 ATTATTAAATATATTT
9952964 TAGATACTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTATTAAATATATTT
Found at i:9954424 original size:31 final size:29
Alignment explanation
Indices: 9954389--9954465 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
9954379 TTATAAACTA
**
9954389 AAAGATTAAAATATGATAGTTTTAAATAATT
1 AAAGATTAAAATAAAAT-GTTTTAAAT-ATT
* *
9954420 AAAGATTCAAATAAAATTTTTTAAATATT
1 AAAGATTAAAATAAAATGTTTTAAATATT
* *
9954449 AAAAATTAAATTAAAAT
1 AAAGATTAAAATAAAAT
9954466 TTAAAAATTA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 17 0.44
30 8 0.21
31 14 0.36
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (29 bp):
AAAGATTAAAATAAAATGTTTTAAATATT
Found at i:9954450 original size:29 final size:30
Alignment explanation
Indices: 9954408--9954467 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
9954398 AATATGATAG
*
9954408 TTTTAAATAATTAAAGATTCAAA-TAAAATT
1 TTTTAAATAATTAAAAATT-AAATTAAAATT
9954438 TTTTAAAT-ATTAAAAATTAAATTAAAATT
1 TTTTAAATAATTAAAAATTAAATTAAAATT
9954467 T
1 T
9954468 AAAAATTACG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 3 0.11
29 17 0.61
30 8 0.29
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (30 bp):
TTTTAAATAATTAAAAATTAAATTAAAATT
Found at i:9967962 original size:58 final size:60
Alignment explanation
Indices: 9967897--9968016 Score: 142
Period size: 58 Copynumber: 2.0 Consensus size: 60
9967887 GAAAATGATA
*
9967897 TTAATAAAAAATATAAAAATA-ATT-TA-ATTTATAATTTTAATAAAAATTA-TATATA-AAT
1 TTAAT-AAAAATA-AAAAATATATTATATATTT-TAATATTAATAAAAATTACTATATATAAT
* * *
9967955 TTAATAAAATTAAAAAATATATTATATATTTTTATATTAATATAAATTACTATATATAAT
1 TTAATAAAAATAAAAAATATATTATATATTTTAATATTAATAAAAATTACTATATATAAT
9968015 TT
1 TT
9968017 TTATATAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
56 7 0.13
57 9 0.17
58 22 0.42
59 10 0.19
60 5 0.09
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (60 bp):
TTAATAAAAATAAAAAATATATTATATATTTTAATATTAATAAAAATTACTATATATAAT
Found at i:9968031 original size:33 final size:32
Alignment explanation
Indices: 9967940--9968037 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 32
9967930 ATTTTAATAA
* *
9967940 AAATTATATATA-AA-TTTAATA-AAAT-TAA
1 AAATTATATATATAATTTTTATATAAATATAT
* *
9967968 AAAATATAT-TATATATTTTTATAT-TA-ATAT
1 AAATTATATATATA-ATTTTTATATAAATATAT
9967998 AAATTACTATATATAATTTTTATATAAATATAT
1 AAATTA-TATATATAATTTTTATATAAATATAT
9968031 AAATTAT
1 AAATTAT
9968038 TACTTTTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
27 2 0.04
28 9 0.16
29 1 0.02
30 14 0.25
31 13 0.24
32 6 0.11
33 10 0.18
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (32 bp):
AAATTATATATATAATTTTTATATAAATATAT
Found at i:9968210 original size:16 final size:16
Alignment explanation
Indices: 9968157--9968213 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
9968147 ATTTCATGAT
*
9968157 TTTTAATATA-AAAAA
1 TTTTAAAATATAAAAA
* *
9968172 TATATAATATATAATATAA
1 T-TTTAAAATATAA-A-AA
9968191 TTTTAAAATATAAAAA
1 TTTTAAAATATAAAAA
9968207 TTTTAAA
1 TTTTAAA
9968214 TGTTAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
15 1 0.03
16 17 0.49
17 3 0.09
18 11 0.31
19 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTTAAAATATAAAAA
Found at i:9976329 original size:18 final size:20
Alignment explanation
Indices: 9976308--9976344 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
9976298 TTACTATAAA
9976308 AAAT-AATAAAA-ATATTTT
1 AAATAAATAAAATATATTTT
9976326 AAATAAATAAAATATATTT
1 AAATAAATAAAATATATTT
9976345 ATTAAAAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATAAATAAAATATATTTT
Found at i:9980013 original size:80 final size:80
Alignment explanation
Indices: 9979880--9980042 Score: 272
Period size: 80 Copynumber: 2.0 Consensus size: 80
9979870 ATATCTATAA
* * *
9979880 CTTGTATTCTTTTTGATAAGCAGCGGCATTGAAAGCAAACCTCAAATGGGGCTAGCTGTTCTATT
1 CTTGTATTCTTTGTGACAAGCAGCGGCATTGAAAGCAAACCTCAAATGGGGCTAGCTGTTCCATT
9979945 TCCATTGAATGGCTG
66 TCCATTGAATGGCTG
* * *
9979960 CTTGTGTTCTTTGTGACAAGCAGTGGCATTGAAAGCAAATCTCAAATGGGGCTAGCTGTTCCATT
1 CTTGTATTCTTTGTGACAAGCAGCGGCATTGAAAGCAAACCTCAAATGGGGCTAGCTGTTCCATT
9980025 TCCATTGAATGGCTG
66 TCCATTGAATGGCTG
9980040 CTT
1 CTT
9980043 AATATGATTG
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (80 bp):
CTTGTATTCTTTGTGACAAGCAGCGGCATTGAAAGCAAACCTCAAATGGGGCTAGCTGTTCCATT
TCCATTGAATGGCTG
Found at i:9980207 original size:60 final size:60
Alignment explanation
Indices: 9980114--9980230 Score: 216
Period size: 60 Copynumber: 1.9 Consensus size: 60
9980104 GTTTCGTAAA
*
9980114 ACTCTATTTCTATTTTGGAAAGTCTCCTTAGATGAAAATTGTTGCATGGCCATATTTCTT
1 ACTCTATTTCTATTTTGGAAAGTCTCCTTAGATGAAAATTGTTGCATGACCATATTTCTT
*
9980174 ACTCTATTTCTATTTTGGAAAGTCTCCTTAGATGACAATTGTTGCATGACCATATTT
1 ACTCTATTTCTATTTTGGAAAGTCTCCTTAGATGAAAATTGTTGCATGACCATATTT
9980231 ACTAGTAACT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.43
Consensus pattern (60 bp):
ACTCTATTTCTATTTTGGAAAGTCTCCTTAGATGAAAATTGTTGCATGACCATATTTCTT
Found at i:9991304 original size:16 final size:16
Alignment explanation
Indices: 9991283--9991315 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
9991273 AATATGTAAA
9991283 AAAAATTAAAAATATT
1 AAAAATTAAAAATATT
9991299 AAAAATTAAAAATATT
1 AAAAATTAAAAATATT
9991315 A
1 A
9991316 TTTATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAAATTAAAAATATT
Found at i:9992141 original size:22 final size:23
Alignment explanation
Indices: 9992094--9992141 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
9992084 AATTCACTGA
*
9992094 TAATAATATATAAAATCAATACAT
1 TAATAATATATAAAAT-AATAAAT
*
9992118 TAATAATATATTAAAT-ATAAAT
1 TAATAATATATAAAATAATAAAT
9992140 TA
1 TA
9992142 TTTATAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
24 15 0.68
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (23 bp):
TAATAATATATAAAATAATAAAT
Found at i:9992975 original size:187 final size:186
Alignment explanation
Indices: 9992660--9993025 Score: 563
Period size: 187 Copynumber: 2.0 Consensus size: 186
9992650 ACTCATCCAG
* *
9992660 CTCTCAGATTAGCCTACTTGCCACGGTTCATACCTTTGTAAGGTATTATCTGCTTTGATCCCCTG
1 CTCTCAGATTAGCCTACTTACCACGGTTCACACCTTTGTAAGGTATTATCTGCTTTGATCCCCTG
* * * * *
9992725 ATCTCATGATTTTGTCCTACAAAAGACGTCTTACAATAAAGAAATAGTTTGAACCCTTATATACC
66 ATCTCATGATTTTGTCCTACAAAAAACGTCTCACAAGAAAAAAATAGTGTGAACCCTTATATACC
*
9992790 CCAATGA-CTTTCTTTTCATATTTGATGTGAGATTCATGACTCCTCCTTAGATTCGA
131 CAAATGACCTTTCTTTT-ATATTTGATGTGAGATTCATGACTCCTCCTTAGATTCGA
* * * * *
9992846 CTCTCAGATTAGCTTACTTATCACGGTTCACACCTTTGTAAGGTATTGTCTGCTTTGGTCCCTTT
1 CTCTCAGATTAGCCTACTTACCACGGTTCACACCTTTGTAAGGTATTATCTGCTTTGATCCC-CT
* *
9992911 GATCTCATGGTTTTGTCCTACAAAAAATGTCTCACAAGAAAAAAATAGTGTGAACCCTTATATAC
65 GATCTCATGATTTTGTCCTACAAAAAACGTCTCACAAGAAAAAAATAGTGTGAACCCTTATATAC
*
9992976 CCAAATGACCTTTCTTTTATATTTGATGTGAGATTCATGACTCTTCCTTA
130 CCAAATGACCTTTCTTTTATATTTGATGTGAGATTCATGACTCCTCCTTA
9993026 AATCCGTGAT
Statistics
Matches: 162, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
186 56 0.35
187 97 0.60
188 9 0.06
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (186 bp):
CTCTCAGATTAGCCTACTTACCACGGTTCACACCTTTGTAAGGTATTATCTGCTTTGATCCCCTG
ATCTCATGATTTTGTCCTACAAAAAACGTCTCACAAGAAAAAAATAGTGTGAACCCTTATATACC
CAAATGACCTTTCTTTTATATTTGATGTGAGATTCATGACTCCTCCTTAGATTCGA
Found at i:9995171 original size:2 final size:2
Alignment explanation
Indices: 9995164--9995198 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
9995154 CCCCCACTCA
9995164 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9995199 GTAAAAATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10004677 original size:42 final size:40
Alignment explanation
Indices: 10004629--10004724 Score: 99
Period size: 42 Copynumber: 2.3 Consensus size: 40
10004619 GAAATTTAAT
10004629 AATAAAATAATCAA-GAAAAGTCAGTAAA-ATAAA-TAAATAAA
1 AATAAAATAA--AATGAAAAGTCA--AAATATAAACTAAATAAA
*
10004670 AACTAAAAATAAAATGAAAATTCAAAATATAAACTAAATAAA
1 AA-T-AAAATAAAATGAAAAGTCAAAATATAAACTAAATAAA
10004712 AATAAAATCAAAA
1 AATAAAAT-AAAA
10004725 AACAAAATGA
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
40 8 0.17
41 14 0.29
42 19 0.40
43 7 0.15
ACGTcount: A:0.70, C:0.06, G:0.04, T:0.20
Consensus pattern (40 bp):
AATAAAATAAAATGAAAAGTCAAAATATAAACTAAATAAA
Found at i:10004698 original size:35 final size:35
Alignment explanation
Indices: 10004659--10004744 Score: 86
Period size: 35 Copynumber: 2.4 Consensus size: 35
10004649 TCAGTAAAAT
* * **
10004659 AAATAAATAAAAACTAAAAATAAAATGAAAATTCA
1 AAATAAATAAAAAATAAAAATAAAATCAAAAAACA
10004694 AAAT--ATAAACTAAATAAAAATAAAATCAAAAAACA
1 AAATAAATAAA--AAATAAAAATAAAATCAAAAAACA
10004729 AAATGAAATGAAAAAA
1 AAAT-AAAT-AAAAAA
10004745 AGAAAACTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
33 5 0.12
35 28 0.68
37 3 0.07
38 2 0.05
39 3 0.07
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.17
Consensus pattern (35 bp):
AAATAAATAAAAAATAAAAATAAAATCAAAAAACA
Found at i:10004743 original size:18 final size:18
Alignment explanation
Indices: 10004675--10004744 Score: 54
Period size: 18 Copynumber: 3.9 Consensus size: 18
10004665 ATAAAAACTA
* **
10004675 AAAATAAAATGAAAATTC
1 AAAATAAAATCAAAAAAC
* *
10004693 AAAATATAAA-CTAAATA-
1 AAAATA-AAATCAAAAAAC
10004710 AAAATAAAATCAAAAAAC
1 AAAATAAAATCAAAAAAC
* *
10004728 AAAATGAAATGAAAAAA
1 AAAATAAAATCAAAAAA
10004745 AGAAAACTTG
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
16 3 0.07
17 11 0.26
18 25 0.60
19 3 0.07
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.17
Consensus pattern (18 bp):
AAAATAAAATCAAAAAAC
Found at i:10005039 original size:37 final size:37
Alignment explanation
Indices: 10004982--10005056 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
10004972 CCACCGGTTT
*
10004982 TTGGCATATATTTGTCTCATTTTACTCATAACAAGAA
1 TTGGCATATATCTGTCTCATTTTACTCATAACAAGAA
*
10005019 TTGGCATATATCTGTTTCATTTTACTCATAACAAGAA
1 TTGGCATATATCTGTCTCATTTTACTCATAACAAGAA
10005056 T
1 T
10005057 AGGTTATGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (37 bp):
TTGGCATATATCTGTCTCATTTTACTCATAACAAGAA
Found at i:10008525 original size:3 final size:3
Alignment explanation
Indices: 10008517--10008551 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
10008507 CACTTCTCAA
10008517 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10008552 AATTTTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10008624 original size:29 final size:29
Alignment explanation
Indices: 10008575--10008711 Score: 86
Period size: 30 Copynumber: 4.6 Consensus size: 29
10008565 ATCATTTTAT
* *
10008575 TTAAATAAATCTTTATACTTTTATTATAC-
1 TTAAATAAATCTTAATACTTTAATT-TACA
10008604 TTAAATAAATCATTAAT-CTTTAATTTACA
1 TTAAATAAATC-TTAATACTTTAATTTACA
* * *
10008633 TATAAATAAAATTTTAA-ATTTTAATTTATA
1 T-TAAAT-AAATCTTAATACTTTAATTTACA
* *
10008663 TTTAAACAAATTCTTAAT-TTTTAATTTGTA-A
1 -TTAAATAAA-TCTTAATACTTTAA-TT-TACA
*
10008694 CTAAATAAATTCTTAATA
1 TTAAATAAA-TCTTAATA
10008712 TAAATTAATA
Statistics
Matches: 88, Mismatches: 9, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
28 3 0.03
29 22 0.25
30 53 0.60
31 8 0.09
32 2 0.02
ACGTcount: A:0.44, C:0.07, G:0.01, T:0.48
Consensus pattern (29 bp):
TTAAATAAATCTTAATACTTTAATTTACA
Found at i:10008641 original size:30 final size:28
Alignment explanation
Indices: 10008575--10008689 Score: 90
Period size: 30 Copynumber: 3.9 Consensus size: 28
10008565 ATCATTTTAT
* *
10008575 TTAAATAAATCTTTATACTTTTATTATAC-
1 TTAAATAAATCTTAAT-CTTTAATT-TACA
10008604 TTAAATAAATCATTAATCTTTAATTTACA
1 TTAAATAAATC-TTAATCTTTAATTTACA
* *
10008633 TATAAATAAAATTTTAAAT-TTTAATTTATA
1 T-TAAAT-AAATCTT-AATCTTTAATTTACA
* *
10008663 TTTAAACAAATTCTTAATTTTTAATTT
1 -TTAAATAAA-TCTTAATCTTTAATTT
10008690 GTAACTAAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 15
0.77 0.06 0.16
Matches are distributed among these distances:
28 3 0.04
29 25 0.35
30 36 0.50
31 8 0.11
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (28 bp):
TTAAATAAATCTTAATCTTTAATTTACA
Found at i:10008704 original size:30 final size:29
Alignment explanation
Indices: 10008605--10008710 Score: 99
Period size: 30 Copynumber: 3.6 Consensus size: 29
10008595 TTATTATACT
* *
10008605 TAAATAAA-TCATTAATCTTTAATTTACATA
1 TAAATAAATTC-TTAATTTTTAATTTATA-A
* *
10008635 TAAATAAAATT-TTAAATTTTAATTTATATT
1 TAAAT-AAATTCTTAATTTTTAATTTATA-A
* *
10008665 TAAACAAATTCTTAATTTTTAATTTGTAA
1 TAAATAAATTCTTAATTTTTAATTTATAA
10008694 CTAAATAAATTCTTAAT
1 -TAAATAAATTCTTAAT
10008711 ATAAATTAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
29 5 0.08
30 54 0.86
31 3 0.05
32 1 0.02
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.47
Consensus pattern (29 bp):
TAAATAAATTCTTAATTTTTAATTTATAA
Found at i:10009668 original size:22 final size:21
Alignment explanation
Indices: 10009620--10009674 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
10009610 TGCAATTAAG
*
10009620 ATTTCAAGAATTTCTTTAAAA
1 ATTTCAAGAATTTCTATAAAA
*
10009641 AATTCAAGAATTTCTATAAAA
1 ATTTCAAGAATTTCTATAAAA
10009662 ATTTTCAAGAATT
1 A-TTTCAAGAATT
10009675 AAATTTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 20 0.67
22 10 0.33
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.40
Consensus pattern (21 bp):
ATTTCAAGAATTTCTATAAAA
Found at i:10013051 original size:25 final size:25
Alignment explanation
Indices: 10013015--10013070 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
10013005 ATTTTTTATT
10013015 AATTTTTTTAATCGTAATTACAGTA
1 AATTTTTTTAATCGTAATTACAGTA
* * *
10013040 ATTTTTTTTAATTGTAGTTACAGTA
1 AATTTTTTTAATCGTAATTACAGTA
10013065 AATTTT
1 AATTTT
10013071 ATTATTGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.54
Consensus pattern (25 bp):
AATTTTTTTAATCGTAATTACAGTA
Found at i:10013077 original size:24 final size:25
Alignment explanation
Indices: 10013015--10013078 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
10013005 ATTTTTTATT
* * *
10013015 AATTTTTTTAATCGTAATTACAGTA
1 AATTTTATTAATTGTAGTTACAGTA
* *
10013040 ATTTTTTTTAATTGTAGTTACAGTA
1 AATTTTATTAATTGTAGTTACAGTA
10013065 AATTTTATT-ATTGT
1 AATTTTATTAATTGT
10013079 TTTTAATCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 5 0.15
25 29 0.85
ACGTcount: A:0.31, C:0.05, G:0.09, T:0.55
Consensus pattern (25 bp):
AATTTTATTAATTGTAGTTACAGTA
Found at i:10015122 original size:2 final size:2
Alignment explanation
Indices: 10015117--10015172 Score: 51
Period size: 2 Copynumber: 28.5 Consensus size: 2
10015107 ATATACACAC
* * * * * *
10015117 AT AT AT A- AA AT AT AT AT AC AT AC AC AT AC AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10015158 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
10015173 ATAGCTTTTG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.38
Consensus pattern (2 bp):
AT
Found at i:10017666 original size:24 final size:25
Alignment explanation
Indices: 10017622--10017669 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
10017612 TGATTATTAT
10017622 TTTTCAAAACACTCTTGTTTTTTTA
1 TTTTCAAAACACTCTTGTTTTTTTA
* *
10017647 TTTTCAAAAC-TTCTTTTTTTTTT
1 TTTTCAAAACACTCTTGTTTTTTT
10017670 CAAAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.21, C:0.15, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTCAAAACACTCTTGTTTTTTTA
Found at i:10018079 original size:4 final size:4
Alignment explanation
Indices: 10018066--10018116 Score: 70
Period size: 4 Copynumber: 12.8 Consensus size: 4
10018056 TCCCCTATTC
10018066 TCTT TC-T TCTT TCTT TCTT TCTT TCTT TCTTT TCCTT TC-T TCTT TCTT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TC-TT T-CTT TCTT TCTT TCTT
10018114 TCT
1 TCT
10018117 CCTTTTCATA
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
3 6 0.14
4 30 0.70
5 6 0.14
6 1 0.02
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
TCTT
Found at i:10018463 original size:36 final size:36
Alignment explanation
Indices: 10018421--10018492 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
10018411 GATTTTAAGG
* *
10018421 GACTAGTCAGTGGAAATAAAAGCACGGGTTAAGGGT
1 GACTAGTCAGTGGAAACAAAAGCACGGGTGAAGGGT
*
10018457 GACTAGTCAGTGGAAACAAAAGCATGGGTGAAGGGT
1 GACTAGTCAGTGGAAACAAAAGCACGGGTGAAGGGT
10018493 ACGATTAGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.36, C:0.11, G:0.35, T:0.18
Consensus pattern (36 bp):
GACTAGTCAGTGGAAACAAAAGCACGGGTGAAGGGT
Found at i:10019708 original size:36 final size:36
Alignment explanation
Indices: 10019668--10019849 Score: 104
Period size: 36 Copynumber: 5.1 Consensus size: 36
10019658 AAGTCAAGTG
10019668 ATAAAGAACGACTAGGACAACACTGCAAGTCAAAAA
1 ATAAAGAACGACTAGGACAACACTGCAAGTCAAAAA
* * * *
10019704 ATAAA-AATGACTGGGATAACA-T-CATAAGTAAAAAA
1 ATAAAGAACGACTAGGACAACACTGC--AAGTCAAAAA
* * ** * * * *
10019739 ATAAAGAACAACCAAAACAATACTGTAAGTTAAGAA
1 ATAAAGAACGACTAGGACAACACTGCAAGTCAAAAA
* * * * * * *
10019775 ATAAATAATCAAC-CGTGACAACACTACGAGTCGAATA
1 ATAAAGAA-CGACTAG-GACAACACTGCAAGTCAAAAA
*
10019812 ATAAAGAACGACT-GAGACAATACTGCAAGTCAAAAA
1 ATAAAGAACGACTAG-GACAACACTGCAAGTCAAAAA
10019848 AT
1 AT
10019850 TGAAAACGAT
Statistics
Matches: 103, Mismatches: 35, Indels: 16
0.67 0.23 0.10
Matches are distributed among these distances:
33 1 0.01
34 1 0.01
35 27 0.26
36 50 0.49
37 24 0.23
ACGTcount: A:0.53, C:0.16, G:0.14, T:0.16
Consensus pattern (36 bp):
ATAAAGAACGACTAGGACAACACTGCAAGTCAAAAA
Found at i:10020364 original size:34 final size:32
Alignment explanation
Indices: 10020318--10020626 Score: 188
Period size: 33 Copynumber: 9.5 Consensus size: 32
10020308 TGGTGCTAGC
* *
10020318 TAAATTAGGCTTAAATCTTTCTTTAAGGGCTAGA
1 TAAACTAGGCTTAAATCTTTC-TT-AGGGCCAGA
* * * *
10020352 TAAACTATGCTTAAAACTTTATTGAGGGCCACA
1 TAAACTAGGCTTAAATCTTTCTT-AGGGCCAGA
10020385 TAAACTAGGCTTAAGAT-TTTCTTAGGAGCCAGA
1 TAAACTAGGCTTAA-ATCTTTCTTAGG-GCCAGA
* *
10020418 TAAACTAGGCTTAAAAT-TTTTTTA-TGCCAGA
1 TAAACTAGGCTT-AAATCTTTCTTAGGGCCAGA
* * * * *
10020449 T-AA-TTGGACTTAAATCTTTTTTTAGAGCTAAA
1 TAAACTAGG-CTTAAATC-TTTCTTAGGGCCAGA
* *
10020481 TAAACTGGGCTTAAGAT-TTCCTT-GGAGCCAGA
1 TAAACTAGGCTTAA-ATCTTTCTTAGG-GCCAGA
* * * *
10020513 TAAA-TTGGACTTAAATCTTTCTTCGAGGCTAAA
1 TAAACTAGG-CTTAAATCTTTCTTAG-GGCCAGA
* *
10020546 TAAACTGGGCTTAAAAC-TTCATTGAGGGCCAGA
1 TAAACTAGGCTTAAATCTTTC-TT-AGGGCCAGA
* *
10020579 TAAACTAGGCTTAAGAT-TTTCTTGGGAGCTAGA
1 TAAACTAGGCTTAA-ATCTTTCTTAGG-GCCAGA
*
10020612 TAAACTGGGCTTAAA
1 TAAACTAGGCTTAAA
10020627 ATTTTTATAT
Statistics
Matches: 217, Mismatches: 37, Indels: 44
0.73 0.12 0.15
Matches are distributed among these distances:
29 7 0.03
30 5 0.02
31 20 0.09
32 36 0.17
33 115 0.53
34 34 0.16
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (32 bp):
TAAACTAGGCTTAAATCTTTCTTAGGGCCAGA
Found at i:10020430 original size:66 final size:63
Alignment explanation
Indices: 10020318--10020630 Score: 260
Period size: 66 Copynumber: 4.8 Consensus size: 63
10020308 TGGTGCTAGC
**
10020318 TAAATTAGGCTTAAATCTTTCTTTAAGG-GCTAGATAAACTATGCTTAAAACTTTATTGAGGGCC
1 TAAA-TAGGCTTAAAT-TTTC-TT-AGGAGCTAGATAAACTGGGCTTAAAA-TTTATTGAGGGCC
*
10020382 ACA
61 AGA
* * * * *
10020385 TAAACTAGGCTTAAGATTTTCTTAGGAGCCAGATAAACTAGGCTTAAAATTTTTTTA-TGCCAGA
1 TAAA-TAGGCTTAA-ATTTTCTTAGGAGCTAGATAAACTGGGCTTAAAATTTATTGAGGGCCAGA
* * * * * *
10020449 T-AATTGGACTTAAATCTTTTTTTA-GAGCTAAATAAACTGGGCTTAAGATTTCCTTG-GAGCCA
1 TAAATAGG-CTTAAA--TTTTCTTAGGAGCTAGATAAACTGGGCTTAAAATTT-ATTGAGGGCCA
10020511 GA
62 GA
* * * *
10020513 TAAATTGGACTTAAATCTTTCTT-CGAGGCTAAATAAACTGGGCTTAAAACTTCATTGAGGGCCA
1 TAAATAGG-CTTAAAT-TTTCTTAGGA-GCTAGATAAACTGGGCTTAAAA-TTTATTGAGGGCCA
10020577 GA
62 GA
*
10020579 TAAACTAGGCTTAAGATTTTCTTGGGAGCTAGATAAACTGGGCTTAAAATTT
1 TAAA-TAGGCTTAA-ATTTTCTTAGGAGCTAGATAAACTGGGCTTAAAATTT
10020631 TTATATCAGA
Statistics
Matches: 205, Mismatches: 25, Indels: 34
0.78 0.09 0.13
Matches are distributed among these distances:
62 4 0.02
63 31 0.15
64 29 0.14
65 48 0.23
66 67 0.33
67 24 0.12
68 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (63 bp):
TAAATAGGCTTAAATTTTCTTAGGAGCTAGATAAACTGGGCTTAAAATTTATTGAGGGCCAGA
Found at i:10020528 original size:65 final size:65
Alignment explanation
Indices: 10020417--10020821 Score: 305
Period size: 65 Copynumber: 6.3 Consensus size: 65
10020407 TAGGAGCCAG
* **
10020417 ATAAACTAGGCTTAAAATTT--TTTTATGCCAGAT-AATTGGACTTAAATCTTTTTTTAGA-GCT
1 ATAAACTGGGCTTAAAATTTCATTGGA-GCCAGATAAATTGGACTTAAAT-TTTTTTTAGAGGCT
10020478 AA
64 AA
* * * * *
10020480 ATAAACTGGGCTTAAGATTTCCTTGGAGCCAGATAAATTGGACTTAAATCTTTCTTCGAGGCTAA
1 ATAAACTGGGCTTAAAATTTCATTGGAGCCAGATAAATTGGACTTAAATTTTTTTTAGAGGCTAA
* * * * **
10020545 ATAAACTGGGCTTAAAACTTCATTGAGGGCCAGATAAACTAGG-CTTAAGATTTTCTTGGGA-GC
1 ATAAACTGGGCTTAAAATTTCATTG-GAGCCAGATAAA-TTGGACTTAA-ATTTTTTTTAGAGGC
*
10020608 TAG
63 TAA
** * * * * *
10020611 ATAAACTGGGCTTAAAATTT--TTATA-TCAGATAAATTGCACTAAAATTTTTTTT--AGGTTAG
1 ATAAACTGGGCTTAAAATTTCATTGGAGCCAGATAAATTGGACTTAAATTTTTTTTAGAGGCTAA
* * * * *
10020671 ATAAATTGGGCTTAAAATTTTCATCAGGAGCTAGATAAACTGGACTTAAAATTTTTATTAGAGGC
1 ATAAACTGGGCTTAAAA-TTTCAT-TGGAGCCAGATAAATTGGACTT-AAATTTTTTTTAGAGGC
*
10020736 CAA
63 TAA
* * * * * * * * *
10020739 ATAAACTGGGCTTAAATTTTCACTGAGAGCCAGCTAAGTTAG-CTTAAACTTTCTTGA-AGGCCA
1 ATAAACTGGGCTTAAAATTTCATTG-GAGCCAGATAAATTGGACTTAAATTTTTTTTAGAGGCTA
10020802 A
65 A
10020803 ATAAACTGGGCTTAAAATT
1 ATAAACTGGGCTTAAAATT
10020822 AGGTGCTAGG
Statistics
Matches: 268, Mismatches: 56, Indels: 35
0.75 0.16 0.10
Matches are distributed among these distances:
59 1 0.00
60 20 0.07
61 12 0.04
62 12 0.04
63 19 0.07
64 42 0.16
65 64 0.24
66 53 0.20
67 26 0.10
68 19 0.07
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.34
Consensus pattern (65 bp):
ATAAACTGGGCTTAAAATTTCATTGGAGCCAGATAAATTGGACTTAAATTTTTTTTAGAGGCTAA
Found at i:10020615 original size:194 final size:193
Alignment explanation
Indices: 10020318--10020754 Score: 560
Period size: 194 Copynumber: 2.2 Consensus size: 193
10020308 TGGTGCTAGC
* ** *
10020318 TAAATTAGG-CTTAAATCTTTCTTTA-AGGGCTAGATAAACTATGCTTAAAACTTTATTGAGGGC
1 TAAATT-GGACTTAAATCTTTC-TTAGA-GGCTAAATAAACTGGGCTTAAAACTTCATTGAGGGC
*
10020381 CACATAAACTAGGCTTAAGATTTTCTTAGGAGCCAGATAAACTAGGCTTAAAATTTTTTTATGCC
63 CACATAAACTAGGCTTAAGATTTTCTTAGGAGCCAGATAAACTAGGCTTAAAATTTTTATAT--C
* * * * *
10020446 AGAT-AATTGGACTTAAATCTTTTTTTAGAGCTAAATAAACTGGGCTTAAGA-TTTCCT-TGGAG
126 AGATAAATTGCACTAAAAT-TTTTTTTAG-GCTAAATAAACTGGGCTTAAAATTTTCATCAGGAG
10020508 CCAGA
189 CCAGA
* *
10020513 TAAATTGGACTTAAATCTTTCTTCGAGGCTAAATAAACTGGGCTTAAAACTTCATTGAGGGCCAG
1 TAAATTGGACTTAAATCTTTCTTAGAGGCTAAATAAACTGGGCTTAAAACTTCATTGAGGGCCAC
* * *
10020578 ATAAACTAGGCTTAAGATTTTCTTGGGAGCTAGATAAACTGGGCTTAAAATTTTTATATCAGATA
66 ATAAACTAGGCTTAAGATTTTCTTAGGAGCCAGATAAACTAGGCTTAAAATTTTTATATCAGATA
* * * *
10020643 AATTGCACTAAAATTTTTTTTAGGTTAGATAAATTGGGCTTAAAATTTTCATCAGGAGCTAGA
131 AATTGCACTAAAATTTTTTTTAGGCTAAATAAACTGGGCTTAAAATTTTCATCAGGAGCCAGA
* * * *
10020706 TAAACTGGACTTAAAATTTTTATTAGAGGCCAAATAAACTGGGCTTAAA
1 TAAATTGGACTT-AAATCTTTCTTAGAGGCTAAATAAACTGGGCTTAAA
10020755 TTTTCACTGA
Statistics
Matches: 212, Mismatches: 24, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
191 18 0.08
192 19 0.09
193 31 0.15
194 125 0.59
195 19 0.09
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (193 bp):
TAAATTGGACTTAAATCTTTCTTAGAGGCTAAATAAACTGGGCTTAAAACTTCATTGAGGGCCAC
ATAAACTAGGCTTAAGATTTTCTTAGGAGCCAGATAAACTAGGCTTAAAATTTTTATATCAGATA
AATTGCACTAAAATTTTTTTTAGGCTAAATAAACTGGGCTTAAAATTTTCATCAGGAGCCAGA
Found at i:10020631 original size:33 final size:32
Alignment explanation
Indices: 10020349--10020821 Score: 218
Period size: 33 Copynumber: 14.7 Consensus size: 32
10020339 TTTAAGGGCT
** * * *
10020349 AGATAAACTATGCTTAAAACTTTATTGAGGGCC
1 AGATAAACTGGGCTTAAAATTTTCTTG-GAGCC
* * *
10020382 ACATAAACTAGGCTTAAGATTTTCTTAGGAGCC
1 AGATAAACTGGGCTTAAAATTTTCTT-GGAGCC
* *
10020415 AGATAAACTAGGCTTAAAATTTT-TT-TATGCC
1 AGATAAACTGGGCTTAAAATTTTCTTGGA-GCC
* * * * * *
10020446 AGAT-AATTGGACTTAAATCTTTTTTTAGAGCT
1 AGATAAACTGGGCTTAAA-ATTTTCTTGGAGCC
* * *
10020478 AAATAAACTGGGCTTAAGATTTCCTTGGAGCC
1 AGATAAACTGGGCTTAAAATTTTCTTGGAGCC
* * * *
10020510 AGATAAATTGGACTT-AAATCTTTCTTCGAGGCT
1 AGATAAACTGGGCTTAAAAT-TTTCTTGGA-GCC
* * *
10020543 AAATAAACTGGGCTTAAAA-CTTCATTGAGGGCC
1 AGATAAACTGGGCTTAAAATTTTC-TTG-GAGCC
* * *
10020576 AGATAAACTAGGCTTAAGATTTTCTTGGGAGCT
1 AGATAAACTGGGCTTAAAATTTTCTT-GGAGCC
*
10020609 AGATAAACTGGGCTTAAAATTTT-TAT--A-TC
1 AGATAAACTGGGCTTAAAATTTTCT-TGGAGCC
* ** ** **
10020638 AGATAAATTGCAC-TAAAATTTT-TTTTAGGTT
1 AGATAAACTGGGCTTAAAATTTTCTTGGA-GCC
* * *
10020669 AGATAAATTGGGCTTAAAATTTTCATCAGGAGCT
1 AGATAAACTGGGCTTAAAATTTTC-T-TGGAGCC
* * *
10020703 AGATAAACTGGACTTAAAATTTTTATTAGAGGCC
1 AGATAAACTGGGCTTAAAA-TTTTCTTGGA-GCC
* *
10020737 AAATAAACTGGGCTT-AAATTTTCACTGAGAGCC
1 AGATAAACTGGGCTTAAAATTTTC-TTG-GAGCC
* * ** * *
10020770 AGCT-AAGTTAGCTT-AAACTTTCTTGAAGGCC
1 AGATAAACTGGGCTTAAAATTTTCTTGGA-GCC
*
10020801 AAATAAACTGGGCTTAAAATT
1 AGATAAACTGGGCTTAAAATT
10020822 AGGTGCTAGG
Statistics
Matches: 328, Mismatches: 83, Indels: 58
0.70 0.18 0.12
Matches are distributed among these distances:
27 1 0.00
28 10 0.03
29 11 0.03
30 13 0.04
31 33 0.10
32 75 0.23
33 133 0.41
34 47 0.14
35 5 0.02
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (32 bp):
AGATAAACTGGGCTTAAAATTTTCTTGGAGCC
Found at i:10020905 original size:33 final size:34
Alignment explanation
Indices: 10020825--10020916 Score: 123
Period size: 33 Copynumber: 2.7 Consensus size: 34
10020815 TAAAATTAGG
* *
10020825 TGCTAGGTAAACTGGGCTTAAAATCTTTTTTTTTTA
1 TGCTAGGTAAACTAGGCTTAAAATC--TTTTTTTGA
* *
10020861 TGCCAGTTAAACTAGGCTTAAAATC-TTTTTTGA
1 TGCTAGGTAAACTAGGCTTAAAATCTTTTTTTGA
10020894 TGCTAGGTAAACTAGGCTTAAAA
1 TGCTAGGTAAACTAGGCTTAAAA
10020917 CTCCATTGGC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
33 28 0.56
36 22 0.44
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.39
Consensus pattern (34 bp):
TGCTAGGTAAACTAGGCTTAAAATCTTTTTTTGA
Found at i:10021008 original size:32 final size:31
Alignment explanation
Indices: 10020905--10021008 Score: 75
Period size: 32 Copynumber: 3.3 Consensus size: 31
10020895 GCTAGGTAAA
* * *
10020905 CTAGGCTTAAAACTCCATTGGCATCAAATAAT
1 CTAGGCTTAAAACTTCATT-GCGTCAGATAAT
* *** * *
10020937 CTAGGTTTAACTTTTCATTG-GTACCAGCTAAA
1 CTAGGCTTAAAACTTCATTGCGT--CAGATAAT
*
10020969 CTGGGCTTAAAACTTCATTGACGTCAGATAAT
1 CTAGGCTTAAAACTTCATTG-CGTCAGATAAT
10021001 CTAGGCTT
1 CTAGGCTT
10021009 GCGTCCAGCT
Statistics
Matches: 51, Mismatches: 17, Indels: 8
0.67 0.22 0.11
Matches are distributed among these distances:
30 1 0.02
31 1 0.02
32 47 0.92
34 2 0.04
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (31 bp):
CTAGGCTTAAAACTTCATTGCGTCAGATAAT
Found at i:10021051 original size:52 final size:53
Alignment explanation
Indices: 10020960--10021060 Score: 141
Period size: 52 Copynumber: 1.9 Consensus size: 53
10020950 TTCATTGGTA
* *
10020960 CCAGCTAAACTGGGCTTAAAACTTCATTGACGTCAGATAATCTAGGCTTGCGT
1 CCAGCTAAACTGCGCTTAAAACTTCATTGACGCCAGATAATCTAGGCTTGCGT
* * * *
10021013 CCAGCTATACTGCGCTTAAATC-TCATTGATGCCAGATAATCTGGGCTT
1 CCAGCTAAACTGCGCTTAAAACTTCATTGACGCCAGATAATCTAGGCTT
10021061 AAAACTTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
52 23 0.55
53 19 0.45
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (53 bp):
CCAGCTAAACTGCGCTTAAAACTTCATTGACGCCAGATAATCTAGGCTTGCGT
Found at i:10021061 original size:31 final size:32
Alignment explanation
Indices: 10021026--10021096 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
10021016 GCTATACTGC
* *
10021026 GCTTAAATC-TCATTGATGCCAGATAATCTGG
1 GCTTAAATCTTCATTGATGCCAGATAAACTAG
* * *
10021057 GCTTAAAACTTTATTGATGCCAGTTAAACTAG
1 GCTTAAATCTTCATTGATGCCAGATAAACTAG
10021089 GCTTAAAT
1 GCTTAAAT
10021097 TTTTGTAGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 8 0.24
32 25 0.76
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (32 bp):
GCTTAAATCTTCATTGATGCCAGATAAACTAG
Found at i:10023105 original size:13 final size:13
Alignment explanation
Indices: 10023084--10023129 Score: 53
Period size: 12 Copynumber: 3.7 Consensus size: 13
10023074 AAACTCAAAA
*
10023084 CTTTCTTTTTTCT
1 CTTTTTTTTTTCT
10023097 C-TTTTTTTTTCT
1 CTTTTTTTTTTCT
10023109 -TTTTTTTTTT-T
1 CTTTTTTTTTTCT
10023120 GCTTTTTTTT
1 -CTTTTTTTT
10023130 AGTGTTTCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
11 1 0.03
12 19 0.66
13 9 0.31
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.85
Consensus pattern (13 bp):
CTTTTTTTTTTCT
Found at i:10023106 original size:12 final size:12
Alignment explanation
Indices: 10023084--10023129 Score: 58
Period size: 13 Copynumber: 3.8 Consensus size: 12
10023074 AAACTCAAAA
10023084 CTTTCTTTTTTCT
1 CTTT-TTTTTTCT
10023097 CTTTTTTTTTCT
1 CTTTTTTTTTCT
*
10023109 -TTTTTTTTTTT
1 CTTTTTTTTTCT
10023120 GCTTTTTTTT
1 -CTTTTTTTT
10023130 AGTGTTTCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 10 0.33
12 8 0.27
13 12 0.40
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.85
Consensus pattern (12 bp):
CTTTTTTTTTCT
Found at i:10023124 original size:24 final size:23
Alignment explanation
Indices: 10023084--10023129 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
10023074 AAACTCAAAA
10023084 CTTTCTTTTTTCTCTTTTTTTTT
1 CTTTCTTTTTTCTCTTTTTTTTT
* *
10023107 CTTTTTTTTTTTTGCTTTTTTTT
1 CTTTCTTTTTTCT-CTTTTTTTT
10023130 AGTGTTTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.85
Consensus pattern (23 bp):
CTTTCTTTTTTCTCTTTTTTTTT
Found at i:10025027 original size:23 final size:22
Alignment explanation
Indices: 10025000--10025099 Score: 64
Period size: 22 Copynumber: 4.5 Consensus size: 22
10024990 ATTCGAGATA
10025000 TTAAGGTTTTGGATTTTAGGGTT
1 TTAA-GTTTTGGATTTTAGGGTT
*
10025023 TTAAGCTTT-GAGTTTTAAGGG-T
1 TTAAGTTTTGGA-TTTT-AGGGTT
* * *
10025045 TTAAGATCTGGATTTT--GATT
1 TTAAGTTTTGGATTTTAGGGTT
* *
10025065 TTAAAGTTTTGAAATTTAGGGTT
1 TT-AAGTTTTGGATTTTAGGGTT
10025088 TTGAAGGTTTTG
1 TT-AA-GTTTTG
10025100 AGGGTTTAGA
Statistics
Matches: 59, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
19 1 0.02
20 3 0.05
21 12 0.20
22 20 0.34
23 17 0.29
24 6 0.10
ACGTcount: A:0.23, C:0.02, G:0.26, T:0.49
Consensus pattern (22 bp):
TTAAGTTTTGGATTTTAGGGTT
Found at i:10025612 original size:21 final size:21
Alignment explanation
Indices: 10025559--10025614 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
10025549 TCGTGGAAAA
10025559 AATTACTTTATATTTTAAATTTT
1 AATT-CTTTA-ATTTTAAATTTT
** * *
10025582 AATTAATTAATTTTTATTTTT
1 AATTCTTTAATTTTAAATTTT
10025603 AATTCTTTAATT
1 AATTCTTTAATT
10025615 CCCAAACATC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 20 0.74
22 3 0.11
23 4 0.15
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (21 bp):
AATTCTTTAATTTTAAATTTT
Found at i:10026098 original size:22 final size:22
Alignment explanation
Indices: 10026047--10026103 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 22
10026037 ATCATTATTA
*
10026047 TTTTTCAAAACATATTCGTTTTTT
1 TTTTTCAAAAC--ATTCCTTTTTT
10026071 TATTTTCAAAAC-TTCCTTTTTAT
1 T-TTTTCAAAACATTCCTTTTT-T
*
10026094 TTTTTAAAAA
1 TTTTTCAAAA
10026104 ATTTTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 16 0.55
23 2 0.07
24 1 0.03
25 10 0.34
ACGTcount: A:0.30, C:0.12, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTTTCAAAACATTCCTTTTTT
Found at i:10026427 original size:37 final size:36
Alignment explanation
Indices: 10026350--10026427 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
10026340 TTTTAAAACA
**
10026350 ATTTTTTTCAAAAACCTTTTAAGCTTTTTTTATTTT
1 ATTTTTTTCAAAAACCTTTTAAGCTTTTTTTATTGC
* * * *
10026386 ATTTTTTTTAAAAAGCCTTTTCAGGTTTTTTTCTTGC
1 ATTTTTTTCAAAAA-CCTTTTAAGCTTTTTTTATTGC
10026423 ATTTT
1 ATTTT
10026428 CAAGAACTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.60
Consensus pattern (36 bp):
ATTTTTTTCAAAAACCTTTTAAGCTTTTTTTATTGC
Found at i:10026489 original size:21 final size:21
Alignment explanation
Indices: 10026460--10026517 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
10026450 CTTTTTTAAT
*
10026460 CTTTTTCTTCTTCTTTTC-CC
1 CTTTCTCTTCTTCTTTTCTCC
**
10026480 CTATTCTCTTTCTT-TTTTCTTT
1 CT-TTCTC-TTCTTCTTTTCTCC
10026502 CTTTCTCTTCTTCTTT
1 CTTTCTCTTCTTCTTT
10026518 CTTTTTTCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 7 0.23
21 17 0.55
22 7 0.23
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (21 bp):
CTTTCTCTTCTTCTTTTCTCC
Done.