Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 111 of 129
Found at i:18618641 original size:18 final size:18
Alignment explanation
Indices: 18618599--18618639 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
18618589 ATTTTTTTTA
18618599 TTTTTTATTTATTTTCAT
1 TTTTTTATTTATTTTCAT
*
18618617 TTATTTATTTATTTT-AT
1 TTTTTTATTTATTTTCAT
18618634 TTTTTT
1 TTTTTT
18618640 TAAATAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTTATTTATTTTCAT
Found at i:18618777 original size:59 final size:58
Alignment explanation
Indices: 18618653--18619115 Score: 409
Period size: 59 Copynumber: 7.7 Consensus size: 58
18618643 ATAAAATTAA
* * * *
18618653 AAAAAAATATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCT-TAAGAAT-AATTTAT-
1 AAAAAAAT-T-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAA-ATTAAATTT-TC
** *
18618712 AAAAAAATTTTTTTTGAAAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAAATTTC
1 AAAAAAA-TTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATT-AAATTTTC
* * *
18618772 AAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTTCT-TAAGAATAAATTTTC
1 AAAAAAATTTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTCGAA-ATTAAATTTTC
* * * *
18618830 AAAAAAAGGTTGTTTTTTTTTAGGGAAAGTTGAAAATATCAATTTTTCTTGAGAA-TAAATTTTC
1 AAAAAAA------TTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGA-AATTAAATTTTC
* *
18618894 AAAAAAGATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTCC
1 AAAAAA-ATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAA-TTTTC
* * * ** * **
18618954 AAAAAAATATTTTTG-GGAAAAAGTTGAAACTATCAATTTTCCTTAAAAATAAATTTAA
1 AAAAAAATTTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAATTTTC
* *
18619012 AAAAAAAGTTTTTTTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTCGAAATTAAAGTTTTC
1 AAAAAAA----TTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAA-TTTTC
* * *
18619075 AAAAAAAATATTTTGGGGAAAAGTTGAAAGTATCAATTTTT
1 AAAAAAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTT
18619116 TCTTGTACAA
Statistics
Matches: 335, Mismatches: 43, Indels: 52
0.78 0.10 0.12
Matches are distributed among these distances:
58 63 0.19
59 150 0.45
60 22 0.07
62 37 0.11
63 12 0.04
64 44 0.13
65 6 0.02
66 1 0.00
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (58 bp):
AAAAAAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAATTTTC
Found at i:18618919 original size:182 final size:179
Alignment explanation
Indices: 18618641--18619115 Score: 629
Period size: 182 Copynumber: 2.6 Consensus size: 179
18618631 TATTTTTTTT
* * * *
18618641 AAATAAAATTAAAAAAAAA--TATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTAAGAA
1 AAATAAATTTAAAAAAAAAGTTTTTTTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAGAA
** *
18618704 T-AATTTAT-AAAAAAATTTTTTTTGAAAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAA
66 TAAATTT-TCAAAAAAA-TTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATT-AAA
* *
18618767 ATTT-CAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTAA
128 ATTTCCAAAAAAATATTTTTAGGAAAAAGTTGAAACTATCAATTTTCCTTAA
* * * * * * * *
18618818 GAATAAATTTTCAAAAAAAGGTTGTTTTTTTTTAGGGAAAGTTGAAAATATCAATTTTTCTTGAG
1 AAATAAA-TTTAAAAAAAAAGTT-TTTTTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAG
18618883 AATAAATTTTCAAAAAAGATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAA
64 AATAAATTTTCAAAAAA-ATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAA
* *
18618948 GTTTCCAAAAAAATATTTTTGGGAAAAAGTTGAAACTATCAATTTTCCTTAA
128 ATTTCCAAAAAAATATTTTTAGGAAAAAGTTGAAACTATCAATTTTCCTTAA
*
18619000 AAATAAATTTAAAAAAAAAGTTTTTTTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTCGA-AA
1 AAATAAATTTAAAAAAAAAGTTTTTTTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAGAA
* * *
18619064 TTAAAGTTTTCAAAAAAAATATTTTGGGGAAAAGTTGAAAGTATCAATTTTT
66 -TAAA-TTTTCAAAAAAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTT
18619116 TCTTGTACAA
Statistics
Matches: 257, Mismatches: 31, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
177 6 0.02
178 9 0.04
179 2 0.01
180 71 0.28
181 67 0.26
182 101 0.39
183 1 0.00
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (179 bp):
AAATAAATTTAAAAAAAAAGTTTTTTTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAGAA
TAAATTTTCAAAAAAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAATT
TCCAAAAAAATATTTTTAGGAAAAAGTTGAAACTATCAATTTTCCTTAA
Found at i:18619070 original size:121 final size:118
Alignment explanation
Indices: 18618641--18619114 Score: 380
Period size: 121 Copynumber: 3.9 Consensus size: 118
18618631 TATTTTTTTT
* * *
18618641 AAATAAAATTAAAAAAAA-ATATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTAAGAA-
1 AAATAAATTTAAAAAAAAGAT-T-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAA-AAT
** * * ** * * *
18618704 T-AA-TTTATAAAAAAATTTTTTTTGAAAAAAAGTTGAAAGTATCAATTTTTCTCGAA
63 TAAAGTTTCCAAAAAAA-ATATTTTGGGAAAAAGTTGAAAATATCAATTTTCCT-TAA
* * * *
18618760 ATTAA-AAATTT-CAAAAAA-ATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTTCTTAAGAA
1 A--AATAAATTTAAAAAAAAGATTTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTCAA-AA
* * * * *
18618821 -TAAA-TTTTCAAAAAAAGGTTGTTTTTTTTTAGGG--AAAGTTGAAAATATCAATTTTTCTTGA
62 TTAAAGTTTCCAAAAAAA-------ATATTTT-GGGAAAAAGTTGAAAATATCAATTTTCCTTAA
* ** *
18618882 GAATAAATTTTCAAAAAAGATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAA
1 AAATAAATTTAAAAAAAAGATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAA
*
18618947 AGTTTCC-AAAAAAATATTTTTGGGAAAAAGTTGAAACTATCAATTTTCCTTAA
66 AGTTTCCAAAAAAAATA-TTTTGGGAAAAAGTTGAAAATATCAATTTTCCTTAA
* * *
18619000 AAATAAATTTAAAAAAAAAGTTTTTTTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTCGAAAT
1 AAATAAATTT-AAAAAAAAG--ATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAT
* * *
18619065 TAAAGTTTTCAAAAAAAATATTTTGGGGAAAAGTTGAAAGTATCAATTTT
63 TAAAGTTTCCAAAAAAAATATTTTGGGAAAAAGTTGAAAATATCAATTTT
18619115 TTCTTGTACA
Statistics
Matches: 300, Mismatches: 31, Indels: 46
0.80 0.08 0.12
Matches are distributed among these distances:
116 7 0.02
117 39 0.13
118 45 0.15
119 16 0.05
120 7 0.02
121 84 0.28
122 19 0.06
123 67 0.22
124 15 0.05
125 1 0.00
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (118 bp):
AAATAAATTTAAAAAAAAGATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAA
AGTTTCCAAAAAAAATATTTTGGGAAAAAGTTGAAAATATCAATTTTCCTTAA
Found at i:18620608 original size:16 final size:16
Alignment explanation
Indices: 18620587--18620617 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18620577 AAAAAAGGAG
18620587 AATTTTCTTTCAACAA
1 AATTTTCTTTCAACAA
*
18620603 AATTTTCTTTTAACA
1 AATTTTCTTTCAACA
18620618 TACTGTTTGA
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:0.35, C:0.16, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTTTCTTTCAACAA
Found at i:18624407 original size:22 final size:20
Alignment explanation
Indices: 18624368--18624411 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
18624358 GAAAAATGTC
*
18624368 TTTTTTTTTTAAAGTATTTT
1 TTTTTTTTTTAAAATATTTT
18624388 TTTTTGTTTTTATAAATATTTT
1 TTTTT-TTTTTA-AAATATTTT
18624410 TT
1 TT
18624412 GAAAACTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 6 0.29
22 10 0.48
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (20 bp):
TTTTTTTTTTAAAATATTTT
Found at i:18624473 original size:25 final size:23
Alignment explanation
Indices: 18624445--18624492 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
18624435 GTTTTGTTAT
18624445 TATTATTTTGAAGATTATTTGAAAA
1 TATTATTTTG-A-ATTATTTGAAAA
* *
18624470 TATTTTTTTGACTTATTTGAAAA
1 TATTATTTTGAATTATTTGAAAA
18624493 GGTTTTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 11 0.52
24 1 0.05
25 9 0.43
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.52
Consensus pattern (23 bp):
TATTATTTTGAATTATTTGAAAA
Found at i:18624603 original size:21 final size:19
Alignment explanation
Indices: 18624579--18624655 Score: 66
Period size: 19 Copynumber: 3.8 Consensus size: 19
18624569 AAATTTCTAA
18624579 AAAATAAAACCATAAAAAAAT
1 AAAATAAAA-C-TAAAAAAAT
*
18624600 AAAATAAAATGTTAAAAAAAAT
1 AAAATAAAA--CT-AAAAAAAT
*
18624622 AAAGTAAAACTAAAATAAA-
1 AAAATAAAACTAAAA-AAAT
*
18624641 AAAATAAAAATAAAA
1 AAAATAAAACTAAAA
18624656 TGAAAAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 17 0.36
20 4 0.09
21 10 0.21
22 16 0.34
ACGTcount: A:0.77, C:0.04, G:0.03, T:0.17
Consensus pattern (19 bp):
AAAATAAAACTAAAAAAAT
Found at i:18624661 original size:6 final size:5
Alignment explanation
Indices: 18624595--18624665 Score: 51
Period size: 5 Copynumber: 13.8 Consensus size: 5
18624585 AAACCATAAA
*
18624595 AAAAT AAAAT AAAATGTT AAAA- AAAAT AAAGT AAAACT AAAAT -AAA-
1 AAAAT AAAAT AAAA---T AAAAT AAAAT AAAAT AAAA-T AAAAT AAAAT
18624641 AAAAT AAAAAT AAAAT GAAAA- AAAA
1 AAAAT -AAAAT AAAAT -AAAAT AAAA
18624666 ACCTTGCGAT
Statistics
Matches: 55, Mismatches: 2, Indels: 19
0.72 0.03 0.25
Matches are distributed among these distances:
4 14 0.25
5 22 0.40
6 14 0.25
8 5 0.09
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:18624664 original size:21 final size:21
Alignment explanation
Indices: 18624592--18624666 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 21
18624582 ATAAAACCAT
*
18624592 AAAAAAATAAAATAAAATGTTA
1 AAAAAAATAAAATAAAATG-AA
* *
18624614 AAAAAAATAAAGTAAAACTAAAA
1 AAAAAAATAAAATAAAA-T-GAA
18624637 TAAAAAAATAAAAATAAAATGAA
1 -AAAAAAAT-AAAATAAAATGAA
18624660 AAAAAAA
1 AAAAAAA
18624667 CCTTGCGATT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
22 23 0.52
23 4 0.09
24 9 0.20
25 8 0.18
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.16
Consensus pattern (21 bp):
AAAAAAATAAAATAAAATGAA
Found at i:18625572 original size:15 final size:15
Alignment explanation
Indices: 18625552--18625634 Score: 70
Period size: 15 Copynumber: 5.8 Consensus size: 15
18625542 AAGTAAGATA
18625552 ATAATAATAATAACT
1 ATAATAATAATAACT
18625567 ATAATAAT-ATAAC-
1 ATAATAATAATAACT
*
18625580 ATAGT-ATAATAAC-
1 ATAATAATAATAACT
* * *
18625593 ATCTATTATAATAGCT
1 AT-AATAATAATAACT
18625609 ATAATAACT-ATAA-T
1 ATAATAA-TAATAACT
18625623 ATAATAATAATA
1 ATAATAATAATA
18625635 TAATATAGTA
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
12 2 0.04
13 12 0.22
14 17 0.31
15 21 0.38
16 3 0.05
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.35
Consensus pattern (15 bp):
ATAATAATAATAACT
Found at i:18626520 original size:50 final size:51
Alignment explanation
Indices: 18626465--18626562 Score: 119
Period size: 51 Copynumber: 1.9 Consensus size: 51
18626455 TAGATTTGTA
* * *
18626465 AAGATTGC-AAGTTTGCAAAAACTTTTAGATTCGC-AAGATTAAAGATTTAC
1 AAGATTGCAAAATTTGCAAAAA-TTCTAGATTCACAAAGATTAAAGATTTAC
* * *
18626515 AAGATTTCAAAATTTGCAAAGATTCTAGATTCACAAAGATTCAAGATT
1 AAGATTGCAAAATTTGCAAAAATTCTAGATTCACAAAGATTAAAGATT
18626563 CATAAGGATT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
50 17 0.43
51 23 0.57
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (51 bp):
AAGATTGCAAAATTTGCAAAAATTCTAGATTCACAAAGATTAAAGATTTAC
Found at i:18626572 original size:17 final size:17
Alignment explanation
Indices: 18626499--18626564 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 17
18626489 TTAGATTCGC
* *
18626499 AAGATTAAAGATTTAC-
1 AAGATTCAAGATTCACA
* **
18626515 AAGATTTCAAAATTTGCA
1 AAGA-TTCAAGATTCACA
*
18626533 AAGATTCTAGATTCACA
1 AAGATTCAAGATTCACA
18626550 AAGATTCAAGATTCA
1 AAGATTCAAGATTCA
18626565 TAAGGATTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
16 4 0.10
17 32 0.80
18 4 0.10
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (17 bp):
AAGATTCAAGATTCACA
Found at i:18626613 original size:82 final size:81
Alignment explanation
Indices: 18626430--18626791 Score: 300
Period size: 82 Copynumber: 4.3 Consensus size: 81
18626420 AAAAATTCAT
* * * * * **
18626430 AAGATTTCAAGTTTTACAGAAG-TTCTAGATTTGTAAAGATTGCAAGTTTGCAAAAACTTTT-AG
1 AAGATTTCAAGTTTTGCA-AAGATTCTAGATTCGCAAAGATT-CAAGATTCCAAGGA-TTTTCAG
* *
18626493 ATTCGCAAGATTAAAGATTTAC
63 ATTCG-AA-A-GAAAGATTTGC
** * * *
18626515 AAGATTTCAAAATTTGCAAAGATTCTAGATTCACAAAGATTCAAGATTCATAAGGATTTTCAGAC
1 AAGATTTCAAGTTTTGCAAAGATTCTAGATTCGCAAAGATTCAAGATTC-CAAGGATTTTCAGAT
*
18626580 TCGTAAGAAAGATTTGC
65 TCGAAAGAAAGATTTGC
* * * * *
18626597 AAGATTTCAAGTTTTGCAAAGGTTCTAGATTCGCAAAGATT-ATAGGTTTGCAAGAACTTTCAGA
1 AAGATTTCAAGTTTTGCAAAGATTCTAGATTCGCAAAGATTCA-A-GATTCCAAGGATTTTCAGA
*
18626661 TTCATGAAAGAGAAAGATTCGC
64 TTC--G-AA-AGAAAGATTTGC
* * * * *
18626683 AAGATTTCAAGTTTTGCAATGATTCTAAATTCGTAAAGATTCTAGGTTTCCAAGGATTTTCAGAT
1 AAGATTTCAAGTTTTGCAAAGATTCTAGATTCGCAAAGATTC-AAGATTCCAAGGATTTTCAGAT
*
18626748 TC-ACAAGAAAGATTTGT
65 TCGA-AAGAAAGATTTGC
* *
18626765 AAGATTTCAAGTTTCGCAAAGGTTCTA
1 AAGATTTCAAGTTTTGCAAAGATTCTA
18626792 AAAATGAGTT
Statistics
Matches: 225, Mismatches: 40, Indels: 27
0.77 0.14 0.09
Matches are distributed among these distances:
81 1 0.00
82 95 0.42
83 5 0.02
84 15 0.07
85 41 0.18
86 67 0.30
88 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (81 bp):
AAGATTTCAAGTTTTGCAAAGATTCTAGATTCGCAAAGATTCAAGATTCCAAGGATTTTCAGATT
CGAAAGAAAGATTTGC
Found at i:18626724 original size:168 final size:167
Alignment explanation
Indices: 18626430--18626791 Score: 433
Period size: 168 Copynumber: 2.2 Consensus size: 167
18626420 AAAAATTCAT
* * * * *
18626430 AAGATTTCAAGTTTTACAGAA-GTTCTAGATTTGTAAAGATTGCAAGTTTGCAAAAACTTTTAGA
1 AAGATTTCAAGTTTTGCA-AAGGTTCTAGATTCGCAAAGATTACAAGTTTGCAAAAACTTTCAGA
* * * *
18626494 TTCGCAAGATTAAAGATTTACAAGATTTCAAAATTTGCAAAGATTCTAGATTCACAAAGATTC-A
65 TTCGAAAGATGAAAGATTCACAAGATTTCAAAATTTGCAAAGATTCTAAATTCACAAAGATTCTA
* **
18626558 AGATTCATAAGGATTTTCAGACTCGTAAGAAAGATTTGC
130 AGATTC-CAAGGATTTTCAGACTCACAAGAAAGATTTGC
* * *
18626597 AAGATTTCAAGTTTTGCAAAGGTTCTAGATTCGCAAAGATTATAGGTTTGCAAGAACTTTCAGAT
1 AAGATTTCAAGTTTTGCAAAGGTTCTAGATTCGCAAAGATTACAAGTTTGCAAAAACTTTCAGAT
* ** * **
18626662 TCATGAAAGA-GAAAGATTCGCAAGATTTCAAGTTTTGCAATGATTCTAAATTCGTAAAGATTCT
66 TC--GAAAGATGAAAGATTCACAAGATTTCAAAATTTGCAAAGATTCTAAATTCACAAAGATTCT
* * * *
18626726 AGGTTTCCAAGGATTTTCAGATTCACAAGAAAGATTTGT
129 AAGATTCCAAGGATTTTCAGACTCACAAGAAAGATTTGC
*
18626765 AAGATTTCAAGTTTCGCAAAGGTTCTA
1 AAGATTTCAAGTTTTGCAAAGGTTCTA
18626792 AAAATGAGTT
Statistics
Matches: 165, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
166 2 0.01
167 56 0.34
168 97 0.59
169 10 0.06
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (167 bp):
AAGATTTCAAGTTTTGCAAAGGTTCTAGATTCGCAAAGATTACAAGTTTGCAAAAACTTTCAGAT
TCGAAAGATGAAAGATTCACAAGATTTCAAAATTTGCAAAGATTCTAAATTCACAAAGATTCTAA
GATTCCAAGGATTTTCAGACTCACAAGAAAGATTTGC
Found at i:18627675 original size:8 final size:8
Alignment explanation
Indices: 18627662--18627711 Score: 55
Period size: 8 Copynumber: 5.9 Consensus size: 8
18627652 TTAGTTTAAG
18627662 TTTTCTTTT
1 TTTTC-TTT
18627671 TTTCTCTTT
1 TTT-TCTTT
*
18627680 TTTTTTTT
1 TTTTCTTT
18627688 TCTTTCTTT
1 T-TTTCTTT
*
18627697 TTTTCTTA
1 TTTTCTTT
18627705 TTTTCTT
1 TTTTCTT
18627712 GCTTCTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
8 18 0.50
9 16 0.44
10 2 0.06
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTCTTT
Found at i:18627683 original size:13 final size:14
Alignment explanation
Indices: 18627663--18627702 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
18627653 TAGTTTAAGT
18627663 TTTCTTTTTTTCTC
1 TTTCTTTTTTTCTC
*
18627677 TTT-TTTTTTTTTC
1 TTTCTTTTTTTCTC
18627690 TTTCTTTTTTTCT
1 TTTCTTTTTTTCT
18627703 TATTTTCTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTCTTTTTTTCTC
Found at i:18627685 original size:15 final size:14
Alignment explanation
Indices: 18627662--18627700 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
18627652 TTAGTTTAAG
*
18627662 TTTTCTTTTTTTCT
1 TTTTTTTTTTTTCT
18627676 CTTTTTTTTTTTTCT
1 -TTTTTTTTTTTTCT
*
18627691 TTCTTTTTTT
1 TTTTTTTTTT
18627701 CTTATTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTTTTTTTTTCT
Found at i:18627717 original size:27 final size:27
Alignment explanation
Indices: 18627663--18627719 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
18627653 TAGTTTAAGT
* **
18627663 TTTCTTTTTTTCTCTTTTTTTTTTTTC
1 TTTCTTTTTTTCTCTTTTTCTTGCTTC
18627690 TTTCTTTTTTTCT-TATTTTCTTGCTTC
1 TTTCTTTTTTTCTCT-TTTTCTTGCTTC
18627717 TTT
1 TTT
18627720 TTTCTTGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.81
Consensus pattern (27 bp):
TTTCTTTTTTTCTCTTTTTCTTGCTTC
Found at i:18627724 original size:14 final size:15
Alignment explanation
Indices: 18627699--18627736 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
18627689 CTTTCTTTTT
18627699 TTCTTATTTTCTTGC-
1 TTCTT-TTTTCTTGCA
18627714 TTCTTTTTTCTTGCA
1 TTCTTTTTTCTTGCA
18627729 TT-TTTTTT
1 TTCTTTTTT
18627737 TAAATTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.05, C:0.16, G:0.05, T:0.74
Consensus pattern (15 bp):
TTCTTTTTTCTTGCA
Found at i:18631735 original size:22 final size:20
Alignment explanation
Indices: 18631706--18631743 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18631696 GAAGAAGGTT
18631706 TTTTTA-AAATTATTTTTTTG
1 TTTTTATAAA-TATTTTTTTG
18631726 TTTTTATAAATATTTTTT
1 TTTTTATAAATATTTTTT
18631744 GAAAATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (20 bp):
TTTTTATAAATATTTTTTTG
Found at i:18633937 original size:59 final size:57
Alignment explanation
Indices: 18633812--18634244 Score: 327
Period size: 59 Copynumber: 7.3 Consensus size: 57
18633802 ATCCTTTAAT
* * * *
18633812 TATCAATTTTTTTTTAAAATAAAAATTTTAAAAAAATATATATATTTGAGGAAAAGTTGAAAG
1 TATCAATTTTTCTTGAAAAT-AAAA-TTT-AAAAAA-A-ACAT-TTTGAAGAAAAGTTGAAAG
* * * *
18633875 TATCAATTTTTCTCGAAAATAAAATTTAAGGAAAAAATATTTTAAAGAAAAGTTGAATG
1 TATCAATTTTTCTTGAAAATAAAATTTAA--AAAAAACATTTTGAAGAAAAGTTGAAAG
* *** * *
18633934 TATCAATTTCTT-TTGAACATAAAAATTT-TCGAAAGCATTTTGAAGAAAAATTGAAAG
1 TATCAATTT-TTCTTGAAAAT-AAAATTTAAAAAAAACATTTTGAAGAAAAGTTGAAAG
* * * * * *
18633991 TATCAA-TTTTCCTGAAAATAAAAAGGTTAAAAAATATATTTTTAGGAAAAAGTTGAAAG
1 TATCAATTTTTCTTGAAAAT-AAAA-TTTAAAAAAAACATTTTGAAG-AAAAGTTGAAAG
* * * *
18634050 TATCAATTTTTCTTGAAATTAAAACTTAAAAAAAAAACATTTTGAGGAAAAATTGAAAG
1 TATCAATTTTTCTTGAAAATAAAA-TT-TAAAAAAAACATTTTGAAGAAAAGTTGAAAG
* * * *
18634109 TATCAA-TTTTCTTTGAGATTAAAATTTTAGCAAAAAAAAATATTTTGAAGAAAAGTTGGAAG
1 TATCAATTTTTC-TTGAAAATAAAA-TTT----AAAAAAAACATTTTGAAGAAAAGTTGAAAG
* * * *
18634171 TACCAATTTTCCTTAAAAATAAAATTATCAACAAAAACATTTT-AAGGAAAAGTTGAAAG
1 TATCAATTTTTCTTGAAAATAAAATT-T-AAAAAAAACATTTTGAA-GAAAAGTTGAAAG
18634230 TATCAATTTTTCTTG
1 TATCAATTTTTCTTG
18634245 TACAAAAGCA
Statistics
Matches: 296, Mismatches: 56, Indels: 40
0.76 0.14 0.10
Matches are distributed among these distances:
55 2 0.01
56 13 0.04
57 29 0.10
58 16 0.05
59 119 0.40
60 41 0.14
61 6 0.02
62 49 0.17
63 21 0.07
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.35
Consensus pattern (57 bp):
TATCAATTTTTCTTGAAAATAAAATTTAAAAAAAACATTTTGAAGAAAAGTTGAAAG
Found at i:18634322 original size:5 final size:5
Alignment explanation
Indices: 18634312--18634339 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
18634302 TCATTATTTT
18634312 TTTAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTT
18634340 TTCCTTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTAA
Found at i:18638325 original size:8 final size:8
Alignment explanation
Indices: 18638301--18638419 Score: 56
Period size: 8 Copynumber: 14.5 Consensus size: 8
18638291 AAGATGAGAG
18638301 AAAAA-GA
1 AAAAATGA
18638308 AAAAGA-GA
1 AAAA-ATGA
18638316 AAAAATGAA
1 AAAAATG-A
18638325 AAAAAT-A
1 AAAAATGA
18638332 AAAAAT-A
1 AAAAATGA
*
18638339 AAAAATAA
1 AAAAATGA
18638347 GAAAAAT-A
1 -AAAAATGA
18638355 AGAAAATAAGA
1 A-AAAAT--GA
*
18638366 AAAAA-AA
1 AAAAATGA
18638373 TAAAAATGGA
1 -AAAAAT-GA
18638383 AAAAATAAGA
1 AAAAAT--GA
18638393 AAAAA-GA
1 AAAAATGA
*
18638400 GAAAA-GAA
1 AAAAATG-A
18638408 AAAAATGA
1 AAAAATGA
18638416 AAAA
1 AAAA
18638420 GAAAAAGGAA
Statistics
Matches: 92, Mismatches: 5, Indels: 29
0.73 0.04 0.23
Matches are distributed among these distances:
7 28 0.30
8 30 0.33
9 20 0.22
10 12 0.13
11 2 0.02
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (8 bp):
AAAAATGA
Found at i:18638327 original size:9 final size:9
Alignment explanation
Indices: 18638315--18638419 Score: 59
Period size: 9 Copynumber: 12.4 Consensus size: 9
18638305 AGAAAAAGAG
18638315 AAAAAATGA
1 AAAAAATGA
18638324 AAAAAAT--
1 AAAAAATGA
18638331 AAAAAAT-A
1 AAAAAATGA
*
18638339 AAAAATAAGA
1 AAAAA-ATGA
18638349 AAAATAA-GA
1 AAAA-AATGA
*
18638358 AAATAA-GA
1 AAAAAATGA
18638366 AAAAAA--A
1 AAAAAATGA
* *
18638373 TAAAAATGG
1 AAAAAATGA
18638382 AAAAAAT-A
1 AAAAAATGA
*
18638390 AGAAAAAAG-
1 A-AAAAATGA
*
18638399 AGAAAA-GA
1 AAAAAATGA
18638407 AAAAAATGA
1 AAAAAATGA
18638416 AAAA
1 AAAA
18638420 GAAAAAGGAA
Statistics
Matches: 76, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
7 14 0.18
8 24 0.32
9 31 0.41
10 6 0.08
11 1 0.01
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (9 bp):
AAAAAATGA
Found at i:18638367 original size:58 final size:57
Alignment explanation
Indices: 18638300--18638426 Score: 147
Period size: 58 Copynumber: 2.2 Consensus size: 57
18638290 AAAGATGAGA
*
18638300 GAAAAAGAAAAAGAGA-AAAAATGAAAAAAATAA-AAAATAA-AAAATAAGAAAAATAA-
1 GAAAAAGAAAAAGAAATAAAAATGAAAAAAATAAGAAAA-AAGAAAA-AAGAAAAA-AAT
* *
18638356 GAAAATAAGAAAAA-AAATAAAAATGGAAAAAATAAGAAAAAAGAGAAAAGAAAAAAAT
1 G-AAA-AAGAAAAAGAAATAAAAATGAAAAAAATAAGAAAAAAGAAAAAAGAAAAAAAT
18638414 GAAAAAGAAAAAG
1 GAAAAAGAAAAAG
18638427 GAAGACTTAA
Statistics
Matches: 61, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
56 9 0.15
57 10 0.16
58 35 0.57
59 7 0.11
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (57 bp):
GAAAAAGAAAAAGAAATAAAAATGAAAAAAATAAGAAAAAAGAAAAAAGAAAAAAAT
Found at i:18638387 original size:44 final size:40
Alignment explanation
Indices: 18638304--18638425 Score: 133
Period size: 42 Copynumber: 3.0 Consensus size: 40
18638294 ATGAGAGAAA
18638304 AAGAAAAAGAGAAAAAATG-AAAAAAATAAAAAATAAAAAAT
1 AAGAAAAA-AGAAAAAA-GAAAAAAAATAAAAAATAAAAAAT
18638345 AAGAAAAATAAGAAAATAAGAAAAAAAAT-AAAAATGGAAAAAAT
1 AAG-AAAA-AAGAAAA-AAGAAAAAAAATAAAAAAT--AAAAAAT
* * *
18638389 AAGAAAAAAGAGAAAAG-AAAAAAATGAAAAAGAAAAA
1 AAGAAAAAAGAAAAAAGAAAAAAAATAAAAAATAAAAA
18638426 GGAAGACTTA
Statistics
Matches: 72, Mismatches: 2, Indels: 16
0.80 0.02 0.18
Matches are distributed among these distances:
39 5 0.07
40 8 0.11
41 11 0.15
42 23 0.32
43 15 0.21
44 10 0.14
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (40 bp):
AAGAAAAAAGAAAAAAGAAAAAAAATAAAAAATAAAAAAT
Found at i:18638412 original size:15 final size:15
Alignment explanation
Indices: 18638300--18638425 Score: 74
Period size: 16 Copynumber: 7.8 Consensus size: 15
18638290 AAAGATGAGA
*
18638300 GAAAAAGAAAAAGA-
1 GAAAAAGAAAAAAAT
18638314 GAAAAAATGAAAAAAAT
1 G-AAAAA-GAAAAAAAT
* * *
18638331 AAAAAATAAAAAATAA
1 GAAAAAGAAAAAA-AT
* *
18638347 GAAAAATAAGAAAATAA
1 GAAAAAGAA-AAAA-AT
*
18638364 GAAAAAAAATAAAAAT
1 GAAAAAGAA-AAAAAT
* *
18638380 GGAAAAAATAAGAAAAAA
1 -G-AAAAAGAA-AAAAAT
18638398 GAGAAAAGAAAAAAAT
1 GA-AAAAGAAAAAAAT
18638414 GAAAAAGAAAAA
1 GAAAAAGAAAAA
18638426 GGAAGACTTA
Statistics
Matches: 91, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
14 1 0.01
15 21 0.23
16 30 0.33
17 27 0.30
18 12 0.13
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (15 bp):
GAAAAAGAAAAAAAT
Found at i:18639606 original size:21 final size:22
Alignment explanation
Indices: 18639560--18639616 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
18639550 GAATTTTTTG
* * *
18639560 ATGAGAATTTTTGAGTTCTTAA
1 ATGAGAATATTTGAATTCTCAA
18639582 ATGAGAATATTTGAATT-TCAA
1 ATGAGAATATTTGAATTCTCAA
*
18639603 ATGAGAATCTTTGA
1 ATGAGAATATTTGA
18639617 GGTGAGAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 16 0.52
22 15 0.48
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.40
Consensus pattern (22 bp):
ATGAGAATATTTGAATTCTCAA
Found at i:18640170 original size:42 final size:42
Alignment explanation
Indices: 18640108--18640256 Score: 207
Period size: 42 Copynumber: 3.6 Consensus size: 42
18640098 GATTGTTAAT
18640108 GAGC-ATTTATTTTTCAAAAGTTGTGGTACTTCTGTTTAGAG
1 GAGCAATTTATTTTTCAAAAGTTGTGGTACTTCTGTTTAGAG
*
18640149 GAGCAA-TTATCTTTCTC-AAAGTTGTGGTGCCTT-TGTTTAGAG
1 GAGCAATTTAT-TTT-TCAAAAGTTGTGGT-ACTTCTGTTTAGAG
* * *
18640191 GAGCAATTTATTTTTCAAAAGTTATGGTGCCTCTGTTTAGAG
1 GAGCAATTTATTTTTCAAAAGTTGTGGTACTTCTGTTTAGAG
18640233 GAGCAATTTATTTTTCAAAAGTTG
1 GAGCAATTTATTTTTCAAAAGTTG
18640257 AGCCTTTGAT
Statistics
Matches: 96, Mismatches: 5, Indels: 13
0.84 0.04 0.11
Matches are distributed among these distances:
41 12 0.12
42 75 0.78
43 9 0.09
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (42 bp):
GAGCAATTTATTTTTCAAAAGTTGTGGTACTTCTGTTTAGAG
Found at i:18640254 original size:84 final size:81
Alignment explanation
Indices: 18640108--18640363 Score: 239
Period size: 84 Copynumber: 3.0 Consensus size: 81
18640098 GATTGTTAAT
* *
18640108 GAGCATTTATTTTTCAAAAGTTGTGGTACTTCTGTTTAGAGGAGCAA-TTATCTTTCTC-AAAGT
1 GAGCATTTATTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTAT-TTT-TCAAAAGT
* *
18640171 TGTGGTGCCTTTGTTTAGAG
64 T-T-GAGCCTTTGATTAGAG
*
18640191 GAGCAATTTATTTTTCAAAAGTTATGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAAG-T
1 GAGC-ATTTATTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAAGTT
18640255 TGAGCCTTTGATTAGAG
65 TGAGCCTTTGATTAGAG
* * * *** **
18640272 GAGCTTTATTTATTCTTCCAAAGTCGTTAAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAA
1 GAGC---ATTTATTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGGAGC--AATTTATTTTTCAAA
* * *
18640337 AGTCATTAAGCCTCTGATTAGAT
61 AGT--TTGAGCCTTTGATTAGAG
18640360 GAGC
1 GAGC
18640364 TTTGTTTATA
Statistics
Matches: 145, Mismatches: 18, Indels: 15
0.81 0.10 0.08
Matches are distributed among these distances:
81 18 0.12
82 1 0.01
83 41 0.28
84 47 0.32
85 19 0.13
88 19 0.13
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (81 bp):
GAGCATTTATTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAAGTTT
GAGCCTTTGATTAGAG
Found at i:18640316 original size:44 final size:44
Alignment explanation
Indices: 18640177--18640548 Score: 311
Period size: 44 Copynumber: 8.6 Consensus size: 44
18640167 AAGTTGTGGT
* * * ***
18640177 GCCTTTGTTTAGAGGAGC--AATTTA-TTTTTCAAAAGTTATGGT
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTTC-AAAGTCATTAA
* *
18640219 GCCTCTGTTTAGAGGAGC--AATTTA-TTTTTCAAA---AGTTGA
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTTCAAAGTCA-TTAA
* * * * *
18640258 GCCTTTGATTAGAGGAGCTTTATTTATTCTTCCAAAGTCGTTAA
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTTCAAAGTCATTAA
*
18640302 GCCTCTGTTTAGAGGAGCTTTGTTTA-TTTTTCAAAAGTCATTAA
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTTC-AAAGTCATTAA
* * * **
18640346 GCCTCTGATTAGATGAGCTTTGTTTATATTTTTTTAAGTCATTAA
1 GCCTCTGTTTAGAGGAGCTTTATTTAT-TTTTTCAAAGTCATTAA
* *
18640391 GCCT-TCATTTAGAGGAGCTTTATTTATTTTTTTCAAAGTCATTGA
1 GCCTCT-GTTTAGAGGAGCTTTATTTA-TTTTTTCAAAGTCATTAA
* * * *
18640436 GCCTCTGATTAGAAGAGCTTTATTTATTCTTTCAAAGTCATTGA
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTTCAAAGTCATTAA
* *
18640480 GCCTCTGTTTAGAGGAGCATTTATTT-TTTTTTTAAA-TTATTAA
1 GCCTCTGTTTAGAGGAGC-TTTATTTATTTTTTCAAAGTCATTAA
* * * *
18640523 GCCTTTATTTAGATGAGCTTTGTTTA
1 GCCTCTGTTTAGAGGAGCTTTATTTA
18640549 CTAAAAAAAA
Statistics
Matches: 274, Mismatches: 41, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.00
39 18 0.07
41 8 0.03
42 42 0.15
43 24 0.09
44 102 0.37
45 72 0.26
46 7 0.03
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (44 bp):
GCCTCTGTTTAGAGGAGCTTTATTTATTTTTTCAAAGTCATTAA
Found at i:18642769 original size:59 final size:59
Alignment explanation
Indices: 18642702--18643128 Score: 304
Period size: 59 Copynumber: 7.2 Consensus size: 59
18642692 ATCTTTTAAT
* *
18642702 TATCAATTTTTCTTAAAAATAAAAATTTTAAATATATATATTTGAAGAAAAGTTGAAAG
1 TATCAATTTTTCTTAAAAATAAAAATTTTAAAAAAATATATTTGAAGAAAAGTTGAAAG
* * * * *
18642761 TATTAATTTTTCTCAAAAAT-AAAATTTAAGGAAAAAATAT-TTTGAAGGAAAGTTGAATG
1 TATCAATTTTTCTTAAAAATAAAAATTTTA--AAAAAATATATTTGAAGAAAAGTTGAAAG
* * * * * * *
18642820 TGTCAATTTCAT-TTGAACATAAAAATTTT-CAAAAGTAT-TTTGGAGAAAAGTTGAAAG
1 TATCAATTT-TTCTTAAAAATAAAAATTTTAAAAAAATATATTTGAAGAAAAGTTGAAAG
* ** *
18642877 TATCAA-TTTTCCTAAAAATAAAAAGGTTAAAAAATATATTTTTAGAA-AAAAGTTGAAAG
1 TATCAATTTTTCTTAAAAATAAAAATTTTAAAAAA-ATATATTT-GAAGAAAAGTTGAAAG
* * * * * * * *
18642936 TATCAGTTTTTCTT-GAAATTAAAA-CTTAAAAAAAAAAATTTTACGGAAAAGTTGAAAG
1 TATCAATTTTTCTTAAAAATAAAAATTTTAAAAAAATATATTTGA-AGAAAAGTTGAAAG
* * * * * * *
18642994 TATCAATTTTTCTT-GAGATTAAAATTTTAGAAAAAAAAAACATTTTGAGGAAAAGTTGGAAG
1 TATCAATTTTTCTTAAAAATAAAAATTTT---AAAAAAATATA-TTTGAAGAAAAGTTGAAAG
* * ** *
18643056 TACCAATTTTTCTTAAAAAT-AAAATTATCAAGAAAAGCAT-TTT-AAGGAAAAGTTAAAAG
1 TATCAATTTTTCTTAAAAATAAAAATT-TTAA-AAAAATATATTTGAA-GAAAAGTTGAAAG
18643115 TATCAATTTTTCTT
1 TATCAATTTTTCTT
18643129 GTACAAAAGC
Statistics
Matches: 291, Mismatches: 56, Indels: 42
0.75 0.14 0.11
Matches are distributed among these distances:
55 1 0.00
56 15 0.05
57 37 0.13
58 54 0.19
59 104 0.36
60 25 0.09
61 5 0.02
62 42 0.14
63 8 0.03
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (59 bp):
TATCAATTTTTCTTAAAAATAAAAATTTTAAAAAAATATATTTGAAGAAAAGTTGAAAG
Found at i:18642952 original size:116 final size:117
Alignment explanation
Indices: 18642702--18643079 Score: 288
Period size: 116 Copynumber: 3.2 Consensus size: 117
18642692 ATCTTTTAAT
* *
18642702 TATCAATTTTTCTTAAAAATAAAAATTTTAAATATATATATTTGAAGAAAAGTTGAAAGTATTAA
1 TATCAATTTTTCTTGAAAATAAAAATTTTAAATATATATATTTGAAGAAAAGTTGAAAGTATCAA
* * * *
18642767 TTTTTCTCAAAAATAAAATTTAAGGAAAAAATATTTTGAAGGAAAGTTGAATG
66 TTTTCCTCAAAAATAAAAGTTAA-GAAAAAATATTTTGAAGAAAAGTTGAAAG
* * * * *
18642820 TGTCAATTTCAT-TTGAACATAAAAATTTTCAAA-A-GTAT-TTTGGAGAAAAGTTGAAAGTATC
1 TATCAATTT-TTCTTGAAAATAAAAATTTT-AAATATATATATTTGAAGAAAAGTTGAAAGTATC
*
18642881 AATTTTCCT-AAAAATAAAAAGGTTAA-AAAATATATTTTTAGAA-AAAAGTTGAAAG
64 AATTTTCCTCAAAAAT-AAAA-GTTAAGAAAAAATA-TTTT-GAAGAAAAGTTGAAAG
* * * * * * * * *
18642936 TATCAGTTTTTCTTG-AAATTAAAA-CTTAAAAAAAAAAATTTTACGGAAAAGTTGAAAGTATCA
1 TATCAATTTTTCTTGAAAATAAAAATTTTAAATATATATATTTGA-AGAAAAGTTGAAAGTATCA
* ** * * * * * * *
18642999 ATTTTTCTTGAGATTAAAATTTTAGAAAAAAAAAACATTTTGAGGAAAAGTTGGAAG
65 ATTTTCCTCAAAAATAAAA-GTT---AAGAAAAAATATTTTGAAGAAAAGTTGAAAG
* *
18643056 TACCAATTTTTCTTAAAAATAAAA
1 TATCAATTTTTCTTGAAAATAAAA
18643080 TTATCAAGAA
Statistics
Matches: 204, Mismatches: 38, Indels: 33
0.74 0.14 0.12
Matches are distributed among these distances:
113 3 0.01
114 3 0.01
115 22 0.11
116 60 0.29
117 41 0.20
118 27 0.13
119 6 0.03
120 29 0.14
121 13 0.06
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.35
Consensus pattern (117 bp):
TATCAATTTTTCTTGAAAATAAAAATTTTAAATATATATATTTGAAGAAAAGTTGAAAGTATCAA
TTTTCCTCAAAAATAAAAGTTAAGAAAAAATATTTTGAAGAAAAGTTGAAAG
Found at i:18643826 original size:19 final size:19
Alignment explanation
Indices: 18643789--18643831 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
18643779 AAAAATAAAG
*
18643789 TAAAAATAAAATCACAAAA
1 TAAAAATAAAATCAAAAAA
*
18643808 TAAAAATAAAATGAAAAAA
1 TAAAAATAAAATCAAAAAA
*
18643827 GAAAA
1 TAAAA
18643832 CCTTGCGATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.14
Consensus pattern (19 bp):
TAAAAATAAAATCAAAAAA
Found at i:18644793 original size:26 final size:26
Alignment explanation
Indices: 18644717--18644781 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
18644707 TAAAATAATA
*
18644717 ATAAT-ATAG-TATAATAAC-A-ATT
1 ATAATAATAGCTATAATAACTACAAT
*
18644739 ATTATAATAGCTATAATAACTACAAT
1 ATAATAATAGCTATAATAACTACAAT
18644765 ATAATAATA-CTATAATA
1 ATAATAATAGCTATAATA
18644782 TAGTATAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 4 0.11
23 4 0.11
24 9 0.25
25 9 0.25
26 10 0.28
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (26 bp):
ATAATAATAGCTATAATAACTACAAT
Found at i:18645812 original size:3 final size:3
Alignment explanation
Indices: 18645806--18645835 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
18645796 AGAAGAAAAA
*
18645806 GAT GAT GAT GGT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
18645836 AAAACACATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:18647903 original size:158 final size:158
Alignment explanation
Indices: 18647493--18647928 Score: 541
Period size: 158 Copynumber: 2.8 Consensus size: 158
18647483 ATTACATTTG
* * * * * *
18647493 TGAAATGTGAAAA-TATTGCTTATTTTGGTTTGTGATTCTGGTTGTGTTTTGTGGTTGTTGATGA
1 TGAAA-GTGAAAACTATTACGTATTTTGCTTTGTGATTCTGGTTGTGTATTGTGATTGTTAATGA
* * * * *
18647557 AGTAGATAGTGTAATAATTGAAAGACTAAACATTGTTGGACGAATGGTATTGAATTATATAGTGT
65 AGTAGATAGTGTAGTAATTGAAAGACTAAACATTGTAGGAAGAATGGTATTGAACTATATAGTAT
* * *
18647622 TTTGTGCTTATTGAGATGCAATAACTTTG
130 TTTATGCTTATTAAGATGCAATAACTTTA
* * * * *
18647651 TGAAGGTGAAAACTATTACGTATTTTACTTTGTGATTCTGGTTGTGTATTGTAATTGTTTATAAA
1 TGAAAGTGAAAACTATTACGTATTTTGCTTTGTGATTCTGGTTGTGTATTGTGATTGTTAATGAA
* * * *
18647716 GTAGTTAGTGTAGTAATTGAAAGATTAAACATTATAGGAAGAATGGTATTAAACTATATAGTATT
66 GTAGATAGTGTAGTAATTGAAAGACTAAACATTGTAGGAAGAATGGTATTGAACTATATAGTATT
*
18647781 TTATGCTTATTAAGATGCAATGACTTTA
131 TTATGCTTATTAAGATGCAATAACTTTA
* * * *
18647809 TGAAAGTGAAAACTATTATGTATTTTGCTTTGTGATTTTGGTTGTATATTGTGATTATTAATGAA
1 TGAAAGTGAAAACTATTACGTATTTTGCTTTGTGATTCTGGTTGTGTATTGTGATTGTTAATGAA
* *** * **
18647874 GTAGAGAGTGTAGTAATTGAATTCCTAAACATCGTAGGATTAATGGTATTGAACT
66 GTAGATAGTGTAGTAATTGAAAGACTAAACATTGTAGGAAGAATGGTATTGAACT
18647929 GTGTCATTGG
Statistics
Matches: 234, Mismatches: 43, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
157 7 0.03
158 227 0.97
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.42
Consensus pattern (158 bp):
TGAAAGTGAAAACTATTACGTATTTTGCTTTGTGATTCTGGTTGTGTATTGTGATTGTTAATGAA
GTAGATAGTGTAGTAATTGAAAGACTAAACATTGTAGGAAGAATGGTATTGAACTATATAGTATT
TTATGCTTATTAAGATGCAATAACTTTA
Found at i:18652991 original size:8 final size:8
Alignment explanation
Indices: 18652973--18653011 Score: 51
Period size: 8 Copynumber: 4.5 Consensus size: 8
18652963 AAAAACCTTG
18652973 AAAAGATAA
1 AAAAGA-AA
18652982 AAAAGAAA
1 AAAAGAAA
18652990 AAAAGAAAGA
1 AAAAG-AA-A
18653000 AAAAGAAA
1 AAAAGAAA
18653008 AAAA
1 AAAA
18653012 AAAGTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 12 0.43
9 10 0.36
10 6 0.21
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.03
Consensus pattern (8 bp):
AAAAGAAA
Found at i:18653002 original size:18 final size:17
Alignment explanation
Indices: 18652981--18653015 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
18652971 TGAAAAGATA
18652981 AAAAAGAAAAAAAGAAAG
1 AAAAAGAAAAAAA-AAAG
18652999 AAAAAGAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAG
18653016 TTTTTTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAG
Found at i:18653011 original size:21 final size:21
Alignment explanation
Indices: 18652974--18653015 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
18652964 AAAACCTTGA
*
18652974 AAAGATAAAAAAGAAAAAAAG
1 AAAGATAAAAAAAAAAAAAAG
18652995 AAAGA-AAAAGAAAAAAAAAAG
1 AAAGATAAAA-AAAAAAAAAAG
18653016 TTTTTTTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.02
Consensus pattern (21 bp):
AAAGATAAAAAAAAAAAAAAG
Found at i:18653012 original size:9 final size:9
Alignment explanation
Indices: 18652973--18653012 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
18652963 AAAAACCTTG
*
18652973 AAAAGATAA
1 AAAAGAAAA
18652982 AAAAG-AAA
1 AAAAGAAAA
18652990 AAAAGAAAGA
1 AAAAGAAA-A
18653000 AAAAGAAAA
1 AAAAGAAAA
18653009 AAAA
1 AAAA
18653013 AAGTTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 7 0.25
9 12 0.43
10 9 0.32
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:18653028 original size:23 final size:22
Alignment explanation
Indices: 18653001--18653056 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 22
18652991 AAAGAAAGAA
*
18653001 AAAGAAAAAAAAAAGTTTTTTTT
1 AAAGAAAAAAAAAA-TATTTTTT
*
18653024 GAAGAAAAAGAAAAATATTTTTT
1 AAAGAAAAA-AAAAATATTTTTT
18653047 AAAGAAAAAA
1 AAAGAAAAAA
18653057 GGTGAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 1 0.03
23 23 0.79
24 5 0.17
ACGTcount: A:0.62, C:0.00, G:0.11, T:0.27
Consensus pattern (22 bp):
AAAGAAAAAAAAAATATTTTTT
Found at i:18656550 original size:31 final size:31
Alignment explanation
Indices: 18656283--18656577 Score: 190
Period size: 31 Copynumber: 9.4 Consensus size: 31
18656273 GCTTACATTA
* *
18656283 ATGAGAATTAAGCCTT-GTTTAGCTAGCA-TCG
1 ATGAGATTTAAG-CTTAATTTAGCTAGCACT-G
* * *
18656314 ATGAGATTTAAGCCTAATTTAACTAGCACCG
1 ATGAGATTTAAGCTTAATTTAGCTAGCACTG
* * * *
18656345 ATG-GATGTAAGCTAAATTTAGTTGGCACTG
1 ATGAGATTTAAGCTTAATTTAGCTAGCACTG
* *
18656375 ATGAGATTTAAGCTTAGTTTAGCTAGCATTG
1 ATGAGATTTAAGCTTAATTTAGCTAGCACTG
* * * * *
18656406 ATGAGAATTAAGCCT-GTTCATCTAGCACCTAG
1 ATGAGATTTAAGCTTAATTTAGCTAGCA-CT-G
* * * *
18656438 ATAAGATTTTTAA-CTTAGTTTA-ATTGACACTTAG
1 ATGAGA--TTTAAGCTTAATTTAGCTAG-CAC-T-G
* * * * *
18656472 ATGAGAATTAAGCCTAGTTTAGCTGGCACTCAA
1 ATGAGATTTAAGCTTAATTTAGCTAGCACT--G
*
18656505 ATAAGATTTAAGCTTAATTTAGCTTA-CACTG
1 ATGAGATTTAAGCTTAATTTAGC-TAGCACTG
*
18656536 ATGAGATTTTAGCTTAATTTAGCTAGCACTG
1 ATGAGATTTAAGCTTAATTTAGCTAGCACTG
18656567 ATGAGATTTAA
1 ATGAGATTTAA
18656578 CCCAGTTTAA
Statistics
Matches: 205, Mismatches: 44, Indels: 30
0.73 0.16 0.11
Matches are distributed among these distances:
30 37 0.18
31 96 0.47
32 11 0.05
33 40 0.20
34 21 0.10
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (31 bp):
ATGAGATTTAAGCTTAATTTAGCTAGCACTG
Found at i:18658648 original size:87 final size:87
Alignment explanation
Indices: 18658549--18658731 Score: 332
Period size: 87 Copynumber: 2.1 Consensus size: 87
18658539 GATCAAAAAA
* * *
18658549 TTTTTTG-GTTGAGGTAGAACTTATCTCAATTATTATGTTAATGATGCTCGTTATGGGCTTATTG
1 TTTTTTGCTTTGAGATAGAACTTATCTCAATTATTATGTTAACGATGCTCGTTATGGGCTTATTG
18658613 TATAATGCTCAACCCTTATCTT
66 TATAATGCTCAACCCTTATCTT
18658635 TTTTTTGCTTTGAGATAGAACTTATCTCAATTATTATGTTAACGATGCTCGTTATGGGCTTATTG
1 TTTTTTGCTTTGAGATAGAACTTATCTCAATTATTATGTTAACGATGCTCGTTATGGGCTTATTG
18658700 TATAATGCTCAACCCTTATCTT
66 TATAATGCTCAACCCTTATCTT
18658722 TTTTTTGCTT
1 TTTTTTGCTT
18658732 GTTTCTTTAA
Statistics
Matches: 93, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
86 7 0.08
87 86 0.92
ACGTcount: A:0.22, C:0.15, G:0.16, T:0.47
Consensus pattern (87 bp):
TTTTTTGCTTTGAGATAGAACTTATCTCAATTATTATGTTAACGATGCTCGTTATGGGCTTATTG
TATAATGCTCAACCCTTATCTT
Found at i:18668416 original size:59 final size:57
Alignment explanation
Indices: 18668203--18668808 Score: 357
Period size: 58 Copynumber: 10.7 Consensus size: 57
18668193 ATTATTTTTT
* * * *
18668203 AAAAAT-TTTTTAAGAAAAAGTT-AAGCATCAATTTTTCGTAAAAGTAAAAGT-TTT-A
1 AAAAATGTTTTGAAG-AAAAGTTGAAGTATCAATTTTTCTTAAAA-TAAAAATATTTAA
* * *
18668258 AAAAATGTTTTG-AGAAAAAGTTGAAATATTAATCTTTT-TT-AAATAAAAA-A-ATAA
1 AAAAATGTTTTGAAG-AAAAGTTGAAGTATCAAT-TTTTCTTAAAATAAAAATATTTAA
** ** * * *
18668312 AAAAGGGTTTTTTAGGAAAGTTGAATTATCAA-TTTTCTTTAAATAAAAATATTTCAAA
1 AAAAATGTTTTGAAGAAAAGTTGAAGTATCAATTTTTCTTAAAATAAAAATATTT--AA
*
18668370 AAAAATGTTTTGAAGAAAAGTTGAAGTATTAATTTTTCTTAAAATAAAAATA--TAA
1 AAAAATGTTTTGAAGAAAAGTTGAAGTATCAATTTTTCTTAAAATAAAAATATTTAA
* ** * * *
18668425 AAAAAGGATTTTTCTAGAAAAAGTTGAAGAATAAATTTTTCTTAAAA-ATAAAAT-TTTCA
1 AAAAATG--TTTTGAAG-AAAAGTTGAAGTATCAATTTTTCTTAAAATA-AAAATATTTAA
** * * * *
18668484 AAAAATGTTTTGGGGAAAAGTTAAAGTATTAATTTTCCTTAAATAAAAAAATATTTCAA
1 AAAAATGTTTTGAAGAAAAGTTGAAGTATCAATTTTTCTTAAA-ATAAAAATATTT-AA
* * *
18668543 AGAAATATTTT-AAGAAAAAGATGAAGTATCAATTTTTCTT-AAATAAAAAATATTTCAA
1 AAAAATGTTTTGAAG-AAAAGTTGAAGTATCAATTTTTCTTAAAAT-AAAAATATTT-AA
* * * *
18668601 AAAAATATTTTGAAAAAAAAGTTAAAATATCAATTTTTC-TAAAATAAAAAATATTTAA
1 AAAAATGTTTTG-AAGAAAAGTTGAAGTATCAATTTTTCTTAAAAT-AAAAATATTTAA
* ** * * * *
18668659 GAAAACATTGT-AAGGAAAAGTTGAAGTATTAA-TTTTCTTTAAAACAAAAATAATTT-T
1 AAAAATGTTTTGAA-GAAAAGTTGAAGTATCAATTTTTC-TTAAAATAAAAAT-ATTTAA
* * * * * * *
18668716 AAGAA-GATTT-AAGGAAATAGTTGAAATATCAATATTTCTTTAAATGAAAAT-TTT-C
1 AAAAATGTTTTGAA-GAAA-AGTTGAAGTATCAATTTTTCTTAAAATAAAAATATTTAA
* * *
18668771 AAGAA---TTTGAGGAAAAAGTTGAAATATCAATTTTTCTT
1 AAAAATGTTTTGAAG-AAAAGTTGAAGTATCAATTTTTCTT
18668809 TGAAGTTAAA
Statistics
Matches: 441, Mismatches: 74, Indels: 74
0.75 0.13 0.13
Matches are distributed among these distances:
52 4 0.01
53 28 0.06
54 42 0.10
55 38 0.09
56 53 0.12
57 69 0.16
58 113 0.26
59 92 0.21
60 2 0.00
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.36
Consensus pattern (57 bp):
AAAAATGTTTTGAAGAAAAGTTGAAGTATCAATTTTTCTTAAAATAAAAATATTTAA
Found at i:18668693 original size:116 final size:113
Alignment explanation
Indices: 18668210--18668710 Score: 408
Period size: 116 Copynumber: 4.4 Consensus size: 113
18668200 TTTAAAAATT
* * *
18668210 TTTTAAGAAAAAGTT-AAGCATCAATTTT-TCGTAAAAGTAAAAGT-TTT--AAAAAATGTTTTG
1 TTTTAAGAAAAAGTTGAAGTATCAATTTTCT-TTAAAA--AAAAATATTTCAAAAAAATGTTTTG
* **
18668270 -AGAAAAAGTTGAAA-TATTAATCTTTT-TTAAATAAAAAA-A--TAAAAAAGGGT
63 AAG-AAAAGTT-AAAGTATTAAT-TTTTCTAAAATAAAAAATATTTAAAAAA--CA
* * * *
18668320 TTTTTAG-GAAAGTTGAATTATCAATTTTCTTTAAATAAAAATATTTCAAAAAAAATGTTTTGAA
1 TTTTAAGAAAAAGTTGAAGTATCAATTTTCTTTAAAAAAAAATATTTC-AAAAAAATGTTTTGAA
* * *
18668384 GAAAAGTTGAAGTATTAATTTTTCTTAAAAT-AAAAATA-TAAAAAAAGGA
65 GAAAAGTTAAAGTATTAATTTTTC-TAAAATAAAAAATATTTAAAAAA-CA
* * *
18668433 TTTTTCTAGAAAAAGTTGAAGAATAAATTTT-TCTTAAAAATAAAAT-TTTC-AAAAAATGTTTT
1 -TTTT-AAGAAAAAGTTGAAGTATCAATTTTCT-TTAAAAA-AAAATATTTCAAAAAAATGTTTT
** * * *
18668495 GGGGAAAAGTTAAAGTATTAATTTTCCTTAAATAAAAAAATATTTCAAAGAAATA
62 GAAGAAAAGTTAAAGTATTAATTTTTCTAAAAT-AAAAAATATTT-AAA-AAACA
* *
18668550 TTTTAAGAAAAAGATGAAGTATCAATTTT-TCTTAAATAAAAAATATTTCAAAAAAATATTTTGA
1 TTTTAAGAAAAAGTTGAAGTATCAATTTTCT-TTAAA-AAAAAATATTTCAAAAAAATGTTTTG-
* * *
18668614 AAAAAAAGTTAAAATATCAATTTTTCTAAAATAAAAAATATTTAAGAAAACA
63 AAGAAAAGTTAAAGTATTAATTTTTCTAAAATAAAAAATATTTAA-AAAACA
* * *
18668666 TTGTAAGGAAAAGTTGAAGTATTAATTTTCTTTAAAACAAAAATA
1 TTTTAAGAAAAAGTTGAAGTATCAATTTTCTTTAAAA-AAAAATA
18668711 ATTTTAAGAA
Statistics
Matches: 322, Mismatches: 40, Indels: 52
0.78 0.10 0.13
Matches are distributed among these distances:
108 5 0.02
109 9 0.03
110 21 0.07
111 7 0.02
112 32 0.10
113 15 0.05
114 45 0.14
115 45 0.14
116 81 0.25
117 34 0.11
118 28 0.09
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.36
Consensus pattern (113 bp):
TTTTAAGAAAAAGTTGAAGTATCAATTTTCTTTAAAAAAAAATATTTCAAAAAAATGTTTTGAAG
AAAAGTTAAAGTATTAATTTTTCTAAAATAAAAAATATTTAAAAAACA
Found at i:18668766 original size:57 final size:54
Alignment explanation
Indices: 18668497--18668809 Score: 178
Period size: 59 Copynumber: 5.5 Consensus size: 54
18668487 AATGTTTTGG
* * *
18668497 GGAAAAGTT-AAAGTATTAA-TTTTCCTTAAATAAAAAAATATTTCAAAGAAATATTTTAA
1 GGAAAAGTTGAAA-TATCAATTTTTCTTTAAATAAAATAAT-TTT--AAG-AA-A-TTTAA
* * * *
18668556 GAAAAAGATGAAGTATCAATTTTTC-TTAAATAAAA-AATATTTCAAAAAAATATTTTGAA
1 GGAAAAGTTGAAATATCAATTTTTCTTTAAATAAAATAAT-TTT---AAGAA-A-TTT-AA
** * *
18668615 AAAAAAGTTAAAATATCAATTTTTC-TAAAATAAAA-AATATTTAAGAAAACATTGTAA
1 GGAAAAGTTGAAATATCAATTTTTCTTTAAATAAAATAAT-TTTAAG--AA-ATT-TAA
* * *
18668672 GGAAAAGTTGAAGTATTAA-TTTTCTTTAAAACAAAAATAATTTTAAGAAGATTTAA
1 GGAAAAGTTGAAATATCAATTTTTCTTT-AAA-TAAAATAATTTTAAGAA-ATTTAA
* * *
18668728 GGAAATAGTTGAAATATCAATATTTCTTTAAATGAAAAT--TTTCAAG-AATTTGA
1 GGAAA-AGTTGAAATATCAATTTTTCTTTAAAT-AAAATAATTTTAAGAAATTTAA
18668781 GGAAAAAGTTGAAATATCAATTTTTCTTT
1 GG-AAAAGTTGAAATATCAATTTTTCTTT
18668810 GAAGTTAAAT
Statistics
Matches: 211, Mismatches: 28, Indels: 36
0.77 0.10 0.13
Matches are distributed among these distances:
53 29 0.14
54 4 0.02
55 6 0.03
56 15 0.07
57 44 0.21
58 29 0.14
59 74 0.35
60 10 0.05
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (54 bp):
GGAAAAGTTGAAATATCAATTTTTCTTTAAATAAAATAATTTTAAGAAATTTAA
Found at i:18668792 original size:53 final size:54
Alignment explanation
Indices: 18668669--18668832 Score: 154
Period size: 53 Copynumber: 3.0 Consensus size: 54
18668659 GAAAACATTG
* * * ** *
18668669 TAAGG-AAAAGTTGAAGTATTAAT-TTTCTTTAAAACAAAAATAATTTTAAGAAGATT
1 TAAGGAAAAAGTTGAAATATCAATATTTCTTTGAAATGAAAAT--TTTCAAG-A-ATT
*
18668725 TAAGGAAATAGTTGAAATATCAATATTTCTTT-AAATGAAAATTTTCAAGAATT
1 TAAGGAAAAAGTTGAAATATCAATATTTCTTTGAAATGAAAATTTTCAAGAATT
* * * * * *
18668778 TGAGGAAAAAGTTGAAATATCAATTTTTCTTTGAAGTTAAATTTTTTAAGAATT
1 TAAGGAAAAAGTTGAAATATCAATATTTCTTTGAAATGAAAATTTTCAAGAATT
18668832 T
1 T
18668833 TATAAAAAAG
Statistics
Matches: 92, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
53 32 0.35
54 19 0.21
55 6 0.07
56 5 0.05
57 23 0.25
58 7 0.08
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.39
Consensus pattern (54 bp):
TAAGGAAAAAGTTGAAATATCAATATTTCTTTGAAATGAAAATTTTCAAGAATT
Found at i:18668849 original size:53 final size:53
Alignment explanation
Indices: 18668734--18668849 Score: 126
Period size: 53 Copynumber: 2.2 Consensus size: 53
18668724 TTAAGGAAAT
* *
18668734 AGTTGAAATATCAATATTTCTTTAAATGAAAATTTTCAAGAATTTGAGGAAAA
1 AGTTAAAATATCAATATTTCTTTAAATGAAAATTTTCAAGAATTTGAGAAAAA
* * * * * * * *
18668787 AGTTGAAATATCAATTTTTCTTTGAAGTTAAATTTTTTAAGAATTTTATAAAAA
1 AGTTAAAATATCAATATTTCTTT-AAATGAAAATTTTCAAGAATTTGAGAAAAA
18668841 AG-TAAAATA
1 AGTTAAAATA
18668850 AATGTTAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 28 0.53
54 25 0.47
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (53 bp):
AGTTAAAATATCAATATTTCTTTAAATGAAAATTTTCAAGAATTTGAGAAAAA
Found at i:18669907 original size:17 final size:17
Alignment explanation
Indices: 18669885--18669926 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
18669875 TTATCTAGTT
18669885 TCATTCATGCATCTCAC
1 TCATTCATGCATCTCAC
*
18669902 TCATTCATGCATCTCAT
1 TCATTCATGCATCTCAC
18669919 TCATTCAT
1 TCATTCAT
18669927 ATAGTACATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.24, C:0.31, G:0.05, T:0.40
Consensus pattern (17 bp):
TCATTCATGCATCTCAC
Found at i:18674851 original size:23 final size:23
Alignment explanation
Indices: 18674823--18674867 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
18674813 ATCAGTTTTA
*
18674823 AAAACCTTCAGGTA-ATACTTCTT
1 AAAACCTCCAGGTATAT-CTTCTT
18674846 AAAACCTCCAGGTATATCTTCT
1 AAAACCTCCAGGTATATCTTCT
18674868 CAGCTTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.33
Consensus pattern (23 bp):
AAAACCTCCAGGTATATCTTCTT
Found at i:18677634 original size:56 final size:55
Alignment explanation
Indices: 18677482--18677815 Score: 222
Period size: 56 Copynumber: 6.0 Consensus size: 55
18677472 AATAGATATA
* * *
18677482 AAAATATTTCAAAAAATATTTTGAGAAAAAATTGAAGTATCAATTTTTCTCAAATAAA-
1 AAAA-ATTTAAAAAAATATTTTGAGAAAAAGTTGAAGTATCAATTTTT-T--TATAAAT
* * * * *
18677540 AAATTATTTCAAAAAAATGTTTTAAGGAAAAGTT-AAGTATTAATTTTTCTTATAAAT
1 AAA-AATTT-AAAAAAATATTTTGAGAAAAAGTTGAAGTATCAATTTTT-TTATAAAT
18677597 AAAAATTTAAAAAAATATTTTGAGAAAAAGTTGAAGTATCAATTTTTTT-TAAAT
1 AAAAATTTAAAAAAATATTTTGAGAAAAAGTTGAAGTATCAATTTTTTTATAAAT
* * * *
18677651 AAAAA-ATATAAAAAATGGTTTTTCATG-AAAAGTTGAAGTATCAATTTTTTTA-AATAA
1 AAAAATTTA-AAAAAAT--ATTTTGA-GAAAAAGTTGAAGTATCAATTTTTTTATAA-AT
* * * * * * ** *
18677708 AAAAATATAAAAAAAGATTTTTTAGGAAAAGTTTAAGTATTAA-----GGAAAATAT
1 AAAAATTTAAAAAAATA-TTTTGAGAAAAAGTTGAAGTATCAATTTTTTTATAA-AT
* * * *
18677760 AAAAATATAACAAAATGATTTTTTAGAAAAAGTTGAAGTATCAATTTTTTTTTAAA
1 AAAAATTTAAAAAAAT-A-TTTTGAGAAAAAGTTGAAGTATCAATTTTTTTATAAA
18677816 ACAAAAATAA
Statistics
Matches: 222, Mismatches: 34, Indels: 41
0.75 0.11 0.14
Matches are distributed among these distances:
51 1 0.00
52 18 0.08
53 26 0.12
54 17 0.08
55 24 0.11
56 73 0.33
57 17 0.08
58 27 0.12
59 19 0.09
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.37
Consensus pattern (55 bp):
AAAAATTTAAAAAAATATTTTGAGAAAAAGTTGAAGTATCAATTTTTTTATAAAT
Found at i:18679342 original size:3 final size:3
Alignment explanation
Indices: 18679336--18679425 Score: 76
Period size: 3 Copynumber: 29.7 Consensus size: 3
18679326 CAACAACAAC
* * * * *
18679336 AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT GAT GAT GAT AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
18679384 AAC AAT AAT AAT AAT GAT AAGT AA- AAT AAAT AA- AATT AAT AA
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT -AAT AAT AA-T AAT AA
18679426 ATAAAATGCA
Statistics
Matches: 74, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
2 4 0.05
3 62 0.84
4 8 0.11
ACGTcount: A:0.61, C:0.01, G:0.08, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:18679424 original size:13 final size:13
Alignment explanation
Indices: 18679408--18679432 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18679398 TGATAAGTAA
18679408 AATAAATAAAATT
1 AATAAATAAAATT
18679421 AATAAATAAAAT
1 AATAAATAAAAT
18679433 GCAAATAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAAATAAAATT
Found at i:18679445 original size:18 final size:18
Alignment explanation
Indices: 18679424--18679462 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
18679414 TAAAATTAAT
* *
18679424 AAATAAAATGCAAATAGA
1 AAATAAAATGAAAAAAGA
18679442 AAATAAAATGAAAAAAGA
1 AAATAAAATGAAAAAAGA
18679460 AAA
1 AAA
18679463 AAGAAAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.74, C:0.03, G:0.10, T:0.13
Consensus pattern (18 bp):
AAATAAAATGAAAAAAGA
Found at i:18682757 original size:25 final size:23
Alignment explanation
Indices: 18682712--18682755 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
18682702 TCAAATGGGT
*
18682712 TCATTCTATATGACCTTTTTTCA
1 TCATTCTATATAACCTTTTTTCA
18682735 TCATTCTATATAACCTTTTTT
1 TCATTCTATATAACCTTTTTT
18682756 TTTTGTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.20, G:0.02, T:0.55
Consensus pattern (23 bp):
TCATTCTATATAACCTTTTTTCA
Found at i:18682936 original size:20 final size:20
Alignment explanation
Indices: 18682855--18682928 Score: 80
Period size: 20 Copynumber: 3.6 Consensus size: 20
18682845 CATGGGGGGC
** *
18682855 ATATAAAAAAAAATAAAATA
1 ATATAAAAATGAATAAAAAA
18682875 ATA-ACAAAAT-AATTAACAAAA
1 ATATA-AAAATGAA-TAA-AAAA
18682896 ATATAAAAATGAATAAAAAA
1 ATATAAAAATGAATAAAAAA
18682916 ATATAAAAATGAA
1 ATATAAAAATGAA
18682929 AAGAAAAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
19 3 0.06
20 27 0.57
21 14 0.30
22 3 0.06
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (20 bp):
ATATAAAAATGAATAAAAAA
Found at i:18683444 original size:22 final size:22
Alignment explanation
Indices: 18683394--18683450 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 22
18683384 CTCGGTGAAA
18683394 AAAGGTAA-AAAAAAAAAAAAGC
1 AAAGG-AAGAAAAAAAAAAAAGC
* *
18683416 AAA--AAGAAAAAAATAAAAGG
1 AAAGGAAGAAAAAAAAAAAAGC
*
18683436 AAAGGAAGAATAAAA
1 AAAGGAAGAAAAAAA
18683451 GAAAGAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 2 0.07
20 15 0.52
22 12 0.41
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.05
Consensus pattern (22 bp):
AAAGGAAGAAAAAAAAAAAAGC
Found at i:18684157 original size:34 final size:34
Alignment explanation
Indices: 18684114--18684863 Score: 329
Period size: 34 Copynumber: 22.3 Consensus size: 34
18684104 TAACATATTT
* *
18684114 GATTTTAAGCCTAGTTTACCTGGCACTTGATGAA
1 GATTTTAAGCCTAATTTACCTAGCACTTGATGAA
* * * *
18684148 GATTTTAAGCCTAGTTTACTTAGCCCATGATGAA
1 GATTTTAAGCCTAATTTACCTAGCACTTGATGAA
* * *
18684182 GATTTTAAGCCCAATTTACCTAGCATCAT-ATAAA
1 GATTTTAAGCCTAATTTACCTAGCA-CTTGATGAA
* * * * * *
18684216 GATTTTAAGCCCAATTTATCTGGCCCCTAATGAA
1 GATTTTAAGCCTAATTTACCTAGCACTTGATGAA
* * * * *
18684250 AATTTTAAGCTTAGTTTACTTAGCACATGATGAA
1 GATTTTAAGCCTAATTTACCTAGCACTTGATGAA
* * * ** *
18684284 GATTTTAAAGCCCAATTTACTTGGCACCAG-CGAA
1 GATTTT-AAGCCTAATTTACCTAGCACTTGATGAA
* * * *
18684318 -ATTTTAAGCCTAATTTACCTGGCTCCTAATGAA
1 GATTTTAAGCCTAATTTACCTAGCACTTGATGAA
* * * * * * *
18684351 AATTTTAAACCCAGTTTACTTAGCACCTGAAGAA
1 GATTTTAAGCCTAATTTACCTAGCACTTGATGAA
* * * *
18684385 GATTTTAAGCTTAATTTATCTAGCCCCTGATGAA
1 GATTTTAAGCCTAATTTACCTAGCACTTGATGAA
* * * * * * * *
18684419 AATTTTAATCCCAATTTACCTAACCCCTAATAAA
1 GATTTTAAGCCTAATTTACCTAGCACTTGATGAA
* * * * * *
18684453 AATTCTAAGTCTAATTTATCTGGCACCTGATGAA
1 GATTTTAAGCCTAATTTACCTAGCACTTGATGAA
* ** * * *
18684487 GATTTTAAAGCCCAGCTTAACTAGC-TTTCAGTGAA
1 GATTTT-AAGCCTAATTTACCTAGCACTTGA-TGAA
* * *
18684522 -AATTTAAGCCTAATTTATCTAAC-CTCTGATGAA
1 GATTTTAAGCCTAATTTACCTAGCACT-TGATGAA
* * * *
18684555 -A-ATTAAACCTAGTTTACTTAGCA-TATGAT-AA
1 GATTTTAAGCCTAATTTACCTAGCACT-TGATGAA
* * * * *
18684586 -AATTTAAGCCCAATTTATCTGGCCCTTGATGAA
1 GATTTTAAGCCTAATTTACCTAGCACTTGATGAA
* * * *
18684619 AATTTTAAACGC-AGTTTACCTAGC-CTTTAATGAA
1 GATTTTAAGC-CTAATTTACCTAGCAC-TTGATGAA
* * *
18684653 AATTTCAAGCCTAATTTACCTAGCACTTAATGAA
1 GATTTTAAGCCTAATTTACCTAGCACTTGATGAA
* *
18684687 GATTTTAAGCCTAGTTTATCTAGC-CTCTGAT-AA
1 GATTTTAAGCCTAATTTACCTAGCACT-TGATGAA
** * *
18684720 -AAATTAAGCCCAATTTACCT-GACACCTGATGAA
1 GATTTTAAGCCTAATTTACCTAG-CACTTGATGAA
* * * *
18684753 -A-TTTAAGCCCAGTTTATCTGGCACTTGATGAA
1 GATTTTAAGCCTAATTTACCTAGCACTTGATGAA
* * * *
18684785 GATTTTAAAGCCCAACTTAGCT-G-ACTCTTAGTGAA
1 GATTTT-AAGCCTAATTTACCTAGCACT-TGA-TGAA
* * * * *
18684820 -AATTTAAGCCTAGTTTACTTAACACATGATGAA
1 GATTTTAAGCCTAATTTACCTAGCACTTGATGAA
18684853 GATTTTCAAGC
1 GATTTT-AAGC
18684864 TCAGCTTAGC
Statistics
Matches: 540, Mismatches: 145, Indels: 61
0.72 0.19 0.08
Matches are distributed among these distances:
31 4 0.01
32 101 0.19
33 61 0.11
34 314 0.58
35 60 0.11
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (34 bp):
GATTTTAAGCCTAATTTACCTAGCACTTGATGAA
Found at i:18684290 original size:102 final size:101
Alignment explanation
Indices: 18684115--18684799 Score: 513
Period size: 102 Copynumber: 6.8 Consensus size: 101
18684105 AACATATTTG
* * * * * * *
18684115 ATTTTAAGCCTAGTTTACCTGGCACTTGATGAAGATTTTAAGCCTAGTTTACTTAGCCCATGATG
1 ATTTTAAGCCCAATTTACCTGGCCCCTAATGAAAATTTTAAGCCTAGTTTACTTAGCACATGATG
* *
18684180 AAGATTTTAAGCCCAATTTACCTAGCATCAT-ATAAA
66 AAGATTTTAAGCCCAATTTATCTAGC-CCATGATAAA
* *
18684216 GATTTTAAGCCCAATTTATCTGGCCCCTAATGAAAATTTTAAGCTTAGTTTACTTAGCACATGAT
1 -ATTTTAAGCCCAATTTACCTGGCCCCTAATGAAAATTTTAAGCCTAGTTTACTTAGCACATGAT
* **
18684281 GAAGATTTTAAAGCCCAATTTA-CTTGGCACCA-G-CGAA
65 GAAGATTTT-AAGCCCAATTTATC-TAGC-CCATGATAAA
* * * * * *
18684318 ATTTTAAGCCTAATTTACCTGGCTCCTAATGAAAATTTTAAACCCAGTTTACTTAGCACCTGAAG
1 ATTTTAAGCCCAATTTACCTGGCCCCTAATGAAAATTTTAAGCCTAGTTTACTTAGCACATGATG
** *
18684383 AAGATTTTAAGCTTAATTTATCTAGCCCCTGATGAAA
66 AAGATTTTAAGCCCAATTTATCTAGCCCATGAT-AAA
* ** * * * * * *
18684420 ATTTTAATCCCAATTTACCTAACCCCTAATAAAAATTCTAAGTCTAATTTA-TCTGGCACCTGAT
1 ATTTTAAGCCCAATTTACCTGGCCCCTAATGAAAATTTTAAGCCTAGTTTACT-TAGCACATGAT
** * *
18684484 GAAGATTTTAAAGCCCAGCTTAACTAGCTTTCA-G-TGAAA
65 GAAGATTTT-AAGCCCAATTTATCTAGC--CCATGAT-AAA
* * ** * * * *
18684523 A-TTTAAGCCTAATTTATCTAACCTCTGATGAAAA--TTAAACCTAGTTTACTTAGCATATGAT-
1 ATTTTAAGCCCAATTTACCTGGCCCCTAATGAAAATTTTAAGCCTAGTTTACTTAGCACATGATG
* * *
18684584 AA-AATTTAAGCCCAATTTATCTGGCCCTTGATGAAA
66 AAGATTTTAAGCCCAATTTATCTAGCCCATGAT-AAA
* * * * ** * * * * *
18684620 ATTTTAAACGCAGTTTACCTAGCCTTTAATGAAAATTTCAAGCCTAATTTACCTAGCACTTAATG
1 ATTTTAAGCCCAATTTACCTGGCCCCTAATGAAAATTTTAAGCCTAGTTTACTTAGCACATGATG
* *
18684685 AAGATTTTAAGCCTAGTTTATCTAGCCTC-TGATAAA
66 AAGATTTTAAGCCCAATTTATCTAGCC-CATGATAAA
* * * * * * *
18684721 A-ATTAAGCCCAATTTACCTGACACCTGATG-AAA-TTTAAGCCCAGTTTA-TCTGGCACTTGAT
1 ATTTTAAGCCCAATTTACCTGGCCCCTAATGAAAATTTTAAGCCTAGTTTACT-TAGCACATGAT
18684782 GAAGATTTTAAAGCCCAA
65 GAAGATTTT-AAGCCCAA
18684800 CTTAGCTGAC
Statistics
Matches: 457, Mismatches: 104, Indels: 47
0.75 0.17 0.08
Matches are distributed among these distances:
95 1 0.00
96 1 0.00
97 20 0.04
98 59 0.13
99 13 0.03
100 71 0.16
101 74 0.16
102 178 0.39
103 38 0.08
104 1 0.00
105 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.34
Consensus pattern (101 bp):
ATTTTAAGCCCAATTTACCTGGCCCCTAATGAAAATTTTAAGCCTAGTTTACTTAGCACATGATG
AAGATTTTAAGCCCAATTTATCTAGCCCATGATAAA
Found at i:18684725 original size:166 final size:166
Alignment explanation
Indices: 18684524--18684863 Score: 407
Period size: 166 Copynumber: 2.0 Consensus size: 166
18684514 TCAGTGAAAA
* * * * *
18684524 TTTAAGCCTAATTTATCTAACCTCTGATGAAAATTAAACCTAGTTTA-CTTAGCATATGATAAAA
1 TTTAAGCCTAATTTATCTAACCTCTGATAAAAATTAAACCCAATTTACCTGA-CACATGATAAAA
* * ** *
18684588 TTTAAGCCCAATTTATCTGGCCCTTGATGAAAATTTTAAA-CGCAGTTTACCTAGCCT-TTAATG
65 TTTAAGCCCAATTTATCTGGCACTTGATGAAAATTTTAAAGCCCAACTTACCT-GACTCTTAATG
* *
18684651 AAAATTTCAAGCCTAATTTACCTAGCACTTAATGAAGAT
129 AAAATTT-AAGCCTAATTTACCTAACACATAATGAAGAT
* * * * *
18684690 TTTAAGCCTAGTTTATCTAGCCTCTGATAAAAATTAAGCCCAATTTACCTGACACCTGATGAAAT
1 TTTAAGCCTAATTTATCTAACCTCTGATAAAAATTAAACCCAATTTACCTGACACATGATAAAAT
* * * *
18684755 TTAAGCCCAGTTTATCTGGCACTTGATGAAGATTTTAAAGCCCAACTTAGCTGACTCTTAGTGAA
66 TTAAGCCCAATTTATCTGGCACTTGATGAAAATTTTAAAGCCCAACTTACCTGACTCTTAATGAA
* * *
18684820 AATTTAAGCCTAGTTTACTTAACACATGATGAAGAT
131 AATTTAAGCCTAATTTACCTAACACATAATGAAGAT
18684856 TTTCAAGC
1 TTT-AAGC
18684864 TCAGCTTAGC
Statistics
Matches: 146, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
166 119 0.82
167 27 0.18
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (166 bp):
TTTAAGCCTAATTTATCTAACCTCTGATAAAAATTAAACCCAATTTACCTGACACATGATAAAAT
TTAAGCCCAATTTATCTGGCACTTGATGAAAATTTTAAAGCCCAACTTACCTGACTCTTAATGAA
AATTTAAGCCTAATTTACCTAACACATAATGAAGAT
Found at i:18684782 original size:32 final size:32
Alignment explanation
Indices: 18684467--18684798 Score: 156
Period size: 32 Copynumber: 10.0 Consensus size: 32
18684457 CTAAGTCTAA
* *
18684467 TTTATCTGGCACCTGATGAAGATTTTAAAGCCCAG
1 TTTATCTAGCACTTGATGAA-A-TTT-AAGCCCAG
* * * * * *
18684502 CTTAACTAGC-TTTCAGTGAAAATTTAAGCCTAA
1 TTTATCTAGCACTTGA-TG-AAATTTAAGCCCAG
* * * *
18684535 TTTATCTAAC-CTCTGATGAAAATTAAACCTAG
1 TTTATCTAGCACT-TGATGAAATTTAAGCCCAG
* *
18684567 TTTA-CTTAGCA-TATGATAAAATTTAAGCCCAA
1 TTTATC-TAGCACT-TGATGAAATTTAAGCCCAG
* * * *
18684599 TTTATCTGGCCCTTGATGAAAATTTTAAACGCAG
1 TTTATCTAGCACTTGATG-AAA-TTTAAGCCCAG
* * * *
18684633 TTTACCTAGC-CTTTAATGAAAATTTCAAGCCTAA
1 TTTATCTAGCAC-TTGATG-AAATTT-AAGCCCAG
* * *
18684667 TTTACCTAGCACTTAATGAAGATTTTAAGCCTAG
1 TTTATCTAGCACTTGATGAA-A-TTTAAGCCCAG
* * *
18684701 TTTATCTAGC-CTCTGATAAAAATTAAGCCCAA
1 TTTATCTAGCACT-TGATGAAATTTAAGCCCAG
* *
18684733 TTTACCT-GACACCTGATGAAATTTAAGCCCAG
1 TTTATCTAG-CACTTGATGAAATTTAAGCCCAG
*
18684765 TTTATCTGGCACTTGATGAAGATTTTAAAGCCCA
1 TTTATCTAGCACTTGATGAA-A-TTT-AAGCCCA
18684799 ACTTAGCTGA
Statistics
Matches: 226, Mismatches: 50, Indels: 42
0.71 0.16 0.13
Matches are distributed among these distances:
31 2 0.01
32 91 0.40
33 33 0.15
34 77 0.34
35 21 0.09
36 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (32 bp):
TTTATCTAGCACTTGATGAAATTTAAGCCCAG
Found at i:18684850 original size:68 final size:68
Alignment explanation
Indices: 18684751--18684881 Score: 174
Period size: 68 Copynumber: 1.9 Consensus size: 68
18684741 ACACCTGATG
** *
18684751 AAATTTAAGCCCAGTTTATCTGGCACTTGATGAAGATTTTAAAGCCCAACTTAGCTGACTCTTAG
1 AAATTTAAGCCCAGTTTATCTAACACATGATGAAGATTTTAAAGCCCAACTTAGCTGACTCTTAG
18684816 TGA
66 TGA
* * * * *
18684819 AAATTTAAGCCTAGTTTA-CTTAACACATGATGAAGATTTTCAAGCTCAGCTTAGCTGGCTCTT
1 AAATTTAAGCCCAGTTTATC-TAACACATGATGAAGATTTTAAAGCCCAACTTAGCTGACTCTT
18684882 GGCTCTCAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
67 1 0.02
68 53 0.98
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.34
Consensus pattern (68 bp):
AAATTTAAGCCCAGTTTATCTAACACATGATGAAGATTTTAAAGCCCAACTTAGCTGACTCTTAG
TGA
Found at i:18685400 original size:18 final size:18
Alignment explanation
Indices: 18685365--18685407 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
18685355 ATTCGCATTC
* *
18685365 TTGCATTTATATTAACAT
1 TTGCATTCACATTAACAT
*
18685383 TTGCATTCACATTGACAT
1 TTGCATTCACATTAACAT
*
18685401 TTCCATT
1 TTGCATT
18685408 AGCATCATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.47
Consensus pattern (18 bp):
TTGCATTCACATTAACAT
Found at i:18686075 original size:299 final size:301
Alignment explanation
Indices: 18685522--18686096 Score: 906
Period size: 299 Copynumber: 1.9 Consensus size: 301
18685512 ATGAAGATAT
** * *
18685522 AAGAAAAAAGTAGTTTGAAAAGCTATCAAAGTATCAAAAAGGTTTGAAAAGTTAAAGGAAATATG
1 AAGAAAAAAGTAGTTTGAAAAGAGATCAAAGTATCAAAAAGGTTTGAAAACTTAAAAGAAATATG
*
18685587 ATCTACAAAAAGTAGAGGGATTGTTGAAAAATTGAAAAAAAAATAGATATGATACATGATAAGAC
66 ATCTACAAAAAGTAGAGGGATTGTTGAAAAAATGAAAAAAAAATAGATATGATACATGATAAGAC
* *
18685652 TTAAGTCTAATTAAGCTGGCACCCAGGTATATTTCCAAAAACATTTTAAATTTTTAAAGTTTCAA
131 TTAAGTCTAATTAAGCTGGCACCCAAGTATATTTCCAAAAACATTTTAAAATTTTAAAGTTTCAA
* *
18685717 CACCTCTATTACGATGAGCATTCAAAGATTTTTGAGATTTGTAAGACCGTTAAGCATAATTTTTA
196 CACCCCTATTACGATGAGCATTCAAAGATTTTTGAGATTTGTAAGACCGTTAAGCATAATTTCTA
*
18685782 AGTTCTCTAGGCATAAAAGTCTATCATGAAAATATGAAAAA
261 AGTCCTCTAGGCATAAAAGTCTATCATGAAAATATGAAAAA
*
18685823 AAGAAAAAA-TAGTTTGAAAAGAGATGAAAGTATCAAAAAGGTTTGAAAACTTAAAAGAAATATG
1 AAGAAAAAAGTAGTTTGAAAAGAGATCAAAGTATCAAAAAGGTTTGAAAACTTAAAAGAAATATG
18685887 ATCTACAAAAAGTAGAGGGATTGTTGAAAAAATGAAAAAAAAA-AGATATGATACA-GAATAAGA
66 ATCTACAAAAAGTAGAGGGATTGTTGAAAAAATGAAAAAAAAATAGATATGATACATG-ATAAGA
* * **
18685950 CTTAAGTCTAATTAAGTTGGCACCTAAGTATATTTTTAAAAACATTTTAAAATTTTAAAGTTTCA
130 CTTAAGTCTAATTAAGCTGGCACCCAAGTATATTTCCAAAAACATTTTAAAATTTTAAAGTTTCA
* * * * * * *
18686015 GCACCCCTATTATGATGAGTATTTAAAGATTTTTTA-ATTTTGTAAGACCTTTAGGCATAATTTC
195 ACACCCCTATTACGATGAGCATTCAAAGATTTTTGAGA-TTTGTAAGACCGTTAAGCATAATTTC
18686079 TAAGTCCTCTAGGCATAA
259 TAAGTCCTCTAGGCATAA
18686097 TTTCCAAGAC
Statistics
Matches: 250, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
298 2 0.01
299 147 0.59
300 92 0.37
301 9 0.04
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (301 bp):
AAGAAAAAAGTAGTTTGAAAAGAGATCAAAGTATCAAAAAGGTTTGAAAACTTAAAAGAAATATG
ATCTACAAAAAGTAGAGGGATTGTTGAAAAAATGAAAAAAAAATAGATATGATACATGATAAGAC
TTAAGTCTAATTAAGCTGGCACCCAAGTATATTTCCAAAAACATTTTAAAATTTTAAAGTTTCAA
CACCCCTATTACGATGAGCATTCAAAGATTTTTGAGATTTGTAAGACCGTTAAGCATAATTTCTA
AGTCCTCTAGGCATAAAAGTCTATCATGAAAATATGAAAAA
Found at i:18686091 original size:22 final size:22
Alignment explanation
Indices: 18686057--18686115 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
18686047 TTTAATTTTG
*
18686057 TAAGACCTTTAGGCATAATTTC
1 TAAGACCTCTAGGCATAATTTC
*
18686079 TAAGTCCTCTAGGCATAATTTC
1 TAAGACCTCTAGGCATAATTTC
* *
18686101 CAAGACCTCAAGGCA
1 TAAGACCTCTAGGCA
18686116 AAACATTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (22 bp):
TAAGACCTCTAGGCATAATTTC
Found at i:18686198 original size:82 final size:83
Alignment explanation
Indices: 18686102--18686274 Score: 233
Period size: 82 Copynumber: 2.1 Consensus size: 83
18686092 CATAATTTCC
* *
18686102 AAGACCTCAAGGCAAAACATTTTAAATTTTTAAAGTTTCAACGCCTCT-ATTAT-GATAAGCATT
1 AAGACCTCAAGGCAAAACATTTTAAATTTTCAAAGTTTCAACGCCTCTAATT-TGGAAAAGCATT
* * * *
18686165 CAAAGATTTTGAGATTTGT
65 CAAAAATGTTAAAATTTGT
* * * *
18686184 AAGACTTCCAGGCAAAACATTTTAAATTTTCAAAGTTTTAATGCCTCTAATTTGGAAAAGCATTC
1 AAGACCTCAAGGCAAAACATTTTAAATTTTCAAAGTTTCAACGCCTCTAATTTGGAAAAGCATTC
18686249 AAAAATGTTAAAATTTGT
66 AAAAATGTTAAAATTTGT
18686267 AAGACCTC
1 AAGACCTC
18686275 TGTGCATAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
82 44 0.56
83 34 0.44
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (83 bp):
AAGACCTCAAGGCAAAACATTTTAAATTTTCAAAGTTTCAACGCCTCTAATTTGGAAAAGCATTC
AAAAATGTTAAAATTTGT
Found at i:18686354 original size:36 final size:36
Alignment explanation
Indices: 18686314--18686505 Score: 206
Period size: 37 Copynumber: 5.2 Consensus size: 36
18686304 AACATTTCAA
*
18686314 ATTTTCAAAGTTTTAAAGCCTCTATTTAGGGGAGCC
1 ATTTTCAAAGTTTCAAAGCCTCTATTTAGGGGAGCC
* * * *
18686350 ATTTTTAAAGTTTCGAAGTCTCTATTT-GGAGGAGTC
1 ATTTTCAAAGTTTCAAAGCCTCTATTTAGG-GGAGCC
* * *
18686386 ATTTTCAAAATTTCAAAGCCTCTATTTAAAGGGAGCT
1 ATTTTCAAAGTTTCAAAGCCTCTATTT-AGGGGAGCC
* * *
18686423 ATTTTCAAAGTTTCAAAGCCTTTGTTTGGGGGGAGCC
1 ATTTTCAAAGTTTCAAAGCCTCTATTT-AGGGGAGCC
* * **
18686460 ATCTTCAAAGTTTCAAAGCCTCTGTTTAGGGAGAGTA
1 ATTTTCAAAGTTTCAAAGCCTCTATTTAGGG-GAGCC
18686497 ATTTTCAAA
1 ATTTTCAAA
18686506 AAAGATTTCA
Statistics
Matches: 127, Mismatches: 25, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
35 2 0.02
36 54 0.43
37 70 0.55
38 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (36 bp):
ATTTTCAAAGTTTCAAAGCCTCTATTTAGGGGAGCC
Found at i:18687881 original size:26 final size:26
Alignment explanation
Indices: 18687851--18687913 Score: 117
Period size: 26 Copynumber: 2.4 Consensus size: 26
18687841 AAAAAGGAGT
18687851 AAGAAGCTGCCTAAGGAAGAAAAAAA
1 AAGAAGCTGCCTAAGGAAGAAAAAAA
18687877 AAGAAGCTGCCTAAGGAAGAAAAAAA
1 AAGAAGCTGCCTAAGGAAGAAAAAAA
*
18687903 AGGAAGCTGCC
1 AAGAAGCTGCC
18687914 AGCAAAATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.52, C:0.14, G:0.25, T:0.08
Consensus pattern (26 bp):
AAGAAGCTGCCTAAGGAAGAAAAAAA
Found at i:18689790 original size:63 final size:60
Alignment explanation
Indices: 18689489--18689890 Score: 248
Period size: 63 Copynumber: 6.5 Consensus size: 60
18689479 GTTTAATTGA
* * *
18689489 GGGAAAAG-TGAAAGTATCAATTTTTTCTCG-AATTAAAAGTCTTC--CAAAAAATATTTTT
1 GGGAAAAGTTGAAAGTATCAA-TTTTCCTCGAAATT-AAAGTTTTCAAAAAAAAATATTTTT
* ****
18689547 GCGGGAAAAAGTTGAAAGTATCAATTTTCTTTCGAAATTCAAAGTTTTGTTCCAAAAAAT-TTTT
1 --GGG-AAAAGTTGAAAGTATCAATTTTC-CTCGAAATT-AAAGTTTT-CAAAAAAAAATATTTT
18689611 T
60 T
* ** * * ** ** *
18689612 GAGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTTTTAAAAAAGGTTTTTTT
1 --GGG-AAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAAAAATATTTTT
* * ** *
18689675 GAGGAAAAGTGGAAAGTGATCAATTTTAAACTTTAAAATTTAAA-TTTTCAAAAAAAAAAAATGA
1 G-GGAAAAGTTGAAAGT-ATCAATTTT---CCTCGAAA-TTAAAGTTTTC-AAAAAAAAATAT--
18689739 TTTT
57 TTTT
* *
18689743 GAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTC---AAAAAATATTTTT
1 GGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAAAAATATTTTT
* * * *
18689800 AGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAGCTTTCCACAAAAACAATATTTTTT
1 -GGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAG-TTTTCA-AAAAAAAATA-TTTTT
18689863 GGGAAAAAGTTGAAAGTATCAATTTTCC
1 GGG-AAAAGTTGAAAGTATCAATTTTCC
18689891 CTGCATAAAA
Statistics
Matches: 277, Mismatches: 39, Indels: 49
0.76 0.11 0.13
Matches are distributed among these distances:
57 7 0.03
58 35 0.13
59 8 0.03
60 3 0.01
61 22 0.08
62 48 0.17
63 61 0.22
64 5 0.02
65 42 0.15
66 28 0.10
67 13 0.05
68 5 0.02
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (60 bp):
GGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAAAAATATTTTT
Found at i:18691029 original size:21 final size:21
Alignment explanation
Indices: 18691005--18691055 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
18690995 TTCATATTAG
18691005 ATTTCATTCAGAAAAATGTAC
1 ATTTCATTCAGAAAAATGTAC
18691026 ATTTCATTCAGAAAAATGTAC
1 ATTTCATTCAGAAAAATGTAC
18691047 ATTTCATTC
1 ATTTCATTC
18691056 GTGCATCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (21 bp):
ATTTCATTCAGAAAAATGTAC
Found at i:18695004 original size:22 final size:22
Alignment explanation
Indices: 18694970--18695028 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
18694960 GAATATTTTG
* *
18694970 ATGAAAATTTTTGAGAACTC-AA
1 ATGAGAATCTTTGAG-ACTCAAA
**
18694992 ATGAGAATCTTTGAGTTTCAAA
1 ATGAGAATCTTTGAGACTCAAA
18695014 ATGAGAATCTTTGAG
1 ATGAGAATCTTTGAG
18695029 GAGTGAAGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.34
Consensus pattern (22 bp):
ATGAGAATCTTTGAGACTCAAA
Found at i:18695657 original size:41 final size:40
Alignment explanation
Indices: 18695571--18696118 Score: 634
Period size: 41 Copynumber: 13.4 Consensus size: 40
18695561 ATGATTGTCA
*
18695571 AGGAGCAATTTATTTTCCAAAGTCGTGGTTGCCTCTATTTAG
1 AGGAGCAATTTATTTT-CAAAGTCGTGG-TGCCTCTGTTTAG
18695613 AGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTT-CAAAGTCGTGGTGCCTCTGTTTAG
18695654 AGGAGCAATTTATTTTTCAAAGTTTCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTA-TTTTCAAAG--TCGTGGTGCCTCTGTTTAG
18695695 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTA-TTTTCAAAGTCGTGGTGCCTCTGTTTAG
18695736 AGGAGCAATTTATTTTTCAAAGTTTCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTA-TTTTCAAAG--TCGTGGTGCCTCTGTTTAG
*
18695777 AAGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTA-TTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
18695818 AGGAGCAATTTACTTTCCAAAGTTTCAT--TACCTCTGTTTAG
1 AGGAGCAATTTA-TTTTCAAAG--TCGTGGTGCCTCTGTTTAG
* *
18695859 AGAAGCAATTTATTTTCCAAAGTTTCGT--TGCCTCTGTTTAA
1 AGGAGCAATTTATTTT-CAAAG--TCGTGGTGCCTCTGTTTAG
* *
18695900 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTATTTAG
1 AGGAGCAATTTA-TTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
18695941 AGGAGCAATTTATTTCCAAAGTTTCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTATTTTCAAAG--TCGTGGTGCCTCTGTTTAG
*
18695981 AGGAGCAATTTACTTTTTAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTA-TTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * *
18696022 AGGAGCAATTTATTTTTCAAAATCGTGGTTACCTC-ATTTAA
1 AGGAGCAATTTA-TTTTCAAAGTCGTGG-TGCCTCTGTTTAG
* * *
18696063 AAGAGCAATTTACTTTTCAAAGTTGTGGTGCCTTTGTTTAG
1 AGGAGCAATTTA-TTTTCAAAGTCGTGGTGCCTCTGTTTAG
18696104 AGGAGC-ATTTATTTT
1 AGGAGCAATTTATTTT
18696119 TGAAGTCATG
Statistics
Matches: 446, Mismatches: 38, Indels: 47
0.84 0.07 0.09
Matches are distributed among these distances:
39 19 0.04
40 44 0.10
41 328 0.74
42 44 0.10
43 11 0.02
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (40 bp):
AGGAGCAATTTATTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:18696293 original size:42 final size:42
Alignment explanation
Indices: 18696234--18696378 Score: 173
Period size: 43 Copynumber: 3.4 Consensus size: 42
18696224 AAAAAAATTA
*
18696234 CCTCTGATTAGAGGAGCCTTTTATTTTTCAAAAGTCGTTGAG
1 CCTCTAATTAGAGGAGCCTTTTATTTTTCAAAAGTCGTTGAG
* * *
18696276 CCTCTAATTAGAGGAGCCATTTATTTTCCAAAAAATCGTTGAG
1 CCTCTAATTAGAGGAGCCTTTTATTTTTC-AAAAGTCGTTGAG
* ** **
18696319 CCTCTGATTAGAGGAGTTTTGTTTATTTTTCAAAAGTATTTGAG
1 CCTCTAATTAGAGGAG-CCT-TTTATTTTTCAAAAGTCGTTGAG
*
18696363 CCTCTACTTAGAGGAG
1 CCTCTAATTAGAGGAG
18696379 TTTTAATTAA
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 26 0.30
43 27 0.31
44 24 0.28
45 9 0.10
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (42 bp):
CCTCTAATTAGAGGAGCCTTTTATTTTTCAAAAGTCGTTGAG
Found at i:18696374 original size:44 final size:43
Alignment explanation
Indices: 18696253--18696383 Score: 133
Period size: 44 Copynumber: 3.0 Consensus size: 43
18696243 AGAGGAGCCT
** **
18696253 TTTATTTTTCAAAAGTCGTTGAGCCTCTAATTAGAGGAG--CCA
1 TTTATTTTTCAAAAGTATTTGAGCCTCT-ATTAGAGGAGTTTTA
* * *
18696295 TTTATTTTCCAAAA-AATCGTTGAGCCTCTGATTAGAGGAGTTTTG
1 TTTATTTTTCAAAAGTAT--TTGAGCCTCT-ATTAGAGGAGTTTTA
18696340 TTTATTTTTCAAAAGTATTTGAGCCTCTACTTAGAGGAGTTTTA
1 TTTATTTTTCAAAAGTATTTGAGCCTCTA-TTAGAGGAGTTTTA
18696384 ATTAAATTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
42 13 0.18
43 21 0.29
44 23 0.32
45 13 0.18
46 2 0.03
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.40
Consensus pattern (43 bp):
TTTATTTTTCAAAAGTATTTGAGCCTCTATTAGAGGAGTTTTA
Found at i:18696617 original size:3 final size:3
Alignment explanation
Indices: 18696604--18696727 Score: 88
Period size: 3 Copynumber: 37.7 Consensus size: 3
18696594 TCTTAGTTAC
* *
18696604 TTA TTA TTTA TTA TTA CTA TCTA TTA ATA TATA TATA TATA TTA TT-
1 TTA TTA -TTA TTA TTA TTA T-TA TTA TTA T-TA T-TA T-TA TTA TTA
* *
18696650 TTCA TTT TTA TTA TTTA TCTA TTGA TATA CATA TTA TTA TTA TCTA TTA
1 TT-A TTA TTA TTA -TTA T-TA TT-A T-TA -TTA TTA TTA TTA T-TA TTA
*
18696699 TTA TTA TTA TTA TTA TTA TTA TTG TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18696728 TATCTATTAA
Statistics
Matches: 100, Mismatches: 10, Indels: 22
0.76 0.08 0.17
Matches are distributed among these distances:
2 2 0.02
3 64 0.64
4 33 0.33
5 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:18697141 original size:27 final size:27
Alignment explanation
Indices: 18697111--18697224 Score: 74
Period size: 27 Copynumber: 4.3 Consensus size: 27
18697101 TTTTTTTTTA
18697111 TTATTATATTAGGATTGTTTAATATTT
1 TTATTATATTAGGATTGTTTAATATTT
* * *** *
18697138 TTATTTTTTTATTTTTGTTT-TTATTT
1 TTATTATATTAGGATTGTTTAATATTT
* * * *
18697164 TTATTTTTATTA--TTTATTTATTTATTT
1 TTA-TTATATTAGGATTGTTTA-ATATTT
18697191 ATTATTATATTAGGATTGTTTAAT-TTT
1 -TTATTATATTAGGATTGTTTAATATTT
*
18697218 TTTTTAT
1 TTATTAT
18697225 TTTCGTTTTT
Statistics
Matches: 68, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
25 6 0.09
26 14 0.21
27 38 0.56
28 4 0.06
29 6 0.09
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (27 bp):
TTATTATATTAGGATTGTTTAATATTT
Found at i:18697144 original size:6 final size:6
Alignment explanation
Indices: 18697133--18697253 Score: 75
Period size: 6 Copynumber: 18.8 Consensus size: 6
18697123 GATTGTTTAA
*
18697133 TATTTT TATTTTTT TATTTT TGTTTT TATTTT TATTTT TATTATT TATTTATT
1 TATTTT TA--TTTT TATTTT TATTTT TATTTT TATTTT TATT-TT TA-TT-TT
* ** * * *
18697186 TATTTAT TA-TTA TATTAG GATTGTT TAATTT T-TTTT TATTTT CGTTTTTT
1 TATTT-T TATTTT TATTTT TATT-TT TATTTT TATTTT TATTTT --TATTTT
18697236 TATTTTT TATTTT TATTT
1 TA-TTTT TATTTT TATTT
18697254 ATTTTATTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 22
0.72 0.10 0.17
Matches are distributed among these distances:
5 6 0.07
6 50 0.55
7 17 0.19
8 18 0.20
ACGTcount: A:0.18, C:0.01, G:0.04, T:0.77
Consensus pattern (6 bp):
TATTTT
Found at i:18697148 original size:8 final size:8
Alignment explanation
Indices: 18697135--18697268 Score: 69
Period size: 8 Copynumber: 15.8 Consensus size: 8
18697125 TTGTTTAATA
18697135 TTTTTATT
1 TTTTTATT
18697143 TTTTTATT
1 TTTTTATT
*
18697151 TTTGTTTTT
1 TTT-TTATT
18697160 ATTTTTATT
1 -TTTTTATT
18697169 TTTATTATT
1 TTT-TTATT
*
18697178 TATTTATT
1 TTTTTATT
*
18697186 TATTTATT
1 TTTTTATT
18697194 ATTATATTAGGATT
1 -TT-T-TT---ATT
* *
18697208 GTTTAATT
1 TTTTTATT
18697216 TTTTT-TT
1 TTTTTATT
**
18697223 ATTTTCGTT
1 -TTTTTATT
18697232 TTTTTA-T
1 TTTTTATT
18697239 TTTTTA--
1 TTTTTATT
18697245 TTTTTATT
1 TTTTTATT
18697253 TATTTTATT
1 T-TTTTATT
18697262 TTCTTTA
1 TT-TTTA
18697269 AATAAAGTTA
Statistics
Matches: 100, Mismatches: 11, Indels: 29
0.71 0.08 0.21
Matches are distributed among these distances:
6 6 0.06
7 9 0.09
8 43 0.43
9 30 0.30
10 4 0.04
11 3 0.03
12 1 0.01
13 1 0.01
14 3 0.03
ACGTcount: A:0.18, C:0.01, G:0.04, T:0.77
Consensus pattern (8 bp):
TTTTTATT
Found at i:18697166 original size:18 final size:19
Alignment explanation
Indices: 18697143--18697262 Score: 77
Period size: 19 Copynumber: 5.9 Consensus size: 19
18697133 TATTTTTATT
*
18697143 TTTTTATTTTTGTT-TTTA
1 TTTTTATTTTTATTATTTA
18697161 TTTTTATTTTTATTATTTA
1 TTTTTATTTTTATTATTTA
18697180 TTTATTTATTTATTATTATATTAGGA
1 -TT-TTTATTT-TTATTAT-TT---A
*
18697206 TTGTTTAATTTT-TT-TTTA
1 TT-TTTATTTTTATTATTTA
* *
18697224 TTTTCGTTTTTTTATTTTTTA
1 TTTT--TATTTTTATTATTTA
18697245 TTTTTATTTATT-TTATTT
1 TTTTTATTT-TTATTATTT
18697263 TCTTTAAATA
Statistics
Matches: 82, Mismatches: 7, Indels: 25
0.72 0.06 0.22
Matches are distributed among these distances:
17 2 0.02
18 16 0.20
19 18 0.22
20 6 0.07
21 17 0.21
22 8 0.10
23 4 0.05
24 2 0.02
25 8 0.10
26 1 0.01
ACGTcount: A:0.18, C:0.01, G:0.04, T:0.77
Consensus pattern (19 bp):
TTTTTATTTTTATTATTTA
Found at i:18697176 original size:15 final size:14
Alignment explanation
Indices: 18697133--18697263 Score: 78
Period size: 14 Copynumber: 9.4 Consensus size: 14
18697123 GATTGTTTAA
18697133 TATTTTTATTTTTT
1 TATTTTTATTTTTT
*
18697147 TA-TTTT-TGTTTT
1 TATTTTTATTTTTT
18697159 TATTTTTATTTTTAT
1 TATTTTTATTTTT-T
*
18697174 TATTTATTTATTTATT
1 TA-TT-TTTATTTTTT
* * **
18697190 TATTATTATATTAG
1 TATTTTTATTTTTT
* *
18697204 GATTGTTTA--ATTT
1 TATT-TTTATTTTTT
*
18697217 T-TTTTTATTTTCGT
1 TATTTTTATTTT-TT
18697231 T-TTTTTA-TTTTT
1 TATTTTTATTTTTT
18697243 TATTTTTATTTATTT
1 TATTTTTATTT-TTT
18697258 TATTTT
1 TATTTT
18697264 CTTTAAATAA
Statistics
Matches: 88, Mismatches: 17, Indels: 23
0.69 0.13 0.18
Matches are distributed among these distances:
11 4 0.05
12 11 0.12
13 19 0.22
14 24 0.27
15 17 0.19
16 5 0.06
17 8 0.09
ACGTcount: A:0.18, C:0.01, G:0.04, T:0.77
Consensus pattern (14 bp):
TATTTTTATTTTTT
Found at i:18697195 original size:81 final size:80
Alignment explanation
Indices: 18697107--18697262 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 80
18697097 CAAGTTTTTT
** *
18697107 TTTATTATTATATTAGGATTGTTTAATATTTTTATTT-TTTTATTTTTGTTTTTATTTTTATTTT
1 TTTATTATTATATTAGGATTGTTTAAT-TTTTT-TTTATTTTCGTTTT-TTTAT-TTTTTATTTT
18697171 TA-TTA-TTTATTTATTTA
62 TATTTATTTTATTTATTTA
18697188 TTTATTATTATATTAGGATTGTTTAATTTTTTTTTATTTTCGTTTTTTTATTTTTTATTTTTATT
1 TTTATTATTATATTAGGATTGTTTAATTTTTTTTTATTTTCGTTTTTTTATTTTTTATTTTTATT
18697253 TATTTTATTT
66 TATTTTATTT
18697263 TCTTTAAATA
Statistics
Matches: 69, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
78 12 0.17
79 10 0.14
80 20 0.29
81 27 0.39
ACGTcount: A:0.21, C:0.01, G:0.05, T:0.74
Consensus pattern (80 bp):
TTTATTATTATATTAGGATTGTTTAATTTTTTTTTATTTTCGTTTTTTTATTTTTTATTTTTATT
TATTTTATTTATTTA
Found at i:18697249 original size:22 final size:21
Alignment explanation
Indices: 18697135--18697263 Score: 76
Period size: 21 Copynumber: 6.1 Consensus size: 21
18697125 TTGTTTAATA
18697135 TTTTTATTTT-TTTATTTT-T
1 TTTTTATTTTATTTATTTTAT
18697154 GTTTTTATTTTTATTT-TTATTAT
1 -TTTTTA-TTTTATTTATT-TTAT
18697177 TTATTTA-TTTATTTA--TTAT
1 TT-TTTATTTTATTTATTTTAT
* ** * *
18697196 TATATTAGGATTGTTTAATTT-T
1 T-TTTTA-TTTTATTTATTTTAT
*
18697218 TTTTTATTTTCGTTT-TTTTAT
1 TTTTTATTTT-ATTTATTTTAT
18697239 TTTTTATTTTTATTTATTTTAT
1 TTTTTA-TTTTATTTATTTTAT
18697261 TTT
1 TTT
18697264 CTTTAAATAA
Statistics
Matches: 86, Mismatches: 8, Indels: 28
0.70 0.07 0.23
Matches are distributed among these distances:
19 8 0.09
20 12 0.14
21 37 0.43
22 22 0.26
23 7 0.08
ACGTcount: A:0.18, C:0.01, G:0.04, T:0.78
Consensus pattern (21 bp):
TTTTTATTTTATTTATTTTAT
Found at i:18697366 original size:59 final size:58
Alignment explanation
Indices: 18697288--18697880 Score: 691
Period size: 58 Copynumber: 10.2 Consensus size: 58
18697278 AAAAAAATAT
* *
18697288 ATTTTTCCTTAAAAATAAATTTTCAAAAAAAAAAGTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTT-CTTAAAAATAAATTTTC-AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
* *
18697348 ATTTTTCTTAAAAATAAATTTTCAAAAAAAGTTTTTTTGAGGAAAAGTTGAAAATATCA
1 ATTTTTCTTAAAAATAAATTTTCAAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCA
* * * * *
18697407 ATTTTTTTTTAAATTAAAGTTTCCAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCA
1 ATTTTTCTTAAAAATAAATTTTCAAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCA
* * *
18697465 ATTTTCCTTAAAAATAAATTTTCAAAAAAAGTTTTTTTGA-AAAAGAGTTGAAAGTATCA
1 ATTTTTCTTAAAAATAAATTTTCAAAAAAA-TATTTTTGAGGAAA-AGTTGAAAGTATCA
* * *
18697524 A-TTTTCTTCAAAATTAAAAGTTTCCAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCA
1 ATTTTTCTT-AAAAAT-AAATTTTCAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCA
*
18697583 ATTTTCCTTAAAAATAAATTTTCAAAAAAATATATTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTTCTTAAAAATAAATTTTCAAAAAAATAT-TTTTGAGGAAAAGTTGAAAGTATCA
** *
18697642 ATTTTTCTCGAAATTAAAGTTTTC-AAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCA
1 ATTTTTCTTAAAAATAAA-TTTTCAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCA
* * ***
18697700 ATTTTCCTTAAAGATAAATTTTC--AAAGGGATTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTTCTTAAAAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
* * * *
18697756 ATTTTCCTTAAAAATAAGTTTTCAAAAATGA-ATTTTTGAGGAAAAGTTAAAAGTATCA
1 ATTTTTCTTAAAAATAAATTTTCAAAAA-AATATTTTTGAGGAAAAGTTGAAAGTATCA
* ** * * * *
18697814 ATTTTCCTCGAAATTAAAGTTTCAAAAGAATATTTTTGGGGAAAAGTTGAAAGTATCA
1 ATTTTTCTTAAAAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
18697872 ATTTTTCTT
1 ATTTTTCTT
18697881 GCACAAAAAC
Statistics
Matches: 458, Mismatches: 56, Indels: 40
0.83 0.10 0.07
Matches are distributed among these distances:
56 49 0.11
57 10 0.02
58 199 0.43
59 166 0.36
60 34 0.07
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.37
Consensus pattern (58 bp):
ATTTTTCTTAAAAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
Found at i:18697453 original size:117 final size:116
Alignment explanation
Indices: 18697314--18697879 Score: 727
Period size: 117 Copynumber: 4.9 Consensus size: 116
18697304 AAATTTTCAA
* * *
18697314 AAAAAAAAGTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAG
1 AAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAG
* * **
18697379 TTTTTTTGAGGAAAAGTTGAAAATATCAATTTTTTTTTAAATTAAAGTTTCC
65 TTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTCC
18697431 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAG
1 AAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAG
*
18697496 TTTTTTTGA-AAAAGAGTTGAAAGTATCAA-TTTTCTTCAAAATTAAAAGTTTCC
65 TTTTTTTGAGGAAA-AGTTGAAAGTATCAATTTTTC-TCAAAATT-AAAGTTTCC
18697549 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAA-
1 AAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAG
* * *
18697613 TATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTC
65 T-TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTCC
* *
18697666 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAGATAAATTTTC---AAAGG
1 AAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAG
** * * * *
18697728 GATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAGTTTTC
65 TTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTCC
* ** * * *
18697779 -AAAAATGAATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAAAAGA
1 AAAAAAT--ATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
* *
18697843 A-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCT
63 AGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT
18697880 TGCACAAAAA
Statistics
Matches: 402, Mismatches: 32, Indels: 31
0.86 0.07 0.07
Matches are distributed among these distances:
112 6 0.01
113 9 0.02
114 81 0.20
116 42 0.10
117 155 0.39
118 98 0.24
119 11 0.03
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (116 bp):
AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAGT
TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTCC
Found at i:18697464 original size:58 final size:58
Alignment explanation
Indices: 18697290--18697876 Score: 663
Period size: 59 Copynumber: 10.1 Consensus size: 58
18697280 AAAAATATAT
* * * *
18697290 TTTTCCTTAAAAATAAATTTTCAAAAAAAAAAGTTTTGAGGAAAAGTTGAAAGTATCAA
1 TTTTCCTTAAAAATAAAGTTTC-CAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA
* * * * *
18697349 TTTTTCTTAAAAATAAATTTTCAAAAAAAGTTTTTTTGAGGAAAAGTTGAAAATATCAA
1 TTTTCCTTAAAAATAAAGTTTCCAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAA
** * *
18697408 TTTTTTTTTAAATTAAAGTTTCCAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAA
1 TTTTCCTTAAAAATAAAGTTTCCAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAA
* * * *
18697466 TTTTCCTTAAAAATAAATTTTCAAAAAAAGTTTTTTTGA-AAAAGAGTTGAAAGTATCAA
1 TTTTCCTTAAAAATAAAGTTTCCAAAAAA-TATTTTTGAGGAAA-AGTTGAAAGTATCAA
*
18697525 TTTT-CTTCAAAATTAAAAGTTTCCAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAA
1 TTTTCCTT-AAAAAT-AAAGTTTCCAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAA
* *
18697584 TTTTCCTTAAAAATAAATTTTCAAAAAAATATATTTTGAGGAAAAGTTGAAAGTATCAA
1 TTTTCCTTAAAAATAAAGTTTCCAAAAAATAT-TTTTGAGGAAAAGTTGAAAGTATCAA
* ** * *
18697643 TTTTTCTCGAAATTAAAGTTTTCAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAA
1 TTTTCCTTAAAAATAAAGTTTCCAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAA
* * ***
18697701 TTTTCCTTAAAGATAAA-TTTTC-AAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAA
1 TTTTCCTTAAAAATAAAGTTTCCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA
* *
18697757 TTTTCCTTAAAAAT-AAGTTTTC-AAAAATGAATTTTTGAGGAAAAGTTAAAAGTATCAA
1 TTTTCCTTAAAAATAAAGTTTCCAAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAA
** * *
18697815 TTTTCCTCGAAATTAAAGTTT-CAAAAGAATATTTTTGGGGAAAAGTTGAAAGTATCAA
1 TTTTCCTTAAAAATAAAGTTTCCAAAA-AATATTTTTGAGGAAAAGTTGAAAGTATCAA
18697873 TTTT
1 TTTT
18697877 TCTTGCACAA
Statistics
Matches: 455, Mismatches: 53, Indels: 41
0.83 0.10 0.07
Matches are distributed among these distances:
55 2 0.00
56 50 0.11
57 9 0.02
58 182 0.40
59 189 0.42
60 23 0.05
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.37
Consensus pattern (58 bp):
TTTTCCTTAAAAATAAAGTTTCCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA
Found at i:18697760 original size:27 final size:27
Alignment explanation
Indices: 18697729--18697818 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 27
18697719 TTTCAAAGGG
*
18697729 ATTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTTGAGGAAAAGTTAAAAGTATCA
* ** *
18697756 ATTTTCCTTAAAAATAAGTTTTCAAAA--ATGA
1 ATTTT--TGAGGAA-AAG--TT-AAAAGTATCA
18697787 ATTTTTGAGGAAAAGTTAAAAGTATCA
1 ATTTTTGAGGAAAAGTTAAAAGTATCA
18697814 ATTTT
1 ATTTT
18697819 CCTCGAAATT
Statistics
Matches: 46, Mismatches: 9, Indels: 16
0.65 0.13 0.23
Matches are distributed among these distances:
25 4 0.09
26 2 0.04
27 13 0.28
28 3 0.07
29 8 0.17
30 3 0.07
31 8 0.17
32 2 0.04
33 3 0.07
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (27 bp):
ATTTTTGAGGAAAAGTTAAAAGTATCA
Found at i:18699615 original size:1 final size:1
Alignment explanation
Indices: 18699609--18699636 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
18699599 TCTTAATATT
18699609 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
18699637 CAGTTTCCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:18700117 original size:2 final size:2
Alignment explanation
Indices: 18700110--18700147 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
18700100 AGGCGAAATA
18700110 AT AT AT AT AT AT 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 AT AT AT AT AT AT
18700148 TGCTCTAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18703552 original size:16 final size:16
Alignment explanation
Indices: 18703530--18703561 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
18703520 CGAATCTCTG
18703530 ATTTTTTTA-TTTTTT
1 ATTTTTTTACTTTTTT
18703545 ATTTTTTTACTTTTTT
1 ATTTTTTTACTTTTTT
18703561 A
1 A
18703562 ATTTATCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (16 bp):
ATTTTTTTACTTTTTT
Found at i:18703740 original size:14 final size:14
Alignment explanation
Indices: 18703722--18703756 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
18703712 AATTAATTTA
*
18703722 AAATCAAACCAAAT
1 AAATCAAACAAAAT
*
18703736 GAATCAAACAAAAT
1 AAATCAAACAAAAT
18703750 AAATCAA
1 AAATCAA
18703757 TTTAAAATAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.66, C:0.17, G:0.03, T:0.14
Consensus pattern (14 bp):
AAATCAAACAAAAT
Found at i:18707530 original size:2 final size:2
Alignment explanation
Indices: 18707525--18707561 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
18707515 ATCAAGTGTG
18707525 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18707562 CCTTCATTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18708245 original size:127 final size:128
Alignment explanation
Indices: 18708060--18708418 Score: 580
Period size: 126 Copynumber: 2.8 Consensus size: 128
18708050 AGGGCCAATT
* * *
18708060 ATTTAATTTTCAGCTGATCTGGTTTTAGTCTTTGTCAAGAAAATACTAAGGCTTCAAGCCTTCAA
1 ATTTAATTTTCAACTGATCTGGTTTTAGTC-TTGTCAAAAAAATACCAAGGCTTCAAGCCTTCAA
* **
18708125 CCAAATGTGAACAAGCTCTATCTTCTTTTGTTGGCCACATCATTTCAAGGTTATTAATTTAATG
65 CCAAATGTGAATAAGCTCTATCTTCTTTTGAGGGCCACATCATTTCAAGGTTATTAATTTAATG
18708189 ATTTAATTTTCAACTGATCTGGTTTTAGTC-TGTCAAAAAAATACCAAGGCTTCAAGCC-TCAAC
1 ATTTAATTTTCAACTGATCTGGTTTTAGTCTTGTCAAAAAAATACCAAGGCTTCAAGCCTTCAAC
18708252 CAAATGTGAATAAGCTCTATCTTCTTTTGAGGGCCACATCATTTCAAGGTTATTAATTTAATG
66 CAAATGTGAATAAGCTCTATCTTCTTTTGAGGGCCACATCATTTCAAGGTTATTAATTTAATG
* * *
18708315 ATTTAATTTTCAACTGATCTGGTTTTAGTCTTTGTC-GAGAAATACCAAGGCTTCAAGCTTTCAA
1 ATTTAATTTTCAACTGATCTGGTTTTAGTC-TTGTCAAAAAAATACCAAGGCTTCAAGCCTTCAA
*
18708379 CCAAATGTGAATAAGCTCTACCTTCTTTTGAGGGGCCACA
65 CCAAATGTGAATAAGCTCTATCTTCTTTTGA-GGGCCACA
18708419 GATGCTATAT
Statistics
Matches: 216, Mismatches: 10, Indels: 8
0.92 0.04 0.03
Matches are distributed among these distances:
126 95 0.44
127 46 0.21
128 38 0.18
129 37 0.17
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (128 bp):
ATTTAATTTTCAACTGATCTGGTTTTAGTCTTGTCAAAAAAATACCAAGGCTTCAAGCCTTCAAC
CAAATGTGAATAAGCTCTATCTTCTTTTGAGGGCCACATCATTTCAAGGTTATTAATTTAATG
Found at i:18711083 original size:58 final size:58
Alignment explanation
Indices: 18711004--18711284 Score: 327
Period size: 58 Copynumber: 4.8 Consensus size: 58
18710994 ATTTCAAGAA
**
18711004 AAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCC
1 AAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCC
*
18711062 AAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAATTTCC
1 AAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCC
* * * ***
18711120 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTAAAAA
1 AAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATT--TCC
* * * *
18711180 AAAAAGATTTTTTTTTTAGGAAAAA-TTAAAAGTATCAATTTT-CTTCAAAATTAAAGTTTCC
1 AAAAA-A---TATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAA-TAAAATTTCC
*
18711241 AAAAAATA-TTTTGGGAAAAAGTTGAAAGTATCAATTTTTCCTTG
1 AAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAA-TTTTCCTTG
18711285 TACAAAAGCG
Statistics
Matches: 189, Mismatches: 23, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
56 11 0.06
57 16 0.08
58 106 0.56
59 3 0.02
60 6 0.03
61 6 0.03
62 7 0.04
63 22 0.12
64 12 0.06
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (58 bp):
AAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTCC
Found at i:18713564 original size:27 final size:27
Alignment explanation
Indices: 18713513--18713565 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
18713503 GTTTTAAATA
*
18713513 AAATTTATAAGTATTATATTAACTAAT
1 AAATTTATAAGTATAATATTAACTAAT
*
18713540 AAATTTATAATTA-AATATTAGACTAA
1 AAATTTATAAGTATAATATTA-ACTAA
18713566 ATATTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (27 bp):
AAATTTATAAGTATAATATTAACTAAT
Found at i:18714335 original size:61 final size:61
Alignment explanation
Indices: 18714219--18714416 Score: 154
Period size: 61 Copynumber: 3.3 Consensus size: 61
18714209 GTTTTCTCAC
* ** * **
18714219 AAAAATGCCTTGAATAAT-CCCTAAAAAAATGAAAGGGGATTATTGAATGTGTTTTTAG-T
1 AAAAATGCCTTCAATAATCCCCTAAAAAAATGAAAGGGGATTATCCAAGGCATTTTTAGCT
* * *
18714278 CAAAATGCCTTCAATAATCCCATCTAAAAAATTGAAA-GGGATTATCCAAGGCATTTTTGGCT
1 AAAAATGCCTTCAATAATCCC--CTAAAAAAATGAAAGGGGATTATCCAAGGCATTTTTAGCT
* * * ** * * * * *
18714340 AAAAACGCCTTCAATAATCCACTCATAAAAAT-TTAGGAGATTGTTCAAGGCA-TTTTGGCC
1 AAAAATGCCTTCAATAATCCCCT-AAAAAAATGAAAGGGGATTATCCAAGGCATTTTTAGCT
*
18714400 AAAAATGCCTTTAATAA
1 AAAAATGCCTTCAATAA
18714417 CCTCATTTAA
Statistics
Matches: 111, Mismatches: 22, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
59 16 0.14
60 27 0.24
61 36 0.32
62 32 0.29
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (61 bp):
AAAAATGCCTTCAATAATCCCCTAAAAAAATGAAAGGGGATTATCCAAGGCATTTTTAGCT
Found at i:18714472 original size:123 final size:126
Alignment explanation
Indices: 18714331--18714584 Score: 338
Period size: 125 Copynumber: 2.0 Consensus size: 126
18714321 ATCCAAGGCA
* * *
18714331 TTTT-TGGCTAAAAACGCCTTCAATAATCCACTCATAAAAATT-TAGGAGATTGTTCAAGGCA-T
1 TTTTCTGGCTAAAAACGCCTTCAATAATCCACTCATAAAAATTAAAAGAGATTATTCAAGGCATT
** * *
18714393 TTTGGCCAAAAATGCCTTTAATAACCTCATTTAATATTTT-GTAAAGGATTA-TTTAAGATG
66 TTTGGCCAAAAACACCTTGAATAACCCCATTTAATATTTTCG-AAAGGATTATTTTAAGATG
* *
18714453 TTTTCTGGTTAAAAACGCCTTCAATAATCCCCTCATAAAAATTAAAAGAGATTATTCAAGGCATT
1 TTTTCTGGCTAAAAACGCCTTCAATAATCCACTCATAAAAATTAAAAGAGATTATTCAAGGCATT
* * * * *
18714518 TTTTGCCATAAACACCTTGACTAACCCCATTTAATTTTTTCGAAAGGATTATTTTAAGGTG
66 TTTGGCCAAAAACACCTTGAATAACCCCATTTAATATTTTCGAAAGGATTATTTTAAGATG
18714579 TTTTCT
1 TTTTCT
18714585 AAAAATAAAA
Statistics
Matches: 113, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
122 4 0.04
123 36 0.32
124 16 0.14
125 42 0.37
126 15 0.13
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.37
Consensus pattern (126 bp):
TTTTCTGGCTAAAAACGCCTTCAATAATCCACTCATAAAAATTAAAAGAGATTATTCAAGGCATT
TTTGGCCAAAAACACCTTGAATAACCCCATTTAATATTTTCGAAAGGATTATTTTAAGATG
Found at i:18720798 original size:41 final size:42
Alignment explanation
Indices: 18720729--18720831 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 42
18720719 ACTTTTAAAA
* *
18720729 AAAATAAAATGCTCCCCTCACCAGGGGCTTTGAAAATTT-GG
1 AAAATAAAATGCTTCCCTCACCAGGGGCTTTCAAAATTTGGG
* * * * *
18720770 AAAATAAAATACTTCCTTTACCATGGGCTTTCAAACTTTGGG
1 AAAATAAAATGCTTCCCTCACCAGGGGCTTTCAAAATTTGGG
*
18720812 AAAATGAAATGCTTCCCTCA
1 AAAATAAAATGCTTCCCTCA
18720832 TCAAAGGCTT
Statistics
Matches: 50, Mismatches: 11, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
41 32 0.64
42 18 0.36
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (42 bp):
AAAATAAAATGCTTCCCTCACCAGGGGCTTTCAAAATTTGGG
Found at i:18721160 original size:13 final size:13
Alignment explanation
Indices: 18721142--18721171 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
18721132 TAATGAATAT
18721142 AATGAATATAATG
1 AATGAATATAATG
*
18721155 AATGAATATGATG
1 AATGAATATAATG
18721168 AATG
1 AATG
18721172 CAATGTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (13 bp):
AATGAATATAATG
Found at i:18721170 original size:9 final size:9
Alignment explanation
Indices: 18721131--18721157 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
18721121 TCAAACATGC
18721131 ATAATGAAT
1 ATAATGAAT
18721140 ATAATGAAT
1 ATAATGAAT
18721149 ATAATGAAT
1 ATAATGAAT
18721158 GAATATGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (9 bp):
ATAATGAAT
Found at i:18721176 original size:22 final size:22
Alignment explanation
Indices: 18721133--18721176 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18721123 AAACATGCAT
*
18721133 AATGAATATAATGAATATAATG
1 AATGAATATAATGAATACAATG
* *
18721155 AATGAATATGATGAATGCAATG
1 AATGAATATAATGAATACAATG
18721177 TTCTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.18, T:0.30
Consensus pattern (22 bp):
AATGAATATAATGAATACAATG
Found at i:18722275 original size:26 final size:27
Alignment explanation
Indices: 18722246--18722310 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
18722236 CCCTATTAGT
*
18722246 TTTTCTTTTTCTTTTCTTC-CATTTTC
1 TTTTCTTTTTCTTTTCATCACATTTTC
* *
18722272 TTTTCTCTTTCTTTTCATCATATTTTC
1 TTTTCTTTTTCTTTTCATCACATTTTC
18722299 TCTTTCATTTTT
1 T-TTTC-TTTTT
18722311 AATTTTGCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 17 0.53
27 7 0.22
28 4 0.12
29 4 0.12
ACGTcount: A:0.08, C:0.22, G:0.00, T:0.71
Consensus pattern (27 bp):
TTTTCTTTTTCTTTTCATCACATTTTC
Found at i:18723079 original size:4 final size:4
Alignment explanation
Indices: 18723070--18723124 Score: 53
Period size: 4 Copynumber: 14.5 Consensus size: 4
18723060 GCCCAATTAG
* * * *
18723070 TTAT TTAT TTAT AT-T TTAT AT-T TTAT TTAG ATA- TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
18723115 TTAT TTAT TT
1 TTAT TTAT TT
18723125 TGGGTTTTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
3 6 0.15
4 35 0.85
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:18739309 original size:79 final size:79
Alignment explanation
Indices: 18739186--18739421 Score: 303
Period size: 79 Copynumber: 3.0 Consensus size: 79
18739176 AAGTAATGTA
* * * *
18739186 GATGAAATTTATTCTAAAATTGATAGTACTGAGAAGCTTGTGAGTTGTGAGCAAATGATGAAAAT
1 GATGAAATTTATTCTAAAATTGCTAGTGCTGAGAAGCTTGTGAGTTGTGATCAAGTGATGAAAAT
18739251 AATATGGATCAGTG
66 AATATGGATCAGTG
* * * * * *
18739265 GATGAAATTTA-TCTTGAAATTGCTAGTGGTGTGAAGGTTATGAGTTGTGATTAAGTGATGAAAA
1 GATGAAATTTATTC-TAAAATTGCTAGTGCTGAGAAGCTTGTGAGTTGTGATCAAGTGATGAAAA
* *
18739329 TAATGTGGATCAATG
65 TAATATGGATCAGTG
* ** * *
18739344 AACAAAATTTGTTCTAAAATTGCTAGTGCTGAGAAGCTTGTGAGTTGTGATCAAGTGATGGAAAT
1 GATGAAATTTATTCTAAAATTGCTAGTGCTGAGAAGCTTGTGAGTTGTGATCAAGTGATGAAAAT
18739409 AATATGGATCAGT
66 AATATGGATCAGT
18739422 TGACGAAACT
Statistics
Matches: 130, Mismatches: 25, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
78 2 0.02
79 126 0.97
80 2 0.02
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.33
Consensus pattern (79 bp):
GATGAAATTTATTCTAAAATTGCTAGTGCTGAGAAGCTTGTGAGTTGTGATCAAGTGATGAAAAT
AATATGGATCAGTG
Found at i:18739460 original size:79 final size:79
Alignment explanation
Indices: 18739189--18739452 Score: 296
Period size: 79 Copynumber: 3.3 Consensus size: 79
18739179 TAATGTAGAT
* * * * * *
18739189 GAAATTTATTCTAAAATTGATAGTACTGAGAAGCTTGTGAGTTGTGAGCAAATGATGAAAATAAT
1 GAAATTTGTTTTAAAATTGCTAGTGCTGAGAAGCTTGTGAGTTGTGATCAAGTGATGAAAATAAT
* *
18739254 ATGGATCAGTGGAT
66 ATGGATCAGTTGAC
* * * * * * * *
18739268 GAAATTTATCTTGAAATTGCTAGTGGTGTGAAGGTTATGAGTTGTGATTAAGTGATGAAAATAAT
1 GAAATTTGTTTTAAAATTGCTAGTGCTGAGAAGCTTGTGAGTTGTGATCAAGTGATGAAAATAAT
* *
18739333 GTGGATCA-ATGAAC
66 ATGGATCAGTTG-AC
* * *
18739347 AAAATTTGTTCTAAAATTGCTAGTGCTGAGAAGCTTGTGAGTTGTGATCAAGTGATGGAAATAAT
1 GAAATTTGTTTTAAAATTGCTAGTGCTGAGAAGCTTGTGAGTTGTGATCAAGTGATGAAAATAAT
18739412 ATGGATCAGTTGAC
66 ATGGATCAGTTGAC
* * *
18739426 GAAACTTGTTTTAAAATGGTTAGTGCT
1 GAAATTTGTTTTAAAATTGCTAGTGCT
18739453 AAAAAGCTAA
Statistics
Matches: 149, Mismatches: 34, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
78 1 0.01
79 146 0.98
80 2 0.01
ACGTcount: A:0.34, C:0.07, G:0.25, T:0.34
Consensus pattern (79 bp):
GAAATTTGTTTTAAAATTGCTAGTGCTGAGAAGCTTGTGAGTTGTGATCAAGTGATGAAAATAAT
ATGGATCAGTTGAC
Found at i:18739770 original size:23 final size:23
Alignment explanation
Indices: 18739739--18739782 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
18739729 GTTTTGACTT
*
18739739 TGATGAAAAATTGAGAATTTTCA
1 TGATAAAAAATTGAGAATTTTCA
**
18739762 TGATAAAAAATTTTGAATTTT
1 TGATAAAAAATTGAGAATTTT
18739783 TTAAAGAGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (23 bp):
TGATAAAAAATTGAGAATTTTCA
Found at i:18740143 original size:43 final size:43
Alignment explanation
Indices: 18740090--18740446 Score: 369
Period size: 43 Copynumber: 8.2 Consensus size: 43
18740080 TATCATGAGC
** * *
18740090 TTTATTTTTTAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTA
1 TTTATTTTTTAAAGTCATTGAGCCTTTGATTAGAGGAGCTTTA
* * * * *
18740133 TTTATTTTTTAAAGTCGTTGAGCTTTTAATTAAAAGAGCTTTA
1 TTTATTTTTTAAAGTCATTGAGCCTTTGATTAGAGGAGCTTTA
* ** * * *
18740176 TTTATTTTTCCAAAGTTGTTGAGCTTTTGATTAGAAGAGCCTTA
1 TTTATTTTT-TAAAGTCATTGAGCCTTTGATTAGAGGAGCTTTA
* * * * * *
18740220 TTTATTTTTTCAATGTCGTTAAACCTCTT-ATTAGAGAAACTTTA
1 TTTATTTTTT-AAAGTCATTGAGCCT-TTGATTAGAGGAGCTTTA
* * * *
18740264 TTTATTTTCTAAAGTCATTAAGCCTTTGAGTAGAGGAGCCTTA
1 TTTATTTTTTAAAGTCATTGAGCCTTTGATTAGAGGAGCTTTA
*
18740307 TTTATTTTTTCAAAGTCATTGAGCCTTTGATTAGAGGAGCTATA
1 TTTATTTTTT-AAAGTCATTGAGCCTTTGATTAGAGGAGCTTTA
*
18740351 TTTATTTTTCAAAGTCATTGAGCCTTTGATTAGAGGAG-TTATA
1 TTTATTTTTTAAAGTCATTGAGCCTTTGATTAGAGGAGCTT-TA
* *
18740394 TTTATTTTTCAAAGTCATTGAGCCTCTT-ATTAAAGGAGCTTTCA
1 TTTATTTTTTAAAGTCATTGAGCCT-TTGATTAGAGGAGCTTT-A
18740438 TTTATTTTT
1 TTTATTTTT
18740447 CAAAAGTTAT
Statistics
Matches: 267, Mismatches: 38, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
42 3 0.01
43 142 0.53
44 120 0.45
45 2 0.01
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (43 bp):
TTTATTTTTTAAAGTCATTGAGCCTTTGATTAGAGGAGCTTTA
Found at i:18740227 original size:87 final size:87
Alignment explanation
Indices: 18740090--18740461 Score: 366
Period size: 87 Copynumber: 4.3 Consensus size: 87
18740080 TATCATGAGC
* * * * * *
18740090 TTTATTTTT-TAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTTATTTATTTTTT-AAAGTCGTTG
1 TTTATTTTTCCAAAGTTATTGAGCCTTTGATTAGAGGAGCCTTATTTATTTTTTCAAAGTCATTG
*
18740153 AGCTTTTAATTAAAAGAGCTTTA
66 AGCTCTT-ATTAAAAGAGCTTTA
* * * * *
18740176 TTTATTTTTCCAAAGTTGTTGAGCTTTTGATTAGAAGAGCCTTATTTATTTTTTCAATGTCGTTA
1 TTTATTTTTCCAAAGTTATTGAGCCTTTGATTAGAGGAGCCTTATTTATTTTTTCAAAGTCATT-
* *
18740241 AACCTCTTATTAGAGAA-A-CTTTA
65 GAGCTCTTATTA-A-AAGAGCTTTA
* * * *
18740264 TTTA-TTTTCTAAAGTCATTAAGCCTTTGAGTAGAGGAGCCTTATTTATTTTTTCAAAGTCATTG
1 TTTATTTTTCCAAAGTTATTGAGCCTTTGATTAGAGGAGCCTTATTTATTTTTTCAAAGTCATTG
* * *
18740328 AGC-CTTTGATTAGAGGAGCTATA
66 AGCTC-TT-ATTAAAAGAGCTTTA
* *
18740351 TTTATTTTT-CAAAGTCATTGAGCCTTTGATTAGAGGAG-TTATATTTA-TTTTTCAAAGTCATT
1 TTTATTTTTCCAAAGTTATTGAGCCTTTGATTAGAGGAGCCT-TATTTATTTTTTCAAAGTCATT
*
18740413 GAGCCTCTTATTAAAGGAGCTTTCA
65 GAG-CTCTTATTAAAAGAGCTTT-A
* *
18740438 TTTATTTTTCAAAAGTTATAGAGC
1 TTTATTTTTCCAAAGTTATTGAGC
18740462 ATCGGCTTAG
Statistics
Matches: 238, Mismatches: 33, Indels: 28
0.80 0.11 0.09
Matches are distributed among these distances:
85 2 0.01
86 45 0.19
87 145 0.61
88 37 0.16
89 7 0.03
90 2 0.01
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.45
Consensus pattern (87 bp):
TTTATTTTTCCAAAGTTATTGAGCCTTTGATTAGAGGAGCCTTATTTATTTTTTCAAAGTCATTG
AGCTCTTATTAAAAGAGCTTTA
Found at i:18740707 original size:4 final size:4
Alignment explanation
Indices: 18740698--18740750 Score: 51
Period size: 4 Copynumber: 14.2 Consensus size: 4
18740688 CCCAATTACC
* * *
18740698 TATT TATT TATA T-TT TATA T-TT TATT TATA TA-T T-TT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
18740742 TATT TATT T
1 TATT TATT T
18740751 TGGGTTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
3 7 0.18
4 32 0.82
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:18740723 original size:18 final size:18
Alignment explanation
Indices: 18740698--18740750 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
18740688 CCCAATTACC
18740698 TATTTATTTATAT-TTTA
1 TATTTATTTATATATTTA
*
18740715 TATTTTATTTATATATTTT
1 TA-TTTATTTATATATTTA
*
18740734 TATTTATTTATTTATTT
1 TATTTATTTATATATTT
18740751 TGGGTTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
17 2 0.06
18 25 0.78
19 5 0.16
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTATTTATATATTTA
Found at i:18740724 original size:22 final size:20
Alignment explanation
Indices: 18740698--18740748 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
18740688 CCCAATTACC
18740698 TATTTATTTATATTTTATATTT
1 TATTTATTTATATTTT-TA-TT
18740720 TATTTA--TATATTTTTATT
1 TATTTATTTATATTTTTATT
18740738 TATTTATTTAT
1 TATTTATTTAT
18740749 TTTGGGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 8 0.30
19 2 0.07
20 11 0.41
22 6 0.22
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (20 bp):
TATTTATTTATATTTTTATT
Found at i:18740734 original size:14 final size:14
Alignment explanation
Indices: 18740702--18740746 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
18740692 ATTACCTATT
*
18740702 TATTTATATTT-TA
1 TATTTTTATTTATA
18740715 TA-TTTTATTTATA
1 TATTTTTATTTATA
*
18740728 TATTTTTATTTATT
1 TATTTTTATTTATA
18740742 TATTT
1 TATTT
18740747 ATTTTGGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 7 0.25
13 6 0.21
14 15 0.54
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TATTTTTATTTATA
Found at i:18741424 original size:17 final size:17
Alignment explanation
Indices: 18741402--18741440 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
18741392 AGAGAGAGAG
18741402 GGAAAGAAAAAAGAAAA
1 GGAAAGAAAAAAGAAAA
* *
18741419 GGAAAGAGAAAGGAAAA
1 GGAAAGAAAAAAGAAAA
18741436 GGAAA
1 GGAAA
18741441 AATCAAAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (17 bp):
GGAAAGAAAAAAGAAAA
Found at i:18741436 original size:29 final size:29
Alignment explanation
Indices: 18741394--18741452 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
18741384 CGGGTGGTAG
* *
18741394 AGAGAGAGGGAAAGAAAAAAGAAAAGGAA
1 AGAGAAAGGAAAAGAAAAAAGAAAAGGAA
* **
18741423 AGAGAAAGGAAAAGGAAAAATCAAAGGAA
1 AGAGAAAGGAAAAGAAAAAAGAAAAGGAA
18741452 A
1 A
18741453 AAAAAAGAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.66, C:0.02, G:0.31, T:0.02
Consensus pattern (29 bp):
AGAGAAAGGAAAAGAAAAAAGAAAAGGAA
Found at i:18742213 original size:45 final size:45
Alignment explanation
Indices: 18742154--18742257 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 45
18742144 AAAAAAATGA
18742154 AAAAAAAAATTTCTAAGTAGACCCAAATAGTGAAAAATTTAGAAAT
1 AAAAAAAAA-TTCTAAGTAGACCCAAATAGTGAAAAATTTAGAAAT
* * * * *
18742200 AAAAAAAAATTCTAATTTGCCCCAAATGGTGAAAAATTTATAAAT
1 AAAAAAAAATTCTAAGTAGACCCAAATAGTGAAAAATTTAGAAAT
*
18742245 AAAAATAAATTCT
1 AAAAAAAAATTCT
18742258 GATGATGAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 43 0.83
46 9 0.17
ACGTcount: A:0.55, C:0.10, G:0.09, T:0.27
Consensus pattern (45 bp):
AAAAAAAAATTCTAAGTAGACCCAAATAGTGAAAAATTTAGAAAT
Found at i:18746992 original size:41 final size:41
Alignment explanation
Indices: 18746942--18747026 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 41
18746932 TTTTTTAAAA
* * *
18746942 TTTCTAAATTCTGT-ACGATTTAGGCCTATTTAGAATTTTTT
1 TTTCTAAATT-TGTCACCATTTAGGCCTATTTAGAAATTCTT
* *
18746983 TTTCTAAATTTTTCACCATTTGGGCCTATTTAGAAATTCTT
1 TTTCTAAATTTGTCACCATTTAGGCCTATTTAGAAATTCTT
18747024 TTT
1 TTT
18747027 ATTTCTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
40 2 0.05
41 36 0.95
ACGTcount: A:0.24, C:0.14, G:0.11, T:0.52
Consensus pattern (41 bp):
TTTCTAAATTTGTCACCATTTAGGCCTATTTAGAAATTCTT
Found at i:18748700 original size:42 final size:42
Alignment explanation
Indices: 18748653--18749153 Score: 372
Period size: 42 Copynumber: 12.1 Consensus size: 42
18748643 AAGTAAACAA
* * *
18748653 GCTCCTCTAAATAGAGGCTCAACGACTTTTG-AAAATAAAAG
1 GCTCCTCTAAATAGAGGCACAACAACTTTTGAAAAATAAAAT
*
18748694 GACTCCTCTAAACAGAGGCACAACAACTTTTGAAAAATAAAAT
1 G-CTCCTCTAAATAGAGGCACAACAACTTTTGAAAAATAAAAT
* * *
18748737 GCTCCTCTAAATAAAGGCACCATAAC-TTTGAAAAAT-AAAT
1 GCTCCTCTAAATAGAGGCACAACAACTTTTGAAAAATAAAAT
*
18748777 GCTCCTCTAAATAGAGGCATC-ATAACTTTTGAAAAATAAAAT
1 GCTCCTCTAAATAGAGGCA-CAACAACTTTTGAAAAATAAAAT
* * ***
18748819 GCTCTTCTAAACAGAGGCACCGTAAC-TTTGAAAAATAAAAT
1 GCTCCTCTAAATAGAGGCACAACAACTTTTGAAAAATAAAAT
* * * *
18748860 GCTCATCT-AATCAAAGGCACCACAAC-TTTGAAAAAGTAAATT
1 GCTCCTCTAAAT-AGAGGCACAACAACTTTTGAAAAA-TAAAAT
* * * *
18748902 GCTCCTCTAAATAGAGGTACCACAACTTTAGAAAAATAAATT
1 GCTCCTCTAAATAGAGGCACAACAACTTTTGAAAAATAAAAT
* * * *
18748944 GCTCCTTTAAACAGAGACACCACAAC-TTTGAAAAAT-AAAT
1 GCTCCTCTAAATAGAGGCACAACAACTTTTGAAAAATAAAAT
* * * * *
18748984 --TGCTC----TAGAGGCACCATAACTTTGGCTTTGGAAAAATGAATT
1 GCTCCTCTAAATAGAGGCACAACAAC--T---TTT-GAAAAATAAAAT
* * * * *
18749026 GCTTCTCTAAACAGAGGCACCACAACTTTGGAAAAATAAATT
1 GCTCCTCTAAATAGAGGCACAACAACTTTTGAAAAATAAAAT
* * ** * *
18749068 TCTCCTTTAAACGGAGGTACCACAAC-TTTGAAAAATAAAA-
1 GCTCCTCTAAATAGAGGCACAACAACTTTTGAAAAATAAAAT
* * * *
18749108 GCTTCTCTAAATAGAAGCACCACAAC-TTTGAAAAAATAAATT
1 GCTCCTCTAAATAGAGGCACAACAACTTTTG-AAAAATAAAAT
18749150 GCTC
1 GCTC
18749154 TGACAATCAT
Statistics
Matches: 379, Mismatches: 55, Indels: 51
0.78 0.11 0.11
Matches are distributed among these distances:
34 12 0.03
38 3 0.01
40 58 0.15
41 102 0.27
42 163 0.43
43 23 0.06
44 4 0.01
46 1 0.00
48 13 0.03
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (42 bp):
GCTCCTCTAAATAGAGGCACAACAACTTTTGAAAAATAAAAT
Found at i:18748808 original size:82 final size:81
Alignment explanation
Indices: 18748653--18749153 Score: 451
Period size: 82 Copynumber: 6.0 Consensus size: 81
18748643 AAGTAAACAA
* * ** * *
18748653 GCTCCTCTAAATAGAGGCTCAACGACTTTTG-AAAATAAAAGGACTCCTCTAAACAGAGGCACAA
1 GCTCCTCTAAATAGAGGCACCATAAC-TTTGAAAAAT-AAATG-CTCCTCTAAACAGAGGCACCA
18748717 CAACTTTTGAAAAATAAAAT
63 CAAC-TTTGAAAAATAAAAT
* * * *
18748737 GCTCCTCTAAATAAAGGCACCATAACTTTGAAAAATAAATGCTCCTCTAAATAGAGGCATCATAA
1 GCTCCTCTAAATAGAGGCACCATAACTTTGAAAAATAAATGCTCCTCTAAACAGAGGCACCACAA
18748802 CTTTTGAAAAATAAAAT
66 C-TTTGAAAAATAAAAT
* * * * * *
18748819 GCTCTTCTAAACAGAGGCACCGTAACTTTGAAAAATAAAATGCTCATCTAATCAAAGGCACCACA
1 GCTCCTCTAAATAGAGGCACCATAACTTTGAAAAAT-AAATGCTCCTCTAAACAGAGGCACCACA
*
18748884 ACTTTGAAAAAGTAAATT
65 ACTTTGAAAAA-TAAAAT
* * * *
18748902 GCTCCTCTAAATAGAGGTACCACAACTTTAGAAAAATAAATTGCTCCTTTAAACAGAGACACCAC
1 GCTCCTCTAAATAGAGGCACCATAACTTT-GAAAAATAAA-TGCTCCTCTAAACAGAGGCACCAC
18748967 AACTTTGAAAAAT-AAAT
64 AACTTTGAAAAATAAAAT
* * *
18748984 --TGCTC----TAGAGGCACCATAACTTTGGCTTTGGAAAAATGAATTGCTTCTCTAAACAGAGG
1 GCTCCTCTAAATAGAGGCACCATAA------CTTT-GAAAAAT-AAATGCTCCTCTAAACAGAGG
*
18749043 CACCACAACTTTGGAAAAATAAATT
58 CACCACAACTTT-GAAAAATAAAAT
* * ** * * * * * *
18749068 TCTCCTTTAAACGGAGGTACCACAACTTTGAAAAATAAAAGCTTCTCTAAATAGAAGCACCACAA
1 GCTCCTCTAAATAGAGGCACCATAACTTTGAAAAATAAATGCTCCTCTAAACAGAGGCACCACAA
*
18749133 CTTTGAAAAAATAAATT
66 CTTTG-AAAAATAAAAT
18749150 GCTC
1 GCTC
18749154 TGACAATCAT
Statistics
Matches: 344, Mismatches: 52, Indels: 44
0.78 0.12 0.10
Matches are distributed among these distances:
76 12 0.03
80 4 0.01
81 1 0.00
82 162 0.47
83 81 0.24
84 71 0.21
86 3 0.01
90 10 0.03
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (81 bp):
GCTCCTCTAAATAGAGGCACCATAACTTTGAAAAATAAATGCTCCTCTAAACAGAGGCACCACAA
CTTTGAAAAATAAAAT
Found at i:18748810 original size:124 final size:123
Alignment explanation
Indices: 18748653--18749153 Score: 527
Period size: 124 Copynumber: 4.0 Consensus size: 123
18748643 AAGTAAACAA
* * * * *
18748653 GCTCCTCTAAATAGAGGCTCAACGACTTTTG-AAAATAAAAGGACTCCTCTAAACAGAGGCACAA
1 GCTCCTCTAAATAGAGGCACCACAACTTTTGAAAAATAAAATG-CTCCTCTAAACAGAGGCACCA
*
18748717 CAACTTTTGAAAAATAAAATGCTCCTCTAAATAAAGGCACCATAACTTTGAAAAATAAA-T
65 CAAC-TTTGAAAAATAAAATGCTCCTCT-AATAAAGGCACCACAACTTTGAAAAATAAATT
* * * **
18748777 GCTCCTCTAAATAGAGGCATCATAACTTTTGAAAAATAAAATGCTCTTCTAAACAGAGGCACCGT
1 GCTCCTCTAAATAGAGGCACCACAACTTTTGAAAAATAAAATGCTCCTCTAAACAGAGGCACCAC
*
18748842 AACTTTGAAAAATAAAATGCTCATCTAATCAAAGGCACCACAACTTTGAAAAAGTAAATT
66 AACTTTGAAAAATAAAATGCTCCTCTAAT-AAAGGCACCACAACTTTGAAAAA-TAAATT
* * * * *
18748902 GCTCCTCTAAATAGAGGTACCACAACTTTAGAAAAATAAATTGCTCCTTTAAACAGAGACACCAC
1 GCTCCTCTAAATAGAGGCACCACAACTTTTGAAAAATAAAATGCTCCTCTAAACAGAGGCACCAC
* * * *
18748967 AACTTTGAAAAAT-AAAT--TGCTC---TAGAGGCACCATAACTTTGGCTTTGGAAAAATGAATT
66 AACTTTGAAAAATAAAATGCTCCTCTAATAAAGGCACCACAA------CTTT-GAAAAATAAATT
* * * * * * * *
18749026 GCTTCTCTAAACAGAGGCACCACAACTTTGGAAAAATAAATTTCTCCTTTAAACGGAGGTACCAC
1 GCTCCTCTAAATAGAGGCACCACAACTTTTGAAAAATAAAATGCTCCTCTAAACAGAGGCACCAC
*
18749091 AACTTTGAAAAATAAAA-GCTTCTCTAAATAGAA-GCACCACAACTTTGAAAAAATAAATT
66 AACTTTGAAAAATAAAATGCTCCTCT-AATA-AAGGCACCACAACTTTG-AAAAATAAATT
18749150 GCTC
1 GCTC
18749154 TGACAATCAT
Statistics
Matches: 317, Mismatches: 40, Indels: 40
0.80 0.10 0.10
Matches are distributed among these distances:
118 11 0.03
119 1 0.00
122 6 0.02
123 45 0.14
124 151 0.48
125 88 0.28
126 4 0.01
130 10 0.03
131 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (123 bp):
GCTCCTCTAAATAGAGGCACCACAACTTTTGAAAAATAAAATGCTCCTCTAAACAGAGGCACCAC
AACTTTGAAAAATAAAATGCTCCTCTAATAAAGGCACCACAACTTTGAAAAATAAATT
Done.