Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, 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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 15 of 100
Found at i:4147794 original size:218 final size:222
Alignment explanation
Indices: 4147381--4147828 Score: 708
Period size: 218 Copynumber: 2.0 Consensus size: 222
4147371 TTTAGCGGAA
* * *
4147381 AAAGATCCTCTCCATTGCTTAAAAAGTAGTGAAAGATTCCACTACTTTATCTAAGGGTGAGTTAC
1 AAAGATCCTCTCAATTGCTTAAAAAGTAGTGAAAGATTCCACTACTTTATCTAAGGGTGAATCAC
4147446 TTTCAGTTACATCTACGGTTGATATTAATGGTTTTAAATTGAATACAAAAATAAATAAAAATTAA
66 TTTCAGTTACATCTACGGTTGATATTAATGGTTTT-AA-T-AAT--AAAAAT-AATAAAAATTAA
*
4147511 TTAAAAAGATAAAAATGATTTGAATAGATATCAATCATTGATCTAATTGAAAGTGCAATATTCAC
125 TTAAAAAGATAAAAATGATTTGAATAAATATCAATCATTGATCTAATTGAAAGTGCAATATTCAC
4147576 CTTAGATAAAAGTGGAAACTTCCACTACTTTTT
190 CTTAGATAAAAGTGGAAACTTCCACTACTTTTT
4147609 AAAG-TCCTCTCAATTGCTTAAAAAGTAGTGAAAGATTCCACTACTTTATCTAAGGGTGAATCAC
1 AAAGATCCTCTCAATTGCTTAAAAAGTAGTGAAAGATTCCACTACTTTATCTAAGGGTGAATCAC
* * * * *
4147673 TTTCAGTTAGATCTATGGTTGATATTTCATGGTTTT-A-AAT-AGAAT-ATAAAAATTAATTAGA
66 TTTCAGTTACATCTACGGTTGATA-TTAATGGTTTTAATAATAAAAATAATAAAAATTAATTAAA
4147734 AAGATAAAAATGATTTGAATAAATATCAATCATTGATCTAATTGAAAGTGCAATATTCACCTTAG
130 AAGATAAAAATGATTTGAATAAATATCAATCATTGATCTAATTGAAAGTGCAATATTCACCTTAG
*
4147799 ATAAAAGTGGAAACTTCCAGTACTTTTT
195 ATAAAAGTGGAAACTTCCACTACTTTTT
4147827 AA
1 AA
4147829 GTAGTGGAGA
Statistics
Matches: 209, Mismatches: 10, Indels: 12
0.90 0.04 0.05
Matches are distributed among these distances:
218 108 0.52
220 4 0.02
223 3 0.01
226 1 0.00
227 79 0.38
228 14 0.07
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (222 bp):
AAAGATCCTCTCAATTGCTTAAAAAGTAGTGAAAGATTCCACTACTTTATCTAAGGGTGAATCAC
TTTCAGTTACATCTACGGTTGATATTAATGGTTTTAATAATAAAAATAATAAAAATTAATTAAAA
AGATAAAAATGATTTGAATAAATATCAATCATTGATCTAATTGAAAGTGCAATATTCACCTTAGA
TAAAAGTGGAAACTTCCACTACTTTTT
Found at i:4157474 original size:11 final size:11
Alignment explanation
Indices: 4157458--4157483 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4157448 TTAACAATAA
4157458 TTAAATTAAAT
1 TTAAATTAAAT
4157469 TTAAATTAAAT
1 TTAAATTAAAT
4157480 TTAA
1 TTAA
4157484 TTCGAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:4158830 original size:12 final size:12
Alignment explanation
Indices: 4158798--4158841 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
4158788 CATGAAAATT
4158798 TTTTAATATAAATA
1 TTTTAAT-TAAA-A
*
4158812 ATTTAATTAAAA
1 TTTTAATTAAAA
*
4158824 TTTTAATAAAAA
1 TTTTAATTAAAA
4158836 TTTTAA
1 TTTTAA
4158842 ATTGATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 17 0.63
13 4 0.15
14 6 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TTTTAATTAAAA
Found at i:4170747 original size:2 final size:2
Alignment explanation
Indices: 4170740--4170776 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4170730 GGGGACTTTC
4170740 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
4170777 GATTTTAGAT
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:4182844 original size:23 final size:22
Alignment explanation
Indices: 4182818--4182861 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
4182808 TTAATCTCAC
4182818 TTATAAAATTAAAAAAAATTTTA
1 TTAT-AAATTAAAAAAAATTTTA
* * *
4182841 TTATGACTTAATAAAAATTTT
1 TTATAAATTAAAAAAAATTTT
4182862 TGTTAGTGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TTATAAATTAAAAAAAATTTTA
Found at i:4183910 original size:27 final size:28
Alignment explanation
Indices: 4183870--4183926 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
4183860 TAATATACAA
4183870 ATATAATAAAATAAAATAAAATAATATT
1 ATATAATAAAATAAAATAAAATAATATT
* *
4183898 ATAT-ATAAAATAAATTTAAATAATATT
1 ATATAATAAAATAAAATAAAATAATATT
4183925 AT
1 AT
4183927 TTTATTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (28 bp):
ATATAATAAAATAAAATAAAATAATATT
Found at i:4183923 original size:22 final size:22
Alignment explanation
Indices: 4183869--4183911 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4183859 TTAATATACA
*
4183869 AATATAATAAAATAAAATAAAAT
1 AATATAAT-ATATAAAATAAAAT
*
4183892 AATATTATATATAAAATAAA
1 AATATAATATATAAAATAAA
4183912 TTTAAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
AATATAATATATAAAATAAAAT
Found at i:4184858 original size:28 final size:28
Alignment explanation
Indices: 4184820--4184909 Score: 108
Period size: 28 Copynumber: 3.1 Consensus size: 28
4184810 TTTTTTTGAT
* *
4184820 TTTTAAGAATTTAGTTTTTATATTACTA
1 TTTTAAAAATTTAGTTTTTATAATACTA
*
4184848 TTTTAAAAATTTTGTTTTTATAATACTA
1 TTTTAAAAATTTAGTTTTTATAATACTA
* * *
4184876 TGTTTAAAAATTTTAATTTCTATAATATTA
1 T-TTTAAAAA-TTTAGTTTTTATAATACTA
4184906 TTTT
1 TTTT
4184910 TTAAGAAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 26 0.49
29 11 0.21
30 16 0.30
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.58
Consensus pattern (28 bp):
TTTTAAAAATTTAGTTTTTATAATACTA
Found at i:4184902 original size:30 final size:28
Alignment explanation
Indices: 4184820--4184924 Score: 102
Period size: 28 Copynumber: 3.6 Consensus size: 28
4184810 TTTTTTTGAT
* * *
4184820 TTTTAAGAATTTAGTTTTTATATTACTA
1 TTTTAAAAATTTAATTTTTATAATACTA
**
4184848 TTTTAAAAATTTTGTTTTTATAATACTA
1 TTTTAAAAATTTAATTTTTATAATACTA
* *
4184876 TGTTTAAAAATTTTAATTTCTATAATATTA
1 T-TTTAAAAA-TTTAATTTTTATAATACTA
4184906 TTTTTTAAGAAATTTAATT
1 --TTTTAA-AAATTTAATT
4184925 CTTGTATATG
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
28 26 0.40
29 8 0.12
30 15 0.23
31 12 0.18
32 4 0.06
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (28 bp):
TTTTAAAAATTTAATTTTTATAATACTA
Found at i:4184985 original size:9 final size:9
Alignment explanation
Indices: 4184971--4185010 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
4184961 AAATAATATT
4184971 AAAAAATTA
1 AAAAAATTA
4184980 AAAAAATTTA
1 AAAAAA-TTA
*
4184990 AATAATATTA
1 AA-AAAATTA
4185000 AAAAAATTA
1 AAAAAATTA
4185009 AA
1 AA
4185011 TTCTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 14 0.52
10 10 0.37
11 3 0.11
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAAAATTA
Found at i:4184999 original size:20 final size:19
Alignment explanation
Indices: 4184959--4185011 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
4184949 AAAATTTTTA
4184959 AAAAATAATATTAAA-AAATT
1 AAAAA-AAT-TTAAATAAATT
4184979 AAAAAAATTTAAATAATATT
1 AAAAAAATTTAAATAA-ATT
4184999 AAAAAAA-TTAAAT
1 AAAAAAATTTAAAT
4185012 TCTTAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.16
19 11 0.35
20 15 0.48
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAAAAATTTAAATAAATT
Found at i:4189254 original size:21 final size:21
Alignment explanation
Indices: 4189214--4189255 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4189204 ATACATGCAG
**
4189214 ATTTTTATTTTCTTTATTGTT
1 ATTTTTATTTAATTTATTGTT
*
4189235 ATTTTTATTTAATTTTTTGTT
1 ATTTTTATTTAATTTATTGTT
4189256 TTCTAAATTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (21 bp):
ATTTTTATTTAATTTATTGTT
Found at i:4190628 original size:7 final size:8
Alignment explanation
Indices: 4190617--4190651 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
4190607 CCCCCCCCAA
4190617 AAAAAAAG
1 AAAAAAAG
4190625 AAAAAAAG
1 AAAAAAAG
4190633 AAAAACAAG
1 AAAAA-AAG
4190642 AAAAACAAG
1 AAAAA-AAG
4190651 A
1 A
4190652 TTCTTCTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 13 0.50
9 13 0.50
ACGTcount: A:0.83, C:0.06, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:4190628 original size:8 final size:9
Alignment explanation
Indices: 4190616--4190651 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
4190606 TCCCCCCCCA
*
4190616 AAAAAAAAG
1 AAAAACAAG
4190625 AAAAA-AAG
1 AAAAACAAG
4190633 AAAAACAAG
1 AAAAACAAG
4190642 AAAAACAAG
1 AAAAACAAG
4190651 A
1 A
4190652 TTCTTCTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.31
9 18 0.69
ACGTcount: A:0.83, C:0.06, G:0.11, T:0.00
Consensus pattern (9 bp):
AAAAACAAG
Found at i:4190642 original size:17 final size:18
Alignment explanation
Indices: 4190616--4190651 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
4190606 TCCCCCCCCA
4190616 AAAAAAAAGAAAAA-AAG
1 AAAAAAAAGAAAAACAAG
*
4190633 AAAAACAAGAAAAACAAG
1 AAAAAAAAGAAAAACAAG
4190651 A
1 A
4190652 TTCTTCTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.83, C:0.06, G:0.11, T:0.00
Consensus pattern (18 bp):
AAAAAAAAGAAAAACAAG
Found at i:4199688 original size:29 final size:29
Alignment explanation
Indices: 4199655--4199711 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
4199645 AATCAAAAGC
*
4199655 TTAATTCGATAAAAATAAATATTTAAGGT
1 TTAATTCAATAAAAATAAATATTTAAGGT
* *
4199684 TTAATTTAATAAAAATAAATTTTTAAGG
1 TTAATTCAATAAAAATAAATATTTAAGG
4199712 CTCAACTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (29 bp):
TTAATTCAATAAAAATAAATATTTAAGGT
Found at i:4199954 original size:3 final size:3
Alignment explanation
Indices: 4199948--4199988 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
4199938 TACCTACTAC
4199948 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
4199989 CCCTTGATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:4204082 original size:22 final size:19
Alignment explanation
Indices: 4204038--4204096 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 19
4204028 CAAAGTGGTT
*
4204038 TTTTTTTTTTTTTTTTTCA
1 TTTTGTTTTTTTTTTTTCA
4204057 TTTTGGTTTTTTTTTTTTCTA
1 TTTT-GTTTTTTTTTTTTC-A
4204078 CTTTTGTTATTTTTGTTTT
1 -TTTTGTT-TTTTT-TTTT
4204097 GGGTTTTGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
19 4 0.12
20 13 0.38
21 4 0.12
22 9 0.26
23 4 0.12
ACGTcount: A:0.05, C:0.05, G:0.07, T:0.83
Consensus pattern (19 bp):
TTTTGTTTTTTTTTTTTCA
Found at i:4216583 original size:21 final size:23
Alignment explanation
Indices: 4216545--4216589 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
4216535 TTTAAAATGT
*
4216545 TTTTGGATGGATAATAAAATTAA
1 TTTTGGATGGATAATAAAAATAA
*
4216568 TTTT-GAT-GATATTAAAAATAA
1 TTTTGGATGGATAATAAAAATAA
4216589 T
1 T
4216590 AATAGATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
22 3 0.15
23 4 0.20
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.42
Consensus pattern (23 bp):
TTTTGGATGGATAATAAAAATAA
Found at i:4226504 original size:20 final size:17
Alignment explanation
Indices: 4226468--4226509 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 17
4226458 ATTTTTATTT
4226468 TATAAAAATTTAAAATA
1 TATAAAAATTTAAAATA
4226485 TATAAAAATTAATAAAAATA
1 TATAAAAATT--T-AAAATA
4226505 TATAA
1 TATAA
4226510 TTCAATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.45
19 1 0.05
20 11 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TATAAAAATTTAAAATA
Found at i:4226524 original size:55 final size:56
Alignment explanation
Indices: 4226406--4226511 Score: 125
Period size: 55 Copynumber: 2.0 Consensus size: 56
4226396 TTTTTAGATA
* * * *
4226406 TTATTTTAATAAAAATTTAATATATTTAGATAAATTTATATATAAAATAATTATTT
1 TTATTTTTATAAAAATTTAAAATATATAGATAAATTTATATATAAAATAATAATTT
4226462 TTA-TTTTATAAAAATTTAAAATATATA-A-AAA-TTA-ATA-AAAATATATAATT
1 TTATTTTTATAAAAATTTAAAATATATAGATAAATTTATATATAAAATA-ATAATT
4226512 CAATTTATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
50 6 0.13
51 8 0.18
52 3 0.07
53 3 0.07
54 1 0.02
55 21 0.47
56 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (56 bp):
TTATTTTTATAAAAATTTAAAATATATAGATAAATTTATATATAAAATAATAATTT
Found at i:4249866 original size:12 final size:13
Alignment explanation
Indices: 4249849--4249881 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
4249839 ATGTATAAAG
4249849 ATGGAGAAGA-TT
1 ATGGAGAAGATTT
*
4249861 ATGGAGAATATTT
1 ATGGAGAAGATTT
4249874 ATGGAGAA
1 ATGGAGAA
4249882 AGTATATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
ATGGAGAAGATTT
Found at i:4255825 original size:2 final size:2
Alignment explanation
Indices: 4255818--4255844 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4255808 AGCGAAACCA
4255818 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
4255845 GGGGTGCAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4256451 original size:26 final size:27
Alignment explanation
Indices: 4256428--4256478 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
4256418 TAAGATTATC
4256428 ATAAA-ATAATATAAAATAATATTATAA
1 ATAAATATAAT-TAAAATAATATTATAA
*
4256455 ATAAATTTAATTAAAA-AATATTAT
1 ATAAATATAATTAAAATAATATTAT
4256479 TTTATTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 10 0.45
28 4 0.18
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (27 bp):
ATAAATATAATTAAAATAATATTATAA
Found at i:4258037 original size:13 final size:12
Alignment explanation
Indices: 4258019--4258072 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
4258009 AATAAATTTA
4258019 AATAAATATTTTT
1 AATAAA-ATTTTT
* *
4258032 AATAAAAATATT
1 AATAAAATTTTT
*
4258044 GATAAAATTTTT
1 AATAAAATTTTT
4258056 AACT-AAATTTTT
1 AA-TAAAATTTTT
4258068 AATAA
1 AATAA
4258073 TTTTTTACAT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
11 1 0.03
12 25 0.76
13 7 0.21
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (12 bp):
AATAAAATTTTT
Found at i:4258072 original size:24 final size:23
Alignment explanation
Indices: 4258009--4258079 Score: 58
Period size: 23 Copynumber: 3.0 Consensus size: 23
4257999 GTAAATTTAG
*
4258009 AATAAATTTAAATAAATATTTTT
1 AATAAATTTTAATAAATATTTTT
* *
4258032 AATAAAAATATTGATAAA-ATTTTT
1 AAT--AAATTTTAATAAATATTTTT
4258056 AACTAAATTTTTAAT-AAT-TTTTT
1 AA-TAAA-TTTTAATAAATATTTTT
4258079 A
1 A
4258080 CATATTATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
23 14 0.37
24 13 0.34
25 11 0.29
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (23 bp):
AATAAATTTTAATAAATATTTTT
Found at i:4258148 original size:25 final size:23
Alignment explanation
Indices: 4258082--4258149 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 23
4258072 ATTTTTTACA
*
4258082 TATTATAAATTTTCATATTAAATTT
1 TATTA-AAATTTTTAT-TTAAATTT
4258107 TATT--AATTTATTAATTTAAATTTTT
1 TATTAAAATTT-TT-ATTTAAA--TTT
4258132 TATTAAAATTTTTATTTA
1 TATTAAAATTTTTATTTA
4258150 CTTATTTTAC
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
22 5 0.14
23 6 0.17
24 2 0.06
25 16 0.44
26 2 0.06
27 5 0.14
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTAAAATTTTTATTTAAATTT
Found at i:4261496 original size:28 final size:30
Alignment explanation
Indices: 4261438--4261498 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 30
4261428 GCTCTTCAAA
* *
4261438 TTGTGTAAATTGTTCTATAGGCCAAAAAAG
1 TTGTATAAATTGTTCTATAAGCCAAAAAAG
* *
4261468 TTGTATAAATTGTT-T-TAAGCCACAGAAG
1 TTGTATAAATTGTTCTATAAGCCAAAAAAG
4261496 TTG
1 TTG
4261499 AAGCGATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 13 0.48
29 1 0.04
30 13 0.48
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (30 bp):
TTGTATAAATTGTTCTATAAGCCAAAAAAG
Found at i:4265765 original size:2 final size:2
Alignment explanation
Indices: 4265758--4265788 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4265748 ATTTGGGCAC
4265758 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4265789 ACAAGAACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4268657 original size:2 final size:2
Alignment explanation
Indices: 4268650--4268747 Score: 196
Period size: 2 Copynumber: 49.0 Consensus size: 2
4268640 TATCATCAGC
4268650 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4268692 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4268734 CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT
4268748 GTTCCTCTTT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 96 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4269991 original size:20 final size:20
Alignment explanation
Indices: 4269953--4269990 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
4269943 AAAAGCATTG
*
4269953 CTTTATAAAAGCTGAAAAAT
1 CTTTATAAAAGATGAAAAAT
4269973 CTTT-TAAAAGATGAAAAA
1 CTTTATAAAAGATGAAAAA
4269991 AATAATTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.29
Consensus pattern (20 bp):
CTTTATAAAAGATGAAAAAT
Found at i:4279132 original size:147 final size:148
Alignment explanation
Indices: 4278970--4279265 Score: 524
Period size: 147 Copynumber: 2.0 Consensus size: 148
4278960 ATGAAAGATA
* * *
4278970 AAAAAAAAATTCTTGGAAAAGACTATTGTTTAGGATTAGGGGTTGCGAAGTGACATTTT-GGAGG
1 AAAAAAAAATTCTTGGAAAAGACTATTGGTTAGGATTAGGCGTTGCGAAGTGAAATTTTGGGA-G
*
4279034 GTAGGAACATTACCAGTCCCAGCGTCCCAGGATACGTTGCTCTGCACACAAAAATTCGCGAGCAG
65 GTAGGAACATTACCAGTCCCAGCGTCCCAGGATACGTTGCTCTCCACACAAAAATTCGCGAGCAG
4279099 CCAACGCCGTGTCGACACC
130 CCAACGCCGTGTCGACACC
*
4279118 AAAAAAAAA-TCTTGGAAAAGACTATTGGTTAGGATTAGGCGTTGGGAAGTGAAATTTTGGGAGG
1 AAAAAAAAATTCTTGGAAAAGACTATTGGTTAGGATTAGGCGTTGCGAAGTGAAATTTTGGGAGG
4279182 TAGGAACATTACCAGTCCCAGCGTCCCAGGATACGTTGCTCTCCACACAAAAATTCGCGAGCAGC
66 TAGGAACATTACCAGTCCCAGCGTCCCAGGATACGTTGCTCTCCACACAAAAATTCGCGAGCAGC
4279247 CAACGCCGTGTCGACACC
131 CAACGCCGTGTCGACACC
4279265 A
1 A
4279266 TTGCCCAATA
Statistics
Matches: 142, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
147 130 0.92
148 12 0.08
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (148 bp):
AAAAAAAAATTCTTGGAAAAGACTATTGGTTAGGATTAGGCGTTGCGAAGTGAAATTTTGGGAGG
TAGGAACATTACCAGTCCCAGCGTCCCAGGATACGTTGCTCTCCACACAAAAATTCGCGAGCAGC
CAACGCCGTGTCGACACC
Found at i:4280403 original size:19 final size:20
Alignment explanation
Indices: 4280354--4280403 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
4280344 TTTGTACTTG
*
4280354 TTAAAT-TTAATTATTAAAA
1 TTAAATATTTATTATTAAAA
*
4280373 ATAAATTCATTTATTATT-AAA
1 TTAAA-T-ATTTATTATTAAAA
4280394 TTAAATATTT
1 TTAAATATTT
4280404 TAATCTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
19 8 0.32
20 2 0.08
21 7 0.28
22 8 0.32
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAATATTTATTATTAAAA
Found at i:4281416 original size:25 final size:23
Alignment explanation
Indices: 4281371--4281416 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
4281361 AAGAAAAATT
*
4281371 AATTAAAAAATAATTTAATAAAA
1 AATTAAAAAATAAATTAATAAAA
*
4281394 AATTAAAATCAATAAATTGATAA
1 AATTAAAA--AATAAATTAATAA
4281417 GATTTAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
25 11 0.58
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (23 bp):
AATTAAAAAATAAATTAATAAAA
Found at i:4281503 original size:29 final size:29
Alignment explanation
Indices: 4281452--4281508 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
4281442 TATATAATTT
* *
4281452 AAATTTGATTTATATTTATTTAATAATAA
1 AAATTTGATTAATATTTATTTAAAAATAA
*
4281481 AAATTTTATTAATATTT-TATTAAAAATA
1 AAATTTGATTAATATTTAT-TTAAAAATA
4281509 TTTATTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.04
29 23 0.96
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (29 bp):
AAATTTGATTAATATTTATTTAAAAATAA
Found at i:4281510 original size:14 final size:15
Alignment explanation
Indices: 4281491--4281535 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
4281481 AAATTTTATT
4281491 AATATTT-TATTAAA
1 AATATTTATATTAAA
*
4281505 AATATTTATTTTAAA
1 AATATTTATATTAAA
* *
4281520 AATATATATATCAAA
1 AATATTTATATTAAA
4281535 A
1 A
4281536 TTGATTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATTTATATTAAA
Found at i:4287569 original size:17 final size:17
Alignment explanation
Indices: 4287547--4287582 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4287537 TCGAGCTACT
* *
4287547 TATATATATGTAATATA
1 TATATATATATAAAATA
4287564 TATATATATATAAAATA
1 TATATATATATAAAATA
4287581 TA
1 TA
4287583 AAATAGTAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
TATATATATATAAAATA
Found at i:4296733 original size:20 final size:21
Alignment explanation
Indices: 4296695--4296734 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
4296685 TCTTGAATTA
4296695 GTTTTAACATCGTTATATTTG
1 GTTTTAACATCGTTATATTTG
4296716 GTTTTGAACA-CG-TATATTT
1 GTTTT-AACATCGTTATATTT
4296735 ACATTGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (21 bp):
GTTTTAACATCGTTATATTTG
Found at i:4297874 original size:34 final size:34
Alignment explanation
Indices: 4297830--4297895 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
4297820 TTGAATAACT
* *
4297830 CAATTTAATTTTTTGTAAAAGATTATTCAAGGTC
1 CAATTCAATTTTTTATAAAAGATTATTCAAGGTC
* *
4297864 CAATTCAATTTTTTATAATAGATTATTTAAGG
1 CAATTCAATTTTTTATAAAAGATTATTCAAGG
4297896 AGTTTTTAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (34 bp):
CAATTCAATTTTTTATAAAAGATTATTCAAGGTC
Found at i:4301178 original size:15 final size:17
Alignment explanation
Indices: 4301152--4301186 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
4301142 TCATTTAAAT
4301152 AAAAAGATAAAAAGA-A
1 AAAAAGATAAAAAGAGA
4301168 AAAAAGA-AAAAAGAGA
1 AAAAAGATAAAAAGAGA
4301184 AAA
1 AAA
4301187 TGCGACAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (17 bp):
AAAAAGATAAAAAGAGA
Found at i:4308880 original size:19 final size:18
Alignment explanation
Indices: 4308852--4308889 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
4308842 GTAAAAAAAA
4308852 TTTTTCATTATAATAATT
1 TTTTTCATTATAATAATT
*
4308870 TTTTTCAATTATAATTATT
1 TTTTTC-ATTATAATAATT
4308889 T
1 T
4308890 ATTGTCTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTTCATTATAATAATT
Found at i:4316950 original size:16 final size:17
Alignment explanation
Indices: 4316931--4316965 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
4316921 ATAAAAATAA
4316931 TTTTTTTAACTTTT-CT
1 TTTTTTTAACTTTTACT
*
4316947 TTTTTTTACCTTTTACT
1 TTTTTTTAACTTTTACT
4316964 TT
1 TT
4316966 AAATTGAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTTTAACTTTTACT
Found at i:4317232 original size:92 final size:93
Alignment explanation
Indices: 4317043--4317233 Score: 217
Period size: 92 Copynumber: 2.1 Consensus size: 93
4317033 TTTTAAAATT
* *
4317043 AAAAATTTATTCAAACAAATAAAAAATTTTTCTATTTTCATTACTTTATTTTATTTTCCTCTCCT
1 AAAAATTTATCCAAACAAATAAAAAATTTTTCTATTTCCATTACTTTATTTTATTTTCCTCTCCT
* * **
4317108 CCCCCTTCATTCAATTCAAATATAGTGT
66 CCCCCTTCATTCAATACAAATAAAGTAA
* * * *
4317136 AAAAATTTATCCACATAAAT-AAAAATTTTTTTATTTCCATTACTTTATTTTATTTT-CTTTCCT
1 AAAAATTTATCCAAACAAATAAAAAATTTTTCTATTTCCATTACTTTATTTTATTTTCCTCTCCT
* * *
4317199 CTCCCTTCAATTTAA-ACAAAGTGAAAGAAA
66 CCCCCTTC-ATTCAATACAAA-T-AAAGTAA
4317229 AAAAA
1 AAAAA
4317234 ATACAATACT
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
91 17 0.21
92 40 0.49
93 25 0.30
ACGTcount: A:0.37, C:0.17, G:0.03, T:0.43
Consensus pattern (93 bp):
AAAAATTTATCCAAACAAATAAAAAATTTTTCTATTTCCATTACTTTATTTTATTTTCCTCTCCT
CCCCCTTCATTCAATACAAATAAAGTAA
Found at i:4338309 original size:11 final size:11
Alignment explanation
Indices: 4338295--4338319 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4338285 CGAAAACTAA
4338295 AAATTTTCTAG
1 AAATTTTCTAG
4338306 AAATTTTCTAG
1 AAATTTTCTAG
4338317 AAA
1 AAA
4338320 AAAAAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATTTTCTAG
Found at i:4340078 original size:21 final size:20
Alignment explanation
Indices: 4340042--4340113 Score: 83
Period size: 21 Copynumber: 3.5 Consensus size: 20
4340032 ATAATATAAG
*
4340042 TAAAATTTGATAACTTTTGA
1 TAAAATTTTATAACTTTTGA
4340062 TAAAATTTTAGTAACTTTTGA
1 TAAAATTTTA-TAACTTTTGA
* *
4340083 TACAATTTTCATAA-TCATTGA
1 TAAAATTTT-ATAACT-TTTGA
4340104 TAAAATTTTA
1 TAAAATTTTA
4340114 GTAATCTCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
20 11 0.24
21 33 0.73
22 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (20 bp):
TAAAATTTTATAACTTTTGA
Found at i:4340132 original size:42 final size:42
Alignment explanation
Indices: 4340058--4340139 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
4340048 TTGATAACTT
* *
4340058 TTGATAAAATTTTAGTAACTTTTGATACAATTTTCATAATCA
1 TTGATAAAATTTTAGTAACTCTTGATACAATTTTAATAATCA
**
4340100 TTGATAAAATTTTAGTAATCTCTT-ATGTAATTTTAATAAT
1 TTGATAAAATTTTAGTAA-CTCTTGATACAATTTTAATAAT
4340140 TAATCTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 31 0.89
43 4 0.11
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (42 bp):
TTGATAAAATTTTAGTAACTCTTGATACAATTTTAATAATCA
Found at i:4340168 original size:21 final size:21
Alignment explanation
Indices: 4340144--4340183 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
4340134 AATAATTAAT
4340144 CTTTTAGTAACTTA-TGATATA
1 CTTTTAGTAA-TTATTGATATA
4340165 CTTTTAGTAATTATTGATA
1 CTTTTAGTAATTATTGATA
4340184 AAATTTGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (21 bp):
CTTTTAGTAATTATTGATATA
Found at i:4340304 original size:21 final size:22
Alignment explanation
Indices: 4340270--4340312 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 22
4340260 TTAAATAATA
*
4340270 ATAATATTATTTCATTCAAATTT
1 ATAATATTATTTCACT-AAATTT
4340293 ATAAT-TT-TTTCACTAAATTT
1 ATAATATTATTTCACTAAATTT
4340313 TTTATTGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 6 0.32
22 2 0.11
23 5 0.26
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (22 bp):
ATAATATTATTTCACTAAATTT
Found at i:4340442 original size:22 final size:22
Alignment explanation
Indices: 4340417--4340458 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4340407 ACTTTAAGTT
4340417 CAAA-AAGTTTATCAATAATTAA
1 CAAATAAG-TTATCAATAATTAA
*
4340439 CAAATAAGTTATCATTAATT
1 CAAATAAGTTATCAATAATT
4340459 TATTATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.36
Consensus pattern (22 bp):
CAAATAAGTTATCAATAATTAA
Found at i:4340472 original size:22 final size:22
Alignment explanation
Indices: 4340447--4340602 Score: 105
Period size: 22 Copynumber: 7.1 Consensus size: 22
4340437 AACAAATAAG
* * *
4340447 TTATCATTAATTTATTATTATA
1 TTATCAGTGATTTATTATTAAA
* * * *
4340469 TTATCAGCGATTTACTACTAAG
1 TTATCAGTGATTTATTATTAAA
* * *
4340491 CTATCAGTAATATATTATTAAA
1 TTATCAGTGATTTATTATTAAA
* *
4340513 TTATCAATGATTTATTACTAAA
1 TTATCAGTGATTTATTATTAAA
* * *
4340535 TTAGCATTGATTTATTATTAAC
1 TTATCAGTGATTTATTATTAAA
* * * *
4340557 TTATGAATGATTTATTACTAAG
1 TTATCAGTGATTTATTATTAAA
* * * *
4340579 TTATGAATGATTTACTAATAAA
1 TTATCAGTGATTTATTATTAAA
4340601 TT
1 TT
4340603 GTTAATAATT
Statistics
Matches: 103, Mismatches: 31, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 103 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (22 bp):
TTATCAGTGATTTATTATTAAA
Found at i:4340525 original size:44 final size:44
Alignment explanation
Indices: 4340425--4340625 Score: 168
Period size: 44 Copynumber: 4.6 Consensus size: 44
4340415 TTCAAAAAGT
* * * * *
4340425 TTATCAATAATTAACAAATAAGTTATCATTAATTTATTATTATA
1 TTATCAATGATTTACTACTAAGTTATCATTAATTTATTATTAAA
** * * *
4340469 TTATCAGCGATTTACTACTAAGCTATCAGTAATATATTATTAAA
1 TTATCAATGATTTACTACTAAGTTATCATTAATTTATTATTAAA
* * * * *
4340513 TTATCAATGATTTATTACTAAATTAGCATTGATTTATTATTAAC
1 TTATCAATGATTTACTACTAAGTTATCATTAATTTATTATTAAA
* * * * * * *
4340557 TTATGAATGATTTATTACTAAGTTATGAATGATTTACTAATAAA
1 TTATCAATGATTTACTACTAAGTTATCATTAATTTATTATTAAA
* * * *
4340601 TTGTTAATAATTTACTATTAAGTTA
1 TTATCAATGATTTACTACTAAGTTA
4340626 CTGATGATTT
Statistics
Matches: 124, Mismatches: 33, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
44 124 1.00
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (44 bp):
TTATCAATGATTTACTACTAAGTTATCATTAATTTATTATTAAA
Found at i:4340613 original size:22 final size:22
Alignment explanation
Indices: 4340579--4340707 Score: 84
Period size: 22 Copynumber: 5.9 Consensus size: 22
4340569 TATTACTAAG
* *
4340579 TTATGAATGATTTACTAATAAA
1 TTATTAATAATTTACTAATAAA
* * *
4340601 TTGTTAATAATTTACTATTAAG
1 TTATTAATAATTTACTAATAAA
* * *
4340623 TTACTGATGATTTA-TAATAAA
1 TTATTAATAATTTACTAATAAA
* * *
4340644 GTTA-TAACTGATTTACTATTAAT
1 -TTATTAA-TAATTTACTAATAAA
*
4340667 TTATTAATAATTTACT-ACAAA
1 TTATTAATAATTTACTAATAAA
* *
4340688 TATATCAATAATTAACTAAT
1 T-TATTAATAATTTACTAAT
4340708 TTATGATTAA
Statistics
Matches: 80, Mismatches: 21, Indels: 11
0.71 0.19 0.10
Matches are distributed among these distances:
21 10 0.12
22 61 0.76
23 9 0.11
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (22 bp):
TTATTAATAATTTACTAATAAA
Found at i:4340614 original size:66 final size:66
Alignment explanation
Indices: 4340544--4340683 Score: 178
Period size: 66 Copynumber: 2.1 Consensus size: 66
4340534 ATTAGCATTG
* * *
4340544 ATTTATTATTAACTTA-TGAATGATTTATTACT-AAGTTATGAA-TGATTTACTAATAAATTGTT
1 ATTTACTATTAACTTACTG-ATGATTTA-TAATAAAGTTAT-AACTGATTTACTAATAAATTATT
4340606 AATA
63 AATA
* * *
4340610 ATTTACTATTAAGTTACTGATGATTTATAATAAAGTTATAACTGATTTACTATTAATTTATTAAT
1 ATTTACTATTAACTTACTGATGATTTATAATAAAGTTATAACTGATTTACTAATAAATTATTAAT
4340675 A
66 A
4340676 ATTTACTA
1 ATTTACTA
4340684 CAAATATATC
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
65 5 0.08
66 58 0.89
67 2 0.03
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (66 bp):
ATTTACTATTAACTTACTGATGATTTATAATAAAGTTATAACTGATTTACTAATAAATTATTAAT
A
Found at i:4340633 original size:44 final size:44
Alignment explanation
Indices: 4340566--4340670 Score: 117
Period size: 44 Copynumber: 2.4 Consensus size: 44
4340556 CTTATGAATG
* * *
4340566 ATTTATTACTAAGTTATGAATGATTTACTAATAAA-TTGTTAA-TA
1 ATTTACTATTAAGTTATG-ATGATTTACTAATAAAGTT-ATAACTA
*
4340610 ATTTACTATTAAGTTACTGATGATTTA-TAATAAAGTTATAACTG
1 ATTTACTATTAAGTTA-TGATGATTTACTAATAAAGTTATAACTA
*
4340654 ATTTACTATTAATTTAT
1 ATTTACTATTAAGTTAT
4340671 TAATAATTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
43 11 0.21
44 40 0.75
45 2 0.04
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.47
Consensus pattern (44 bp):
ATTTACTATTAAGTTATGATGATTTACTAATAAAGTTATAACTA
Found at i:4340668 original size:11 final size:11
Alignment explanation
Indices: 4340588--4340683 Score: 61
Period size: 11 Copynumber: 8.7 Consensus size: 11
4340578 GTTATGAATG
4340588 ATTTACTAATA
1 ATTTACTAATA
* **
4340599 AATTGTTAATA
1 ATTTACTAATA
*
4340610 ATTTACTATTA
1 ATTTACTAATA
* * *
4340621 AGTTACTGATG
1 ATTTACTAATA
4340632 ATTTA-TAATAA
1 ATTTACTAAT-A
* *
4340643 AGTTA-TAACTG
1 ATTTACTAA-TA
*
4340654 ATTTACTATTA
1 ATTTACTAATA
*
4340665 ATTTATTAATA
1 ATTTACTAATA
4340676 ATTTACTA
1 ATTTACTA
4340684 CAAATATATC
Statistics
Matches: 60, Mismatches: 22, Indels: 6
0.68 0.25 0.07
Matches are distributed among these distances:
10 3 0.05
11 54 0.90
12 3 0.05
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (11 bp):
ATTTACTAATA
Found at i:4340710 original size:52 final size:52
Alignment explanation
Indices: 4340648--4340752 Score: 133
Period size: 52 Copynumber: 2.0 Consensus size: 52
4340638 AATAAAGTTA
* * *
4340648 TAACTGATTTACT-ATTAATTTATTAATAATTTACTA-CAAATATATCAATAAT
1 TAACTAATTTA-TGATTAAATTATCAATAATTTACTATCAAAT-TATCAATAAT
* *
4340700 TAACTAATTTATGATTAAATTATCACTAATTTACTATTAAATTATCAATAAT
1 TAACTAATTTATGATTAAATTATCAATAATTTACTATCAAATTATCAATAAT
4340752 T
1 T
4340753 TACATATAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
51 1 0.02
52 41 0.89
53 4 0.09
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.45
Consensus pattern (52 bp):
TAACTAATTTATGATTAAATTATCAATAATTTACTATCAAATTATCAATAAT
Found at i:4340728 original size:22 final size:22
Alignment explanation
Indices: 4340702--4341135 Score: 123
Period size: 22 Copynumber: 20.0 Consensus size: 22
4340692 TCAATAATTA
4340702 ACTAATTTA-TGATTAAATTATC
1 ACTAATTTACT-ATTAAATTATC
4340724 ACTAATTTACTATTAAATTATC
1 ACTAATTTACTATTAAATTATC
* *
4340746 AATAATTTAC-ATATAAATTACC
1 ACTAATTTACTAT-TAAATTATC
* * * *
4340768 AATGATTTACTATTATATTATT
1 ACTAATTTACTATTAAATTATC
* * ***
4340790 A-TGCATTTATTATTTTGTTATC
1 ACT-AATTTACTATTAAATTATC
* ** * *
4340812 ATTAATTTACTATTTAGTTTTTT
1 ACTAATTTACTA-TTAAATTATC
* * ** *
4340835 A-TTATTTGCTACAAAATAATC
1 ACTAATTTACTATTAAATTATC
* **
4340856 AC-ATATTTATTACAAAATTAATC
1 ACTA-ATTTACTATTAAATT-ATC
* * * *
4340879 A-TAATTCATTATCAACTTATC
1 ACTAATTTACTATTAAATTATC
4340900 ACTAATTTA-TATTAAATTATTC
1 ACTAATTTACTATTAAATTA-TC
*
4340922 A-TAATTTACTATT-AAGT-T-
1 ACTAATTTACTATTAAATTATC
* *
4340940 A-T--TTAACTATTAAGTTATC
1 ACTAATTTACTATTAAATTATC
* * *
4340959 GA-TGATTAACTACTACTAAGTTAT-
1 -ACTAATT---TACTATTAAATTATC
* * *
4340983 ATTTATTTACTTTTAAATT-TC
1 ACTAATTTACTATTAAATTATC
* ** *
4341004 AGTAATAAACTACTAAATTATC
1 ACTAATTTACTATTAAATTATC
* * *
4341026 ATTGATTTACTATTAAATTATTT
1 ACTAATTTACTATTAAATTA-TC
4341049 A-TAATTTACTATTAAATTTATC
1 ACTAATTTACTATTAAA-TTATC
* * **
4341071 AATTAA-TAACTATTAAATTAAA
1 -ACTAATTTACTATTAAATTATC
* * * *
4341093 ATTTACTTACTATTAAGTTATC
1 ACTAATTTACTATTAAATTATC
* *
4341115 ACTAATTTATTATTAAGTTAT
1 ACTAATTTACTATTAAATTAT
4341136 AATTGATTTT
Statistics
Matches: 308, Mismatches: 74, Indels: 60
0.70 0.17 0.14
Matches are distributed among these distances:
16 8 0.03
17 2 0.01
18 3 0.01
19 1 0.00
20 3 0.01
21 55 0.18
22 185 0.60
23 32 0.10
24 7 0.02
25 12 0.04
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.47
Consensus pattern (22 bp):
ACTAATTTACTATTAAATTATC
Found at i:4340950 original size:16 final size:15
Alignment explanation
Indices: 4340925--4340957 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
4340915 ATTATTCATA
4340925 ATTTACTATTAAGTT
1 ATTTACTATTAAGTT
4340940 ATTTAACTATTAAGTT
1 ATTT-ACTATTAAGTT
4340956 AT
1 AT
4340958 CGATGATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (15 bp):
ATTTACTATTAAGTT
Found at i:4341135 original size:11 final size:11
Alignment explanation
Indices: 4341103--4341158 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
4341093 ATTTACTTAC
4341103 TATTAAGTTAT
1 TATTAAGTTAT
* * *
4341114 CACTAATTTAT
1 TATTAAGTTAT
4341125 TATTAAGTTAT
1 TATTAAGTTAT
* * *
4341136 AATTGA-TTTT
1 TATTAAGTTAT
4341146 TATTAAGTTAT
1 TATTAAGTTAT
4341157 TA
1 TA
4341159 ATAATTAACA
Statistics
Matches: 32, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
10 7 0.22
11 25 0.78
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.54
Consensus pattern (11 bp):
TATTAAGTTAT
Found at i:4341144 original size:22 final size:21
Alignment explanation
Indices: 4341103--4341164 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
4341093 ATTTACTTAC
*
4341103 TATTAAGTTATCACTAATTTAT
1 TATTAAGTTATAACTAATTT-T
* *
4341125 TATTAAGTTATAATTGATTTT
1 TATTAAGTTATAACTAATTTT
4341146 TATTAAGTTATTAA-TAATT
1 TATTAAGTTA-TAACTAATT
4341165 AACAACTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 15 0.43
22 20 0.57
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.53
Consensus pattern (21 bp):
TATTAAGTTATAACTAATTTT
Found at i:4341576 original size:22 final size:23
Alignment explanation
Indices: 4341530--4341589 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 23
4341520 CTAATTTATG
* *
4341530 AATGATTTACCATTAAGTTATAA
1 AATGATTTATCATTAAGTTACAA
*
4341553 AAT-ATTTATCATTAAGTTGCAA
1 AATGATTTATCATTAAGTTACAA
4341575 AATGATTTAT-ATTAA
1 AATGATTTATCATTAA
4341590 ATTGTTGGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 24 0.73
23 9 0.27
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (23 bp):
AATGATTTATCATTAAGTTACAA
Found at i:4341771 original size:22 final size:21
Alignment explanation
Indices: 4341746--4342405 Score: 107
Period size: 22 Copynumber: 30.7 Consensus size: 21
4341736 TACTAATAAC
*
4341746 TTACTATTATGTTATTAGTTAT
1 TTACTATTAAGTTATTA-TTAT
** *
4341768 TTACTGCTAAGTTA--ATAAT
1 TTACTATTAAGTTATTATTAT
* *
4341787 TTACTATTAAATTATCAGTTAT
1 TTACTATTAAGTTATTA-TTAT
* ** *
4341809 TTATTATTACTTTTTTATATAT
1 TTACTATTAAGTTATTAT-TAT
* * * *
4341831 TTACTATTAGGGTATCATTGAC
1 TTACTATTAAGTTATTATT-AT
* *
4341853 TTACTACTTAATTTTTTATTAT
1 TTACTA-TTAAGTTATTATTAT
** * *
4341875 TTACTACAAAATTATTATCGAT
1 TTACTATTAAGTTATTAT-TAT
* * *
4341897 TTA-TCACTAAATTATCTATGAT
1 TTACT-ATTAAGTTAT-TATTAT
*
4341919 TTA-TGATCAAGTTATTATTGAT
1 TTACT-ATTAAGTTATTATT-AT
* * * *
4341941 TTA-TATGAAATTATGCATGAT
1 TTACTATTAAGTTAT-TATTAT
*
4341962 TTATTATTAAGTTATTATTGAT
1 TTACTATTAAGTTATTATT-AT
* * *
4341984 TAACTATTATA-CTATAAATTAT
1 TTACTATTA-AGTTAT-TATTAT
* **
4342006 TTACTACTAAGTTA-TACCGAT
1 TTACTATTAAGTTATTA-TTAT
* * *
4342027 TTACTTTTAAGTTTTTAATGAT
1 TTACTATTAAGTTATT-ATTAT
* * * * * *
4342049 TAATTACTAAATTATAAATCAT
1 TTACTATTAAGTTAT-TATTAT
* *
4342071 TTACTATTAATTTATCATTAAT
1 TTACTATTAAGTTATTATT-AT
*
4342093 TTACTATCAA-TTAATTA-TAT
1 TTACTATTAAGTT-ATTATTAT
* *
4342113 TAAACTA--AA---A-T-TGAT
1 T-TACTATTAAGTTATTATTAT
* *
4342128 TTACTATTAAATTATTACTGAT
1 TTACTATTAAGTTATTA-TTAT
* *
4342150 TTACTATTAAATTATCATTGAT
1 TTACTATTAAGTTATTATT-AT
* * *
4342172 TTATTACTAAGTTATCATTAAT
1 TTACTATTAAGTTATTATT-AT
* * *
4342194 TAACTACTAAATTATTACTTAT
1 TTACTATTAAGTTATTA-TTAT
** * *
4342216 TTTTTGTTAAGTTATCATTGAT
1 TTACTATTAAGTTATTATT-AT
* * *
4342238 TTAGTATTATGTTATTATACAT
1 TTACTATTAAGTTATTAT-TAT
* * *
4342260 TTACAACTATA-TTATGATTGAT
1 TTACTATTA-AGTTATTATT-AT
* * * *
4342282 TTACCATTAAGGTATCATCAT
1 TTACTATTAAGTTATTATTAT
* * **
4342303 ATATTATTATA-TTATTACCGAT
1 TTACTATTA-AGTTATTA-TTAT
**
4342325 TTACTAAAAAGTTATTAATTAT
1 TTACTATTAAGTTATT-ATTAT
* * *
4342347 TTATTACT-AGATTATTGTTAAT
1 TTACTATTAAG-TTATTATT-AT
* *
4342369 TTATTATTAAGTTATAATTAAT
1 TTACTATTAAGTTATTATT-AT
* *
4342391 TTACTACTAAATTAT
1 TTACTATTAAGTTAT
4342406 CGATGATTAT
Statistics
Matches: 457, Mismatches: 135, Indels: 92
0.67 0.20 0.13
Matches are distributed among these distances:
14 4 0.01
15 4 0.01
16 3 0.01
19 17 0.04
20 6 0.01
21 74 0.16
22 328 0.72
23 21 0.05
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (21 bp):
TTACTATTAAGTTATTATTAT
Found at i:4341965 original size:43 final size:44
Alignment explanation
Indices: 4341886--4341984 Score: 132
Period size: 43 Copynumber: 2.3 Consensus size: 44
4341876 TACTACAAAA
*
4341886 TTATTATCGATTTATCACTAAATTATCTATGATTTATGATCAAG
1 TTATTATTGATTTATCACTAAATTATCTATGATTTATGATCAAG
* *
4341930 TTATTATTGATTTAT-A-TGAAATTATGC-ATGATTTATTATTAAG
1 TTATTATTGATTTATCACT-AAATTAT-CTATGATTTATGATCAAG
4341973 TTATTATTGATT
1 TTATTATTGATT
4341985 AACTATTATA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
42 1 0.02
43 34 0.68
44 15 0.30
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.51
Consensus pattern (44 bp):
TTATTATTGATTTATCACTAAATTATCTATGATTTATGATCAAG
Found at i:4342028 original size:65 final size:65
Alignment explanation
Indices: 4341959--4342085 Score: 157
Period size: 65 Copynumber: 2.0 Consensus size: 65
4341949 AATTATGCAT
* * * *
4341959 GATTTA-TTATTAAGTTATTATTGATTAACTATTATACTATAAATTATTTACTACTAAGTTATAC
1 GATTTACTT-TTAAGTTATTAATGATTAACTACTAAACTATAAATCATTTACTACTAAGTTATAC
4342023 C
65 C
* * * * *
4342024 GATTTACTTTTAAGTTTTTAATGATTAATTACTAAATTATAAATCATTTACTATTAATTTAT
1 GATTTACTTTTAAGTTATTAATGATTAACTACTAAACTATAAATCATTTACTACTAAGTTAT
4342086 CATTAATTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
65 50 0.96
66 2 0.04
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.50
Consensus pattern (65 bp):
GATTTACTTTTAAGTTATTAATGATTAACTACTAAACTATAAATCATTTACTACTAAGTTATACC
Found at i:4342274 original size:66 final size:66
Alignment explanation
Indices: 4342135--4342291 Score: 163
Period size: 66 Copynumber: 2.4 Consensus size: 66
4342125 GATTTACTAT
* *
4342135 TAAATTATTACTGATTTACTATTAAATTATCATTGATTTATTACTAAGTTATCATTAATTAACTA
1 TAAATTATTACTGATTTACTATTAAATTATCATTGATTTAGTACTAAGTTATCATTAATTAACAA
4342200 C
66 C
* ** * * * * * *
4342201 TAAATTATTACTTATTTTTTGTTAAGTTATCATTGATTTAGTATTATGTTATTA-TACATTTACA
1 TAAATTATTACTGATTTACTATTAAATTATCATTGATTTAGTACTAAGTTATCATTA-ATTAACA
4342265 AC
65 AC
* * * *
4342267 TATATTATGATTGATTTACCATTAA
1 TAAATTATTACTGATTTACTATTAA
4342292 GGTATCATCA
Statistics
Matches: 71, Mismatches: 19, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
65 2 0.03
66 69 0.97
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (66 bp):
TAAATTATTACTGATTTACTATTAAATTATCATTGATTTAGTACTAAGTTATCATTAATTAACAA
C
Found at i:4344194 original size:23 final size:22
Alignment explanation
Indices: 4344168--4344210 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
4344158 AAAGAAATAT
4344168 GTACCAAT-TATTAAGTCAAATGG
1 GTACCAATGTA-TAAGT-AAATGG
*
4344191 GTACGAATGTATAAGTAAAT
1 GTACCAATGTATAAGTAAAT
4344211 AATTGAATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 12 0.67
24 2 0.11
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (22 bp):
GTACCAATGTATAAGTAAATGG
Found at i:4345593 original size:16 final size:16
Alignment explanation
Indices: 4345531--4345592 Score: 72
Period size: 16 Copynumber: 3.8 Consensus size: 16
4345521 AATGAGGTAG
4345531 AATAAATTATAAAATAA
1 AATAAATTA-AAAATAA
*
4345548 AAGAAATTAAAAATAA
1 AATAAATTAAAAATAA
*
4345564 AATAAGTTAAAAATATAA
1 AATAAATT-AAAA-ATAA
4345582 AATAAA-TAAAA
1 AATAAATTAAAA
4345593 TTACAAAATC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
16 17 0.44
17 13 0.33
18 9 0.23
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
AATAAATTAAAAATAA
Found at i:4346733 original size:15 final size:15
Alignment explanation
Indices: 4346704--4346732 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4346694 GTAATCACTT
4346704 TTAATAATTTTAAAA
1 TTAATAATTTTAAAA
4346719 TTAA-AATTTTAAAA
1 TTAATAATTTTAAAA
4346733 AATTTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAATAATTTTAAAA
Found at i:4346893 original size:2 final size:2
Alignment explanation
Indices: 4346886--4346910 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4346876 TTTAGAGTTC
4346886 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4346911 AACATTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4346973 original size:15 final size:15
Alignment explanation
Indices: 4346944--4346972 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4346934 GTAATCACTT
4346944 TTAATAATTTTAAAA
1 TTAATAATTTTAAAA
4346959 TTAA-AATTTTAAAA
1 TTAATAATTTTAAAA
4346973 AATTTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAATAATTTTAAAA
Found at i:4347096 original size:241 final size:240
Alignment explanation
Indices: 4346663--4347151 Score: 879
Period size: 241 Copynumber: 2.0 Consensus size: 240
4346653 TAAAAAATTT
* *
4346663 TATATAAAAACATTTAGTAATAATATTTTAGGTAATCACTTTTAATAATTTTAAAATTAAAATTT
1 TATATATAAACATTTAGTAACAATATTTTAGGTAATCACTTTTAATAATTTTAAAATTAAAATTT
*
4346728 TAAAAAATTTAATTTTACATAAACTCTATTTTTAGTTTAGTTAATTTAAATTAGATTTAAATAAA
66 TAAAAAATTTAATTTTACATAAAATCTATTTTTAGTTTAGTTAATTTAAATTAGATTTAAATAAA
* *
4346793 TTAATAAAAATTATACATATTTAAAGATAAATTTAGTAATTTAAAATTTTAAAAAAATATTTAAG
131 TTAATAAAAATTAGACATATTTAAAGATAAATTTAGTAATTTAAAATTTTAAAAAAATATTTAAA
4346858 TAATTCACTATTAATAATTTTAGAGTTCATATATATATATATATA
196 TAATTCACTATTAATAATTTTAGAGTTCATATATATATATATATA
4346903 TATATATAAACATTTAGTAACAATATTTTAGGTAATCACTTTTAATAATTTTAAAATTAAAATTT
1 TATATATAAACATTTAGTAACAATATTTTAGGTAATCACTTTTAATAATTTTAAAATTAAAATTT
*
4346968 TAAAAAATTTAATTTTACATAAAATCTATTTTTAATTTTAGTTAATTTAAATTAGATTTAAATAA
66 TAAAAAATTTAATTTTACATAAAATCTATTTTT-AGTTTAGTTAATTTAAATTAGATTTAAATAA
* *
4347033 ATTAATAAAAATTAGACATATTTAAAGATAAATTTATTAATTTAAAATTTTATAAAAATATTTAA
130 ATTAATAAAAATTAGACATATTTAAAGATAAATTTAGTAATTTAAAATTTTAAAAAAATATTTAA
* *
4347098 ATCATTCACTATTAATAATTTTAGAGTTTATATATATATATATATA
195 ATAATTCACTATTAATAATTTTAGAGTTCATATATATATATATATA
4347144 TATATATA
1 TATATATA
4347152 CGTATATATT
Statistics
Matches: 238, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
240 95 0.40
241 143 0.60
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (240 bp):
TATATATAAACATTTAGTAACAATATTTTAGGTAATCACTTTTAATAATTTTAAAATTAAAATTT
TAAAAAATTTAATTTTACATAAAATCTATTTTTAGTTTAGTTAATTTAAATTAGATTTAAATAAA
TTAATAAAAATTAGACATATTTAAAGATAAATTTAGTAATTTAAAATTTTAAAAAAATATTTAAA
TAATTCACTATTAATAATTTTAGAGTTCATATATATATATATATA
Found at i:4347160 original size:2 final size:2
Alignment explanation
Indices: 4347126--4347151 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4347116 TTTTAGAGTT
4347126 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
4347152 CGTATATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4349298 original size:29 final size:29
Alignment explanation
Indices: 4349256--4349314 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
4349246 GTCAAACTCT
4349256 TTACAACCTCTCAAGTGTTATTTTAAGAC
1 TTACAACCTCTCAAGTGTTATTTTAAGAC
4349285 TTACAACCTCTCAAGTGTTATTTTAAGAC
1 TTACAACCTCTCAAGTGTTATTTTAAGAC
4349314 T
1 T
4349315 ATGAATGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (29 bp):
TTACAACCTCTCAAGTGTTATTTTAAGAC
Found at i:4351850 original size:18 final size:17
Alignment explanation
Indices: 4351827--4351861 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
4351817 CTGAAGTGGT
4351827 CCTTTAATTTAATATTAA
1 CCTTTAATTTAAT-TTAA
4351845 CCTTTAATTTAATTTAA
1 CCTTTAATTTAATTTAA
4351862 TATAATAAAG
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:0.37, C:0.11, G:0.00, T:0.51
Consensus pattern (17 bp):
CCTTTAATTTAATTTAA
Found at i:4352551 original size:19 final size:20
Alignment explanation
Indices: 4352517--4352567 Score: 72
Period size: 18 Copynumber: 2.6 Consensus size: 20
4352507 ATCTAAAATT
4352517 AATA-AAATATTATTTTTTAA
1 AATATAAATA-TATTTTTTAA
4352537 AATATAAA-ATA-TTTTTAA
1 AATATAAATATATTTTTTAA
4352555 AATATAAATATAT
1 AATATAAATATAT
4352568 AATTATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 15 0.54
19 5 0.18
20 5 0.18
21 3 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATATAAATATATTTTTTAA
Found at i:4354971 original size:2 final size:2
Alignment explanation
Indices: 4354964--4354990 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4354954 CGCCCACTTT
4354964 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
4354991 TTTTTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4355854 original size:11 final size:11
Alignment explanation
Indices: 4355840--4355906 Score: 50
Period size: 11 Copynumber: 6.1 Consensus size: 11
4355830 GTCGTTTAGT
4355840 TTAATTTTATA
1 TTAATTTTATA
*
4355851 TTAAATTTAT-
1 TTAATTTTATA
* *
4355861 TTAATTATATT
1 TTAATTTTATA
4355872 TTAA-TTTATTA
1 TTAATTTTA-TA
4355883 GTTAATTATT-TA
1 -TTAATT-TTATA
*
4355895 ATAATTTTATA
1 TTAATTTTATA
4355906 T
1 T
4355907 GCATACAATA
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
10 13 0.30
11 21 0.49
12 6 0.14
13 1 0.02
14 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (11 bp):
TTAATTTTATA
Found at i:4355865 original size:21 final size:20
Alignment explanation
Indices: 4355834--4355881 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
4355824 ACATATGTCG
*
4355834 TTTAGTTTAATTTTATATTAAA
1 TTTA-TTTAATTATAT-TTAAA
*
4355856 TTTATTTAATTATATTTTAA
1 TTTATTTAATTATATTTAAA
4355876 TTTATT
1 TTTATT
4355882 AGTTAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.42
21 10 0.42
22 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTATTTAATTATATTTAAA
Found at i:4355979 original size:16 final size:18
Alignment explanation
Indices: 4355954--4355997 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
4355944 AATTTCAAGA
4355954 AAAAATAAATATA-TA-TT
1 AAAAA-AAATATATTATTT
*
4355971 AGAAAAAATATATTATTT
1 AAAAAAAATATATTATTT
4355989 AAAAAAAAT
1 AAAAAAAAT
4355998 TAAGAAACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 7 0.30
17 6 0.26
18 10 0.43
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
AAAAAAAATATATTATTT
Found at i:4355983 original size:18 final size:19
Alignment explanation
Indices: 4355951--4355997 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
4355941 TATAATTTCA
4355951 AGAAAAAATAA-ATATATATT
1 AGAAAAAATAATAT-TAT-TT
4355971 AGAAAAAAT-ATATTATTT
1 AGAAAAAATAATATTATTT
*
4355989 AAAAAAAAT
1 AGAAAAAAT
4355998 TAAGAAACAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 10 0.40
19 4 0.16
20 11 0.44
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (19 bp):
AGAAAAAATAATATTATTT
Found at i:4370360 original size:17 final size:17
Alignment explanation
Indices: 4370338--4370375 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
4370328 TATAATTAAC
4370338 TTTTTGTATTATAT-ATT
1 TTTTTGTATTAT-TCATT
*
4370355 TTTTTGTTTTATTCATT
1 TTTTTGTATTATTCATT
4370372 TTTT
1 TTTT
4370376 CAATGTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (17 bp):
TTTTTGTATTATTCATT
Found at i:4371218 original size:2 final size:2
Alignment explanation
Indices: 4371213--4371259 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
4371203 AAAGCTAGTT
4371213 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4371255 TA TA T
1 TA TA T
4371260 CCGGTTGGGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4389941 original size:6 final size:5
Alignment explanation
Indices: 4389911--4389940 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
4389901 AAAAATTACA
4389911 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
4389941 AAGAATAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:4389948 original size:16 final size:16
Alignment explanation
Indices: 4389911--4389940 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4389901 AAAAATTACA
4389911 AAAAT-AAAATAAAAT
1 AAAATAAAAATAAAAT
4389926 AAAATAAAAATAAAA
1 AAAATAAAAATAAAA
4389941 AAGAATAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAATAAAAATAAAAT
Found at i:4390149 original size:57 final size:58
Alignment explanation
Indices: 4390062--4390195 Score: 164
Period size: 58 Copynumber: 2.3 Consensus size: 58
4390052 AAATTTTTTA
* * * * *
4390062 TTTTAAAAATTTTATTTTTAAGAAAAATTGATATTTTTAACTTT-TCCCTAAAAATAT
1 TTTTAAAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTCCCCCCAAAAATAT
* * *
4390119 TTTTAAAACTTTTTATTTTT-AGGAAAATTGATACTTTCAACTTTCCCCCCCAAAATGT
1 TTTTAAAA-TTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTCCCCCCAAAAATAT
4390177 TTTTGAAAATTTTTATTTT
1 TTTT-AAAATTTTTATTTT
4390196 AGAAACTTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
57 29 0.44
58 33 0.50
59 4 0.06
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.49
Consensus pattern (58 bp):
TTTTAAAATTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTCCCCCCAAAAATAT
Found at i:4390196 original size:57 final size:56
Alignment explanation
Indices: 4390062--4390200 Score: 163
Period size: 57 Copynumber: 2.4 Consensus size: 56
4390052 AAATTTTTTA
* * * * *
4390062 TTTTAAAAATTTTATTTTTAAGAAAAATTGATATTTTTAACTTTTCCCTAAAAATAT
1 TTTTAAAATTTTTATTTTT-AGAAAAATTGATACTTTCAACTTTCCCCCAAAAATAT
* * *
4390119 TTTTAAAACTTTTTATTTTTAGGAAAATTGATACTTTCAACTTTCCCCCCCAAAATGT
1 TTTTAAAA-TTTTTATTTTTAGAAAAATTGATACTTTCAACTTT-CCCCCAAAAATAT
4390177 TTTTGAAAATTTTTA-TTTTAGAAA
1 TTTT-AAAATTTTTATTTTTAGAAA
4390201 CTTTATTTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
57 37 0.53
58 29 0.41
59 4 0.06
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47
Consensus pattern (56 bp):
TTTTAAAATTTTTATTTTTAGAAAAATTGATACTTTCAACTTTCCCCCAAAAATAT
Found at i:4390670 original size:3 final size:3
Alignment explanation
Indices: 4390662--4390759 Score: 53
Period size: 3 Copynumber: 32.3 Consensus size: 3
4390652 TGAAAAAATG
* * * *
4390662 ATA ATA ATA ATA ATA GTA GTA ATA ATA ATAA ATAA ATAA ATAA ATG ATT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A AT-A AT-A AT-A ATA ATA
* *
4390711 ATA ATA ATAA ATA A-A ATA A-A AGA A-A AAA ATA ATAA ATA A-A ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
4390754 A-A ATA A
1 ATA ATA A
4390760 AAAATGTGGG
Statistics
Matches: 81, Mismatches: 6, Indels: 16
0.79 0.06 0.16
Matches are distributed among these distances:
2 10 0.12
3 50 0.62
4 21 0.26
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:4390697 original size:4 final size:4
Alignment explanation
Indices: 4390688--4390764 Score: 52
Period size: 4 Copynumber: 18.8 Consensus size: 4
4390678 TAGTAATAAT
* * * *
4390688 AATA AATA AATA AATA AATG ATTA TAAT- AATA AATAA AATAA AAGA AAAA
1 AATA AATA AATA AATA AATA AATA -AATA AATA AAT-A AAT-A AATA AATA
4390738 AAT- AATA AATAA AATAA AATA AA-A AAT
1 AATA AATA AAT-A AAT-A AATA AATA AAT
4390765 GTGGGCCTAT
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
3 9 0.15
4 32 0.53
5 19 0.32
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:4390729 original size:5 final size:5
Alignment explanation
Indices: 4390719--4390761 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
4390709 TTATAATAAT
* *
4390719 AAATA AAATA AAAGA AAAAA ATAAT- AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA A-AATA AAATA AAATA AAATA AAA
4390762 AATGTGGGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
4 3 0.09
5 28 0.85
6 2 0.06
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.16
Consensus pattern (5 bp):
AAATA
Found at i:4390741 original size:25 final size:25
Alignment explanation
Indices: 4390713--4390763 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
4390703 AAATGATTAT
4390713 AATAATAAATAAAATAAAAGAAAAA
1 AATAATAAATAAAATAAAAGAAAAA
*
4390738 AATAATAAATAAAATAAAATAAAAA
1 AATAATAAATAAAATAAAAGAAAAA
4390763 A
1 A
4390764 TGTGGGCCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (25 bp):
AATAATAAATAAAATAAAAGAAAAA
Found at i:4391015 original size:40 final size:42
Alignment explanation
Indices: 4390971--4391098 Score: 127
Period size: 42 Copynumber: 3.1 Consensus size: 42
4390961 TTTGATCAAA
** * *
4390971 GCTCCTCTAAGTAGAGGCTCAACGACTTTGAAAA-ATAAA-T
1 GCTCCTCTAAACAGAGGCACAACAACTTTGAAAATATAAATT
* *
4391011 GCTCCTCTAAACAGAGGCACCACAATTTTGAAAATATAAATT
1 GCTCCTCTAAACAGAGGCACAACAACTTTGAAAATATAAATT
* ** * *
4391053 GCTCCTCTAAACAAAGATACCAA-AACTGTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCA-CAACAACTTTGAAAATATAAATT
4391095 GCTC
1 GCTC
4391099 TTTGTCAATC
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 28 0.39
41 5 0.07
42 37 0.51
43 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.24
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACAACAACTTTGAAAATATAAATT
Found at i:4391065 original size:42 final size:41
Alignment explanation
Indices: 4390995--4391098 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 41
4390985 AGGCTCAACG
* * *
4390995 ACTTTGAAAAATAAA-TGCTCCTCTAAACAGAGGCACCACA
1 ACTTTGAAAAATAAATTGCTCCTCTAAACAAAGACACCAAA
* *
4391035 ATTTTGAAAATATAAATTGCTCCTCTAAACAAAGATACCAAA
1 ACTTTGAAAA-ATAAATTGCTCCTCTAAACAAAGACACCAAA
*
4391077 ACTGTGAAAAAATAAATTGCTC
1 ACTTTG-AAAAATAAATTGCTC
4391099 TTTGTCAATC
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
40 9 0.17
41 5 0.09
42 36 0.67
43 4 0.07
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.25
Consensus pattern (41 bp):
ACTTTGAAAAATAAATTGCTCCTCTAAACAAAGACACCAAA
Found at i:4391665 original size:21 final size:24
Alignment explanation
Indices: 4391584--4391699 Score: 87
Period size: 25 Copynumber: 4.8 Consensus size: 24
4391574 GGTTCCACAC
** *
4391584 CTTAAAGATTCTCATTTAAAAATAT
1 CTTAAAGATTCTCATTTAAGGA-CT
* * *
4391609 TTTAAATATTCTCATTTGAA-AACGT
1 CTTAAAGATTCTCATTT-AAGGAC-T
*
4391634 CTTAAAAATTCTCATTTAAGG-C-
1 CTTAAAGATTCTCATTTAAGGACT
*
4391656 C-TAAAGATTCTCATTTGAGGACTT
1 CTTAAAGATTCTCATTTAAGGAC-T
*
4391680 CTTAAAGATTCCCATTTAAG
1 CTTAAAGATTCTCATTTAAG
4391700 AAATCAGGAT
Statistics
Matches: 74, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
21 17 0.23
22 2 0.03
24 4 0.05
25 49 0.66
26 2 0.03
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (24 bp):
CTTAAAGATTCTCATTTAAGGACT
Found at i:4391683 original size:46 final size:46
Alignment explanation
Indices: 4391611--4391699 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
4391601 AAAAATATTT
* *
4391611 TAAATATTCTCATTTGAAAACGTCTTAAAAATTCTCATTTAAGGCC
1 TAAAGATTCTCATTTGAAAACGTCTTAAAAATTCCCATTTAAGGCC
** * *
4391657 TAAAGATTCTCATTTGAGGACTTCTTAAAGATTCCCATTTAAG
1 TAAAGATTCTCATTTGAAAACGTCTTAAAAATTCCCATTTAAG
4391700 AAATCAGGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (46 bp):
TAAAGATTCTCATTTGAAAACGTCTTAAAAATTCCCATTTAAGGCC
Found at i:4392905 original size:19 final size:20
Alignment explanation
Indices: 4392883--4392969 Score: 74
Period size: 19 Copynumber: 4.3 Consensus size: 20
4392873 TGAGTCTTCA
4392883 TTTTCTCTCATTTTT-ATTT
1 TTTTCTCTCATTTTTCATTT
* *
4392902 TTTTCTTTCATTTTTTTTAAATTT
1 TTTTCTCTCA---TTTTT-CATTT
*
4392926 TTTT-T-TAATTTTTCATTT
1 TTTTCTCTCATTTTTCATTT
4392944 TTTT-TCTCATTTTTTCATTT
1 TTTTCTCTCA-TTTTTCATTT
4392964 TTTTCT
1 TTTTCT
4392970 TTCCCTTTCT
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
18 9 0.16
19 16 0.29
20 14 0.25
21 1 0.02
22 7 0.12
23 1 0.02
24 8 0.14
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTCTCTCATTTTTCATTT
Found at i:4392911 original size:29 final size:29
Alignment explanation
Indices: 4392879--4392987 Score: 78
Period size: 29 Copynumber: 3.6 Consensus size: 29
4392869 AATTTGAGTC
4392879 TTCATTTTCTCTCATTTTTATTTTTTTCT
1 TTCATTTTCTCTCATTTTTATTTTTTTCT
* * * *
4392908 TTCATTTTTTTTAAATTTTT-TTTTAATT-T
1 TTCATTTTCTCT-CATTTTTATTTT-TTTCT
*
4392937 TTCATTTTTTTTCTCATTTTTTCATTTTTTTCT
1 TTCA--TTTTCTCTCA-TTTTT-ATTTTTTTCT
** *
4392970 TTCCCTTTCTCCCATTTT
1 TTCATTTTCTCTCATTTT
4392988 CATATCAATC
Statistics
Matches: 61, Mismatches: 11, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
29 19 0.31
30 13 0.21
31 19 0.31
32 2 0.03
33 8 0.13
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.72
Consensus pattern (29 bp):
TTCATTTTCTCTCATTTTTATTTTTTTCT
Found at i:4392917 original size:12 final size:11
Alignment explanation
Indices: 4392893--4392938 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
4392883 TTTTCTCTCA
*
4392893 TTTTTATTTTT
1 TTTTTAATTTT
*
4392904 TTCTTTCATTTT
1 TT-TTTAATTTT
*
4392916 TTTTAAATTTT
1 TTTTTAATTTT
4392927 TTTTTAATTTT
1 TTTTTAATTTT
4392938 T
1 T
4392939 CATTTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
11 20 0.69
12 9 0.31
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTAATTTT
Found at i:4392946 original size:20 final size:20
Alignment explanation
Indices: 4392922--4392967 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
4392912 TTTTTTTTAA
4392922 ATTTTTTTT-T-AATTTTTC
1 ATTTTTTTTCTCAATTTTTC
*
4392940 ATTTTTTTTCTCATTTTTTC
1 ATTTTTTTTCTCAATTTTTC
4392960 ATTTTTTT
1 ATTTTTTT
4392968 CTTTCCCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 9 0.36
19 1 0.04
20 15 0.60
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (20 bp):
ATTTTTTTTCTCAATTTTTC
Found at i:4394915 original size:15 final size:15
Alignment explanation
Indices: 4394895--4394924 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4394885 TTTAAATATG
*
4394895 ATGAATGAGAATGCA
1 ATGAATGAAAATGCA
4394910 ATGAATGAAAATGCA
1 ATGAATGAAAATGCA
4394925 TGTATGCGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.23, T:0.20
Consensus pattern (15 bp):
ATGAATGAAAATGCA
Found at i:4398044 original size:5 final size:5
Alignment explanation
Indices: 4398034--4398060 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
4398024 AAAATTACAA
4398034 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
4398061 TAAAAAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:4398067 original size:10 final size:9
Alignment explanation
Indices: 4398020--4398067 Score: 51
Period size: 10 Copynumber: 5.0 Consensus size: 9
4398010 TATTTAATAT
*
4398020 TAAAAAAAT
1 TAAAAAAAA
*
4398029 TACAAAAAA
1 TAAAAAAAA
4398038 TAAAATAAAA
1 TAAAA-AAAA
4398048 TAAAATAAAA
1 TAAAA-AAAA
4398058 TAATAAAAAA
1 TAA-AAAAAA
4398068 GAATAATGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
9 11 0.32
10 21 0.62
11 2 0.06
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:4398067 original size:15 final size:14
Alignment explanation
Indices: 4398032--4398067 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
4398022 AAAAAATTAC
4398032 AAAAAATAAAATAA
1 AAAAAATAAAATAA
4398046 AATAAAATAAAATAA
1 AA-AAAATAAAATAA
4398061 TAAAAAA
1 -AAAAAA
4398068 GAATAATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 2 0.10
15 16 0.80
16 2 0.10
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAAAATAAAATAA
Found at i:4398306 original size:127 final size:130
Alignment explanation
Indices: 4398173--4398503 Score: 472
Period size: 127 Copynumber: 2.6 Consensus size: 130
4398163 CTTAAAGCAA
* * * *
4398173 TTGAAAATTTTTATTTTAAAAATTTTATTTCTAAAGAAAATTGATACTTTCAACTTTTTCTTTAA
1 TTGAAAATTTTTATTTTAGAAACTTTATTTTTAAAGAAAATTGATACTTTCAACTTTTTCTTAAA
*
4398238 AATATTTTTTAAA-TTTTTTATTTTCAAAAAAATTCATACTTTCAA-CTTCC-CCCCAAATGTTT
66 AATATTTTTTAAACTTTTTTATTTTCAAAAAAATTCATACTTTCAATCTTCCTCCCAAAATGTTT
*
4398300 TTGAAAATTTTTATTTTAGAAACTTTATTTTTAAAGAAAATTGATACTTTTAA-TTTTTCTCTAA
1 TTGAAAATTTTTATTTTAGAAACTTTATTTTTAAAGAAAATTGATACTTTCAACTTTTTCT-TAA
** * * *
4398364 AAATATTTTTTAAACTTTTTTATTTTCAAGGAAATTGATATTTTCAATTTTTCCTCCCAAAATGT
65 AAATATTTTTTAAACTTTTTTATTTTCAAAAAAATTCATACTTTCAA-TCTTCCTCCCAAAATGT
4398429 TT
129 TT
* * * *
4398431 TTGAAATTTTTTTATTTTAGAAACTTTATTTTTAAGGAAAATTGATACTTTGAACTTTCTCTTAA
1 TTGAAA-ATTTTTATTTTAGAAACTTTATTTTTAAAGAAAATTGATACTTTCAACTTTTTCTTAA
4398496 AAATATTT
65 AAATATTT
4398504 AAAAAAAAAA
Statistics
Matches: 182, Mismatches: 15, Indels: 9
0.88 0.07 0.04
Matches are distributed among these distances:
126 7 0.04
127 65 0.36
128 28 0.15
130 4 0.02
131 17 0.09
132 55 0.30
133 6 0.03
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.50
Consensus pattern (130 bp):
TTGAAAATTTTTATTTTAGAAACTTTATTTTTAAAGAAAATTGATACTTTCAACTTTTTCTTAAA
AATATTTTTTAAACTTTTTTATTTTCAAAAAAATTCATACTTTCAATCTTCCTCCCAAAATGTTT
Found at i:4398413 original size:58 final size:59
Alignment explanation
Indices: 4398311--4398449 Score: 160
Period size: 59 Copynumber: 2.4 Consensus size: 59
4398301 TGAAAATTTT
* * *
4398311 TATTTTAGAAAC-TTTAT-TTTTAAAGAAAATTGATACTTTTAATTTTT-CTCTAAAAA
1 TATTTTTGAAACTTTTTTATTTTAAAGAAAATTGATACTTTTAATTTTTCCTCCAAAAA
* * * *
4398367 TATTTTTTAAACTTTTTTATTTTCAAGGAAATTGATA-TTTTCAATTTTTCCTCCCAAAA
1 TATTTTTGAAACTTTTTTATTTTAAAGAAAATTGATACTTTT-AATTTTTCCTCCAAAAA
* *
4398426 TGTTTTTGAAATTTTTTTATTTTA
1 TATTTTTGAAACTTTTTTATTTTA
4398450 GAAACTTTAT
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
56 10 0.15
57 8 0.12
58 23 0.34
59 27 0.40
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.53
Consensus pattern (59 bp):
TATTTTTGAAACTTTTTTATTTTAAAGAAAATTGATACTTTTAATTTTTCCTCCAAAAA
Found at i:4398519 original size:132 final size:129
Alignment explanation
Indices: 4398173--4398586 Score: 467
Period size: 132 Copynumber: 3.2 Consensus size: 129
4398163 CTTAAAGCAA
* * * *
4398173 TTGAAAATTTTTATTTTAAAAATTTTATTTCTAAAGAAAATTGATACTTTCAACTTTTTCTTTAA
1 TTGAAAATTTTTATTTTAGAAACTTTATTTTTAAAGAAAATTGATACTTTCAACTTTTTCTTAAA
* * * * *
4398238 AATATTTTTTAAATTTTTTATTTTCAAAAAAATTCATACTTTCAA-CTTCC-CCCCAAATGTTT
66 AATATTTTTAAAATTTTTTATTTTCAAGAAAATTGATACTTTCAATTTTCCTCCCAAAATGTTT
*
4398300 TTGAAAATTTTTATTTTAGAAACTTTATTTTTAAAGAAAATTGATACTTTTAA-TTTTTCTCTAA
1 TTGAAAATTTTTATTTTAGAAACTTTATTTTTAAAGAAAATTGATACTTTCAACTTTTTCT-TAA
* * *
4398364 AAATATTTTTTAAACTTTTTTATTTTCAAGGAAATTGATATTTTCAATTTTTCCTCCCAAAATGT
65 AAATA-TTTTTAAAATTTTTTATTTTCAAGAAAATTGATACTTTCAA-TTTTCCTCCCAAAATGT
4398429 TT
128 TT
* * * *
4398431 TTGAAATTTTTTTATTTTAGAAACTTTATTTTTAAGGAAAATTGATACTTTGAACTTTCTCTTAA
1 TTGAAA-ATTTTTATTTTAGAAACTTTATTTTTAAAGAAAATTGATACTTTCAACTTTTTCTTAA
** **** * ***
4398496 AAATATTTAAAAAAAAAAATTATTTTTAAGACAAATTGATACTTTCAACTTTTCCTTAAAAATAT
65 AAATATTT-TTAAAATTTTTTATTTTCAAGA-AAATTGATACTTTCAA-TTTTCCTCCCAAA-AT
*
4398561 TTTT
126 GTTT
4398565 TTGAAAA-TTTTATTTTAAGAAA
1 TTGAAAATTTTTATTTT-AGAAA
4398587 ATCATTAAGA
Statistics
Matches: 243, Mismatches: 33, Indels: 16
0.83 0.11 0.05
Matches are distributed among these distances:
126 7 0.03
127 56 0.23
128 35 0.14
130 4 0.02
131 20 0.08
132 74 0.30
133 36 0.15
134 11 0.05
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (129 bp):
TTGAAAATTTTTATTTTAGAAACTTTATTTTTAAAGAAAATTGATACTTTCAACTTTTTCTTAAA
AATATTTTTAAAATTTTTTATTTTCAAGAAAATTGATACTTTCAATTTTCCTCCCAAAATGTTT
Found at i:4399496 original size:3 final size:3
Alignment explanation
Indices: 4399490--4399514 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4399480 CAAAAAAATG
4399490 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
4399515 ACTAATGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4404260 original size:147 final size:148
Alignment explanation
Indices: 4403993--4404290 Score: 409
Period size: 147 Copynumber: 2.0 Consensus size: 148
4403983 TGTAGAACTT
* * * *
4403993 TAAATCATAAACTTACTAACAAAATTTCAGCTTAATTGGACCATAGATCGATTTTCGTTCAACCA
1 TAAATCATAAACTGACTAACAAAATTTCAACTTAATTAGACCATAGATCGACTTTCGTTCAACCA
* *
4404058 ACTGTCCCGTCTCCATTTTCTCTCTATTTTTCTTGGCTTTTCTTCGTTTTCTTGGTTTCGACACC
66 ACTCTCCCGTCTCCATTTTCTCTCTATTTTTCTTAGCTTTTCTTCGTTTTCTTGGTTTCGACACC
4404123 ACCACATTC-TGTTTCTC
131 ACCACATTCGTGTTTCTC
* * * * * * *
4404140 TAAATCATAAACTGGCTGATAAAATTTTAACTTAATTAGATCATGGATCGACTTTCGTTCAATCA
1 TAAATCATAAACTGACTAACAAAATTTCAACTTAATTAGACCATAGATCGACTTTCGTTCAACCA
* * * * * *
4404205 ACTCTCTCGTCTTCATTTTCTTTTTATTTTTCTTAGCTTTTCTTCTTTTTCTTGGTTTCGACGCC
66 ACTCTCCCGTCTCCATTTTCTCTCTATTTTTCTTAGCTTTTCTTCGTTTTCTTGGTTTCGACACC
4404270 ACCACATTCTGTGTTTCTC
131 ACCACATTC-GTGTTTCTC
4404289 TA
1 TA
4404291 TTACACAGCC
Statistics
Matches: 130, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
147 120 0.92
149 10 0.08
ACGTcount: A:0.22, C:0.23, G:0.10, T:0.44
Consensus pattern (148 bp):
TAAATCATAAACTGACTAACAAAATTTCAACTTAATTAGACCATAGATCGACTTTCGTTCAACCA
ACTCTCCCGTCTCCATTTTCTCTCTATTTTTCTTAGCTTTTCTTCGTTTTCTTGGTTTCGACACC
ACCACATTCGTGTTTCTC
Found at i:4407732 original size:25 final size:26
Alignment explanation
Indices: 4407704--4407754 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
4407694 GTCTTTATTC
4407704 TTATTTTCATTATATATAA-AAAATA
1 TTATTTTCATTATATATAAGAAAATA
4407729 TTATTTTCATTATATATAAGAAAATA
1 TTATTTTCATTATATATAAGAAAATA
4407755 AGCTTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (26 bp):
TTATTTTCATTATATATAAGAAAATA
Found at i:4407765 original size:25 final size:25
Alignment explanation
Indices: 4407706--4407766 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
4407696 CTTTATTCTT
**
4407706 ATTTTCATTATATATAAAAAATATT
1 ATTTTCATTATATATAAAAAATAAG
4407731 ATTTTCATTATATATAAGAAAATAAG
1 ATTTTCATTATATATAA-AAAATAAG
*
4407757 CTTTT-ATTAT
1 ATTTTCATTAT
4407767 TTGTCACATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
25 22 0.69
26 10 0.31
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (25 bp):
ATTTTCATTATATATAAAAAATAAG
Found at i:4409923 original size:2 final size:2
Alignment explanation
Indices: 4409916--4409950 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4409906 AATGGTGAGA
4409916 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4409951 GTCTATTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4422326 original size:101 final size:101
Alignment explanation
Indices: 4422148--4422341 Score: 280
Period size: 101 Copynumber: 1.9 Consensus size: 101
4422138 TTTTAAATTT
* * * * *
4422148 ATTGAATGTTATATTATTTTTTAAAAATAATTATATAAATTAATTAAATTAAATGTTACATTCGA
1 ATTGAATGTTATATTATTTCTTAAAAATAATTATATAAATAAATTAAATTAAATATCACATTCAA
*** *
4422213 AATCAGTTTTTCATATTTTATTAAATATCCCAAACG
66 AATCAAAATTTCATATTTAATTAAATATCCCAAACG
* *
4422249 ATTGAATGTTATATTATTTCTTAAAAATAATTATATAAATAAATTAAATTAAGTATCATATTCAA
1 ATTGAATGTTATATTATTTCTTAAAAATAATTATATAAATAAATTAAATTAAATATCACATTCAA
*
4422314 AATCAAAATTTCATGTTTAATTAAATAT
66 AATCAAAATTTCATATTTAATTAAATAT
4422342 AAATGGCGTT
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 81 1.00
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (101 bp):
ATTGAATGTTATATTATTTCTTAAAAATAATTATATAAATAAATTAAATTAAATATCACATTCAA
AATCAAAATTTCATATTTAATTAAATATCCCAAACG
Found at i:4422390 original size:2 final size:2
Alignment explanation
Indices: 4422383--4422418 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4422373 ATGATCTCTT
4422383 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4422419 AAGCATCCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4422773 original size:14 final size:15
Alignment explanation
Indices: 4422743--4422776 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
4422733 CATCTTTACA
*
4422743 CCAATTCATTTTTTT
1 CCAATTCATTTTATT
4422758 CCAATT-ATTTTATT
1 CCAATTCATTTTATT
4422772 CCAAT
1 CCAAT
4422777 AAATTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (15 bp):
CCAATTCATTTTATT
Found at i:4425234 original size:17 final size:17
Alignment explanation
Indices: 4425184--4425248 Score: 55
Period size: 16 Copynumber: 3.8 Consensus size: 17
4425174 TAATTTAATA
*
4425184 ATTTTAATTTTAATATTAT
1 ATTTTAA-TATAA-ATTAT
*
4425203 ATTTATAA-A-ATATTAT
1 ATTT-TAATATAAATTAT
4425219 ATTTTAATATAAATTAT
1 ATTTTAATATAAATTAT
*
4425236 ATCTTAAT-TAAAT
1 ATTTTAATATAAAT
4425249 GTAAATATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
15 3 0.08
16 15 0.38
17 14 0.36
19 4 0.10
20 3 0.08
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTAATATAAATTAT
Found at i:4425299 original size:27 final size:28
Alignment explanation
Indices: 4425267--4425320 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 28
4425257 AATATTTTTG
4425267 TTAAATTAAT-ATTTTA-AATATAAAATA
1 TTAAA-TAATAATTTTATAATATAAAATA
4425294 TTAAATAATAATTTTATTAATATAAAA
1 TTAAATAATAATTTTA-TAATATAAAA
4425321 ATATAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 4 0.17
27 11 0.46
29 9 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
TTAAATAATAATTTTATAATATAAAATA
Found at i:4430575 original size:20 final size:20
Alignment explanation
Indices: 4430547--4430585 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4430537 AGCCTTTTAC
*
4430547 CTTTCCTTTTTCCTTTCCTG
1 CTTTCCTTTGTCCTTTCCTG
* *
4430567 CTTTGCTTTGTCTTTTCCT
1 CTTTCCTTTGTCCTTTCCT
4430586 CTTGAATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (20 bp):
CTTTCCTTTGTCCTTTCCTG
Found at i:4435513 original size:20 final size:18
Alignment explanation
Indices: 4435468--4435522 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
4435458 TATATGTGAG
*
4435468 TTTAATTTAATT-TTATA
1 TTTAATTTATTTATTATA
*
4435485 TTAAATTTATTTAGTTATA
1 TTTAATTTATTTA-TTATA
4435504 TTTTAATTTATTTAATTAT
1 -TTTAATTTATTT-ATTAT
4435523 TCAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 10 0.32
19 5 0.16
20 15 0.48
21 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTAATTTATTTATTATA
Found at i:4441381 original size:2 final size:2
Alignment explanation
Indices: 4441364--4441398 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
4441354 GTTTTGACTT
* *
4441364 TA TA TG TA TG 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 T
4441399 TTAGTTTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4452208 original size:40 final size:40
Alignment explanation
Indices: 4452131--4452210 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
4452121 TTGTTTGTGA
*
4452131 GTGGATTAGAGGAGACTAAGAGGATCTACATAGGTATGAT
1 GTGGATTAGAGGAGACTAAGAGGATCTACATAAGTATGAT
*
4452171 GTGGATTAGAGGAGACTGAA-A-GAGTCTATATAAGTATGAT
1 GTGGATTAGAGGAGACT-AAGAGGA-TCTACATAAGTATGAT
4452211 ATATGGGAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
39 2 0.06
40 32 0.89
41 2 0.06
ACGTcount: A:0.36, C:0.06, G:0.31, T:0.26
Consensus pattern (40 bp):
GTGGATTAGAGGAGACTAAGAGGATCTACATAAGTATGAT
Found at i:4467788 original size:14 final size:14
Alignment explanation
Indices: 4467771--4467800 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4467761 TAATATGATA
*
4467771 AAAAATATATAAAT
1 AAAAATATAAAAAT
4467785 AAAAATATAAAAAT
1 AAAAATATAAAAAT
4467799 AA
1 AA
4467801 TATAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAAATATAAAAAT
Done.