Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 80 of 84
Found at i:17276932 original size:19 final size:19
Alignment explanation
Indices: 17276910--17277069 Score: 66
Period size: 22 Copynumber: 8.1 Consensus size: 19
17276900 ATAAAAACAT
17276910 TTAATATTAAAATATTATA
1 TTAATATTAAAATATTATA
*
17276929 TTAAGATTAAAACTATTTATAA
1 TTAATATTAAAA-TA-TTAT-A
*
17276951 TTTATATT--AATATT-T-
1 TTAATATTAAAATATTATA
* *
17276966 TAAATTTTAAAATA--ATA
1 TTAATATTAAAATATTATA
* *
17276983 TTACTATTCCTAAAATATTATT
1 TTAATA-T--TAAAATATTATA
*
17277005 TTATTGATATAATAATATTTATCA
1 TTAAT-AT-TAA-AATA-TTAT-A
17277029 TTAAAATATTAAAATATT-TA
1 TT--AATATTAAAATATTATA
*
17277049 TT-CTATTAAAATAATTATA
1 TTAATATTAAAAT-ATTATA
17277068 TT
1 TT
17277070 TTATATTGGA
Statistics
Matches: 106, Mismatches: 15, Indels: 40
0.66 0.09 0.25
Matches are distributed among these distances:
15 5 0.05
16 1 0.01
17 17 0.16
18 6 0.06
19 17 0.16
20 14 0.13
21 8 0.08
22 20 0.19
23 9 0.08
24 5 0.05
25 2 0.02
26 2 0.02
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (19 bp):
TTAATATTAAAATATTATA
Found at i:17277068 original size:23 final size:21
Alignment explanation
Indices: 17277013--17277070 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 21
17277003 TTTTATTGAT
*
17277013 ATAATAATATTTATCATTAAA
1 ATAATTATATTTATCATTAAA
17277034 AT-ATTAAAATATTTATTCTATTAAA
1 ATAATT---ATATTTA-TC-ATTAAA
17277059 ATAATTATATTT
1 ATAATTATATTT
17277071 TATATTGGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
20 2 0.07
21 2 0.07
23 13 0.43
24 2 0.07
25 8 0.27
26 3 0.10
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAATTATATTTATCATTAAA
Found at i:17277377 original size:30 final size:30
Alignment explanation
Indices: 17277343--17277406 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
17277333 TTGATTTATG
* * *
17277343 TTAAAATTTTATTTAAATACAATTTAAAAT
1 TTAAAATTTTATTTAAATAAAAATTAAAAA
17277373 TTAAAATTTTATTTAAATAAAAATTAAAAA
1 TTAAAATTTTATTTAAATAAAAATTAAAAA
17277403 TTAA
1 TTAA
17277407 GAACTTTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (30 bp):
TTAAAATTTTATTTAAATAAAAATTAAAAA
Found at i:17278056 original size:14 final size:15
Alignment explanation
Indices: 17278033--17278066 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
17278023 AAAAAATGTA
*
17278033 AAAATTATTTTTTG-
1 AAAATCATTTTTTGT
17278047 AAAATCATTTTTTGT
1 AAAATCATTTTTTGT
17278062 AAAAT
1 AAAAT
17278067 AAATGAAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (15 bp):
AAAATCATTTTTTGT
Found at i:17288319 original size:21 final size:20
Alignment explanation
Indices: 17288290--17288330 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
17288280 TCTACTTTAA
17288290 ACCCAAGTGATCGATCTTTT
1 ACCCAAGTGATCGATCTTTT
17288310 ACCCAGAGTGATCGATCTTTT
1 ACCCA-AGTGATCGATCTTTT
17288331 TAGTGGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (20 bp):
ACCCAAGTGATCGATCTTTT
Found at i:17295033 original size:3 final size:3
Alignment explanation
Indices: 17295025--17295069 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
17295015 TGCTTCCTTC
17295025 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17295070 TCTTGAATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:17295422 original size:11 final size:11
Alignment explanation
Indices: 17295363--17295419 Score: 51
Period size: 11 Copynumber: 4.8 Consensus size: 11
17295353 TTTTTTATTT
* *
17295363 AATTTAGATCA
1 AATTTAAATTA
17295374 AATTTAGAATTA
1 AATTTA-AATTA
*
17295386 AATGTATATATTA
1 AAT-T-TAAATTA
17295399 AATTTAAATTA
1 AATTTAAATTA
17295410 AATTATAAAT
1 AATT-TAAAT
17295420 AAAAATAAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 16 0.42
12 12 0.32
13 8 0.21
14 2 0.05
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (11 bp):
AATTTAAATTA
Found at i:17295425 original size:24 final size:25
Alignment explanation
Indices: 17295373--17295423 Score: 70
Period size: 23 Copynumber: 2.1 Consensus size: 25
17295363 AATTTAGATC
* *
17295373 AAATTTAGAATTAAATGTATATATT
1 AAATTTAGAATTAAATGTATAAATA
17295398 AAATTTA-AATTAAAT-TATAAATA
1 AAATTTAGAATTAAATGTATAAATA
17295421 AAA
1 AAA
17295424 ATAAGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 9 0.38
24 8 0.33
25 7 0.29
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (25 bp):
AAATTTAGAATTAAATGTATAAATA
Found at i:17295577 original size:25 final size:21
Alignment explanation
Indices: 17295529--17295581 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 21
17295519 TTTTATATAT
*
17295529 AAATTTATTTAAATATATTAA
1 AAATTTATTAAAATATATTAA
17295550 AAATCTTATTAAAATAATATATACA
1 AAAT-TTATTAAAAT-ATAT-TA-A
17295575 AAATTTA
1 AAATTTA
17295582 AATTTTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 4 0.15
22 9 0.33
23 4 0.15
24 5 0.19
25 5 0.19
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATTTATTAAAATATATTAA
Found at i:17295863 original size:16 final size:16
Alignment explanation
Indices: 17295833--17295888 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
17295823 TTTAAAATTA
17295833 ATAATAAAA--TATTT
1 ATAATAAAATTTATTT
17295847 ATAATAAAATTTATTT
1 ATAATAAAATTTATTT
*
17295863 AT-ATATTAATTTATTAT
1 ATAATA-AAATTTATT-T
17295880 ATAATAAAA
1 ATAATAAAA
17295889 AATTGAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
14 9 0.26
15 3 0.09
16 15 0.43
17 5 0.14
18 3 0.09
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATAAAATTTATTT
Found at i:17295909 original size:46 final size:47
Alignment explanation
Indices: 17295829--17295939 Score: 145
Period size: 46 Copynumber: 2.4 Consensus size: 47
17295819 ATAATTTAAA
* * *
17295829 ATTA-ATAATAAAATATTTATAATAAAATTTATTTATATATTAATTT
1 ATTATATAATAAAAAATTGATAATAAAATTCATTTATATATTAATTT
* *
17295875 ATTATATAATAAAAAATTGA-AATAAAATTCATTTATTTATTAGTTT
1 ATTATATAATAAAAAATTGATAATAAAATTCATTTATATATTAATTT
*
17295921 ATTGTATAATAATAAAATT
1 ATTATATAATAA-AAAATT
17295940 TATTTATTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
46 38 0.67
47 19 0.33
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.47
Consensus pattern (47 bp):
ATTATATAATAAAAAATTGATAATAAAATTCATTTATATATTAATTT
Found at i:17295945 original size:32 final size:32
Alignment explanation
Indices: 17295905--17295969 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
17295895 AATAAAATTC
* *
17295905 ATTTATTTATTAGTTTATTGTATAATAATAAA
1 ATTTATTTATTAATTTATTATATAATAATAAA
*
17295937 ATTTATTTATTAATTTATTATATAATGATAAA
1 ATTTATTTATTAATTTATTATATAATAATAAA
17295969 A
1 A
17295970 AATAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (32 bp):
ATTTATTTATTAATTTATTATATAATAATAAA
Found at i:17296473 original size:2 final size:2
Alignment explanation
Indices: 17296466--17296498 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
17296456 CAACCATGTC
*
17296466 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17296499 GAGGTCACTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17301045 original size:18 final size:18
Alignment explanation
Indices: 17301020--17301062 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
17301010 AAAAAATTAT
17301020 TTAT-TAATAAATTGATA
1 TTATATAATAAATTGATA
**
17301037 TTATATAATTTATTGATA
1 TTATATAATAAATTGATA
*
17301055 ATATATAA
1 TTATATAA
17301063 AATTTATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (18 bp):
TTATATAATAAATTGATA
Found at i:17301066 original size:20 final size:18
Alignment explanation
Indices: 17301030--17301069 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
17301020 TTATTAATAA
*
17301030 ATTGATATTATATAATTT
1 ATTGATATTATAAAATTT
17301048 ATTGATAATATATAAAATTT
1 ATTGAT-AT-TATAAAATTT
17301068 AT
1 AT
17301070 AAATTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 2 0.11
20 11 0.58
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
ATTGATATTATAAAATTT
Found at i:17301092 original size:22 final size:24
Alignment explanation
Indices: 17301052--17301109 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
17301042 TAATTTATTG
17301052 ATAATATATAAAATTTATAAATT-A
1 ATAATATATAAAA-TTATAAATTAA
*
17301076 ATAATATATTAAA-TATAAATTAA
1 ATAATATATAAAATTATAAATTAA
*
17301099 AAAATATATAA
1 ATAATATATAA
17301110 TATTTAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.27
23 10 0.33
24 12 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
ATAATATATAAAATTATAAATTAA
Found at i:17303689 original size:23 final size:23
Alignment explanation
Indices: 17303663--17303717 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
17303653 TTAATATAAA
*
17303663 TATAAAAATTAACAA-ATTTATTT
1 TATAAAAATTAACAACA-TAATTT
* * *
17303686 TATAACACTTAATAACATAATTT
1 TATAAAAATTAACAACATAATTT
17303709 TATAAAAAT
1 TATAAAAAT
17303718 CTAATTAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
23 24 0.96
24 1 0.04
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (23 bp):
TATAAAAATTAACAACATAATTT
Found at i:17304129 original size:17 final size:18
Alignment explanation
Indices: 17304107--17304140 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17304097 ATGTGCAAGA
*
17304107 TAATAT-TTTTATTAAAT
1 TAATATATTTAATTAAAT
17304124 TAATATATTTAATTAAA
1 TAATATATTTAATTAAA
17304141 ATATTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATATATTTAATTAAAT
Found at i:17304137 original size:13 final size:13
Alignment explanation
Indices: 17304116--17304168 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
17304106 ATAATATTTT
*
17304116 TATTAAATTAATA
1 TATTTAATTAATA
*
17304129 TATTTAATTAAAA
1 TATTTAATTAATA
*
17304142 TA-TTAAATAATA
1 TATTTAATTAATA
17304154 T-TTTAATTTAATA
1 TATTTAA-TTAATA
17304167 TA
1 TA
17304169 ATATTCATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
12 13 0.41
13 19 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TATTTAATTAATA
Found at i:17309940 original size:22 final size:22
Alignment explanation
Indices: 17309915--17309963 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
17309905 TAATATTTAC
*
17309915 AATTTTGGGG-TGTCCAGGACAA
1 AATTTTGGGGATATCCAGG-CAA
*
17309937 AATTTTGGGGATATCCAGGGAA
1 AATTTTGGGGATATCCAGGCAA
17309959 AATTT
1 AATTT
17309964 CTCTTCGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.31
Consensus pattern (22 bp):
AATTTTGGGGATATCCAGGCAA
Found at i:17313040 original size:25 final size:26
Alignment explanation
Indices: 17313007--17313056 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
17312997 TTATTTATTA
17313007 AATTTAATATATAGTT-TTAAATAAT
1 AATTTAATATATAGTTATTAAATAAT
* *
17313032 AATTTAATATTTATTTATTAAATAA
1 AATTTAATATATAGTTATTAAATAA
17313057 ATTGAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
AATTTAATATATAGTTATTAAATAAT
Found at i:17313207 original size:19 final size:19
Alignment explanation
Indices: 17313167--17313209 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
17313157 ATATGTTTAA
*
17313167 ATTTATTAAATTATAATTT
1 ATTTATTAAATTATAATAT
*
17313186 ATTTATT-ATTTATAAATAT
1 ATTTATTAAATTAT-AATAT
17313205 ATTTA
1 ATTTA
17313210 CTTTTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTATTAAATTATAATAT
Found at i:17313221 original size:26 final size:25
Alignment explanation
Indices: 17313130--17313230 Score: 86
Period size: 25 Copynumber: 4.0 Consensus size: 25
17313120 GTTTAGAGTT
* *
17313130 TATTTATTTT-TAAATTTATAATTA
1 TATTTATTTTATATATTTATAAATA
*
17313154 TATATATGTTTA-A-ATTTATTAAATTA
1 TATTTAT-TTTATATATTTA-TAAA-TA
17313180 TAATTTA-TTTAT-TATTTATAAATA
1 T-ATTTATTTTATATATTTATAAATA
*
17313204 TATTTACTTTTATATATTCATAAATA
1 TATTTA-TTTTATATATTTATAAATA
17313230 T
1 T
17313231 TCATTTAATA
Statistics
Matches: 63, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
23 5 0.08
24 14 0.22
25 20 0.32
26 20 0.32
27 4 0.06
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (25 bp):
TATTTATTTTATATATTTATAAATA
Found at i:17320268 original size:2 final size:2
Alignment explanation
Indices: 17320261--17320292 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
17320251 TAACATTTGA
17320261 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17320293 AGAATTTGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17326509 original size:13 final size:13
Alignment explanation
Indices: 17326493--17326517 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17326483 ATATATTATT
17326493 TTAATATAAAATG
1 TTAATATAAAATG
17326506 TTAATATAAAAT
1 TTAATATAAAAT
17326518 TATTATTTTA
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:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
TTAATATAAAATG
Found at i:17326609 original size:29 final size:29
Alignment explanation
Indices: 17326562--17326619 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
17326552 AAAGTAATAA
* **
17326562 AAATATATTATTTTATTTTATTTTTAATT
1 AAATATATTATTTAATTTTAAATTTAATT
17326591 AAATATA-TATTTAAGTTTTAAATTTAATT
1 AAATATATTATTTAA-TTTTAAATTTAATT
17326620 CGAATTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (29 bp):
AAATATATTATTTAATTTTAAATTTAATT
Found at i:17326789 original size:2 final size:2
Alignment explanation
Indices: 17326782--17326809 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17326772 TTTTTACCCT
17326782 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
17326810 AATATTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:17328246 original size:12 final size:12
Alignment explanation
Indices: 17328229--17328254 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17328219 AGATAAATGC
17328229 ATGTATATTTGT
1 ATGTATATTTGT
17328241 ATGTATATTTGT
1 ATGTATATTTGT
17328253 AT
1 AT
17328255 TCATTTGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (12 bp):
ATGTATATTTGT
Found at i:17328278 original size:6 final size:6
Alignment explanation
Indices: 17328271--17328317 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
17328261 GAATTTGAAT
* *
17328271 ATATAT ATATAT ATATAG ATATAG ATATAG ATATAG ATATAG ATATA
1 ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATATA
17328318 TTGTTGAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (6 bp):
ATATAG
Found at i:17343497 original size:39 final size:39
Alignment explanation
Indices: 17343454--17343532 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
17343444 CCCCAGGATG
17343454 TAAGTTTCACAGTACTTAAAATCTGATTAAGAAGTCAGC
1 TAAGTTTCACAGTACTTAAAATCTGATTAAGAAGTCAGC
17343493 TAAGTTTCACAGTACTTAAAATCTGATTAAGAAGTCAGC
1 TAAGTTTCACAGTACTTAAAATCTGATTAAGAAGTCAGC
17343532 T
1 T
17343533 CATTGGTGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (39 bp):
TAAGTTTCACAGTACTTAAAATCTGATTAAGAAGTCAGC
Found at i:17351134 original size:22 final size:20
Alignment explanation
Indices: 17351088--17351136 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
17351078 CTTCTCCTAG
17351088 GATTTTTTTTTTAATTTAAA
1 GATTTTTTTTTTAATTTAAA
* **
17351108 AATTTTTCTTTTTCAATTTTTA
1 GATTTTT-TTTTT-AATTTAAA
17351130 GATTTTT
1 GATTTTT
17351137 GCAATTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.26
21 5 0.22
22 12 0.52
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (20 bp):
GATTTTTTTTTTAATTTAAA
Found at i:17351972 original size:21 final size:21
Alignment explanation
Indices: 17351938--17351980 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
17351928 GTAAAAGTTT
*
17351938 TTTTGAAATTTTTTTGAAAAAA
1 TTTTGAAATGTTTTT-AAAAAA
17351960 TTTT-AAATGTTTTTAAAAAA
1 TTTTGAAATGTTTTTAAAAAA
17351980 T
1 T
17351981 AGCAAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 9 0.45
22 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (21 bp):
TTTTGAAATGTTTTTAAAAAA
Found at i:17362964 original size:23 final size:25
Alignment explanation
Indices: 17362919--17362965 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
17362909 ATAAAAAAAT
17362919 ATTTATTAAAAAATGATAAATTTAAA
1 ATTTATTAAAAAAT-ATAAATTTAAA
*
17362945 ATTTA-TAAAAAAT-TATATTTA
1 ATTTATTAAAAAATATAAATTTA
17362966 TTATTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 7 0.35
25 8 0.40
26 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
ATTTATTAAAAAATATAAATTTAAA
Found at i:17362971 original size:23 final size:25
Alignment explanation
Indices: 17362916--17362971 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
17362906 TGGATAAAAA
17362916 AATATTTATTAAAAAATGATAAATTT
1 AATATTTATTAAAAAAT-ATAAATTT
* *
17362942 AAAATTTA-TAAAAAAT-TATATTT
1 AATATTTATTAAAAAATATAAATTT
*
17362965 ATTATTT
1 AATATTT
17362972 TATTTTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 11 0.42
25 8 0.31
26 7 0.27
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
AATATTTATTAAAAAATATAAATTT
Found at i:17363120 original size:11 final size:11
Alignment explanation
Indices: 17363106--17363136 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
17363096 TTATAAATAA
17363106 TTTTAATAATT
1 TTTTAATAATT
*
17363117 TTTTTATAATT
1 TTTTAATAATT
17363128 TTTTAATAA
1 TTTTAATAA
17363137 AATTTTACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTTAATAATT
Found at i:17363816 original size:41 final size:41
Alignment explanation
Indices: 17363759--17363840 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
17363749 CGAAGAGAGG
*
17363759 ACTCGCCTAACATTTCAATGACGTTTCATC-GAGTTATCATT
1 ACTCGCCTAACATTTCAATGACATTTCATCAG-GTTATCATT
17363800 ACTCGCCTAACATTTCAATGACATTTCATCAGGTTATCATT
1 ACTCGCCTAACATTTCAATGACATTTCATCAGGTTATCATT
17363841 TTAAAACTAG
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 38 0.97
42 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (41 bp):
ACTCGCCTAACATTTCAATGACATTTCATCAGGTTATCATT
Found at i:17365940 original size:19 final size:19
Alignment explanation
Indices: 17365913--17365952 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
17365903 TTATGACGTG
*
17365913 AAATAAAAAAAAT-GTGAA
1 AAATTAAAAAAATGGTGAA
17365931 AAATTAAAAAAATGGTGAA
1 AAATTAAAAAAATGGTGAA
17365950 AAA
1 AAA
17365953 GAAGGTGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.17
Consensus pattern (19 bp):
AAATTAAAAAAATGGTGAA
Found at i:17366335 original size:18 final size:17
Alignment explanation
Indices: 17366287--17366348 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 17
17366277 CCAACTCAAG
*
17366287 ATATATATATAATTATTT
1 ATATTTATATAATTA-TT
* *
17366305 TTAATTA-ATTAATTATAT
1 ATATTTATA-TAATTAT-T
17366323 ATATTTATATAATT-TT
1 ATATTTATATAATTATT
17366339 ATATTTATAT
1 ATATTTATAT
17366349 TAAAAATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
16 11 0.31
17 3 0.08
18 21 0.58
19 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATTTATATAATTATT
Found at i:17366347 original size:22 final size:22
Alignment explanation
Indices: 17366334--17366382 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
17366324 TATTTATATA
17366334 ATTTTATATTTATATTAAAAAT
1 ATTTTATATTTATATTAAAAAT
17366356 ATTTTATATTTA-A--AAATAAT
1 ATTTTATATTTATATTAAA-AAT
17366376 ATTTTAT
1 ATTTTAT
17366383 TAATTTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.12
20 10 0.38
21 1 0.04
22 12 0.46
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTTATATTTATATTAAAAAT
Found at i:17366385 original size:17 final size:17
Alignment explanation
Indices: 17366338--17366385 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
17366328 TATATAATTT
17366338 TATATTTATATTAAAAA
1 TATATTTATATTAAAAA
17366355 TAT-TTTATATTTAAAAA
1 TATATTTATA-TTAAAAA
17366372 TAATATTT-TATTAA
1 T-ATATTTATATTAA
17366386 TTTTAAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 6 0.21
17 15 0.54
18 4 0.14
19 3 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATATTTATATTAAAAA
Found at i:17366422 original size:22 final size:22
Alignment explanation
Indices: 17366383--17366425 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
17366373 AATATTTTAT
*
17366383 TAATTTTAAATCAGATTAAATA
1 TAATTTTAAATAAGATTAAATA
* *
17366405 TAATTTTATATAATATTAAAT
1 TAATTTTAAATAAGATTAAAT
17366426 CGAATTAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
TAATTTTAAATAAGATTAAATA
Found at i:17366433 original size:32 final size:31
Alignment explanation
Indices: 17366376--17366435 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
17366366 TAAAAATAAT
*
17366376 ATTTTATTAATTTTAAATCAGATTAAATATA
1 ATTTTATTAATATTAAATCAGATTAAATATA
17366407 ATTTTATATAATATTAAATC-GAATTAAAT
1 ATTTTAT-TAATATTAAATCAG-ATTAAAT
17366436 TTAAAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 8 0.31
32 18 0.69
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (31 bp):
ATTTTATTAATATTAAATCAGATTAAATATA
Found at i:17366462 original size:40 final size:40
Alignment explanation
Indices: 17366418--17366499 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
17366408 TTTTATATAA
*
17366418 TATTAAATCGAATTAAATTTAAAAATAAAAAATAAAAAAT
1 TATTAAATCAAATTAAATTTAAAAATAAAAAATAAAAAAT
* * * * *
17366458 TATTAAATTAAATTAAATTTAAATATTATAAATATAAAAT
1 TATTAAATCAAATTAAATTTAAAAATAAAAAATAAAAAAT
17366498 TA
1 TA
17366500 GATCAAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (40 bp):
TATTAAATCAAATTAAATTTAAAAATAAAAAATAAAAAAT
Found at i:17366666 original size:14 final size:13
Alignment explanation
Indices: 17366641--17366672 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
17366631 TCCTCTTAAA
17366641 ATTATTTTTTATT
1 ATTATTTTTTATT
17366654 ATTATTATTTTATT
1 ATTATT-TTTTATT
17366668 ATTAT
1 ATTAT
17366673 ATTCTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTATTTTTTATT
Found at i:17366675 original size:16 final size:16
Alignment explanation
Indices: 17366641--17366672 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
17366631 TCCTCTTAAA
17366641 ATTATTTTTTATTATT
1 ATTATTTTTTATTATT
17366657 ATTATTTTATTATTAT
1 ATTATTTT-TTATTAT
17366673 ATTCTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
ATTATTTTTTATTATT
Found at i:17372640 original size:16 final size:16
Alignment explanation
Indices: 17372619--17372650 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
17372609 TCTGCCTTTA
17372619 TCTGTTGGTGGACTTC
1 TCTGTTGGTGGACTTC
17372635 TCTGTTGGTGGACTTC
1 TCTGTTGGTGGACTTC
17372651 CTTCTTCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.19, G:0.31, T:0.44
Consensus pattern (16 bp):
TCTGTTGGTGGACTTC
Found at i:17373872 original size:39 final size:39
Alignment explanation
Indices: 17373813--17373892 Score: 124
Period size: 39 Copynumber: 2.1 Consensus size: 39
17373803 GTCTTCAGGC
*
17373813 TTGGAGGATCTGATTAGATGTTTTGGACTTGAAAGGGAG
1 TTGGAGGATCTGATTAGATGTTTTGGACGTGAAAGGGAG
* * *
17373852 TTGGAGGATTTGGTTTGATGTTTTGGACGTGAAAGGGAG
1 TTGGAGGATCTGATTAGATGTTTTGGACGTGAAAGGGAG
17373891 TT
1 TT
17373893 TGGGAAGTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.23, C:0.04, G:0.38, T:0.36
Consensus pattern (39 bp):
TTGGAGGATCTGATTAGATGTTTTGGACGTGAAAGGGAG
Found at i:17399323 original size:22 final size:20
Alignment explanation
Indices: 17399297--17399338 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
17399287 TTGAGACCTA
17399297 AAGTATCCCATTACATAAGTAT
1 AAGTAT-CCATTAC-TAAGTAT
*
17399319 AAGTATCCATTTCTAAGTAT
1 AAGTATCCATTACTAAGTAT
17399339 CTCTTAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 6 0.32
22 6 0.32
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (20 bp):
AAGTATCCATTACTAAGTAT
Found at i:17400095 original size:13 final size:13
Alignment explanation
Indices: 17400077--17400101 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17400067 AAAAATTCCA
17400077 TAAATTTTTATTT
1 TAAATTTTTATTT
17400090 TAAATTTTTATT
1 TAAATTTTTATT
17400102 GGAGAGAGTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TAAATTTTTATTT
Found at i:17402190 original size:56 final size:56
Alignment explanation
Indices: 17402108--17402216 Score: 200
Period size: 56 Copynumber: 1.9 Consensus size: 56
17402098 CAGAGGTATG
17402108 ATATATATATATATATATATATGTTCATGTGGCTTAGTTCCTTGTAAGTACAATAT
1 ATATATATATATATATATATATGTTCATGTGGCTTAGTTCCTTGTAAGTACAATAT
* *
17402164 ATATATATATATATATGTATATGTTCATGTGGCTTAGTTCTTTGTAAGTACAA
1 ATATATATATATATATATATATGTTCATGTGGCTTAGTTCCTTGTAAGTACAA
17402217 GCTACTTTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (56 bp):
ATATATATATATATATATATATGTTCATGTGGCTTAGTTCCTTGTAAGTACAATAT
Found at i:17403114 original size:22 final size:22
Alignment explanation
Indices: 17403086--17403131 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
17403076 TTTTTCCTAA
17403086 TACATACTACTTGCTAGTGTAC
1 TACATACTACTTGCTAGTGTAC
*
17403108 TACATACTACTTTCTAGTGTAC
1 TACATACTACTTGCTAGTGTAC
17403130 TA
1 TA
17403132 AGTAGTTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (22 bp):
TACATACTACTTGCTAGTGTAC
Found at i:17403664 original size:3 final size:3
Alignment explanation
Indices: 17403658--17403688 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
17403648 TTGATGATTT
17403658 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
17403689 CTTACAAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:17406484 original size:3 final size:3
Alignment explanation
Indices: 17406476--17406517 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
17406466 AAGGCTTAGT
*
17406476 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTA TTG TTG TT- TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
17406518 ATCATATGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.02, C:0.00, G:0.29, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:17409009 original size:59 final size:59
Alignment explanation
Indices: 17408917--17409028 Score: 215
Period size: 59 Copynumber: 1.9 Consensus size: 59
17408907 TAATTATCTA
*
17408917 TAAAAATTCTAAAATTTTTACGATTTTATAATTATCTACGACATTGTTTGTAGAGACAC
1 TAAAAATTCTAAAATTTTTACGATTCTATAATTATCTACGACATTGTTTGTAGAGACAC
17408976 TAAAAATTCTAAAATTTTTACGATTCTATAATTATCTACGACATTGTTTGTAG
1 TAAAAATTCTAAAATTTTTACGATTCTATAATTATCTACGACATTGTTTGTAG
17409029 TGATACTTAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.42
Consensus pattern (59 bp):
TAAAAATTCTAAAATTTTTACGATTCTATAATTATCTACGACATTGTTTGTAGAGACAC
Found at i:17416167 original size:2 final size:2
Alignment explanation
Indices: 17416162--17416186 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17416152 TAAACTCTAA
17416162 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
17416187 GATTTTGCTC
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:17421055 original size:3 final size:3
Alignment explanation
Indices: 17421047--17421088 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
17421037 ATCGTTTTAG
17421047 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17421089 AGAAATGCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:17422067 original size:18 final size:19
Alignment explanation
Indices: 17422044--17422081 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
17422034 CTTGATATTA
17422044 ATAAAATATT-TTTTAAAT
1 ATAAAATATTATTTTAAAT
*
17422062 ATAAAATATTATTTTTAAT
1 ATAAAATATTATTTTAAAT
17422081 A
1 A
17422082 AAATATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATAAAATATTATTTTAAAT
Found at i:17422084 original size:17 final size:16
Alignment explanation
Indices: 17422041--17422087 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
17422031 CGACTTGATA
17422041 TTAATAAAATATTTTT
1 TTAATAAAATATTTTT
*
17422057 TAAATATAAAATATTATTT
1 T-TA-ATAAAATATT-TTT
17422076 TTAATAAAATAT
1 TTAATAAAATAT
17422088 AAAATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 1 0.04
17 10 0.38
18 11 0.42
19 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTAATAAAATATTTTT
Found at i:17422120 original size:19 final size:19
Alignment explanation
Indices: 17422055--17422125 Score: 64
Period size: 19 Copynumber: 4.0 Consensus size: 19
17422045 TAAAATATTT
*
17422055 TTTA-AATATAAA-ATATTA
1 TTTATAATATAAATATA-AA
*
17422073 TTTTTAATA-AAATATAAA
1 TTTATAATATAAATATAAA
*
17422091 -AT-TAA-ATAAATATAAA
1 TTTATAATATAAATATAAA
17422107 TTTATAATATAAATATAAA
1 TTTATAATATAAATATAAA
17422126 ATTAATTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
15 1 0.02
16 12 0.28
17 2 0.05
18 10 0.23
19 18 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TTTATAATATAAATATAAA
Found at i:17425468 original size:22 final size:23
Alignment explanation
Indices: 17425442--17425490 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
17425432 TAAGATAAAA
*
17425442 GAGATTA-GTATAATTTTAAATT
1 GAGATTATGTATAACTTTAAATT
*
17425464 TAGA-TATGTATAACTTTAAATT
1 GAGATTATGTATAACTTTAAATT
17425486 GAGAT
1 GAGAT
17425491 AAAATATCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (23 bp):
GAGATTATGTATAACTTTAAATT
Found at i:17425491 original size:22 final size:22
Alignment explanation
Indices: 17425449--17425491 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
17425439 AAAGAGATTA
* *
17425449 GTATAATTTTAAATTTAGATAT
1 GTATAACTTTAAATTGAGATAT
17425471 GTATAACTTTAAATTGAGATA
1 GTATAACTTTAAATTGAGATA
17425492 AAATATCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (22 bp):
GTATAACTTTAAATTGAGATAT
Found at i:17431926 original size:18 final size:20
Alignment explanation
Indices: 17431903--17431939 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
17431893 TTTTTTAAAA
17431903 TTAAAATAA-AAA-AATTTC
1 TTAAAATAATAAATAATTTC
17431921 TTAAAATAATAAATAATTT
1 TTAAAATAATAAATAATTT
17431940 TGGAATTACG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 3 0.18
20 5 0.29
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
TTAAAATAATAAATAATTTC
Found at i:17432160 original size:28 final size:29
Alignment explanation
Indices: 17432129--17432190 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
17432119 AAATAATATA
*
17432129 ATTTTAA-ATT-AATAAAAAAATATTTTAT
1 ATTTTAACATTGAATAAAAAAAT-TTCTAT
* *
17432157 A-TTTAACATTGGATAAAATAATTTCTAT
1 ATTTTAACATTGAATAAAAAAATTTCTAT
17432185 ATTTTA
1 ATTTTA
17432191 TAAAAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 5 0.18
28 10 0.36
29 13 0.46
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (29 bp):
ATTTTAACATTGAATAAAAAAATTTCTAT
Found at i:17432161 original size:27 final size:28
Alignment explanation
Indices: 17432131--17432188 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
17432121 ATAATATAAT
*
17432131 TTTAA-ATT-AATAAAAAAATATTTTATA
1 TTTAACATTGAATAAAAAAAT-TTCTATA
* *
17432158 TTTAACATTGGATAAAATAATTTCTATA
1 TTTAACATTGAATAAAAAAATTTCTATA
17432186 TTT
1 TTT
17432189 TATAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 5 0.19
28 12 0.46
29 9 0.35
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (28 bp):
TTTAACATTGAATAAAAAAATTTCTATA
Found at i:17432824 original size:6 final size:6
Alignment explanation
Indices: 17432810--17432844 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
17432800 TCTTTCTTTA
* *
17432810 TTATTG TTGTTG TTGTTG TTATTG TTATTG TTATT
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTATT
17432845 ATAGAAGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.11, C:0.00, G:0.20, T:0.69
Consensus pattern (6 bp):
TTATTG
Found at i:17434196 original size:44 final size:44
Alignment explanation
Indices: 17434133--17434221 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
17434123 TGACTTCTAC
17434133 TTGCTTACTATATATATTTAGCAGTACAATTATTCTCTAATTTG
1 TTGCTTACTATATATATTTAGCAGTACAATTATTCTCTAATTTG
*
17434177 TTGCTTACTATATATATTTAGCAGTACGATTATTCTCTAATTTG
1 TTGCTTACTATATATATTTAGCAGTACAATTATTCTCTAATTTG
17434221 T
1 T
17434222 GTTTGGTTGG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.48
Consensus pattern (44 bp):
TTGCTTACTATATATATTTAGCAGTACAATTATTCTCTAATTTG
Found at i:17436492 original size:65 final size:64
Alignment explanation
Indices: 17436368--17436492 Score: 205
Period size: 65 Copynumber: 1.9 Consensus size: 64
17436358 CAATTAATAT
**
17436368 TCATTGAAGTTTTCTGAGGATATATTTGTTTTTGCGTATTTTATTTTTTGAAATCTAAGTATAG
1 TCATTGAAGTTTTCTGAGGATATATTACTTTTTGCGTATTTTATTTTTTGAAATCTAAGTATAG
**
17436432 TCATTGAAGTTTTCTGAGGATATATATACTTTTTTTGTATTTTATTTTTTGAAATCTAAGT
1 TCATTGAAGTTTTCTGAGGATATAT-TACTTTTTGCGTATTTTATTTTTTGAAATCTAAGT
17436493 TAAGGCTTGA
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
64 25 0.45
65 31 0.55
ACGTcount: A:0.26, C:0.06, G:0.15, T:0.53
Consensus pattern (64 bp):
TCATTGAAGTTTTCTGAGGATATATTACTTTTTGCGTATTTTATTTTTTGAAATCTAAGTATAG
Found at i:17445235 original size:18 final size:18
Alignment explanation
Indices: 17445213--17445256 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
17445203 TAAAATTTTA
*
17445213 AATTATATTAT-TTTTAT
1 AATTATATTATATTATAT
17445230 ATATTATATTATATTATAT
1 A-ATTATATTATATTATAT
17445249 AATTATAT
1 AATTATAT
17445257 CGTATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 17 0.71
19 6 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
AATTATATTATATTATAT
Found at i:17445262 original size:18 final size:18
Alignment explanation
Indices: 17445226--17445272 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
17445216 TATATTATTT
*
17445226 TTATAT-ATTATATTATA
1 TTATATAATTATATCATA
*
17445243 TTATATAATTATATCGTA
1 TTATATAATTATATCATA
* *
17445261 TTTTAAAATTAT
1 TTATATAATTAT
17445273 TGAATCAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
TTATATAATTATATCATA
Found at i:17446636 original size:17 final size:17
Alignment explanation
Indices: 17446613--17446663 Score: 52
Period size: 16 Copynumber: 3.0 Consensus size: 17
17446603 TATTTATATG
17446613 TTTAAATATAAATATTTA
1 TTTAAATATAAA-ATTTA
*
17446631 -TTAAAT-TAAAATATA
1 TTTAAATATAAAATTTA
*
17446646 TTTAAAAATAAAAATTTA
1 TTTAAATAT-AAAATTTA
17446664 ATTAGACTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
15 4 0.15
16 9 0.33
17 7 0.26
18 7 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTTAAATATAAAATTTA
Found at i:17448628 original size:31 final size:31
Alignment explanation
Indices: 17448542--17448630 Score: 115
Period size: 31 Copynumber: 2.9 Consensus size: 31
17448532 GTTTGATTGT
* * *
17448542 GAAGATATCAAAGGGTCACATGACAGTCATG
1 GAAGATATCAAAAGGTCACATGGCATTCATG
* * **
17448573 AAAGATATCAAAAGGTTAGGTGGCATTCATG
1 GAAGATATCAAAAGGTCACATGGCATTCATG
17448604 GAAGATATCAAAAGGTCACATGGCATT
1 GAAGATATCAAAAGGTCACATGGCATT
17448631 TATAAGAGAT
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.22
Consensus pattern (31 bp):
GAAGATATCAAAAGGTCACATGGCATTCATG
Found at i:17448641 original size:31 final size:31
Alignment explanation
Indices: 17448544--17448644 Score: 98
Period size: 31 Copynumber: 3.3 Consensus size: 31
17448534 TTGATTGTGA
* * *
17448544 AGATATCAAAGGGTCACATGACAGTCATGAA-
1 AGATATCAAAAGGTCACATGGCATTCAT-AAG
* ** *
17448575 AGATATCAAAAGGTTAGGTGGCATTCAT-GG
1 AGATATCAAAAGGTCACATGGCATTCATAAG
*
17448605 AAGATATCAAAAGGTCACATGGCATTTATAAG
1 -AGATATCAAAAGGTCACATGGCATTCATAAG
17448637 AGATATCA
1 AGATATCA
17448645 CACCTCAAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
31 54 0.98
32 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.24
Consensus pattern (31 bp):
AGATATCAAAAGGTCACATGGCATTCATAAG
Found at i:17451356 original size:20 final size:20
Alignment explanation
Indices: 17451325--17451362 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
17451315 TAATCGTTTG
17451325 ATTTGTTTTAAT-TTTTTAC
1 ATTTGTTTTAATCTTTTTAC
17451344 ATTTGTGTTTAATCTTTTT
1 ATTTGT-TTTAATCTTTTT
17451363 TCTCTTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 6 0.35
21 5 0.29
ACGTcount: A:0.18, C:0.05, G:0.08, T:0.68
Consensus pattern (20 bp):
ATTTGTTTTAATCTTTTTAC
Found at i:17454799 original size:49 final size:48
Alignment explanation
Indices: 17454708--17454815 Score: 116
Period size: 49 Copynumber: 2.2 Consensus size: 48
17454698 GATTTATATG
* *
17454708 TTTTAATTTTTTGTACCTATATCGATAGTTAACACCTTTCAGTATGGA
1 TTTTAATTTTTTGTACCTATATCGATAGTTAACACCTGTCAGTATAGA
**
17454756 CTTTTAATTTTTCT-TACCTATATCGAT-GCTTAGTATCC-GTCAGTATAGA
1 -TTTTAATTTTT-TGTACCTATATCGATAG-TTAACA-CCTGTCAGTATAGA
17454805 TTTT-ATTTTTT
1 TTTTAATTTTTT
17454816 AATTTTCTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
46 1 0.02
47 6 0.12
48 5 0.10
49 37 0.71
50 3 0.06
ACGTcount: A:0.24, C:0.15, G:0.11, T:0.50
Consensus pattern (48 bp):
TTTTAATTTTTTGTACCTATATCGATAGTTAACACCTGTCAGTATAGA
Found at i:17454864 original size:159 final size:158
Alignment explanation
Indices: 17454529--17454891 Score: 394
Period size: 159 Copynumber: 2.3 Consensus size: 158
17454519 TGGTTAACAC
* * * * ***
17454529 CTGTTAGTATAGACTTATATGTTTTAATTTTTTTGCCTATACCAATAGTTAATGGTCATCAGTAT
1 CTGTTAGTATAGAATTATATGTTTTAATTTTTTTACCTATATCGATAGTTAAACCTCATCAGTAT
17454594 AGATTTGTAATTTTTTTACCTATACTGATGCTTAAAGCCTGTCAATATAGATTTGTAGTTTTTAA
66 AGATTTGTAATTTTTTTACCTATACTGATGCTTAAAGCCTGTCAATATAGATTTGTAGTTTTTAA
* * *
17454659 TTTTCTCACCTATATCGACGGTTAGTGC
131 TTTTCTCACCTATATCGACGATTAGAGA
** * * *
17454687 CCATCAGTATAGATTTATATGTTTTAATTTTTTGTACCTATATCGATAGTTAACACCT-TTCAGT
1 CTGTTAGTATAGAATTATATGTTTTAATTTTTT-TACCTATATCGATAGTTAA-ACCTCATCAGT
* * * * *
17454751 ATGGACTTT-TAATTTTTCTTACCTATA-TCGATGCTTAGTATCC-GTCAGTATAGATTT-TATT
64 ATAGA-TTTGTAATTTTT-TTACCTATACT-GATGCTTA-AAGCCTGTCAATATAGATTTGTAGT
* *
17454812 TTTTAATTTTCTTACCTATATTGACGATTAGAGA
125 TTTTAATTTTCTCACCTATATCGACGATTAGAGA
* ** *
17454846 CTGTTAGTCTAGAATTATATACTTTAATTTTTTTTACCTTTATCGA
1 CTGTTAGTATAGAATTATATGTTTTAA-TTTTTTTACCTATATCGA
17454892 CGATTAGAGA
Statistics
Matches: 169, Mismatches: 29, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
158 29 0.17
159 97 0.57
160 40 0.24
161 3 0.02
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.47
Consensus pattern (158 bp):
CTGTTAGTATAGAATTATATGTTTTAATTTTTTTACCTATATCGATAGTTAAACCTCATCAGTAT
AGATTTGTAATTTTTTTACCTATACTGATGCTTAAAGCCTGTCAATATAGATTTGTAGTTTTTAA
TTTTCTCACCTATATCGACGATTAGAGA
Found at i:17454898 original size:56 final size:56
Alignment explanation
Indices: 17454758--17454935 Score: 164
Period size: 56 Copynumber: 3.2 Consensus size: 56
17454748 AGTATGGACT
* * * * * * **
17454758 TTTAATTTTTCTTACCTATATCGATGCTTAGTA-TCCGTCAGTATAG-ATTTTATTT
1 TTTAATTTTTTTTACCTATATCGACGATTAG-AGACTGTCAGTATAGAATTATATAC
* * * *
17454813 TTTAA-TTTTCTTACCTATATTGACGATTAGAGACTGTTAGTCTAGAATTATATAC
1 TTTAATTTTTTTTACCTATATCGACGATTAGAGACTGTCAGTATAGAATTATATAC
* * * **
17454868 TTTAATTTTTTTTACCTTTATCGACGATTAGAGAGTGTCAGTATAGACTTATATGT
1 TTTAATTTTTTTTACCTATATCGACGATTAGAGACTGTCAGTATAGAATTATATAC
*
17454924 TTTAATATTTTT
1 TTTAATTTTTTT
17454936 ATTATATTTT
Statistics
Matches: 100, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
53 1 0.01
54 31 0.31
55 16 0.16
56 52 0.52
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.49
Consensus pattern (56 bp):
TTTAATTTTTTTTACCTATATCGACGATTAGAGACTGTCAGTATAGAATTATATAC
Found at i:17464041 original size:568 final size:566
Alignment explanation
Indices: 17463282--17464773 Score: 1558
Period size: 568 Copynumber: 2.6 Consensus size: 566
17463272 CTCTTCTCAT
* ** * * *
17463282 TTTTTTTAAAGATCATTCAAGGTGTTTTTGTGATAAAATGCCTTGAATAATCCCTTGGGGTTAGT
1 TTTTTTT-AGGATCATTCAAAATGTTTTTGTAATAAAACG-CTTGAATAATCCCTTGGGATTAGT
* * * *
17463347 CAAGGCATTTATGACAAAAAAATACCTTTAATAATCCCTTTCAGGCATTTATGAAAATATTATTG
64 CAAGGTATTTATG---ATAAAA-ACCTTGAATAATCCCTTTCAGGCATTTATGAAAAGATTATTG
* * * * * *
17463412 AAGGT-GTTTTTTCTTAAAAAATACCTTGAATAATCCCTAACAAAATATTGAATGGGGTTATTGA
125 AA-ATCATTTTTGCCTAAAAAATGCCTTGAATAATCCTTAACAAAATATTGAAT-GGGTTATT-A
* * * *
17463476 AGACGTTTTTGGCCAAAAATGCCTTGAATTATTCCTGAATTACTGAAAGCATTTTTGGCCAAAAA
187 AGACGTTTTTGGCCAAAAATACCTTGAATAATTCCTGAATTACTGAAGGTATTTTTGGCCAAAAA
* * *
17463541 TGCTTTTAATAATCCCCTTTAATTTTTTAGAAGGGATTATTTGAGGTGTTTTCTGTAGAAAAACG
252 TACTTTTAATAATCCCCTTTAATTTTTTAGAAGGGATTATTTGAGGTGTTTTCTGT-CAAAAACA
* * * *
17463606 CCTTTAATAATCTTTTCCCCTTTTTTTTGA-AATCATTCGAGGTATTTTTATGATAAAATACCTT
316 CCTTTAATAATCTTCTCCCATTTTTTTTGAGAATCATTCAAGGTATTTTTATGATAAAACACCTT
* *
17463670 GAATAATC-CTCTTCAAGCATTTATG-AGAGGA-TCTTAAAGGTATTTTTG-TCTAAAAAAAACC
381 AAATAATCTC-CTTCAAGCATTTATGAAGA-GATTATTAAAGGTATTTTTGCTC-AAAAAAAACC
* * *
17463731 TTGAATAATCCCTAAAAAAATATTGAATA-AGGTTATTAAAAGCATTT-TCGACCAAAAATGCCT
443 TTAAATAATCCCTAAAAAAATATTGAATAGA-GTTATTAAAAGCATTTCT-GACCAAAAAAGCAT
* * *
17463794 TGAATAAATCTTGGATTATTAAAAGTATTTTTGGTCAAAAACGCC-TT-CAAT-CCTCCCA
506 TGAATAAATCCTGGATTATTAAAAGTATTTTTGGCCAAAAACGCCTTTACAATCCCTCCAA
17463852 TTTTTTTAGGATCATTCAAAATGTTTTTGTAATAAAACGCTTTGAATAATCCCTTGGGATTAGTC
1 TTTTTTTAGGATCATTCAAAATGTTTTTGTAATAAAACGC-TTGAATAATCCCTTGGGATTAGTC
* * * * * *
17463917 AAGGTATTTATGGTAGAAAACGCCTTGAATAATCCCCTCCAAGCGTTTATGAAGAGATTATTGAA
65 AAGGTATTTATGATA-AAAA--CCTTGAATAATCCCTTTCAGGCATTTATGAAAAGATTATTGAA
* *
17463982 ATCATTTTTGCCTAAAAAATGCCTTGAATAATCCTTAACAAAATATTAAATGAGGTTATTTAAGG
127 ATCATTTTTGCCTAAAAAATGCCTTGAATAATCCTTAACAAAATATTGAATG-GGTTA-TTAAGA
* * * *
17464047 CGTTTCTGGCCAAAAATACCTTGAATAAATCCT-AGATTATTGAAGGTATTTTTGGCTAAAAATA
190 CGTTTTTGGCCAAAAATACCTTGAATAATTCCTGA-ATTACTGAAGGTATTTTTGGCCAAAAATA
* * * * * * * *
17464111 CCTTTAATAATCCTCTCTAATTTTTTAGAAGAGATTATTTAAGGCGTTTTCTGCCAAAAACATCT
254 CTTTTAATAATCCCCTTTAATTTTTTAGAAGGGATTATTTGAGGTGTTTTCTGTCAAAAACACCT
* ** * * *
17464176 TTAATAATCTCCTCTTATTTTTTTTTAGGATCATTCAAGGTGTTTTTATGATAAAACACCTTAAA
319 TTAATAATCTTCTCCCATTTTTTTTGAGAATCATTCAAGGTATTTTTATGATAAAACACCTTAAA
* * * *
17464241 TAATTTCCTTCAGGCATTTATGAAGAGATTATTGAAGGTATTTTTGCTCAAAAAATACCTTAAAT
384 TAATCTCCTTCAAGCATTTATGAAGAGATTATTAAAGGTATTTTTGCTCAAAAAAAACCTTAAAT
* * * * *
17464306 AATCCCTAACAAAATATTGAATGGAGTTATTGAATGCATTTCTGGCCAAAAAAGCATTGAATAAA
449 AATCCCTAAAAAAATATTGAATAGAGTTATTAAAAGCATTTCTGACCAAAAAAGCATTGAATAAA
* *
17464371 TCCTGGATTATTGAAAGTATTTTTGGCCAAAAACGCCTTTAATAATCCCCTCCAA
514 TCCTGGATTATTAAAAGTATTTTTGGCCAAAAACGCCTTT-ACAAT-CCCTCCAA
* * * * * *
17464426 TTTTTTGTAGGGGATTATTCAAGGCAT-TTTTAGTCAAAAAAAC-CTTCAAAAATCTTCTCGTAT
1 TTTTTT-TA--GGATCATTCAA--AATGTTTTTGT-AATAAAACGCTTGAATAATC--C-C----
* * *
17464489 TTTTTAGGGATCATTCAAGGTGTTTTAATGATAAAATACCTTGAATAATCCCTTTCAGGCATTTA
53 ---TT-GGGATTAGTCAAGGT-ATTT-ATGATAAAA-ACCTTGAATAATCCCTTTCAGGCATTTA
* * * *
17464554 TGAAAAGATTATT-AAAGACATTTTTGCCCAAAAAATGCCTTGAATAATCTTTAGCAAAATATTG
111 TGAAAAGATTATTGAAA-TCATTTTTGCCTAAAAAATGCCTTGAATAATCCTTAACAAAATATTG
* * ** *
17464618 AATGGGTTATTAAAAGCGTTTTTGACCAAAAATACCTTGAATAATTTTTGAATTAGTGAAGGTAT
175 AATGGGTTATTAAGA-CGTTTTTGGCCAAAAATACCTTGAATAATTCCTGAATTACTGAAGGTAT
** * * * * *
17464683 TTTTTACCAAAAACACTTTTAATAATCCCCTTCAAATTTTTAGATA-GGCTTATTCGAGGTGTTT
239 TTTTGGCCAAAAATACTTTTAATAATCCCCTTTAATTTTTTAGA-AGGGATTATTTGAGGTGTTT
* *
17464747 TCTATCAAAAATACCTTTAATAATCTT
303 TCTGTCAAAAACACCTTTAATAATCTT
17464774 GGTTCTTTTT
Statistics
Matches: 759, Mismatches: 119, Indels: 71
0.80 0.13 0.07
Matches are distributed among these distances:
566 2 0.00
567 35 0.05
568 239 0.31
569 184 0.24
570 13 0.02
572 3 0.00
574 12 0.02
575 2 0.00
577 18 0.02
578 7 0.01
579 10 0.01
580 1 0.00
586 4 0.01
587 121 0.16
588 96 0.13
589 6 0.01
590 6 0.01
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (566 bp):
TTTTTTTAGGATCATTCAAAATGTTTTTGTAATAAAACGCTTGAATAATCCCTTGGGATTAGTCA
AGGTATTTATGATAAAAACCTTGAATAATCCCTTTCAGGCATTTATGAAAAGATTATTGAAATCA
TTTTTGCCTAAAAAATGCCTTGAATAATCCTTAACAAAATATTGAATGGGTTATTAAGACGTTTT
TGGCCAAAAATACCTTGAATAATTCCTGAATTACTGAAGGTATTTTTGGCCAAAAATACTTTTAA
TAATCCCCTTTAATTTTTTAGAAGGGATTATTTGAGGTGTTTTCTGTCAAAAACACCTTTAATAA
TCTTCTCCCATTTTTTTTGAGAATCATTCAAGGTATTTTTATGATAAAACACCTTAAATAATCTC
CTTCAAGCATTTATGAAGAGATTATTAAAGGTATTTTTGCTCAAAAAAAACCTTAAATAATCCCT
AAAAAAATATTGAATAGAGTTATTAAAAGCATTTCTGACCAAAAAAGCATTGAATAAATCCTGGA
TTATTAAAAGTATTTTTGGCCAAAAACGCCTTTACAATCCCTCCAA
Found at i:17464492 original size:295 final size:292
Alignment explanation
Indices: 17463933--17464726 Score: 920
Period size: 295 Copynumber: 2.7 Consensus size: 292
17463923 TTTATGGTAG
* * * * * *
17463933 AAAACGCCTTGAATAATCCCCTCCAAGCGTTTATGAAGAGATTATTGAA-ATCATTTTTGCCTAA
1 AAAACACCTTAAATAATCCCTTTCAGGCATTTATGAAGAGATTATTGAAGAT-ATTTTTGCC-AA
* * *
17463997 AAAATGCCTTGAATAATCCTTAACAAAATATTAAAT-GAGGTTATTTAAGGCGTTTCTGGCCAAA
64 AAAATGCCTTGAATAATCCTTAACAAAATATTGAATGGA-GTTATTAAAAGCGTTTCTGGCCAAA
* * * *
17464061 AATACCTTGAATAAATCCTAGATTATTGAAGGTATTTTTGGCTAAAAATACCTTTAATAATCCTC
128 AATACCTTGAATAAATCCTGGATTATTGAAGGTATTTTTGGCCAAAAACACCTTTAATAATCCCC
* * * * * * * *
17464126 TCTAATTTTTTAGAAGAGATTATTTAAGGCGTTTTCTGCCAAAAACATCTTTAATAATCTCCTCT
193 TCCAATTTTTTAGAAGAGATTATTCAAGGCATTTTCTGCCAAAAAAACCTTCAAAAATCTCCTCG
*
17464191 TATTTTTTTTTA-GGATCATTCAAGGTGTTTTTATGAT
258 TA---TTTTTTAGGGATCATTCAAGGTGTTTTAATGAT
* *
17464228 AAAACACCTTAAATAATTTCC-TTCAGGCATTTATGAAGAGATTATTGAAGGTATTTTTGCTCAA
1 AAAACACCTTAAATAA-TCCCTTTCAGGCATTTATGAAGAGATTATTGAAGATATTTTTGC-CAA
* * * * * *
17464292 AAAATACCTTAAATAATCCCTAACAAAATATTGAATGGAGTTATTGAATGCATTTCTGGCCAAAA
64 AAAATGCCTTGAATAATCCTTAACAAAATATTGAATGGAGTTATTAAAAGCGTTTCTGGCCAAAA
* * *
17464357 A-AGCATTGAATAAATCCTGGATTATTGAAAGTATTTTTGGCCAAAAACGCCTTTAATAATCCCC
129 ATA-CCTTGAATAAATCCTGGATTATTGAAGGTATTTTTGGCCAAAAACACCTTTAATAATCCCC
* * * *
17464421 TCCAATTTTTT-GTAGGGGATTATTCAAGGCATTTT-TAGTCAAAAAAACCTTCAAAAATCTTCT
193 TCCAATTTTTTAG-AAGAGATTATTCAAGGCATTTTCT-GCCAAAAAAACCTTCAAAAATCTCCT
17464484 CGTATTTTTTAGGGATCATTCAAGGTGTTTTAATGAT
256 CGTATTTTTTAGGGATCATTCAAGGTGTTTTAATGAT
* * * * *
17464521 AAAATACCTTGAATAATCCCTTTCAGGCATTTATGAAAAGATTATTAAAGACATTTTTGCCCAAA
1 AAAACACCTTAAATAATCCCTTTCAGGCATTTATGAAGAGATTATTGAAGATATTTTTG-CCAAA
* * * *
17464586 AAATGCCTTGAATAATCTTTAGCAAAATATTGAATGG-GTTATTAAAAGCGTTTTTGACCAAAAA
65 AAATGCCTTGAATAATCCTTAACAAAATATTGAATGGAGTTATTAAAAGCGTTTCTGGCCAAAAA
* ** * * ** * *
17464650 TACCTTGAATAATTTTTGAATTAGTGAAGGTATTTTTTACCAAAAACACTTTTAATAATCCCCTT
130 TACCTTGAATAAATCCTGGATTATTGAAGGTATTTTTGGCCAAAAACACCTTTAATAATCCCCTC
*
17464715 CAAATTTTTAGA
195 CAATTTTTTAGA
17464727 TAGGCTTATT
Statistics
Matches: 423, Mismatches: 64, Indels: 27
0.82 0.12 0.05
Matches are distributed among these distances:
292 92 0.22
293 110 0.26
294 4 0.01
295 210 0.50
296 7 0.02
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (292 bp):
AAAACACCTTAAATAATCCCTTTCAGGCATTTATGAAGAGATTATTGAAGATATTTTTGCCAAAA
AATGCCTTGAATAATCCTTAACAAAATATTGAATGGAGTTATTAAAAGCGTTTCTGGCCAAAAAT
ACCTTGAATAAATCCTGGATTATTGAAGGTATTTTTGGCCAAAAACACCTTTAATAATCCCCTCC
AATTTTTTAGAAGAGATTATTCAAGGCATTTTCTGCCAAAAAAACCTTCAAAAATCTCCTCGTAT
TTTTTAGGGATCATTCAAGGTGTTTTAATGAT
Found at i:17469431 original size:24 final size:25
Alignment explanation
Indices: 17469378--17469431 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
17469368 TTATCATTTA
17469378 AAATTAATAAGTTACAAATTTTATT
1 AAATTAATAAGTTACAAATTTTATT
* * **
17469403 -TATTAATAA-TTATAGCTTTTATT
1 AAATTAATAAGTTACAAATTTTATT
17469426 AAATTA
1 AAATTA
17469432 TAGTTTTTGA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (25 bp):
AAATTAATAAGTTACAAATTTTATT
Found at i:17472661 original size:30 final size:30
Alignment explanation
Indices: 17472627--17472686 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
17472617 CTAGGACTTA
17472627 ACTTTTAAACCACTTGAAACATTAAGTATG
1 ACTTTTAAACCACTTGAAACATTAAGTATG
*
17472657 ACTTTTAAACCATTTGAAACATTAAGTATG
1 ACTTTTAAACCACTTGAAACATTAAGTATG
17472687 CGTTTGGTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (30 bp):
ACTTTTAAACCACTTGAAACATTAAGTATG
Found at i:17476906 original size:26 final size:25
Alignment explanation
Indices: 17476858--17476915 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
17476848 TATAAATATT
* *
17476858 TTTTAT-TAATTATTTAATCTTATG
1 TTTTATATATTTATTTAATCTTATA
17476882 TTTATATATATTTATTTAAGT-TTATA
1 TTT-TATATATTTATTTAA-TCTTATA
17476908 TTTTATAT
1 TTTTATAT
17476916 TTAAAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 3 0.10
25 8 0.28
26 17 0.59
27 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (25 bp):
TTTTATATATTTATTTAATCTTATA
Found at i:17476918 original size:19 final size:19
Alignment explanation
Indices: 17476881--17476936 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
17476871 TTAATCTTAT
17476881 GTTTATATATATT-TATTTAA
1 GTTTATAT-T-TTATATTTAA
17476901 GTTTATATTTTATATTTAA
1 GTTTATATTTTATATTTAA
** *
17476920 AATAATATTTTATATTT
1 GTTTATATTTTATATTT
17476937 TAAAAATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 2 0.06
19 22 0.69
20 8 0.25
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.61
Consensus pattern (19 bp):
GTTTATATTTTATATTTAA
Found at i:17476944 original size:21 final size:19
Alignment explanation
Indices: 17476905--17476953 Score: 80
Period size: 21 Copynumber: 2.5 Consensus size: 19
17476895 ATTTAAGTTT
17476905 ATATTTTATATTTAAAATA
1 ATATTTTATATTTAAAATA
17476924 ATATTTTATATTTTAAAAATA
1 ATATTTTATA-TTT-AAAATA
17476945 ATATTTTAT
1 ATATTTTAT
17476954 TAATTTCAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 10 0.36
20 3 0.11
21 15 0.54
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATATTTTATATTTAAAATA
Found at i:17478662 original size:21 final size:21
Alignment explanation
Indices: 17478637--17478677 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17478627 TAATGCTACA
* *
17478637 AGTCATTACTGTTGGTCATTG
1 AGTCATTACTCTTGCTCATTG
17478658 AGTCATTACTCTTGCTCATT
1 AGTCATTACTCTTGCTCATT
17478678 AAGTAGTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.44
Consensus pattern (21 bp):
AGTCATTACTCTTGCTCATTG
Found at i:17480265 original size:145 final size:146
Alignment explanation
Indices: 17480083--17480363 Score: 357
Period size: 146 Copynumber: 1.9 Consensus size: 146
17480073 TATTATGAAC
* * *
17480083 CATCTAACCACATAAAATCAACAAAAGCATAAAAGCTTCCAACCATGAAACCACAAATAAAACA-
1 CATCCAACCACATAAAATCAACAAAAGCATAAAAGCTTCAAACCATGAAACAACAAATAAAACAG
*** * * **
17480147 AAAAAAATTGTTTATATACAAATGTATGAAACCACGAATAAATGTTTATATATAAATGCATGAAA
66 AAAAAAATTGTTTATATACAAACACATGAAACCACGAATAAATATTTATATACAAACACATGAAA
17480212 CCACCATCTTCTCAAG
131 CCACCATCTTCTCAAG
* * * * ** *
17480228 CATCCAACCACATATAATTAGCAAATGCATAAAAGCTTCAAACCATGAAACAATGAATAAAATAG
1 CATCCAACCACATAAAATCAACAAAAGCATAAAAGCTTCAAACCATGAAACAACAAATAAAACAG
* ** * *
17480293 ACAAAAATTGTTTATATACTTACACATGAAATCACGAATAAATATTTATATACATACACATGAAA
66 AAAAAAATTGTTTATATACAAACACATGAAACCACGAATAAATATTTATATACAAACACATGAAA
17480358 CCACCA
131 CCACCA
17480364 ATATGTTCTC
Statistics
Matches: 113, Mismatches: 22, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
145 54 0.48
146 59 0.52
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.23
Consensus pattern (146 bp):
CATCCAACCACATAAAATCAACAAAAGCATAAAAGCTTCAAACCATGAAACAACAAATAAAACAG
AAAAAAATTGTTTATATACAAACACATGAAACCACGAATAAATATTTATATACAAACACATGAAA
CCACCATCTTCTCAAG
Found at i:17483096 original size:35 final size:33
Alignment explanation
Indices: 17483057--17483126 Score: 81
Period size: 35 Copynumber: 2.1 Consensus size: 33
17483047 TTATATAAAA
**
17483057 ATATA-AAATATT-TTTTAATTTTAAATTAATTAT
1 ATATATAAATATTATTAAAATTTTAAATT-A-TAT
*
17483090 ATATATAATTATTATTAAAATTTTAAATTATAT
1 ATATATAAATATTATTAAAATTTTAAATTATAT
17483123 ATAT
1 ATAT
17483127 TTTTATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 12 0.38
34 7 0.22
35 13 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (33 bp):
ATATATAAATATTATTAAAATTTTAAATTATAT
Found at i:17486619 original size:6 final size:6
Alignment explanation
Indices: 17486608--17486653 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
17486598 CTAATCAAAT
* * *
17486608 TCCACC TCCACC TCCTCC TCCACC TCCACC ACCACC TCCGCC TCCA
1 TCCACC TCCACC TCCACC TCCACC TCCACC TCCACC TCCACC TCCA
17486654 AAGTTTTCAG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.15, C:0.65, G:0.02, T:0.17
Consensus pattern (6 bp):
TCCACC
Found at i:17489644 original size:19 final size:20
Alignment explanation
Indices: 17489613--17489657 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
17489603 TCTCAGCCAC
* *
17489613 AGGC-AAAGGCAGAGGCAG-
1 AGGCAAAAGACAGAGACAGT
17489631 AGGCAAAAGACAGAGACAGT
1 AGGCAAAAGACAGAGACAGT
17489651 AGGCAAA
1 AGGCAAA
17489658 CAAAATTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 12 0.52
20 7 0.30
ACGTcount: A:0.47, C:0.16, G:0.36, T:0.02
Consensus pattern (20 bp):
AGGCAAAAGACAGAGACAGT
Found at i:17490685 original size:16 final size:17
Alignment explanation
Indices: 17490655--17490689 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
17490645 AATGTAAGCA
*
17490655 AATTATATATTTTTATT
1 AATTATATATATTTATT
17490672 AATT-TATATATTTATT
1 AATTATATATATTTATT
17490688 AA
1 AA
17490690 ATTTTTTAAA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
AATTATATATATTTATT
Found at i:17490750 original size:21 final size:20
Alignment explanation
Indices: 17490724--17490770 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 20
17490714 TATTATAGTT
17490724 AAATTT-ATTTAAATATATAAA
1 AAATTTAATTTAAAT-T-TAAA
17490745 AAATTTAAATTTAAATTTAAA
1 AAATTT-AATTTAAATTTAAA
17490766 AAATT
1 AAATT
17490771 AATAAACTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 15 0.62
22 1 0.04
23 8 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AAATTTAATTTAAATTTAAA
Found at i:17491926 original size:25 final size:24
Alignment explanation
Indices: 17491876--17491941 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
17491866 AAAATAAAAA
*
17491876 AAATTAT-ATTTATATATTTATAT
1 AAATTATAATATATATATTTATAT
*
17491899 AAATTATAATATATAATTTTTATAT
1 AAATTATAATATAT-ATATTTATAT
* *
17491924 AAAATATAATATAAATAT
1 AAATTATAATATATATAT
17491942 ATGAATAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
23 7 0.19
24 8 0.22
25 21 0.58
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AAATTATAATATATATATTTATAT
Found at i:17493245 original size:6 final size:6
Alignment explanation
Indices: 17493234--17493258 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
17493224 GCAAGGTGGC
17493234 TCAGGT TCAGGT TCAGGT TCAGGT T
1 TCAGGT TCAGGT TCAGGT TCAGGT T
17493259 GAGTCAAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.32, T:0.36
Consensus pattern (6 bp):
TCAGGT
Found at i:17496469 original size:12 final size:12
Alignment explanation
Indices: 17496452--17496478 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17496442 GACCCTGCAC
17496452 CAATCAATGATT
1 CAATCAATGATT
17496464 CAATCAATGATT
1 CAATCAATGATT
17496476 CAA
1 CAA
17496479 CTATTTGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (12 bp):
CAATCAATGATT
Found at i:17502559 original size:31 final size:29
Alignment explanation
Indices: 17502524--17502591 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
17502514 AAAAAAACAA
* *
17502524 ATTTTAGTTAGTTAACTTTTAAGAAATTTAT
1 ATTTTAGTTACTCAA-TTTTAA-AAATTTAT
*
17502555 ATTTTATTTACTCAATTTTAAAAATTTAT
1 ATTTTAGTTACTCAATTTTAAAAATTTAT
*
17502584 AATTTAGT
1 ATTTTAGT
17502592 CAATAACAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 14 0.44
30 6 0.19
31 12 0.38
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (29 bp):
ATTTTAGTTACTCAATTTTAAAAATTTAT
Found at i:17502952 original size:22 final size:22
Alignment explanation
Indices: 17502927--17502995 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
17502917 AGATTCAAGT
*
17502927 GTTAGGGTTTAAGTGGTTTAAG
1 GTTAGGGTTTAAGTGGTTTAAA
* *
17502949 GTTAGGATATAAGTGGTTTAAA
1 GTTAGGGTTTAAGTGGTTTAAA
* * * *
17502971 GTTAGAGTTTAGGTAGATTAAA
1 GTTAGGGTTTAAGTGGTTTAAA
17502993 GTT
1 GTT
17502996 TCGATTTTAG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.39
Consensus pattern (22 bp):
GTTAGGGTTTAAGTGGTTTAAA
Found at i:17503055 original size:18 final size:19
Alignment explanation
Indices: 17503032--17503068 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
17503022 TCTTACTAGG
*
17503032 TTTTGGTTA-GGTTAGGGT
1 TTTTGGATAGGGTTAGGGT
17503050 TTTTGGATAGGGTTAGGGT
1 TTTTGGATAGGGTTAGGGT
17503069 ATATCTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.14, C:0.00, G:0.41, T:0.46
Consensus pattern (19 bp):
TTTTGGATAGGGTTAGGGT
Found at i:17504077 original size:178 final size:177
Alignment explanation
Indices: 17503765--17504132 Score: 619
Period size: 178 Copynumber: 2.1 Consensus size: 177
17503755 TCTTGAAAAA
17503765 TTAAGTGACTAAAATTTATTTATTTTTAAAGTTTTATAATGCCACAATAACAATGTCATGTGGCT
1 TTAAGTGACTAAAATTTATTTATTTTTAAAGTTTTATAATGCCACAATAACAATGTCATGTGGCT
* * *
17503830 TGTCAAATGAGGTGGCGGTGCCATGTGGCACCTGAAACTAATGTGCTAGTGCCACGTCAGCATAC
66 TGTCAAATGAGGTGGCAGTGCCATGTGGCACCTGAAACTAATGTGCTAGTGCCACATCAGCACAC
* *
17503895 TGTTAGTCATTAACGGTTGAGTGACCCAAAATTTAACGGATTCAAAC
131 TGTTAGTCATTAACAGTTGAGTGACCCAAAATTTAACGAATTCAAAC
* * * *
17503942 TTAAGTGATTAAAATTTATTTATTTTTTAAAGTTTTATAATGCCACATTAGCAATGTTATGTGGC
1 TTAAGTGACTAAAATTTATTTA-TTTTTAAAGTTTTATAATGCCACAATAACAATGTCATGTGGC
*
17504007 TTGTCAAATGAGGTGGCAGTGCCATGTGGCACCTGAAACTAATGTGGTAGTGCCACATCAGCACA
65 TTGTCAAATGAGGTGGCAGTGCCATGTGGCACCTGAAACTAATGTGCTAGTGCCACATCAGCACA
*
17504072 CTGTTAGTCATTAATAGTTGAGTGACCCAAAATTTAACGAATTCAAAC
130 CTGTTAGTCATTAACAGTTGAGTGACCCAAAATTTAACGAATTCAAAC
*
17504120 TTAAGTAACTAAA
1 TTAAGTGACTAAA
17504133 TTGAAAAAAT
Statistics
Matches: 177, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
177 21 0.12
178 156 0.88
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (177 bp):
TTAAGTGACTAAAATTTATTTATTTTTAAAGTTTTATAATGCCACAATAACAATGTCATGTGGCT
TGTCAAATGAGGTGGCAGTGCCATGTGGCACCTGAAACTAATGTGCTAGTGCCACATCAGCACAC
TGTTAGTCATTAACAGTTGAGTGACCCAAAATTTAACGAATTCAAAC
Found at i:17505235 original size:49 final size:48
Alignment explanation
Indices: 17505177--17505275 Score: 119
Period size: 48 Copynumber: 2.0 Consensus size: 48
17505167 TTTTTTTCAT
* *
17505177 TTTATTTTTCAATTGCATTTTTATTTATTTTATTTTTATATATTTTCTTA
1 TTTATTTTTCAATTGCA-TTTTACTTATTTTATTTTT-TAGATTTTCTTA
* * * *
17505227 TTTA-TTTTCTATTTCATTTTACTTGTTTTATTTTTTAGATTTTTTTA
1 TTTATTTTTCAATTGCATTTTACTTATTTTATTTTTTAGATTTTCTTA
17505274 TT
1 TT
17505276 CTACTTATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
47 12 0.28
48 17 0.40
49 10 0.23
50 4 0.09
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.72
Consensus pattern (48 bp):
TTTATTTTTCAATTGCATTTTACTTATTTTATTTTTTAGATTTTCTTA
Found at i:17506272 original size:20 final size:20
Alignment explanation
Indices: 17506240--17506282 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
17506230 TTTATTTAGC
*
17506240 TATTTAGTTATTCATTT-CA
1 TATTTAGTCATTCATTTGCA
17506259 TATTTATGTCATTCATTTGCA
1 TATTTA-GTCATTCATTTGCA
17506280 TAT
1 TAT
17506283 GCATAACATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 10 0.48
21 5 0.24
ACGTcount: A:0.26, C:0.12, G:0.07, T:0.56
Consensus pattern (20 bp):
TATTTAGTCATTCATTTGCA
Found at i:17515273 original size:30 final size:30
Alignment explanation
Indices: 17515237--17515293 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
17515227 CGAAATTAAT
* *
17515237 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATTATTATATAAATATAAATATTTA
*
17515267 AAAATATTATTATATAAATATATATAT
1 AAAATATTATTATATAAATATAAATAT
17515294 AAATAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
AAAATATTATTATATAAATATAAATATTTA
Found at i:17517387 original size:64 final size:65
Alignment explanation
Indices: 17517319--17517471 Score: 184
Period size: 65 Copynumber: 2.4 Consensus size: 65
17517309 TTCAATCTAT
* * * *
17517319 ATCATTTTATTTTTTTGACTCATGGTTCAAT-TT-GATCACTTGTTTTGAAAGCGGCTTAGTTCA
1 ATCATTTTATTTTTTTGACTCATGGTTCAATCTTAG-TCACCTGTTTTGAAAGCGACTCAGTCCA
17517382 A
65 A
** *** *
17517383 ATCATTTTATTTTTTTGACTTGTGGTTCAATCTTAGTCACCTGTTTTGATCTCGACTCAGTCCAG
1 ATCATTTTATTTTTTTGACTCATGGTTCAATCTTAGTCACCTGTTTTGAAAGCGACTCAGTCCAA
*
17517448 ATCATTTTACTTTTTTGACTCATG
1 ATCATTTTATTTTTTTGACTCATG
17517472 ATTTAATCCC
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
64 29 0.39
65 44 0.59
66 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (65 bp):
ATCATTTTATTTTTTTGACTCATGGTTCAATCTTAGTCACCTGTTTTGAAAGCGACTCAGTCCAA
Found at i:17517455 original size:65 final size:65
Alignment explanation
Indices: 17517289--17517586 Score: 239
Period size: 64 Copynumber: 4.6 Consensus size: 65
17517279 CTTAATCCCA
* ** * * * *
17517289 ATCACCTGTTTTGATCTTGGTTCAATCTATATCATTTTATTTTTTTGACTCATGGTTCAAT-TTG
1 ATCACCTGTTTTGATCTCGACTCAGTCTAAATCATTTTATTTTTTTGACTCATGATTCAATCTCG
* *** * * ** *
17517353 ATCACTTGTTTTGAAAGCGGCTTAGT-TCAAATCATTTTATTTTTTTGACTTGTGGTTCAATCT-
1 ATCACCTGTTTTGATCTCGACTCAGTCT-AAATCATTTTATTTTTTTGACTCATGATTCAATCTC
*
17517416 T
65 G
* * * * *
17517417 AGTCACCTGTTTTGATCTCGACTCAGTCCAGATCATTTTACTTTTTTGACTCATGATTTAATCCC
1 A-TCACCTGTTTTGATCTCGACTCAGTCTAAATCATTTTATTTTTTTGACTCATGATTCAATCTC
17517482 G
65 G
* * * * * * * ***
17517483 ATCACATG-TTTGATCTCTACTTAGTCTAGATCATTTTACTTTTCTAACTTGCGATTCAATCTCG
1 ATCACCTGTTTTGATCTCGACTCAGTCTAAATCATTTTATTTTTTTGACTCATGATTCAATCTCG
*
17517547 ATCACCTG-TTTGATCTCGACT-TGTCTAAATCATTTTATTT
1 ATCACCTGTTTTGATCTCGACTCAGTCTAAATCATTTTATTT
17517587 CTTGTTTCGT
Statistics
Matches: 186, Mismatches: 43, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
63 17 0.09
64 114 0.61
65 54 0.29
66 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.13, T:0.46
Consensus pattern (65 bp):
ATCACCTGTTTTGATCTCGACTCAGTCTAAATCATTTTATTTTTTTGACTCATGATTCAATCTCG
Found at i:17517884 original size:3 final size:3
Alignment explanation
Indices: 17517876--17517933 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
17517866 TTGTATTTAC
17517876 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17517924 TAT TAT TAT T
1 TAT TAT TAT T
17517934 TATTTTCAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:17518754 original size:23 final size:24
Alignment explanation
Indices: 17518720--17518785 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 24
17518710 TTAATTAAAT
*
17518720 TTTTAATTATTTTATTTTTATAT-A
1 TTTTACTTATTTT-TTTTTATATCA
*
17518744 TTTT-CTTATTTATTTTTTTATTTCA
1 TTTTACTTA-TT-TTTTTTTATATCA
17518769 TTTTACTTATTTTTTTT
1 TTTTACTTATTTTTTTT
17518786 GGATTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
23 3 0.08
24 20 0.56
25 9 0.25
26 4 0.11
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTACTTATTTTTTTTTATATCA
Found at i:17518757 original size:12 final size:12
Alignment explanation
Indices: 17518737--17518784 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
17518727 TATTTTATTT
*
17518737 TTATATATTTTC
1 TTATTTATTTTC
*
17518749 TTATTTATTTTT
1 TTATTTATTTTC
17518761 TTATTTCATTTTAC
1 TTATTT-ATTTT-C
17518775 TTATTT-TTTT
1 TTATTTATTTT
17518785 TGGATTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 20 0.65
13 5 0.16
14 6 0.19
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (12 bp):
TTATTTATTTTC
Found at i:17518791 original size:25 final size:25
Alignment explanation
Indices: 17518743--17518791 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
17518733 ATTTTTATAT
**
17518743 ATTTTCTTATTTATTTTTTTATTTC
1 ATTTTCTTATTTATTTTTGGATTTC
17518768 ATTTTACTTATTT-TTTTTGGATTT
1 ATTTT-CTTATTTATTTTTGGATTT
17518792 TTTTATTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.73
Consensus pattern (25 bp):
ATTTTCTTATTTATTTTTGGATTTC
Found at i:17522530 original size:46 final size:46
Alignment explanation
Indices: 17522469--17522560 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 46
17522459 AAAAATATTT
* *
17522469 TAAAAAAAATGTTTGAAGAAAAA-TTAAAGTATCAATTTTTCTAAAA
1 TAAAAAAAATATTTG-AGAAAAAGTCAAAGTATCAATTTTTCTAAAA
* * * *
17522515 TAAAGAAAATATTTGAGAAAAAGTCGAGGTATCAATTTTTTTAAAA
1 TAAAAAAAATATTTGAGAAAAAGTCAAAGTATCAATTTTTCTAAAA
17522561 AAATATTTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 7 0.18
46 32 0.82
ACGTcount: A:0.51, C:0.04, G:0.12, T:0.33
Consensus pattern (46 bp):
TAAAAAAAATATTTGAGAAAAAGTCAAAGTATCAATTTTTCTAAAA
Found at i:17522536 original size:60 final size:60
Alignment explanation
Indices: 17522420--17522536 Score: 155
Period size: 60 Copynumber: 1.9 Consensus size: 60
17522410 CTAAAATTTT
* * * * *
17522420 TTTGAGAAAAAGTTGAAGTATCATTTTTTTTTAAATAAAAAAAATATTTTAAAAAAAATG
1 TTTGAGAAAAAGTTAAAGTATCAATTTTTCTAAAATAAAAAAAATATTTGAAAAAAAATG
* *
17522480 TTTGAAGAAAAA-TTAAAGTATCAATTTTTCTAAAATAAAGAAAATATTTGAGAAAAA
1 TTTG-AGAAAAAGTTAAAGTATCAATTTTTCTAAAATAAAAAAAATATTTGAAAAAAA
17522537 GTCGAGGTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
60 42 0.86
61 7 0.14
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.35
Consensus pattern (60 bp):
TTTGAGAAAAAGTTAAAGTATCAATTTTTCTAAAATAAAAAAAATATTTGAAAAAAAATG
Found at i:17522624 original size:23 final size:24
Alignment explanation
Indices: 17522598--17522642 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
17522588 AGTTTAACTT
17522598 ATTAATTTTTCCTT-AAATAAAGC
1 ATTAATTTTTCCTTAAAATAAAGC
*
17522621 ATTAATTTTTTCTTAAAATAAA
1 ATTAATTTTTCCTTAAAATAAA
17522643 ATAAAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (24 bp):
ATTAATTTTTCCTTAAAATAAAGC
Found at i:17525756 original size:18 final size:17
Alignment explanation
Indices: 17525724--17525757 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
17525714 AAACCACTAC
17525724 TTTATACTTTATTATTT
1 TTTATACTTTATTATTT
*
17525741 TTTATATCTTTTTTATT
1 TTTATA-CTTTATTATT
17525758 CTCATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTATACTTTATTATTT
Found at i:17526638 original size:18 final size:16
Alignment explanation
Indices: 17526591--17526672 Score: 114
Period size: 18 Copynumber: 5.0 Consensus size: 16
17526581 ATAGATTAAG
17526591 TGAAAAAATG-AAAAA
1 TGAAAAAATGAAAAAA
17526606 TGAAAAAAT-AAAAAA
1 TGAAAAAATGAAAAAA
17526621 TGAAAAAATGAAAAAAAA
1 TGAAAAAATG--AAAAAA
17526639 TGAAAAAATGAAAAAA
1 TGAAAAAATGAAAAAA
17526655 TGAAAAAAAGTGAAAAAA
1 TG-AAAAAA-TGAAAAAA
17526673 AATGCAAAAT
Statistics
Matches: 61, Mismatches: 0, Indels: 9
0.87 0.00 0.13
Matches are distributed among these distances:
15 23 0.38
16 8 0.13
17 6 0.10
18 24 0.39
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
TGAAAAAATGAAAAAA
Found at i:17526644 original size:26 final size:25
Alignment explanation
Indices: 17526593--17526681 Score: 96
Period size: 26 Copynumber: 3.5 Consensus size: 25
17526583 AGATTAAGTG
17526593 AAAAAATG-AAAAATGAAAAAAT--
1 AAAAAATGAAAAAATGAAAAAATAA
17526615 AAAAAATGAAAAAATGAAAAAA-AA
1 AAAAAATGAAAAAATGAAAAAATAA
17526639 TGAAAAAATGAAAAAATGAAAAAAAGTGAA
1 --AAAAAATGAAAAAATG-AAAAAA-T-AA
*
17526669 AAAAAATGCAAAA
1 AAAAAATGAAAAA
17526682 TGTTTGAATA
Statistics
Matches: 57, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
22 8 0.14
23 13 0.23
26 16 0.28
27 6 0.11
28 12 0.21
30 2 0.04
ACGTcount: A:0.76, C:0.01, G:0.11, T:0.11
Consensus pattern (25 bp):
AAAAAATGAAAAAATGAAAAAATAA
Found at i:17526670 original size:16 final size:16
Alignment explanation
Indices: 17526592--17526673 Score: 87
Period size: 15 Copynumber: 5.0 Consensus size: 16
17526582 TAGATTAAGT
*
17526592 GAAAAAATG-AAAAAT
1 GAAAAAATGAAAAAAA
*
17526607 GAAAAAAT-AAAAAAT
1 GAAAAAATGAAAAAAA
17526622 GAAAAAATGAAAAAAAA
1 GAAAAAATG-AAAAAAA
*
17526639 TGAAAAAATGAAAAAAT
1 -GAAAAAATGAAAAAAA
17526656 GAAAAAAAGTGAAAAAAA
1 G-AAAAAA-TGAAAAAAA
17526674 ATGCAAAATG
Statistics
Matches: 58, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
15 22 0.38
16 1 0.02
17 18 0.31
18 17 0.29
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.11
Consensus pattern (16 bp):
GAAAAAATGAAAAAAA
Found at i:17526681 original size:8 final size:8
Alignment explanation
Indices: 17526591--17526672 Score: 114
Period size: 8 Copynumber: 10.0 Consensus size: 8
17526581 ATAGATTAAG
17526591 TGAAAAAA
1 TGAAAAAA
17526599 TG-AAAAA
1 TGAAAAAA
17526606 TGAAAAAA
1 TGAAAAAA
17526614 T-AAAAAA
1 TGAAAAAA
17526621 TGAAAAAA
1 TGAAAAAA
17526629 TGAAAAAAAA
1 TG--AAAAAA
17526639 TGAAAAAA
1 TGAAAAAA
17526647 TGAAAAAA
1 TGAAAAAA
17526655 TGAAAAAAA
1 TG-AAAAAA
17526664 GTGAAAAAA
1 -TGAAAAAA
17526673 AATGCAAAAT
Statistics
Matches: 68, Mismatches: 0, Indels: 11
0.86 0.00 0.14
Matches are distributed among these distances:
7 14 0.21
8 32 0.47
9 12 0.18
10 10 0.15
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
TGAAAAAA
Found at i:17526681 original size:18 final size:18
Alignment explanation
Indices: 17526601--17526681 Score: 100
Period size: 18 Copynumber: 4.6 Consensus size: 18
17526591 TGAAAAAATG
17526601 AAAAATGAAAAAAT---A
1 AAAAATGAAAAAATGAAA
17526616 AAAAATGAAAAAATGAAA
1 AAAAATGAAAAAATGAAA
17526634 AAAAATGAAAAAATG--A
1 AAAAATGAAAAAATGAAA
17526650 AAAAATGAAAAAAAGTGAAA
1 AAAAATG-AAAAAA-TGAAA
17526670 AAAAATGCAAAA
1 AAAAATG-AAAA
17526682 TGTTTGAATA
Statistics
Matches: 58, Mismatches: 1, Indels: 9
0.85 0.01 0.13
Matches are distributed among these distances:
15 14 0.24
16 8 0.14
17 6 0.10
18 18 0.31
20 12 0.21
ACGTcount: A:0.77, C:0.01, G:0.11, T:0.11
Consensus pattern (18 bp):
AAAAATGAAAAAATGAAA
Found at i:17527647 original size:46 final size:45
Alignment explanation
Indices: 17527585--17527690 Score: 113
Period size: 45 Copynumber: 2.3 Consensus size: 45
17527575 GCATAATCTT
* * * * *
17527585 TAAAATTTTTTAAATAAGAATCTTTGAAATATTGGATGTGAATCTC
1 TAAAATATTTTGAATAAGAATATTTGAAAT-TTGAATGTGAATCAC
* * * *
17527631 TAAAGTATTTTGAATAAGGATATTTGGAATTTTAATGTGAATCAC
1 TAAAATATTTTGAATAAGAATATTTGAAATTTGAATGTGAATCAC
*
17527676 TAAAATTTTTTGAAT
1 TAAAATATTTTGAAT
17527691 CTTTGCATTT
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
45 25 0.51
46 24 0.49
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.42
Consensus pattern (45 bp):
TAAAATATTTTGAATAAGAATATTTGAAATTTGAATGTGAATCAC
Found at i:17527950 original size:17 final size:17
Alignment explanation
Indices: 17527872--17528036 Score: 102
Period size: 17 Copynumber: 9.7 Consensus size: 17
17527862 TTCTAAAAGT
* *
17527872 TCTTGCAAAGTTGAAAT
1 TCTTGCAAATTTGAAAA
* *
17527889 TCTTACTAATTTGAAAA
1 TCTTGCAAATTTGAAAA
* * *
17527906 CTCTTGTGAAA-CTGAAAT
1 -TCTTG-CAAATTTGAAAA
**
17527924 TCTTATAAATTTGAAAA
1 TCTTGCAAATTTGAAAA
* *
17527941 TCTTGCAAATCTGTAAA
1 TCTTGCAAATTTGAAAA
* *
17527958 TCTTGTAAATCT-AAAA
1 TCTTGCAAATTTGAAAA
* * *
17527974 TCTTGCTAATAT-ATAAT
1 TCTTGCAAATTTGA-AAA
* *
17527991 TCTTGCAAATATAAAAA
1 TCTTGCAAATTTGAAAA
**
17528008 TCTTGCAAATTTGTGAA
1 TCTTGCAAATTTGAAAA
17528025 TCTTGCAAATTT
1 TCTTGCAAATTT
17528037 AAGTTCTTGC
Statistics
Matches: 114, Mismatches: 29, Indels: 10
0.75 0.19 0.07
Matches are distributed among these distances:
16 16 0.14
17 86 0.75
18 10 0.09
19 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (17 bp):
TCTTGCAAATTTGAAAA
Found at i:17527952 original size:9 final size:9
Alignment explanation
Indices: 17527924--17527969 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
17527914 AAACTGAAAT
*
17527924 TCTTATAAA
1 TCTTGTAAA
*
17527933 T-TTGAAAA
1 TCTTGTAAA
*
17527941 TCTTGCAAA
1 TCTTGTAAA
17527950 TC-TGTAAA
1 TCTTGTAAA
17527958 TCTTGTAAA
1 TCTTGTAAA
17527967 TCT
1 TCT
17527970 AAAATCTTGC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
8 13 0.42
9 18 0.58
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (9 bp):
TCTTGTAAA
Found at i:17527967 original size:34 final size:34
Alignment explanation
Indices: 17527896--17528036 Score: 117
Period size: 34 Copynumber: 4.1 Consensus size: 34
17527886 AATTCTTACT
* **
17527896 AATTTGAAAACTCTTGTGAAA-CTG-AAATTCTTATA
1 AATTTGAAAA-TCTTG-CAAATCTGTAAA-TCTTGCA
*
17527931 AATTTGAAAATCTTGCAAATCTGTAAATCTTGTA
1 AATTTGAAAATCTTGCAAATCTGTAAATCTTGCA
* * * * *
17527965 AATCT-AAAATCTTGCTAATATATAATTCTTGCA
1 AATTTGAAAATCTTGCAAATCTGTAAATCTTGCA
* * * *
17527998 AATATAAAAATCTTGCAAATTTGTGAATCTTGCA
1 AATTTGAAAATCTTGCAAATCTGTAAATCTTGCA
17528032 AATTT
1 AATTT
17528037 AAGTTCTTGC
Statistics
Matches: 88, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
33 30 0.34
34 45 0.51
35 13 0.15
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (34 bp):
AATTTGAAAATCTTGCAAATCTGTAAATCTTGCA
Found at i:17527979 original size:33 final size:33
Alignment explanation
Indices: 17527937--17528057 Score: 116
Period size: 33 Copynumber: 3.6 Consensus size: 33
17527927 TATAAATTTG
* *
17527937 AAAATCTTGCAAATCTGTAAATCTTGTAAATCT
1 AAAATCTTGCAAATCTGTAAATCTTGCAAATAT
* * * *
17527970 AAAATCTTGCTAATATATAATTCTTGCAAATAT
1 AAAATCTTGCAAATCTGTAAATCTTGCAAATAT
* * *
17528003 AAAAATCTTGCAAATTTGTGAATCTTGCAAATTT
1 -AAAATCTTGCAAATCTGTAAATCTTGCAAATAT
** * *
17528037 AAGTTCTTGCGAATCTTTAAA
1 AAAATCTTGCAAATCTGTAAA
17528058 AAAAATCTTA
Statistics
Matches: 69, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
33 42 0.61
34 27 0.39
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (33 bp):
AAAATCTTGCAAATCTGTAAATCTTGCAAATAT
Done.