Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 87 of 93
Found at i:33859073 original size:35 final size:35
Alignment explanation
Indices: 33859034--33859104 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
33859024 ACTGCATGTT
33859034 ATTCCTTTTATAACAATCTCCATTGCCTCGGAATC
1 ATTCCTTTTATAACAATCTCCATTGCCTCGGAATC
*
33859069 ATTCCTTTTGTAACAATCTCCATTGCCTCGGAATC
1 ATTCCTTTTATAACAATCTCCATTGCCTCGGAATC
33859104 A
1 A
33859105 GTAGTCGCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.25, C:0.28, G:0.10, T:0.37
Consensus pattern (35 bp):
ATTCCTTTTATAACAATCTCCATTGCCTCGGAATC
Found at i:33859274 original size:22 final size:22
Alignment explanation
Indices: 33859244--33859290 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
33859234 TTTAAGAATT
* *
33859244 AAATAAATTAAATATTTTTAAA
1 AAATAAATTAAATAATTATAAA
* *
33859266 AAATTAATTAATTAATTATAAA
1 AAATAAATTAAATAATTATAAA
33859288 AAA
1 AAA
33859291 AATCAAATTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AAATAAATTAAATAATTATAAA
Found at i:33859299 original size:25 final size:24
Alignment explanation
Indices: 33859263--33859313 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
33859253 AAATATTTTT
* *
33859263 AAAAAATTAATTAATTAATTATAA
1 AAAAAATAAATTAATTAAATATAA
*
33859287 AAAAAATCAAATTGATTAAATATAA
1 AAAAAAT-AAATTAATTAAATATAA
33859312 AA
1 AA
33859314 TTAATTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (24 bp):
AAAAAATAAATTAATTAAATATAA
Found at i:33859658 original size:23 final size:23
Alignment explanation
Indices: 33859636--33859683 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
33859626 TAATCATATA
*
33859636 AATAAAATTTAT-TATAAATTAT
1 AATAAAACTTATATATAAATTAT
*
33859658 AATAATACTTATATATAAATTA-
1 AATAAAACTTATATATAAATTAT
33859680 AATA
1 AATA
33859684 CATGTACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
AATAAAACTTATATATAAATTAT
Found at i:33880030 original size:34 final size:34
Alignment explanation
Indices: 33879992--33880092 Score: 202
Period size: 34 Copynumber: 3.0 Consensus size: 34
33879982 TTATATGATA
33879992 TATGACAATGGAAACTATTCTCATTGCTTTATTT
1 TATGACAATGGAAACTATTCTCATTGCTTTATTT
33880026 TATGACAATGGAAACTATTCTCATTGCTTTATTT
1 TATGACAATGGAAACTATTCTCATTGCTTTATTT
33880060 TATGACAATGGAAACTATTCTCATTGCTTTATT
1 TATGACAATGGAAACTATTCTCATTGCTTTATT
33880093 AGTCTATCTT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 67 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.44
Consensus pattern (34 bp):
TATGACAATGGAAACTATTCTCATTGCTTTATTT
Found at i:33885913 original size:2 final size:2
Alignment explanation
Indices: 33885897--33885991 Score: 82
Period size: 2 Copynumber: 51.0 Consensus size: 2
33885887 CTACAACTAG
33885897 GA GA -A GA GA -A GA GA GA GA GA GA GA GA GA GA G- GA GA GA -A
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * *
33885935 GA GA GTA CGG GN TA G- GA GA -A GA GA -A GA GA GA GA GA GA GA GA
1 GA GA G-A -GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
33885976 GA GA G- GA GA GA -A GA GA
1 GA GA GA GA GA GA GA GA GA
33885992 TAGGACGGGT
Statistics
Matches: 77, Mismatches: 5, Indels: 22
0.74 0.05 0.21
Matches are distributed among these distances:
1 9 0.12
2 66 0.86
3 1 0.01
4 1 0.01
ACGTcount: A:0.48, C:0.01, G:0.47, T:0.02
Consensus pattern (2 bp):
GA
Found at i:33886000 original size:55 final size:52
Alignment explanation
Indices: 33885894--33886002 Score: 182
Period size: 53 Copynumber: 2.0 Consensus size: 52
33885884 CTACTACAAC
*
33885894 TAGGAGAAGAGAAGAGAGAGAGAGAGAGAGAGAGGAGAGAAGAGAGTACGGG
1 TAGGAGAAGAGAAGAGAGAGAGAGAGAGAGAGAGGAGAGAAGAGAGGACGGG
33885946 NTAGGAGAAGAGAAGAGAGAGAGAGAGAGAGAGAGGAGAGAAGAGATAGGACGGG
1 -TAGGAGAAGAGAAGAGAGAGAGAGAGAGAGAGAGGAGAGAAGAG--AGGACGGG
33886001 TA
1 TA
33886003 CCTCGAAGAA
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
53 44 0.83
54 2 0.04
55 7 0.13
ACGTcount: A:0.46, C:0.02, G:0.47, T:0.05
Consensus pattern (52 bp):
TAGGAGAAGAGAAGAGAGAGAGAGAGAGAGAGAGGAGAGAAGAGAGGACGGG
Found at i:33892759 original size:2 final size:2
Alignment explanation
Indices: 33892752--33892777 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33892742 TCTTCAAATA
33892752 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
33892778 GTAAGTACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33903963 original size:11 final size:11
Alignment explanation
Indices: 33903947--33903975 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
33903937 TAAGTTTTTA
33903947 TAATTAATAAT
1 TAATTAATAAT
33903958 TAATTAATAAT
1 TAATTAATAAT
33903969 T-ATTAAT
1 TAATTAAT
33903976 TAAAATATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TAATTAATAAT
Found at i:33904187 original size:14 final size:15
Alignment explanation
Indices: 33904158--33904210 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 15
33904148 ATAATTAATT
33904158 AAAAATTTAATTATAA
1 AAAAATTTAA-TATAA
33904174 AAAAATTTAA-ATAA
1 AAAAATTTAATATAA
*
33904188 AAATAA--AAATATAA
1 AAA-AATTTAATATAA
33904202 AAAAATTTA
1 AAAAATTTA
33904211 GTTAAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
13 4 0.13
14 14 0.45
15 3 0.10
16 10 0.32
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAAATTTAATATAA
Found at i:33904188 original size:28 final size:28
Alignment explanation
Indices: 33904169--33904241 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 28
33904159 AAAATTTAAT
33904169 TATAAAAAAATTTAAATAAAAATAAAAA
1 TATAAAAAAATTTAAATAAAAATAAAAA
**
33904197 TATAAAAAAATTTAGTTAAATATATAATAAA
1 TATAAAAAAATTTAAATAAA-A-ATAA-AAA
33904228 -ATAATAAAAATTTA
1 TATAA-AAAAATTTA
33904242 TTTAACAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
28 18 0.46
29 1 0.03
30 8 0.21
31 12 0.31
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (28 bp):
TATAAAAAAATTTAAATAAAAATAAAAA
Found at i:33914193 original size:13 final size:12
Alignment explanation
Indices: 33914175--33914234 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
33914165 ATATTAAAAA
33914175 ATATCATATGATC
1 ATATCATAT-ATC
*
33914188 ATATCATCATACC
1 ATATCAT-ATATC
*
33914201 ATATCAGCATATC
1 ATATCA-TATATC
33914214 ATATCAT-TATC
1 ATATCATATATC
*
33914225 TATATAATAT
1 -ATATCATAT
33914235 GTTAGTATAC
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
11 4 0.11
12 6 0.16
13 26 0.68
14 2 0.05
ACGTcount: A:0.40, C:0.18, G:0.03, T:0.38
Consensus pattern (12 bp):
ATATCATATATC
Found at i:33914347 original size:25 final size:25
Alignment explanation
Indices: 33914292--33914348 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
33914282 TTTTAATTAA
33914292 TTTATTTAATTAAAAATAAAAATAT
1 TTTATTTAATTAAAAATAAAAATAT
** *
33914317 AATATTTAATTAAAGATAATAAA-AT
1 TTTATTTAATTAAAAATAA-AAATAT
33914342 TTTATTT
1 TTTATTT
33914349 TAATATTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 23 0.88
26 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TTTATTTAATTAAAAATAAAAATAT
Found at i:33946790 original size:21 final size:21
Alignment explanation
Indices: 33946766--33946805 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
33946756 TCATTCGTAG
*
33946766 TATTGTTTT-TATCTTATTTTT
1 TATT-TTTTGTATATTATTTTT
33946787 TATTTTTTGTATATTATTT
1 TATTTTTTGTATATTATTT
33946806 GTCATACTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.75
Consensus pattern (21 bp):
TATTTTTTGTATATTATTTTT
Found at i:33947704 original size:12 final size:13
Alignment explanation
Indices: 33947677--33947709 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
33947667 TGTAAATTAA
33947677 AAATAAAAACAAAT
1 AAAT-AAAACAAAT
33947691 AAATAAAA-AAAT
1 AAATAAAACAAAT
33947703 AAATAAA
1 AAATAAA
33947710 CCATTTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 4 0.21
14 4 0.21
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (13 bp):
AAATAAAACAAAT
Found at i:33949817 original size:23 final size:23
Alignment explanation
Indices: 33949789--33949834 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
33949779 TGAGCAACAT
33949789 GATAGATTTTTGGTTGGAGGACC
1 GATAGATTTTTGGTTGGAGGACC
33949812 GATAGATTTTTGGTTGGAGGACC
1 GATAGATTTTTGGTTGGAGGACC
33949835 ACACGCGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.09, G:0.35, T:0.35
Consensus pattern (23 bp):
GATAGATTTTTGGTTGGAGGACC
Found at i:33966651 original size:10 final size:10
Alignment explanation
Indices: 33966623--33966652 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
33966613 AACGTTTTAT
33966623 AAAAAAAAA-
1 AAAAAAAAAG
33966632 AAAAAAAAAG
1 AAAAAAAAAG
33966642 AAAAAAAAAG
1 AAAAAAAAAG
33966652 A
1 A
33966653 TGTTACCAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:33972436 original size:25 final size:25
Alignment explanation
Indices: 33972398--33972455 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
33972388 TACATATAAC
** *
33972398 AAAATATTGATTAAAATATTAAAAA
1 AAAATATTTTTTAAAAGATTAAAAA
*
33972423 ATAATATTTTTTAAAAGATTAAAAA
1 AAAATATTTTTTAAAAGATTAAAAA
33972448 AAAATATT
1 AAAATATT
33972456 ACAGTATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (25 bp):
AAAATATTTTTTAAAAGATTAAAAA
Found at i:33987924 original size:2 final size:2
Alignment explanation
Indices: 33987915--33987981 Score: 97
Period size: 2 Copynumber: 35.0 Consensus size: 2
33987905 AGAGAGGAAT
33987915 AG AG -G AG AG AG AG AG AG AG AG AG AG AG AG -G AG -G AG -G NAG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -AG
33987954 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
33987982 GAAGGGCGGA
Statistics
Matches: 60, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
1 4 0.07
2 55 0.92
3 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:33995448 original size:85 final size:85
Alignment explanation
Indices: 33995300--33995482 Score: 357
Period size: 85 Copynumber: 2.2 Consensus size: 85
33995290 TACTTATTAA
*
33995300 TGTCGAGTAGCTTGAGACAGTGAAGATTCAGGGAATCAGATGTGTTTGTGTAGAGCTTTTCTTTT
1 TGTCAAGTAGCTTGAGACAGTGAAGATTCAGGGAATCAGATGTGTTTGTGTAGAGCTTTTCTTTT
33995365 ACTCTCAACTGAAGATAAGT
66 ACTCTCAACTGAAGATAAGT
33995385 TGTCAAGTAGCTTGAGACAGTGAAGATTCAGGGAATCAGATGTGTTTGTGTAGAGCTTTTCTTTT
1 TGTCAAGTAGCTTGAGACAGTGAAGATTCAGGGAATCAGATGTGTTTGTGTAGAGCTTTTCTTTT
33995450 ACTCTCAACTGAAGATAAGT
66 ACTCTCAACTGAAGATAAGT
33995470 TGTCAAGTAGCTT
1 TGTCAAGTAGCTT
33995483 ACTTCCTGTG
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 97 1.00
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.34
Consensus pattern (85 bp):
TGTCAAGTAGCTTGAGACAGTGAAGATTCAGGGAATCAGATGTGTTTGTGTAGAGCTTTTCTTTT
ACTCTCAACTGAAGATAAGT
Found at i:34009714 original size:3 final size:3
Alignment explanation
Indices: 34009706--34009731 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
34009696 GGTCAAGCGA
34009706 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
34009732 AAGGAGTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:34011401 original size:8 final size:8
Alignment explanation
Indices: 34011390--34011418 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
34011380 ACAATTAGTC
34011390 AATAAACA
1 AATAAACA
34011398 AATAAACA
1 AATAAACA
34011406 AATAAACA
1 AATAAACA
34011414 AATAA
1 AATAA
34011419 GTAAATACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.76, C:0.10, G:0.00, T:0.14
Consensus pattern (8 bp):
AATAAACA
Found at i:34011842 original size:32 final size:32
Alignment explanation
Indices: 34011801--34011870 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
34011791 ACTTCTTTAG
*
34011801 TCAGATAAATTCTACATATCCATACGCATCTT
1 TCAGTTAAATTCTACATATCCATACGCATCTT
*
34011833 TCAGTTAAATTCTACATATCCATACGCGTCTT
1 TCAGTTAAATTCTACATATCCATACGCATCTT
34011865 TCAGTT
1 TCAGTT
34011871 TTGTCTTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37
Consensus pattern (32 bp):
TCAGTTAAATTCTACATATCCATACGCATCTT
Found at i:34014684 original size:15 final size:16
Alignment explanation
Indices: 34014666--34014708 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
34014656 CTATCTTTTT
34014666 TTATTT-CTATTTATA
1 TTATTTACTATTTATA
34014681 TTATTTAACTATTTATA
1 TTATTT-ACTATTTATA
34014698 -TATTTAACTAT
1 TTATTT-ACTAT
34014709 AGTATAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.23
16 11 0.42
17 9 0.35
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATTTACTATTTATA
Found at i:34014703 original size:16 final size:17
Alignment explanation
Indices: 34014672--34014708 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
34014662 TTTTTTATTT
34014672 CTATTTATATTATTTAA
1 CTATTTATATTATTTAA
34014689 CTATTTATA-TATTTAA
1 CTATTTATATTATTTAA
34014705 CTAT
1 CTAT
34014709 AGTATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (17 bp):
CTATTTATATTATTTAA
Found at i:34014714 original size:17 final size:17
Alignment explanation
Indices: 34014672--34014714 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
34014662 TTTTTTATTT
*
34014672 CTATTTATATTATTTAA
1 CTATGTATATTATTTAA
*
34014689 CTATTTATA-TATTTAA
1 CTATGTATATTATTTAA
34014705 CTATAGTATA
1 CTAT-GTATA
34014715 AAATTATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (17 bp):
CTATGTATATTATTTAA
Found at i:34014752 original size:7 final size:7
Alignment explanation
Indices: 34014740--34014784 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
34014730 TATTTAACTA
34014740 TTTATAT
1 TTTATAT
34014747 TTTATAT
1 TTTATAT
*
34014754 ATTATAGT
1 TTTATA-T
34014762 TTTATAT
1 TTTATAT
*
34014769 TTAATAT
1 TTTATAT
*
34014776 TTTAAAT
1 TTTATAT
34014783 TT
1 TT
34014785 ACATATAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
7 26 0.81
8 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (7 bp):
TTTATAT
Found at i:34014755 original size:28 final size:29
Alignment explanation
Indices: 34014721--34014779 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
34014711 TATAAAATTA
*
34014721 TATATATTGTA-TTTAACTATTT-ATATTT
1 TATATATTATAGTTTAA-TATTTAATATTT
*
34014749 TATATATTATAGTTTTATATTTAATATTT
1 TATATATTATAGTTTAATATTTAATATTT
34014778 TA
1 TA
34014780 AATTTACATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 15 0.56
29 12 0.44
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (29 bp):
TATATATTATAGTTTAATATTTAATATTT
Found at i:34014756 original size:15 final size:15
Alignment explanation
Indices: 34014738--34014779 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
34014728 TGTATTTAAC
34014738 TATTTATATTTTATA
1 TATTTATATTTTATA
34014753 TA-TTATAGTTTTATA
1 TATTTATA-TTTTATA
*
34014768 T-TTAATATTTTA
1 TATTTATATTTTA
34014780 AATTTACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (15 bp):
TATTTATATTTTATA
Found at i:34038367 original size:6 final size:6
Alignment explanation
Indices: 34038356--34038383 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
34038346 GCGCGTGGAG
34038356 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
34038384 GGATTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:34040529 original size:6 final size:6
Alignment explanation
Indices: 34040508--34040548 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
34040498 AACTTAATAG
*
34040508 TTATTT TATGTTT TTATTT TTATTT TTATTT TTATTT TTAT
1 TTATTT T-TATTT TTATTT TTATTT TTATTT TTATTT TTAT
34040549 GAATTATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:34045904 original size:60 final size:60
Alignment explanation
Indices: 34045811--34045928 Score: 209
Period size: 60 Copynumber: 2.0 Consensus size: 60
34045801 ACTCGGATGA
34045811 CAGAATTACCATGATGTGAAAACTTTAAATAACAAAAAACAGAAGGCCCTTATGTTTTAC
1 CAGAATTACCATGATGTGAAAACTTTAAATAACAAAAAACAGAAGGCCCTTATGTTTTAC
* * *
34045871 CAGAATTACCTTGATGTGAAAACTTTAAATAACAAAAAACATAAGGTCCTTATGTTTT
1 CAGAATTACCATGATGTGAAAACTTTAAATAACAAAAAACAGAAGGCCCTTATGTTTT
34045929 TACCTTGACT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (60 bp):
CAGAATTACCATGATGTGAAAACTTTAAATAACAAAAAACAGAAGGCCCTTATGTTTTAC
Found at i:34071418 original size:32 final size:34
Alignment explanation
Indices: 34071371--34071463 Score: 111
Period size: 32 Copynumber: 2.7 Consensus size: 34
34071361 TTATTATAAT
*
34071371 TATAGGTTATAGATATAGATATATAGAT-AA-ATA
1 TATAGTTTATAGATATAGATA-ATAGATGAATATA
*
34071404 T-TAGTTTATAGATATAGACTAATAGATGAATTATC
1 TATAGTTTATAGATATAGA-TAATAGATGAA-TATA
34071439 TATAGTTTATAGATATAGATTAATA
1 TATAGTTTATAGATATAGA-TAATA
34071464 AAAGAAGAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
32 22 0.42
33 5 0.10
35 3 0.06
36 22 0.42
ACGTcount: A:0.44, C:0.02, G:0.14, T:0.40
Consensus pattern (34 bp):
TATAGTTTATAGATATAGATAATAGATGAATATA
Found at i:34074125 original size:46 final size:44
Alignment explanation
Indices: 34074046--34074131 Score: 136
Period size: 46 Copynumber: 1.9 Consensus size: 44
34074036 TCCTCTCCTT
* *
34074046 CCTTACCAAATGGCTCACCCTGATTCAGGGTTTAAAGCAACCTG
1 CCTTACCAAATGGCTAACACTGATTCAGGGTTTAAAGCAACCTG
34074090 CCTTACCAAATGGACTAACACTGGATTCAGGGTTTAAAGCAA
1 CCTTACCAAATGG-CTAACACT-GATTCAGGGTTTAAAGCAA
34074132 AACAGATTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 13 0.34
45 6 0.16
46 19 0.50
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (44 bp):
CCTTACCAAATGGCTAACACTGATTCAGGGTTTAAAGCAACCTG
Found at i:34082810 original size:23 final size:24
Alignment explanation
Indices: 34082784--34082840 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
34082774 TTTTTTTAAA
*
34082784 TTATTTAAGAAAAT-TTAATTTTT
1 TTATTTAAGAAAATCTTAATATTT
* *
34082807 TTATTTAATAAAGTCTTAATATTT
1 TTATTTAAGAAAATCTTAATATTT
34082831 TTATATTAAG
1 TTAT-TTAAG
34082841 TCATATAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 12 0.43
24 12 0.43
25 4 0.14
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (24 bp):
TTATTTAAGAAAATCTTAATATTT
Found at i:34083138 original size:29 final size:29
Alignment explanation
Indices: 34083063--34083140 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
34083053 AATCATTAGT
*
34083063 TATAAACG-TTTATTTGATTTAAAATAAAAA
1 TATAAA-GATTTATTTGA-ATAAAATAAAAA
* * * * *
34083093 TATAAAAACTTAATTGAATACAATAAACA
1 TATAAAGATTTATTTGAATAAAATAAAAA
34083122 TATAAAGATTTATTTGAAT
1 TATAAAGATTTATTTGAAT
34083141 TTCTGTAAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
29 25 0.66
30 13 0.34
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.37
Consensus pattern (29 bp):
TATAAAGATTTATTTGAATAAAATAAAAA
Found at i:34084210 original size:45 final size:45
Alignment explanation
Indices: 34084150--34084243 Score: 116
Period size: 45 Copynumber: 2.1 Consensus size: 45
34084140 AATATATTAA
* * * *
34084150 TATTATTTCACTATAATAAATATTATAAAGCATATTACTTAATAT
1 TATTATTTCAATATAATAAATATAACAAAGAATATTACTTAATAT
* * * *
34084195 TATTATTTGAATATAATAAATGTAACAAAGAATATTATTTAGTAT
1 TATTATTTCAATATAATAAATATAACAAAGAATATTACTTAATAT
34084240 TATT
1 TATT
34084244 TAAATTTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (45 bp):
TATTATTTCAATATAATAAATATAACAAAGAATATTACTTAATAT
Found at i:34084337 original size:23 final size:22
Alignment explanation
Indices: 34084237--34084354 Score: 80
Period size: 23 Copynumber: 5.1 Consensus size: 22
34084227 TATTATTTAG
34084237 TATTATTTAAATT-TAATGAAGAATA
1 TATTA-TTAAATTATAAT-AA-AA-A
* * *
34084262 TATT-TTATATTTTAATATTAAA
1 TATTATTAAATTATAATA-AAAA
*
34084284 TATTATTTAATTATAATAAAAA
1 TATTATTAAATTATAATAAAAA
** *
34084306 GT-TTAATTATCTTCTAATACAAAA
1 -TATT-ATTAAATTATAATA-AAAA
34084330 TATTATTAAATTATAATAAAAA
1 TATTATTAAATTATAATAAAAA
34084352 TAT
1 TAT
34084355 GTTTGTATTT
Statistics
Matches: 73, Mismatches: 13, Indels: 17
0.71 0.13 0.17
Matches are distributed among these distances:
22 17 0.23
23 42 0.58
24 10 0.14
25 4 0.05
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (22 bp):
TATTATTAAATTATAATAAAAA
Found at i:34085266 original size:59 final size:59
Alignment explanation
Indices: 34085187--34085307 Score: 190
Period size: 59 Copynumber: 2.1 Consensus size: 59
34085177 ACATTCTTAG
* * *
34085187 TGACTTCCTTTCCCCTTTTCTTATTGTGTGAGTGTCAACAACCTATCAACAACTTTCAT
1 TGACTTCCTTTCCCCTTTTCTTAGTGTGTGAGTGTCAACAACCTATCAACAACATCCAT
*
34085246 TGACTTCCTCTTCCCC-TTTCTTAGTGTGTGAGTGTCAACAACCTTTCAACAACATCCAT
1 TGACTTCCT-TTCCCCTTTTCTTAGTGTGTGAGTGTCAACAACCTATCAACAACATCCAT
34085305 TGA
1 TGA
34085308 AATAGAATGA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
59 51 0.89
60 6 0.11
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.38
Consensus pattern (59 bp):
TGACTTCCTTTCCCCTTTTCTTAGTGTGTGAGTGTCAACAACCTATCAACAACATCCAT
Found at i:34086742 original size:26 final size:27
Alignment explanation
Indices: 34086690--34086746 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
34086680 TAAAGGAAAA
* *
34086690 AAAATATTAATTTGTTCTTCTTCGCTC
1 AAAATATTAAATTGTTCTCCTTCGCTC
34086717 AAAATA-TAAATTGTTCGTCCTT-GCTC
1 AAAATATTAAATTGTTC-TCCTTCGCTC
34086743 AAAA
1 AAAA
34086747 AAAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 17 0.63
27 10 0.37
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.40
Consensus pattern (27 bp):
AAAATATTAAATTGTTCTCCTTCGCTC
Found at i:34086747 original size:27 final size:28
Alignment explanation
Indices: 34086689--34086747 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
34086679 ATAAAGGAAA
* *
34086689 AAAAATATTAATTTGTTCTTCTTCGCTC
1 AAAAATATTAAATTGTTCTCCTTCGCTC
34086717 -AAAATA-TAAATTGTTCGTCCTT-GCTC
1 AAAAATATTAAATTGTTC-TCCTTCGCTC
34086743 AAAAA
1 AAAAA
34086748 AAAAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (28 bp):
AAAAATATTAAATTGTTCTCCTTCGCTC
Found at i:34094074 original size:21 final size:21
Alignment explanation
Indices: 34094023--34094088 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
34094013 ACATATTTTG
*
34094023 TTCACATATTCTCTCTCTCTCTCT
1 TTCACATATTCTCT-TCT-TAT-T
* *
34094047 CTCACATATTCTCTTGTTATT
1 TTCACATATTCTCTTCTTATT
*
34094068 TTCACATATTTTCTTCTTATT
1 TTCACATATTCTCTTCTTATT
34094089 ATCGTTCTCT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 19 0.53
22 2 0.06
23 2 0.06
24 13 0.36
ACGTcount: A:0.17, C:0.27, G:0.02, T:0.55
Consensus pattern (21 bp):
TTCACATATTCTCTTCTTATT
Found at i:34094584 original size:24 final size:24
Alignment explanation
Indices: 34094501--34094571 Score: 133
Period size: 24 Copynumber: 3.0 Consensus size: 24
34094491 TAAGGATGAA
*
34094501 CTAATCGTTTTAGTCAAAACGTTG
1 CTAATCGTTTTAATCAAAACGTTG
34094525 CTAATCGTTTTAATCAAAACGTTG
1 CTAATCGTTTTAATCAAAACGTTG
34094549 CTAATCGTTTTAATCAAAACGTT
1 CTAATCGTTTTAATCAAAACGTT
34094572 ACTTGTCATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (24 bp):
CTAATCGTTTTAATCAAAACGTTG
Found at i:34094799 original size:22 final size:22
Alignment explanation
Indices: 34094771--34094816 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
34094761 TGTCGATCGG
**
34094771 TCTCGTCGATTGATCGGCTCGA
1 TCTCGTCGACCGATCGGCTCGA
34094793 TCTCGTCGACCGATCGGCTCGA
1 TCTCGTCGACCGATCGGCTCGA
34094815 TC
1 TC
34094817 CTTGAGGGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.13, C:0.33, G:0.26, T:0.28
Consensus pattern (22 bp):
TCTCGTCGACCGATCGGCTCGA
Found at i:34108458 original size:294 final size:294
Alignment explanation
Indices: 34107878--34109169 Score: 1575
Period size: 294 Copynumber: 4.4 Consensus size: 294
34107868 CGGGTACGTA
* * * *
34107878 GCATTCTTATTTTACATTAAGGTATAATGGTGTCAATATATAAATCT-A-A-C-----ATATGTG
1 GCATTCCTATTATACATTAAGGTATAATGGTGCCAATATGTAAATCTAACATCTTGGTATATGTG
** * * * * * *
34107935 ACATTCCTCGTATACTTTGTGGTGTTAGGCTTGTGGCATTTCTATTATATATCAAGGTATAATGA
66 ACATTCCTATTATACTTTGTGGTGTTTGGCATGTGGCATTCCTATTATACATTAAGGTATAATGG
** *
34108000 TGCAAAATAGATATTTAATATATTTGACATTACATTCCTATTGTGCAATAAAGGCACAATAGT-C
131 TGCAAAATAGATATTTAATATATTTGACATGGCATTCCTATTGTGCAATAAAGGCACAATGGTGC
* *
34108064 TATATATGAATATATAGCTTGATGTA-TTAATTTGACATTCCGATTGTACATTAAGGTACAATGG
196 -ATATGTGAACATATAGCTTGATG-AGTTAATTTGACATTCCGATTGTACATTAAGGTACAATGG
* *
34108128 TGTCAATTGAGTATGGTATAATGGTGTGGACATGTG
259 TGTCAATTGAGAATGGTATAATGGTGTGGGCATGTG
* * *
34108164 GCATTCCTATTATACATTAAGGTATAATGGTGCCAATATGTAAATTTAACATTTTGATATATGTG
1 GCATTCCTATTATACATTAAGGTATAATGGTGCCAATATGTAAATCTAACATCTTGGTATATGTG
* * *
34108229 ACATTCCTATTATACTTTGTGATGTTTGGCATGTGGCATTCCTGTTATACATTAAGGTATAATGA
66 ACATTCCTATTATACTTTGTGGTGTTTGGCATGTGGCATTCCTATTATACATTAAGGTATAATGG
* *
34108294 TGCAAAATAGATATTTAATAAATTTGACATGGCATTCCTATTGTGCAATAAGGGCACAATGGTGC
131 TGCAAAATAGATATTTAATATATTTGACATGGCATTCCTATTGTGCAATAAAGGCACAATGGTGC
* * * *
34108359 ATATGTGAACAAATAGCTTGATGAGTTAATTTGATATTTCAATTGTACATTAAGGTACAATGGTG
196 ATATGTGAACATATAGCTTGATGAGTTAATTTGACATTCCGATTGTACATTAAGGTACAATGGTG
* * *
34108424 TCCATTGAGAATAGTATAATGGGGTGGGCATGTG
261 TCAATTGAGAATGGTATAATGGTGTGGGCATGTG
* * *
34108458 GCA-TCTCTATTATACATTAAGGTATGATGGTGCCAATATGTAAATTTAACATCTTGATATATGT
1 GCATTC-CTATTATACATTAAGGTATAATGGTGCCAATATGTAAATCTAACATCTTGGTATATGT
* * * * *
34108522 AACATT-CTGATTATACTTTGTGGTATTAGGCATGTGACATTCTTATTATACATTAAGGTATAAT
65 GACATTCCT-ATTATACTTTGTGGTGTTTGGCATGTGGCATTCCTATTATACATTAAGGTATAAT
* * **
34108586 GGTGCAAAATAGATATTTAATATATTTAACATGGCATTCCTATTATGCAATAAAGGGTCAATGGT
129 GGTGCAAAATAGATATTTAATATATTTGACATGGCATTCCTATTGTGCAATAAAGGCACAATGGT
** * * * *
34108651 GCATATGCAAACATATAGCTTGTTGTA-TTGATTTGACATTCCGATTGTACATTAAGCTAAAATG
194 GCATATGTGAACATATAGCTTGATG-AGTTAATTTGACATTCCGATTGTACATTAAGGTACAATG
* * * * *
34108715 GTATCCATTGAG-ATGATATAATGGTGTAGGTATGTG
258 GTGTCAATTGAGAATGGTATAATGGTGTGGGCATGTG
* * * *
34108751 ACATTCCTATTATATATTAAGGTATAATGGTACCAATAAGTAAATCT---ATCTTGGTATATGTG
1 GCATTCCTATTATACATTAAGGTATAATGGTGCCAATATGTAAATCTAACATCTTGGTATATGTG
** * *
34108813 ACATTTTTATTATACTTTGTGGTATTTGACA--TGGCATTCCTATTATACATTAAGGTATAATGG
66 ACATTCCTATTATACTTTGTGGTGTTTGGCATGTGGCATTCCTATTATACATTAAGGTATAATGG
** ** *
34108876 TGCAAAATAGATATTTAATATATTTGACATAACATTCCTATTGTGCAATAAAATCACAATAGTGC
131 TGCAAAATAGATATTTAATATATTTGACATGGCATTCCTATTGTGCAATAAAGGCACAATGGTGC
* * * * * * *
34108941 ACATATGAACACATAGCTTGATGTGCTAATTTGACATTCCGATTGTAAATTAAGGTACAATGATG
196 ATATGTGAACATATAGCTTGATGAGTTAATTTGACATTCCGATTGTACATTAAGGTACAATGGTG
* * *
34109006 TCAATTG-GTAATAGCT-TGAT-GTGTGGGCATGTT
261 TCAATTGAG-AAT-GGTATAATGGTGTGGGCATGTG
* * * * *
34109039 GCATTCATATTATATATTAAGGTATAATGGTGTCAATATGTAAATCGAATATCTTGGTATATGTG
1 GCATTCCTATTATACATTAAGGTATAATGGTGCCAATATGTAAATCTAACATCTTGGTATATGTG
* * *
34109104 ACATTCCTATTATACTTTGTGATGTTTTGCATGTAGCATTCCTATTATACATTAAGGTATAATGG
66 ACATTCCTATTATACTTTGTGGTGTTTGGCATGTGGCATTCCTATTATACATTAAGGTATAATGG
34109169 T
131 T
34109170 TTTGGCATGG
Statistics
Matches: 864, Mismatches: 118, Indels: 41
0.84 0.12 0.04
Matches are distributed among these distances:
286 42 0.05
287 2 0.00
288 194 0.22
289 5 0.01
290 41 0.05
291 41 0.05
293 94 0.11
294 443 0.51
295 2 0.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (294 bp):
GCATTCCTATTATACATTAAGGTATAATGGTGCCAATATGTAAATCTAACATCTTGGTATATGTG
ACATTCCTATTATACTTTGTGGTGTTTGGCATGTGGCATTCCTATTATACATTAAGGTATAATGG
TGCAAAATAGATATTTAATATATTTGACATGGCATTCCTATTGTGCAATAAAGGCACAATGGTGC
ATATGTGAACATATAGCTTGATGAGTTAATTTGACATTCCGATTGTACATTAAGGTACAATGGTG
TCAATTGAGAATGGTATAATGGTGTGGGCATGTG
Found at i:34110316 original size:296 final size:294
Alignment explanation
Indices: 34109794--34110585 Score: 991
Period size: 296 Copynumber: 2.7 Consensus size: 294
34109784 GCTTGATGTG
* * * *
34109794 TTAATTTGACATTCCGATTGTACACTAAGGTACAATGGTGTCAATTGAGAATGGAATAATAGTGT
1 TTAATTAGACATTCCGATTGTACAATAAGGTACAATGGTGTCAATTGAGAATGGTATAATAGTGG
* * * *
34109859 GG-ACATGCGACATTCCTATTATACATTAAGGTATAATGATGTCAATATGTAAATCTAACATCTT
66 GGCATATGTGGCATTCCTATTATACATTAAGGTATAATGGTGTCAATATGTAAATCTAACATCTT
* * *
34109923 AGTATATGTGACA-TCTCTATTATACGTTGTGGTGTTTGGCATGTGACATATTTATTATACATTA
131 AGTATATGTGACATTCT-TATTATACTTTGTGGTGTTTGGCATGTGGCAT-TCTATTATACATTA
* *
34109987 AGGTATAATGGTGCAAACTAGATATTTAATATATTCGACATAACATTCTTATTATGCAATAAAAA
194 AGGTATAATGGTGCAAAATAGATATTTAATATATTCGACATAACATTCCTATTATGCAATAAAAA
* * * * * * *
34110052 TACAATGGTGCATATGCGGACATATAGCTTGATATG
259 CACAACGATGCATATGCGAACATATAACTTAATATA
* *** * * * *
34110088 TTAGTTCAG-CATTGTTATTGTACATTAAGGTACCATGGTGTCAATTGAAAATGGTATAATGGTG
1 TTAATT-AGACATTCCGATTGTACAATAAGGTACAATGGTGTCAATTGAGAATGGTATAATAGTG
* * * *
34110152 CGGGCATATGTGGCATTCCTATTATACATTAAGGTATAATGGTGCCCATATATAAATTTAACATC
65 -GGGCATATGTGGCATTCCTATTATACATTAAGGTATAATGGTGTCAATATGTAAATCTAACATC
* * *
34110217 TTAGTATATGTGACATTCTTATTTTACTTTGTGATGTTTGGCATGCGGCATTCCTATTATACATT
129 TTAGTATATGTGACATTCTTATTATACTTTGTGGTGTTTGGCATGTGGCATT-CTATTATACATT
* ** * *
34110282 AAGGTATAATGGTGCAAAATAGATATTTAATATATTTGACATGGCATTCCTATTGTGCAATAAAG
193 AAGGTATAATGGTGCAAAATAGATATTTAATATATTCGACATAACATTCCTATTATGCAATAAAA
* * * * *
34110347 GCACAACGATGCATGTGTGAACATATAATTTAATGTA
258 ACACAACGATGCATATGCGAACATATAACTTAATATA
* *
34110384 TTAATTTGACATTCCGATTGTACAATAAGGTACAATGGTGTCAATTGAGAATGCTATAATAGTGT
1 TTAATTAGACATTCCGATTGTACAATAAGGTACAATGGTGTCAATTGAGAATGGTATAATAGTG-
* * *
34110449 GGGCAT-T-TGGCATTCCTATTATACATTAAAGTATAATAGTGTCAATATGTAAATCTAACATTT
65 GGGCATATGTGGCATTCCTATTATACATTAAGGTATAATGGTGTCAATATGTAAATCTAACATCT
* * * * *
34110512 TGGTATATGTGACATTTTTATTATCCTTTGTGGTGTTTGGTATATGGCATTTCTATTATACATTA
130 TAGTATATGTGACATTCTTATTATACTTTGTGGTGTTTGGCATGTGGCA-TTCTATTATACATTA
34110577 AGGTATAAT
194 AGGTATAAT
34110586 AGTGTTAATA
Statistics
Matches: 421, Mismatches: 70, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
294 164 0.39
295 8 0.02
296 246 0.58
297 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (294 bp):
TTAATTAGACATTCCGATTGTACAATAAGGTACAATGGTGTCAATTGAGAATGGTATAATAGTGG
GGCATATGTGGCATTCCTATTATACATTAAGGTATAATGGTGTCAATATGTAAATCTAACATCTT
AGTATATGTGACATTCTTATTATACTTTGTGGTGTTTGGCATGTGGCATTCTATTATACATTAAG
GTATAATGGTGCAAAATAGATATTTAATATATTCGACATAACATTCCTATTATGCAATAAAAACA
CAACGATGCATATGCGAACATATAACTTAATATA
Found at i:34110634 original size:100 final size:100
Alignment explanation
Indices: 34110451--34110685 Score: 310
Period size: 100 Copynumber: 2.4 Consensus size: 100
34110441 AATAGTGTGG
* * * * **
34110451 GCATTTGGCATTCCTATTATACATTAAAGTATAATAGTGTCAATATGTAAATCTAACATTTTGGT
1 GCATATGGCATTTCTATTATACATTAAGGTATAATAGTGTCAATATGTAAATATAACATTTTCAT
** * *
34110516 ATATGTGACATTTTTATTATCCTTTGTGGTGTTTG
66 ATATGTGACATTCCTATTATACTTTGTGGTGTTTA
* * *
34110551 GTATATGGCATTTCTATTATACATTAAGGTATAATAGTGTTAATATGTAAATATATCATTTTCAT
1 GCATATGGCATTTCTATTATACATTAAGGTATAATAGTGTCAATATGTAAATATAACATTTTCAT
*
34110616 ATATGTGACATTCCTATTATATTTTGTGGTGTTTA
66 ATATGTGACATTCCTATTATACTTTGTGGTGTTTA
* *
34110651 GCATGTGGCA-TTCTTATTATACATGAAGGTATAAT
1 GCATATGGCATTTC-TATTATACATTAAGGTATAAT
34110686 GGTGGCCTTT
Statistics
Matches: 117, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
99 3 0.03
100 114 0.97
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.45
Consensus pattern (100 bp):
GCATATGGCATTTCTATTATACATTAAGGTATAATAGTGTCAATATGTAAATATAACATTTTCAT
ATATGTGACATTCCTATTATACTTTGTGGTGTTTA
Found at i:34111296 original size:278 final size:286
Alignment explanation
Indices: 34110701--34112113 Score: 1478
Period size: 294 Copynumber: 4.9 Consensus size: 286
34110691 CCTTTCAAAA
* * * *
34110701 ATTAAGGTATAATGGTGCAAAATAGATATATAATATATTTGACATGGCATTCCTATTGTGCAATA
1 ATTAAGGTATAATGGTACAAAATAGATATTTAATATATTT---AT-G-AAT-CTATTGTAC-A-A
* * * *
34110766 AAGGTACAATGGTGCATATGTAAGCATATAGC-TGTATGTGTTAATTTGACATTTCGATTTTACA
58 AAGGCACAATGGTGCATATGTAAACATATAGCTTG-ATGTGTTAATTTGACATTCCGATTGTACA
* * * * *
34110830 TTAAGATACAATGGTGTCAATTCAGAATGGTATAATGGTGTGGGTATGTGGCATTCTTATTATAC
122 TTAAGGTACAATGGTGTCAATTAAGAATGGTATAATAGTGTGGCTATGTGGCATTCCTATTATAC
* *
34110895 ATTAAGATATAATGGTG-TCAATATGTAAATCTAACATCTTGGTATATGTGACATTCCGATTATA
187 ATTAAGGTATAATGGTGCT-AATATGTAAATCTAACATCTTGGTATATGTGACATTCCTATTATA
* * *
34110959 TTTTGTGGT-ATTGGGCATGTGGCATTCCTATTATAT
251 CTTTATGGTAATT-GGCATGTGGCATTCCTATTATAC
* *
34110995 ATTAAGGTATAATGGTGCAAAATAGATATTTAATATA-TT-TG-A-C-A-TG-GC-AAAGGCACA
1 ATTAAGGTATAATGGTACAAAATAGATATTTAATATATTTATGAATCTATTGTACAAAAGGCACA
* * *
34111052 ATGGTACATACGTAAACATAGAGCTTGATGTGTTAATTTGACATTCCGATTGTACATTAAGGTAC
66 ATGGTGCATATGTAAACATATAGCTTGATGTGTTAATTTGACATTCCGATTGTACATTAAGGTAC
* * * * * * **
34111117 AATGGTGTCCATTGAGAATGATATAATGGTGTGGCTATGTGACATTCGTATTATACATTAAAATA
131 AATGGTGTCAATTAAGAATGGTATAATAGTGTGGCTATGTGGCATTCCTATTATACATTAAGGTA
* * * * * *
34111182 TAATTGTGCTAATATGTAAATTTAATATCTTGGTATATGTGACATTCTTATTATATTTTGTGGTA
196 TAATGGTGCTAATATGTAAATCTAACATCTTGGTATATGTGACATTCCTATTATACTTTATGGTA
* * *
34111247 ATTGGGATGTGGCATTCTTATTATGC
261 ATTGGCATGTGGCATTCCTATTATAC
* * * *
34111273 ATTGAGGTACATTGGTACAAAATAGATATTTAATATATTTGAAATGACATTCTTATTGTGCAATA
1 ATTAAGGTATAATGGTACAAAATAGATATTTAATATATTT---ATGA-A-TC-TATTGTAC-A-A
* * **
34111338 AAGGCACAATGGTGCATAGGTGAACATATAAG-TTGATGTGTTAATTTGACATTTTGATTGTACA
58 AAGGCACAATGGTGCATATGTAAACATAT-AGCTTGATGTGTTAATTTGACATTCCGATTGTACA
* * * *
34111402 TTTAGGT-CTAATGATGCCAATTAATAATGGTATAATAGTGTGGGC-ATGTGGCATTCCTATTAT
122 TTAAGGTAC-AATGGTGTCAATTAAGAATGGTATAATAGTGT-GGCTATGTGGCATTCCTATTAT
* * * * *
34111465 ACATTAAGGTATAATGGTTCCAATATATAAATCTAACATCTTGATATATGTGACATTTCTATTAT
185 ACATTAAGGTATAATGGTGCTAATATGTAAATCTAACATCTTGGTATATGTGACATTCCTATTAT
*
34111530 ACTTTATGGCAATTGGCATGTGGCATTCCTATTATAC
250 ACTTTATGGTAATTGGCATGTGGCATTCCTATTATAC
* *
34111567 ATTAAGGTATAATAGTACAAAATAAATATTTAATATATTTGAAATGACATTCTTATTGTACAATA
1 ATTAAGGTATAATGGTACAAAATAGATATTTAATATATTT---ATGA-A-TC-TATTGTAC-A-A
* * * * **
34111632 AAAGTACAATGGTGCATATGTGAACACATAGCTTGATGTGTTAATTTGACATTCTAATTGTACA-
58 AAGGCACAATGGTGCATATGTAAACATATAGCTTGATGTGTTAATTTGACATTCCGATTGTACAT
* * * * *
34111696 TAAGGTACAGTGATGTCAATTAATAATGGTGTAATAGTGTGGGC-ACGTGGCATTCCTATTATAC
123 TAAGGTACAATGGTGTCAATTAAGAATGGTATAATAGTGT-GGCTATGTGGCATTCCTATTATAC
* ** * *
34111760 ATTAAGGTATAGTGGTGCTAATATAAAAATCTAACATCTTGGGATATGTGACGTTCCTATTATAC
187 ATTAAGGTATAATGGTGCTAATATGTAAATCTAACATCTTGGTATATGTGACATTCCTATTATAC
** *
34111825 TTTATGGTGTTTGGCATGTAGCATTCCTATTATAC
252 TTTATGGTAATTGGCATGTGGCATTCCTATTATAC
* ** * * *
34111860 ATTACA-GTGTAATGGTGTAAAATAGATATTTAATATTTTTGGTATGACATTCTTACTATACAAT
1 ATTA-AGGTATAATGGTACAAAATAGATATTTAATA-TATT--TATGA-A-TC-TATTGTAC-A-
34111924 AAAGGCACAATGGTGCATATGTGAAAACATA-A-CTTGATGTGTTAATTTGACATTCCGATTGTA
57 AAAGGCACAATGGTGCATATGT--AAACATATAGCTTGATGTGTTAATTTGACATTCCGATTGTA
* * * *
34111987 CATTAAGGTACAATGGTGTCAATTGAGAATAGTGTAATAGTGTGGGTATGTGGCATTCCTATTAT
120 CATTAAGGTACAATGGTGTCAATTAAGAATGGTATAATAGTGTGGCTATGTGGCATTCCTATTAT
* * * *
34112052 ACGTTAAGGTTTAATGTTGCCAATATGTAAATCTAACATCTTGGTATATGTGACATTCCTAT
185 ACATTAAGGTATAATGGTGCTAATATGTAAATCTAACATCTTGGTATATGTGACATTCCTAT
34112114 GTAGGGATGA
Statistics
Matches: 965, Mismatches: 122, Indels: 64
0.84 0.11 0.06
Matches are distributed among these distances:
278 230 0.24
279 8 0.01
281 2 0.00
282 2 0.00
283 3 0.00
284 1 0.00
285 1 0.00
287 1 0.00
288 1 0.00
289 2 0.00
290 2 0.00
291 2 0.00
293 250 0.26
294 449 0.47
295 10 0.01
296 1 0.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (286 bp):
ATTAAGGTATAATGGTACAAAATAGATATTTAATATATTTATGAATCTATTGTACAAAAGGCACA
ATGGTGCATATGTAAACATATAGCTTGATGTGTTAATTTGACATTCCGATTGTACATTAAGGTAC
AATGGTGTCAATTAAGAATGGTATAATAGTGTGGCTATGTGGCATTCCTATTATACATTAAGGTA
TAATGGTGCTAATATGTAAATCTAACATCTTGGTATATGTGACATTCCTATTATACTTTATGGTA
ATTGGCATGTGGCATTCCTATTATAC
Found at i:34111990 original size:587 final size:588
Alignment explanation
Indices: 34111049--34112113 Score: 1458
Period size: 587 Copynumber: 1.8 Consensus size: 588
34111039 TGGCAAAGGC
* *
34111049 ACAATGGTACATACGTAAACATAGAGCTTGATGTGTTAATTTGACATTCCGATTGTACATTAAGG
1 ACAATGGTACATACGTAAACACAGAGCTTGATGTGTTAATTTGACATTCCAATTGTACATTAAGG
* * * * * *
34111114 TACAATGGTGTCCATTGAGAATGATATAATGGTGTGGCTATGTGACATTCGTATTATACATTAAA
66 TACAATGATGTCAATTAAGAATGATATAATAGTGTGGCTACGTGACATTCCTATTATACATTAAA
* ** * * * * * *
34111179 ATATAATTGTGCTAATATGTAAATTTAATATCTTGGTATATGTGACATTCTTATTATATTTTGTG
131 ATATAATGGTGCTAATATAAAAATCTAACATCTTGGGATATGTGACATTCCTATTATACTTTATG
* * * * *
34111244 GTAATTGGGATGTGGCATTCTTATTATGCATTGAGGTACATTGGTACAAAATAGATATTTAATAT
196 GTAATTGGCATGTAGCATTCCTATTATACATTCAGGTACATTGGTACAAAATAGATATTTAATAT
* * * * * *
34111309 ATTTGAAATGACATTCTTATTGTGCAATAAAGGCACAATGGTGCATAGGTGAACATATAAGTTGA
261 ATTTGAAATGACATTCTTACTATACAATAAAGGCACAATGGTGCATAGGTGAAAACATAACTTGA
** * * *
34111374 TGTGTTAATTTGACATTTTGATTGTACATTTAGGT-CTAATGATGCCAATTAATAATGGTATAAT
326 TGTGTTAATTTGACATTCCGATTGTACATTAAGGTAC-AATGATGCCAATTAAGAATAGTATAAT
34111438 AGTGTGGGCATGTGGCATTCCTATTATACATTAAGGTATAATGGTT-CCAATATATAAATCTAAC
390 AGTGTGGGCATGTGGCATTCCTATTATACATTAAGGTATAAT-GTTGCCAATATATAAATCTAAC
*
34111502 ATCTTGATATATGTGACATTTCTATTATACTTTATGGCAATTGGCATGTGGCATTCCTATTATAC
454 ATCTTGATATATGTGACATTCCTATTATACTTTATGGCAATTGGCATGTGGCATTCCTATTATAC
34111567 ATTAAGGTATAATAGTACAAAATAAATATTTAATATATTTGAAATGACATTCTTATTGTACAATA
519 ATTAAGGTATAATAGTACAAAATAAATATTTAATATATTTGAAATGACATTCTTATTGTACAATA
34111632 AAAGT
584 AAAGT
* * * * *
34111637 ACAATGGTGCATATGTGAACACATAGCTTGATGTGTTAATTTGACATTCTAATTGTACA-TAAGG
1 ACAATGGTACATACGTAAACACAGAGCTTGATGTGTTAATTTGACATTCCAATTGTACATTAAGG
* * * * *
34111701 TACAGTGATGTCAATTAATAATGGTGTAATAGTGTGGGC-ACGTGGCATTCCTATTATACATTAA
66 TACAATGATGTCAATTAAGAATGATATAATAGTGT-GGCTACGTGACATTCCTATTATACATTAA
** * *
34111765 GGTATAGTGGTGCTAATATAAAAATCTAACATCTTGGGATATGTGACGTTCCTATTATACTTTAT
130 AATATAATGGTGCTAATATAAAAATCTAACATCTTGGGATATGTGACATTCCTATTATACTTTAT
** **
34111830 GGTGTTTGGCATGTAGCATTCCTATTATACATTACAGTGTA-A-TGGTGTAAAATAGATATTTAA
195 GGTAATTGGCATGTAGCATTCCTATTATACATT-CAG-GTACATTGGTACAAAATAGATATTTAA
* ** *
34111893 TATTTTTGGTATGACATTCTTACTATACAATAAAGGCACAATGGTGCATATGTGAAAACATAACT
258 TATATTTGAAATGACATTCTTACTATACAATAAAGGCACAATGGTGCATAGGTGAAAACATAACT
* * * *
34111958 TGATGTGTTAATTTGACATTCCGATTGTACATTAAGGTACAATGGTGTCAATTGAGAATAGTGTA
323 TGATGTGTTAATTTGACATTCCGATTGTACATTAAGGTACAATGATGCCAATTAAGAATAGTATA
* * * *
34112023 ATAGTGTGGGTATGTGGCATTCCTATTATACGTTAAGGTTTAATGTTGCCAATATGTAAATCTAA
388 ATAGTGTGGGCATGTGGCATTCCTATTATACATTAAGGTATAATGTTGCCAATATATAAATCTAA
*
34112088 CATCTTGGTATATGTGACATTCCTAT
453 CATCTTGATATATGTGACATTCCTAT
34112114 GTAGGGATGA
Statistics
Matches: 407, Mismatches: 65, Indels: 11
0.84 0.13 0.02
Matches are distributed among these distances:
586 3 0.01
587 342 0.84
588 59 0.14
589 3 0.01
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.38
Consensus pattern (588 bp):
ACAATGGTACATACGTAAACACAGAGCTTGATGTGTTAATTTGACATTCCAATTGTACATTAAGG
TACAATGATGTCAATTAAGAATGATATAATAGTGTGGCTACGTGACATTCCTATTATACATTAAA
ATATAATGGTGCTAATATAAAAATCTAACATCTTGGGATATGTGACATTCCTATTATACTTTATG
GTAATTGGCATGTAGCATTCCTATTATACATTCAGGTACATTGGTACAAAATAGATATTTAATAT
ATTTGAAATGACATTCTTACTATACAATAAAGGCACAATGGTGCATAGGTGAAAACATAACTTGA
TGTGTTAATTTGACATTCCGATTGTACATTAAGGTACAATGATGCCAATTAAGAATAGTATAATA
GTGTGGGCATGTGGCATTCCTATTATACATTAAGGTATAATGTTGCCAATATATAAATCTAACAT
CTTGATATATGTGACATTCCTATTATACTTTATGGCAATTGGCATGTGGCATTCCTATTATACAT
TAAGGTATAATAGTACAAAATAAATATTTAATATATTTGAAATGACATTCTTATTGTACAATAAA
AGT
Found at i:34123040 original size:118 final size:119
Alignment explanation
Indices: 34122814--34123041 Score: 316
Period size: 118 Copynumber: 1.9 Consensus size: 119
34122804 TAATCGGTCA
* * * * *
34122814 ACTTACTGATTTTCTAGTTGATGCTTAGACTGGTTCAATTTTGGTTGGCGAGGTCCAATGTTAGT
1 ACTTACAGATTTTCTAGTTGATGCTTAGACTGGCTCAACTTTGGTTGGCAAGGCCCAATGTTAGT
* * ** *
34122879 GGCCCACAACTTGTTTCATAGCACTAAGACGATTGGTCGTCTTACTGATTTTTT
66 GGCCCACAACTTGTTTCATAACACTAAGACCATCAGTCATCTTACTGATTTTTT
* * *
34122933 ACTTACAGATTTTCTGGTTGATGCTT-GGCTGGCTCAACTTTGGTTTGCAAGGCCCAATGTTAGT
1 ACTTACAGATTTTCTAGTTGATGCTTAGACTGGCTCAACTTTGGTTGGCAAGGCCCAATGTTAGT
34122997 GGCCCACAACTTGTTTCATAACACTCAA-ACCATCAGTCATCTTAC
66 GGCCCACAACTTGTTTCATAACACT-AAGACCATCAGTCATCTTAC
34123042 AAATTTTCTG
Statistics
Matches: 95, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
118 69 0.73
119 26 0.27
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.36
Consensus pattern (119 bp):
ACTTACAGATTTTCTAGTTGATGCTTAGACTGGCTCAACTTTGGTTGGCAAGGCCCAATGTTAGT
GGCCCACAACTTGTTTCATAACACTAAGACCATCAGTCATCTTACTGATTTTTT
Found at i:34129527 original size:17 final size:16
Alignment explanation
Indices: 34129505--34129540 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
34129495 ATAAAAATTT
*
34129505 AATTAAATATAATAAAA
1 AATTAAAT-TAAAAAAA
34129522 AATTAAATTAAAAAAA
1 AATTAAATTAAAAAAA
34129538 AAT
1 AAT
34129541 AATCTAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AATTAAATTAAAAAAA
Found at i:34129539 original size:16 final size:17
Alignment explanation
Indices: 34129485--34129540 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 17
34129475 TATTTAATTT
*
34129485 AAAATAAAATATAAAAA
1 AAAATTAAATATAAAAA
** *
34129502 TTTAATTAAATATAATAA
1 -AAAATTAAATATAAAAA
34129520 AAAATTAAAT-TAAAAA
1 AAAATTAAATATAAAAA
34129536 AAAAT
1 AAAAT
34129541 AATCTAAGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
16 10 0.32
17 8 0.26
18 13 0.42
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATTAAATATAAAAA
Found at i:34153282 original size:13 final size:13
Alignment explanation
Indices: 34153264--34153288 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34153254 TACAAGATAA
34153264 TTAGAGAGAGAAT
1 TTAGAGAGAGAAT
34153277 TTAGAGAGAGAA
1 TTAGAGAGAGAA
34153289 GCTCTCAAGT
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:0.48, C:0.00, G:0.32, T:0.20
Consensus pattern (13 bp):
TTAGAGAGAGAAT
Found at i:34154365 original size:41 final size:41
Alignment explanation
Indices: 34154304--34154435 Score: 169
Period size: 41 Copynumber: 3.2 Consensus size: 41
34154294 TTTTAATGTC
34154304 AATATCTTTTGTAATATTTGATTGATTATGCAATAATATTT
1 AATATCTTTTGTAATATTTGATTGATTATGCAATAATATTT
* * **** *
34154345 AATGTCTTTCGTAATATTTGATTGTATT-TTTTTTAAT-TTC
1 AATATCTTTTGTAATATTTGATTG-ATTATGCAATAATATTT
*
34154385 AATATCTTTTGTAATATTTTATTGATTATGCAATAATATTT
1 AATATCTTTTGTAATATTTGATTGATTATGCAATAATATTT
34154426 AATATCTTTT
1 AATATCTTTT
34154436 TCATAAAAAA
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
39 3 0.04
40 28 0.38
41 39 0.53
42 3 0.04
ACGTcount: A:0.30, C:0.06, G:0.08, T:0.55
Consensus pattern (41 bp):
AATATCTTTTGTAATATTTGATTGATTATGCAATAATATTT
Found at i:34154403 original size:40 final size:39
Alignment explanation
Indices: 34154290--34154411 Score: 136
Period size: 40 Copynumber: 3.1 Consensus size: 39
34154280 CGATTTTTTT
*
34154290 TTTTTTTTAATGTCAATATCTTTTGTAATATTTGATTGA
1 TTTTTTTTAATTTCAATATCTTTTGTAATATTTGATTGA
**** * * *
34154329 TTATGCAATAATATTTAATGTCTTTCGTAATATTTGATTGTA
1 TT-TTTTTTAAT-TTCAATATCTTTTGTAATATTTGATTG-A
*
34154371 TTTTTTTTAATTTCAATATCTTTTGTAATATTTTATTGA
1 TTTTTTTTAATTTCAATATCTTTTGTAATATTTGATTGA
34154410 TT
1 TT
34154412 ATGCAATAAT
Statistics
Matches: 64, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
39 5 0.08
40 28 0.44
41 28 0.44
42 3 0.05
ACGTcount: A:0.27, C:0.06, G:0.09, T:0.58
Consensus pattern (39 bp):
TTTTTTTTAATTTCAATATCTTTTGTAATATTTGATTGA
Found at i:34154464 original size:65 final size:66
Alignment explanation
Indices: 34154392--34154523 Score: 230
Period size: 65 Copynumber: 2.0 Consensus size: 66
34154382 TTCAATATCT
* *
34154392 TTTGTAATATTTTATTGATTATGCAATAATATTTAATATCTTTTTCAT-AAAAAACCTTGATTCT
1 TTTGTAATATTTTATTAATTATACAATAATATTTAATATCTTTTTCATAAAAAAACCTTGATTCT
34154456 A
66 A
*
34154457 TTTGTAATATTTTATTAATTATATAATAATATTTAATATCTTTTTCATAAAAAAACCTTGATTCT
1 TTTGTAATATTTTATTAATTATACAATAATATTTAATATCTTTTTCATAAAAAAACCTTGATTCT
34154522 A
66 A
34154523 T
1 T
34154524 GTGGCTTATA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
65 45 0.71
66 18 0.29
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (66 bp):
TTTGTAATATTTTATTAATTATACAATAATATTTAATATCTTTTTCATAAAAAAACCTTGATTCT
A
Found at i:34155847 original size:102 final size:102
Alignment explanation
Indices: 34155612--34155894 Score: 277
Period size: 102 Copynumber: 2.8 Consensus size: 102
34155602 CCAAGAAATG
* * * *
34155612 AGCGATAAAGCTTGCGGCCAATAGTATAACATCATTATAGTCAAATTATGGGCAATAAAGCTAGC
1 AGCGATAAAGCTTGCGACCAATAGTATAATATCATTATAGTCAAAATATGAGCAATAAAGCTAGC
* *
34155677 GGCTGGAATGTGAATAATAAATTGTGGTCAAAGAATA
66 GGCTGGAATGTGAATAATAAACTATGGTCAAAGAATA
* * * * ** *
34155714 AGCGATAAAGCTTGCGACCAAAAGAAGAATATCATTGTAG-CAAAAATATGAGCGGTAAAGCTTG
1 AGCGATAAAGCTTGCGACCAATAGTATAATATCATTATAGTC-AAAATATGAGCAATAAAGCTAG
* *
34155778 CGGCT-GAA-GTAAGAATGATGAACTATGGTCAAAGAATA
65 CGGCTGGAATGT--GAATAATAAACTATGGTCAAAGAATA
* * * * ** * ** *
34155816 AGCGATAAAGCTTGTGACTAATAGTATAATATAATTACAACCAAAATATAAGTGATAAAGCTAGT
1 AGCGATAAAGCTTGCGACCAATAGTATAATATCATTATAGTCAAAATATGAGCAATAAAGCTAGC
*
34155881 GGCT-GAATATGAAT
66 GGCTGGAATGTGAAT
34155895 TTTTTTTTTA
Statistics
Matches: 146, Mismatches: 30, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
100 2 0.01
101 8 0.05
102 134 0.92
103 2 0.01
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.24
Consensus pattern (102 bp):
AGCGATAAAGCTTGCGACCAATAGTATAATATCATTATAGTCAAAATATGAGCAATAAAGCTAGC
GGCTGGAATGTGAATAATAAACTATGGTCAAAGAATA
Found at i:34157244 original size:29 final size:29
Alignment explanation
Indices: 34157175--34157238 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
34157165 AGAAAAAAGG
* *
34157175 TGTACAATAATAGGTACAAGAGAAGAAGC
1 TGTACAAGAATAGATACAAGAGAAGAAGC
*
34157204 TGTA-AGAGAATAGATACAAGAGAATAAGC
1 TGTACA-AGAATAGATACAAGAGAAGAAGC
34157233 TGTACA
1 TGTACA
34157239 TAAATAAGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 1 0.03
29 28 0.93
30 1 0.03
ACGTcount: A:0.48, C:0.09, G:0.23, T:0.19
Consensus pattern (29 bp):
TGTACAAGAATAGATACAAGAGAAGAAGC
Found at i:34157508 original size:184 final size:183
Alignment explanation
Indices: 34157197--34157563 Score: 662
Period size: 184 Copynumber: 2.0 Consensus size: 183
34157187 GGTACAAGAG
34157197 AAGAAGCTGTAAGAGAATAGATACAAGAGAATAAGCTGTACATAAATAAGTATACGAGAACAAGA
1 AAGAAGCTGTAAGAGAATAGATACAAGAGAATAAGCTGTACATAAATAAGTATACGAGAACAAGA
* *
34157262 TAAGATGGTGAAACACTTGTACTTCAGGAAATGGTTAAGAAGAAGACCTTTTAACTACCTCCATA
66 TAAGAGGGTGAAAAACTTGTACTTCAGGAAATGGTTAAGAAGAAGACCTTTTAACTACCTCCATA
*
34157327 TCTAAGCCACCAAGCCAAACTCCCTGGAACATCCGAAGATGAAAGTAACCCAT
131 TCTAAGCCACCAAGCCAAACTCCCTGGAACATCCCAAGATGAAAGTAACCCAT
*
34157380 AANGAAGCTGTAAGAGAATAGATACAAGAGAATAAGCTGTACATGAATAAGTATACGAGAACAAG
1 AA-GAAGCTGTAAGAGAATAGATACAAGAGAATAAGCTGTACATAAATAAGTATACGAGAACAAG
*
34157445 GTAAGAGGGTGAAAAACTTGTACTTCAGGAAATGGTTAAGAAGAAGACCTTTTAACTACCTCCAT
65 ATAAGAGGGTGAAAAACTTGTACTTCAGGAAATGGTTAAGAAGAAGACCTTTTAACTACCTCCAT
* *
34157510 ATCTGAGCCACCAAGCCAAACTCTCTGGAACATCCCAAGATGAAAGTAACCCAT
130 ATCTAAGCCACCAAGCCAAACTCCCTGGAACATCCCAAGATGAAAGTAACCCAT
34157564 GAACCCTGTC
Statistics
Matches: 176, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
183 2 0.01
184 174 0.99
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.20
Consensus pattern (183 bp):
AAGAAGCTGTAAGAGAATAGATACAAGAGAATAAGCTGTACATAAATAAGTATACGAGAACAAGA
TAAGAGGGTGAAAAACTTGTACTTCAGGAAATGGTTAAGAAGAAGACCTTTTAACTACCTCCATA
TCTAAGCCACCAAGCCAAACTCCCTGGAACATCCCAAGATGAAAGTAACCCAT
Found at i:34157703 original size:35 final size:34
Alignment explanation
Indices: 34157680--34157867 Score: 205
Period size: 35 Copynumber: 5.4 Consensus size: 34
34157670 GTTCTATTTA
* *
34157680 TTCTAGTTATTCTGCGTTAAGTAGCACTTCACTTG
1 TTCTAGTTATTCTGCGTGAAGTAGC-GTTCACTTG
*
34157715 TTCTAGTTGTTCTGCGTGAAGTAGCGTTTCACTTG
1 TTCTAGTTATTCTGCGTGAAGTAGCG-TTCACTTG
* *
34157750 TTCTAGTTGTTCTGCATGAAGTAGCGCTTCACTTG
1 TTCTAGTTATTCTGCGTGAAGTAGCG-TTCACTTG
* * *
34157785 TTCTACTTATTCTACGTGAAGTAGCACTTCACTTG
1 TTCTAGTTATTCTGCGTGAAGTAGC-GTTCACTTG
* * * *
34157820 TTTTACTTATTCTGCGTGAAGTAACACTTCACTTG
1 TTCTAGTTATTCTGCGTGAAGTAGC-GTTCACTTG
* *
34157855 TTCTTGTTGTTCT
1 TTCTAGTTATTCT
34157868 CTGTACAATA
Statistics
Matches: 134, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
35 134 1.00
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.44
Consensus pattern (34 bp):
TTCTAGTTATTCTGCGTGAAGTAGCGTTCACTTG
Found at i:34157738 original size:70 final size:70
Alignment explanation
Indices: 34157664--34157867 Score: 232
Period size: 70 Copynumber: 2.9 Consensus size: 70
34157654 TTCCATATGG
* * * * *
34157664 AGTAGTGTTCTATTTATTCTAGTTATTCTGCGTTAAGTAGCACTTCACTTGTTCTAGTTGTTCTG
1 AGTAGAGTTCTACTTGTTCTAGTTATTCTGCGTGAAGTAGCACTTCACTTGTTCTAGTTGTTCTA
34157729 CGTGA
66 CGTGA
* * * * * *
34157734 AGTAGCGTT-TCACTTGTTCTAGTTGTTCTGCATGAAGTAGCGCTTCACTTGTTCTACTTATTCT
1 AGTAGAGTTCT-ACTTGTTCTAGTTATTCTGCGTGAAGTAGCACTTCACTTGTTCTAGTTGTTCT
34157798 ACGTGA
65 ACGTGA
* * * * *
34157804 AGTAGCACTTC-ACTTGTTTTACTTATTCTGCGTGAAGTAACACTTCACTTGTTCTTGTTGTTCT
1 AGTAG-AGTTCTACTTGTTCTAGTTATTCTGCGTGAAGTAGCACTTCACTTGTTCTAGTTGTTCT
34157868 CTGTACAATA
Statistics
Matches: 110, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
69 1 0.01
70 107 0.97
71 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (70 bp):
AGTAGAGTTCTACTTGTTCTAGTTATTCTGCGTGAAGTAGCACTTCACTTGTTCTAGTTGTTCTA
CGTGA
Found at i:34163327 original size:13 final size:13
Alignment explanation
Indices: 34163309--34163334 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34163299 TTTTCCCGTT
34163309 TCAAATTCAAGAA
1 TCAAATTCAAGAA
34163322 TCAAATTCAAGAA
1 TCAAATTCAAGAA
34163335 AACTGAGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (13 bp):
TCAAATTCAAGAA
Found at i:34175424 original size:2 final size:2
Alignment explanation
Indices: 34175417--34175469 Score: 74
Period size: 2 Copynumber: 26.5 Consensus size: 2
34175407 GAACACTTCC
34175417 CT CT CT CT CT CT CT NCT AC- CT C- 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
34175459 CT CT CT CT CT C
1 CT CT CT CT CT C
34175470 CCTCAAGGAT
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
1 2 0.04
2 42 0.89
3 3 0.06
ACGTcount: A:0.02, C:0.51, G:0.00, T:0.45
Consensus pattern (2 bp):
CT
Found at i:34196012 original size:35 final size:35
Alignment explanation
Indices: 34195969--34196038 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
34195959 AGATGTGAGA
*
34195969 TTTTTTTATCATCATTTTAATAATACCTATTAATT
1 TTTTTTTATCATCACTTTAATAATACCTATTAATT
*
34196004 TTTTTTTATCATCACTTTAATAATACTTATTAATT
1 TTTTTTTATCATCACTTTAATAATACCTATTAATT
34196039 CTGAAGGGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (35 bp):
TTTTTTTATCATCACTTTAATAATACCTATTAATT
Found at i:34196916 original size:24 final size:24
Alignment explanation
Indices: 34196889--34196937 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
34196879 AAATTATACA
34196889 TTATGTATAAAAATATGTTACACG
1 TTATGTATAAAAATATGTTACACG
34196913 TTATGTATAAAAATATGTTACACG
1 TTATGTATAAAAATATGTTACACG
34196937 T
1 T
34196938 CATGGTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (24 bp):
TTATGTATAAAAATATGTTACACG
Found at i:34196947 original size:24 final size:25
Alignment explanation
Indices: 34196893--34196967 Score: 91
Period size: 24 Copynumber: 3.0 Consensus size: 25
34196883 TATACATTAT
*
34196893 GTATAAAAATATGTTACACGTTAT-
1 GTATAAAAATATGTTACACGTCATG
34196917 GTATAAAAATATGTTACACGTCATG
1 GTATAAAAATATGTTACACGTCATG
* *
34196942 GT-TAAAAAAAATTGTTATACGTCATG
1 GTAT-AAAAATA-TGTTACACGTCATG
34196968 TTGAAATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
24 24 0.53
25 8 0.18
26 13 0.29
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (25 bp):
GTATAAAAATATGTTACACGTCATG
Found at i:34196957 original size:26 final size:25
Alignment explanation
Indices: 34196897--34196967 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 25
34196887 CATTATGTAT
* *
34196897 AAAAATATGTTACACGTTAT-GTAT
1 AAAAATATGTTACACGTCATGGTAA
34196921 AAAAATATGTTACACGTCATGGTTAA
1 AAAAATATGTTACACGTCATGG-TAA
*
34196947 AAAAA-ATTGTTATACGTCATG
1 AAAAATA-TGTTACACGTCATG
34196968 TTGAAATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
24 19 0.46
25 2 0.05
26 20 0.49
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (25 bp):
AAAAATATGTTACACGTCATGGTAA
Found at i:34197024 original size:28 final size:27
Alignment explanation
Indices: 34196982--34197047 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 27
34196972 AATTTTTTTT
*
34196982 TTTTATTATACGTCATGTTAAAAAATA
1 TTTTATTATACGTCATATTAAAAAATA
*
34197009 TTATTATTATACGTCATATTTAAAAATA
1 TT-TTATTATACGTCATATTAAAAAATA
*
34197037 TTTTGTTATAC
1 TTTTATTATAC
34197048 TTGCATAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
27 10 0.29
28 25 0.71
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (27 bp):
TTTTATTATACGTCATATTAAAAAATA
Found at i:34202165 original size:24 final size:24
Alignment explanation
Indices: 34202106--34202196 Score: 94
Period size: 24 Copynumber: 3.8 Consensus size: 24
34202096 ATTTGAAGTT
* *
34202106 TCACAGGTTTTTGCACATGGTTTG
1 TCACAGGTTTTTGTACATGGCTTG
* * *
34202130 TCATAGGCTTTTGTATATGGCTTG
1 TCACAGGTTTTTGTACATGGCTTG
* *
34202154 TCACAGATTTTTGTACATAG-TGTG
1 TCACAGGTTTTTGTACATGGCT-TG
*
34202178 TCACATGTTTTTGTACATG
1 TCACAGGTTTTTGTACATG
34202197 AAGTATGACA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
23 1 0.02
24 52 0.98
ACGTcount: A:0.20, C:0.14, G:0.22, T:0.44
Consensus pattern (24 bp):
TCACAGGTTTTTGTACATGGCTTG
Found at i:34202279 original size:45 final size:45
Alignment explanation
Indices: 34202176--34202268 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 45
34202166 GTACATAGTG
* * * *
34202176 TGTCACATGTTTTTGTACATGAAGTATGACACGTTAACCATGACT
1 TGTCACAAGTTTTTGTACATGGAGTGTAACACGTTAACCATGACT
*
34202221 TGTCACAAGTTTTTGTACATGGAGTGTAACACGTTAACCATGGCT
1 TGTCACAAGTTTTTGTACATGGAGTGTAACACGTTAACCATGACT
34202266 TGT
1 TGT
34202269 TATAGATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (45 bp):
TGTCACAAGTTTTTGTACATGGAGTGTAACACGTTAACCATGACT
Found at i:34202293 original size:45 final size:45
Alignment explanation
Indices: 34202176--34202296 Score: 127
Period size: 45 Copynumber: 2.7 Consensus size: 45
34202166 GTACATAGTG
* * * * *
34202176 TGTCACATGTTTTTGTACATGAAGTATGACACGTTAACCATGACT
1 TGTCACAAGTTTTTATACATGGAGTGTAACACGTTAACCATGACT
* *
34202221 TGTCACAAGTTTTTGTACATGGAGTGTAACACGTTAACCATGGCT
1 TGTCACAAGTTTTTATACATGGAGTGTAACACGTTAACCATGACT
* * * *
34202266 TGTTA-TAGATTTTTATATATGGCGTGTAACA
1 TGTCACAAG-TTTTTATACATGGAGTGTAACA
34202297 TTATAGCGTG
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 2 0.03
45 63 0.97
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (45 bp):
TGTCACAAGTTTTTATACATGGAGTGTAACACGTTAACCATGACT
Found at i:34203713 original size:2 final size:2
Alignment explanation
Indices: 34203708--34203738 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
34203698 GTAAAAAAAA
*
34203708 AT AT AT AT AT AT AT AT AT AT AT CT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
34203739 GTGATTTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34205564 original size:2 final size:2
Alignment explanation
Indices: 34205557--34205583 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34205547 TACGAGAAGA
34205557 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
34205584 AGACATGTGG
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:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:34208131 original size:41 final size:41
Alignment explanation
Indices: 34208074--34208155 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
34208064 TTATTGTACT
34208074 TTAAATTCTCAATAATAGAAGAACAGTTTCACTCCGTGGAC
1 TTAAATTCTCAATAATAGAAGAACAGTTTCACTCCGTGGAC
*
34208115 TTAAATTCTCAATAATAGAAGAACAGTTTCACTCTGTGGAC
1 TTAAATTCTCAATAATAGAAGAACAGTTTCACTCCGTGGAC
34208156 GTAGGCAAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (41 bp):
TTAAATTCTCAATAATAGAAGAACAGTTTCACTCCGTGGAC
Found at i:34213333 original size:15 final size:15
Alignment explanation
Indices: 34213315--34213433 Score: 85
Period size: 15 Copynumber: 7.5 Consensus size: 15
34213305 CTTCTCTTCC
34213315 TCTTTCTTGGGTTCT
1 TCTTTCTTGGGTTCT
* **
34213330 TCTTTCTTTGCCTCT
1 TCTTTCTTGGGTTCT
* * *
34213345 TCCTTCTTAGGCTCT
1 TCTTTCTTGGGTTCT
*
34213360 TCTTTCTTCGGCTCCTCT
1 TCTTTCTT-GGGT--TCT
*
34213378 TCTTTTTTGGGTTCT
1 TCTTTCTTGGGTTCT
* *
34213393 TCTTTCTTTGCTTCCT
1 TCTTTCTTGGGTT-CT
34213409 CCTCTTTCTTGGGTTCT
1 --TCTTTCTTGGGTTCT
*
34213426 TCCTTCTT
1 TCTTTCTT
34213434 TGGCTCCTCC
Statistics
Matches: 80, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
15 51 0.64
16 3 0.04
17 5 0.06
18 21 0.26
ACGTcount: A:0.01, C:0.29, G:0.13, T:0.57
Consensus pattern (15 bp):
TCTTTCTTGGGTTCT
Found at i:34213377 original size:18 final size:17
Alignment explanation
Indices: 34213356--34213457 Score: 70
Period size: 18 Copynumber: 6.0 Consensus size: 17
34213346 CCTTCTTAGG
34213356 CTCTTCTTTCTTCGGCTC
1 CTCTTCTTTCTT-GGCTC
* *
34213374 CTCTTCTTTTTTGGGT-
1 CTCTTCTTTCTTGGCTC
*
34213390 -TCTTCTTTCTTTGCTTC
1 CTCTTCTTTCTTGGC-TC
* *
34213407 CTCCTCTTTCTTGGGT-
1 CTCTTCTTTCTTGGCTC
*
34213423 -TCTTCCTTCTTTGGCTC
1 CTCTTCTTTC-TTGGCTC
34213440 CTCCTTC-TTCTCTGGCTC
1 CT-CTTCTTTCT-TGGCTC
34213458 TTTTGCTGGC
Statistics
Matches: 65, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
15 18 0.28
16 6 0.09
17 5 0.08
18 32 0.49
19 4 0.06
ACGTcount: A:0.00, C:0.33, G:0.13, T:0.54
Consensus pattern (17 bp):
CTCTTCTTTCTTGGCTC
Found at i:34213392 original size:63 final size:65
Alignment explanation
Indices: 34213315--34213448 Score: 173
Period size: 66 Copynumber: 2.1 Consensus size: 65
34213305 CTTCTCTTCC
* *
34213315 TCTTTCTTGGGTTCTTCTTTCTTTG-CCTCTTCCTTCTTAGGCTCTTCTTTCTTCGGCTCCT-CT
1 TCTTTCTTGGGTTCTTCTTTCTTTGTCCTCCTCCTTCTTAGGCTCTTCCTTCTTCGGCTCCTCCT
* * * * *
34213378 TCTTTTTTGGGTTCTTCTTTCTTTGCTTCCTCCTCTTTCTTGGGTTCTTCCTTCTTTGGCTCCTC
1 TCTTTCTTGGGTTCTTCTTTCTTTG--TCCTCCTCCTTCTTAGGCTCTTCCTTCTTCGGCTCCTC
34213443 CT
64 CT
34213445 TCTT
1 TCTT
34213449 CTCTGGCTCT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
63 24 0.40
66 30 0.50
67 6 0.10
ACGTcount: A:0.01, C:0.31, G:0.13, T:0.56
Consensus pattern (65 bp):
TCTTTCTTGGGTTCTTCTTTCTTTGTCCTCCTCCTTCTTAGGCTCTTCCTTCTTCGGCTCCTCCT
Found at i:34213433 original size:33 final size:32
Alignment explanation
Indices: 34213294--34213444 Score: 153
Period size: 33 Copynumber: 4.7 Consensus size: 32
34213284 TGGCTTTTTC
* * *
34213294 TCTTCTTCCTTCTTCTCTTCCTCTTTCTTGGGT
1 TCTTCTTTCTT-TGCTCCTCCTCTTTCTTGGGT
* * * *
34213327 TCTTCTTTCTTTG--CCTCTTCCTTCTTAGGC
1 TCTTCTTTCTTTGCTCCTCCTCTTTCTTGGGT
* * *
34213357 TCTTCTTTCTTCGGCTCCTCTTCTTTTTTGGGT
1 TCTTCTTTCTT-TGCTCCTCCTCTTTCTTGGGT
34213390 TCTTCTTTCTTTGCTTCCTCCTCTTTCTTGGGT
1 TCTTCTTTCTTTGC-TCCTCCTCTTTCTTGGGT
*
34213423 TCTTCCTTCTTTGGCTCCTCCT
1 TCTTCTTTCTTT-GCTCCTCCT
34213445 TCTTCTCTGG
Statistics
Matches: 97, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
30 23 0.24
31 1 0.01
32 3 0.03
33 68 0.70
34 2 0.02
ACGTcount: A:0.01, C:0.32, G:0.11, T:0.56
Consensus pattern (32 bp):
TCTTCTTTCTTTGCTCCTCCTCTTTCTTGGGT
Found at i:34215841 original size:25 final size:27
Alignment explanation
Indices: 34215788--34215856 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 27
34215778 ATTTTAAAAA
*
34215788 AATTAA-TAAATAATATTTTTAATTAAT
1 AATTAATTAATTAAT-TTTTTAATTAAT
34215815 AATTAATTAATTAATTTTTT-ATT-AT
1 AATTAATTAATTAATTTTTTAATTAAT
* * *
34215840 AAATATTTATTTAATTT
1 AATTAATTAATTAATTT
34215857 AAAATAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 16 0.43
26 3 0.08
27 11 0.30
28 7 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
AATTAATTAATTAATTTTTTAATTAAT
Found at i:34219129 original size:30 final size:30
Alignment explanation
Indices: 34219093--34219176 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 30
34219083 AATAAATCAT
** *
34219093 TATTTTT-TATTATGTTAAATTAAGTTTTTA
1 TATTTTTATATTAAATTAAA-TAAATTTTTA
*
34219123 TATTTTTATTTTAAATTAAATAAATTTTTA
1 TATTTTTATATTAAATTAAATAAATTTTTA
* * *
34219153 TATATTTATTTTAAATAAAATAAA
1 TATTTTTATATTAAATTAAATAAA
34219177 CTCTTTTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 38 0.81
31 9 0.19
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (30 bp):
TATTTTTATATTAAATTAAATAAATTTTTA
Found at i:34219296 original size:21 final size:21
Alignment explanation
Indices: 34219272--34219312 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
34219262 GAATGATGAT
*
34219272 ATAATATATTCATATGACATA
1 ATAATATAATCATATGACATA
34219293 ATAATATAATCATATGACAT
1 ATAATATAATCATATGACAT
34219313 TTTTCATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.37
Consensus pattern (21 bp):
ATAATATAATCATATGACATA
Found at i:34223600 original size:21 final size:21
Alignment explanation
Indices: 34223574--34223617 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
34223564 AGCTACGGGG
34223574 ACACACATTTCATGACTTTGA
1 ACACACATTTCATGACTTTGA
34223595 ACACACATTTCATGACTTTGA
1 ACACACATTTCATGACTTTGA
34223616 AC
1 AC
34223618 GCCTCCCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.32
Consensus pattern (21 bp):
ACACACATTTCATGACTTTGA
Found at i:34228356 original size:1 final size:1
Alignment explanation
Indices: 34228324--34228348 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
34228314 TTACTCCTTG
34228324 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
34228349 GGGTTTTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:34237486 original size:10 final size:10
Alignment explanation
Indices: 34237467--34237511 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
34237457 GCTATGTGTG
34237467 TGTATATATA
1 TGTATATATA
*
34237477 TGTATGTATA
1 TGTATATATA
* *
34237487 TATATATGTA
1 TGTATATATA
*
34237497 TGTATATGTA
1 TGTATATATA
34237507 TGTAT
1 TGTAT
34237512 GTATGTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (10 bp):
TGTATATATA
Found at i:34237486 original size:14 final size:14
Alignment explanation
Indices: 34237467--34237515 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
34237457 GCTATGTGTG
34237467 TGTATATATATGTA
1 TGTATATATATGTA
34237481 TGTATATATATATGTA
1 TG--TATATATATGTA
*
34237497 TGTATATGTATGTA
1 TGTATATATATGTA
34237511 TGTAT
1 TGTAT
34237516 GTAAAAGTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 18 0.56
16 14 0.44
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (14 bp):
TGTATATATATGTA
Found at i:34237488 original size:16 final size:16
Alignment explanation
Indices: 34237459--34237518 Score: 75
Period size: 16 Copynumber: 3.6 Consensus size: 16
34237449 TTAGGTCAGC
* *
34237459 TATGTGTGTGTATATA
1 TATGTATGTATATATA
34237475 TATGTATGTATATATA
1 TATGTATGTATATATA
*
34237491 TATGTATGTATATGTATG
1 TATGTATGTATA--TATA
34237509 TATGTATGTA
1 TATGTATGTA
34237519 AAAGTGAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
16 26 0.67
18 13 0.33
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TATGTATGTATATATA
Found at i:34237508 original size:4 final size:4
Alignment explanation
Indices: 34237475--34237518 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
34237465 TGTGTATATA
* *
34237475 TATG TATG TATA TATA TATG TATG TA-- TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA
34237519 AAAGTGAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
4 34 0.94
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:34238217 original size:16 final size:16
Alignment explanation
Indices: 34238187--34238216 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34238177 AGAACATTCT
34238187 TTTCTTTTTCTTTTTC
1 TTTCTTTTTCTTTTTC
34238203 TTTCTTTTT-TTTTT
1 TTTCTTTTTCTTTTT
34238217 TTTTGGACTT
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:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTCTTTTTCTTTTTC
Found at i:34250450 original size:23 final size:23
Alignment explanation
Indices: 34250424--34250469 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
34250414 TTACAGACTA
34250424 AAAGGCACAAACAACATTATAGG
1 AAAGGCACAAACAACATTATAGG
34250447 AAAGGCACAAACAACATTATAGG
1 AAAGGCACAAACAACATTATAGG
34250470 GGGTGTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.17, G:0.17, T:0.13
Consensus pattern (23 bp):
AAAGGCACAAACAACATTATAGG
Found at i:34265210 original size:17 final size:17
Alignment explanation
Indices: 34265180--34265214 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
34265170 TTTTTTATTA
* *
34265180 TTATTTAACCTGACTTG
1 TTATTAAACATGACTTG
34265197 TTATTAAACATGACTTG
1 TTATTAAACATGACTTG
34265214 T
1 T
34265215 AACAATAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (17 bp):
TTATTAAACATGACTTG
Found at i:34273365 original size:18 final size:18
Alignment explanation
Indices: 34273333--34273367 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
34273323 AATTAGCTAC
34273333 GAATGGATTGTGTGAAGA
1 GAATGGATTGTGTGAAGA
34273351 GAATGTGATTG-GTGAAG
1 GAATG-GATTGTGTGAAG
34273368 GTGGCTACGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.31, C:0.00, G:0.40, T:0.29
Consensus pattern (18 bp):
GAATGGATTGTGTGAAGA
Found at i:34283689 original size:2 final size:2
Alignment explanation
Indices: 34283682--34283711 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
34283672 TCGCACGACC
34283682 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34283712 TGGATGGCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34294609 original size:4 final size:4
Alignment explanation
Indices: 34294600--34294662 Score: 60
Period size: 4 Copynumber: 15.5 Consensus size: 4
34294590 ATAAAATAAT
*
34294600 TTTA TTTA TTGTGT TTTA TTTA TTT- TTTA TTTA TTTA TTT- TTTA TATT-
1 TTTA TTTA TT-T-A TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA
34294648 TTTA TTCTA TTTA TT
1 TTTA TT-TA TTTA TT
34294663 CATATGTTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
3 8 0.16
4 32 0.64
5 8 0.16
6 2 0.04
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:34294629 original size:11 final size:11
Alignment explanation
Indices: 34294599--34294659 Score: 61
Period size: 11 Copynumber: 5.1 Consensus size: 11
34294589 AATAAAATAA
34294599 TTTTATTTATTGT
1 TTTTATTTA-T-T
34294612 GTTTTATTTATT
1 -TTTTATTTATT
34294624 TTTTATTTATT
1 TTTTATTTATT
34294635 TATTT-TTTATAT
1 T-TTTATTTAT-T
34294647 TTTTATTCTATT
1 TTTTATT-TATT
34294659 T
1 T
34294660 ATTCATATGT
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
11 20 0.47
12 10 0.23
13 4 0.09
14 9 0.21
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.77
Consensus pattern (11 bp):
TTTTATTTATT
Found at i:34294634 original size:15 final size:15
Alignment explanation
Indices: 34294600--34294653 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
34294590 ATAAAATAAT
* *
34294600 TTTATTTATTGTGT-
1 TTTATTTATTTTTTA
34294614 TTTATTTATTTTTTA
1 TTTATTTATTTTTTA
34294629 TTTATTTATTTTTTA
1 TTTATTTATTTTTTA
34294644 TATT-TTTATT
1 T-TTATTTATT
34294654 CTATTTATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 12 0.33
15 22 0.61
16 2 0.06
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.78
Consensus pattern (15 bp):
TTTATTTATTTTTTA
Found at i:34294673 original size:28 final size:23
Alignment explanation
Indices: 34294599--34294662 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
34294589 AATAAAATAA
*
34294599 TTTTATTTATTGTGTTTTATT-TATT
1 TTTTATTTATT-TATTTT-TTATA-T
34294624 TTTTATTTATTTATTTTTTATAT
1 TTTTATTTATTTATTTTTTATAT
34294647 TTTTATTCTATTTATT
1 TTTTATT-TATTTATT
34294663 CATATGTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
23 10 0.28
24 15 0.42
25 11 0.31
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.77
Consensus pattern (23 bp):
TTTTATTTATTTATTTTTTATAT
Found at i:34294817 original size:15 final size:16
Alignment explanation
Indices: 34294783--34294831 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
34294773 ATGTTCTTTT
* *
34294783 TTTTATATTATATAAA
1 TTTTATTTTTTATAAA
34294799 TTTTATTTTTTAT-AA
1 TTTTATTTTTTATAAA
* *
34294814 TTTTAATTTTTAAAAA
1 TTTTATTTTTTATAAA
34294830 TT
1 TT
34294832 AATAAATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 13 0.46
16 15 0.54
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTATTTTTTATAAA
Found at i:34294875 original size:30 final size:29
Alignment explanation
Indices: 34294817--34294876 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
34294807 TTTATAATTT
*
34294817 TAATTTTTAAAAATTAATAAATTATTATA
1 TAATTTTTAAAAATAAATAAATTATTATA
*
34294846 TAATTTTTAAATATAAATTATAA-TATTATA
1 TAATTTTTAAAAATAAA-TA-AATTATTATA
34294876 T
1 T
34294877 TGTTACTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 15 0.56
30 10 0.37
31 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
TAATTTTTAAAAATAAATAAATTATTATA
Found at i:34299925 original size:28 final size:27
Alignment explanation
Indices: 34299893--34300009 Score: 85
Period size: 29 Copynumber: 4.1 Consensus size: 27
34299883 ATTCGTAAGG
34299893 AACAAAAATATTTTAGACAT-TAA-AGTGT
1 AACAAAAATATTTTA-A-ATATAACA-TGT
* *
34299921 AACAAAATTTTTTTAAATATAACATGT
1 AACAAAAATATTTTAAATATAACATGT
* * *
34299948 AACAATAATATTTTTTCAATATAACGTGT
1 AACAA-AA-ATATTTTAAATATAACATGT
* * *
34299977 AACAATAATATTTTTTTAATATAACTTGT
1 AACAA-AA-ATATTTTAAATATAACATGT
34300006 AACA
1 AACA
34300010 TATTTTAGTA
Statistics
Matches: 78, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.03
27 12 0.15
28 16 0.21
29 48 0.62
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (27 bp):
AACAAAAATATTTTAAATATAACATGT
Found at i:34299970 original size:29 final size:29
Alignment explanation
Indices: 34299918--34300009 Score: 134
Period size: 29 Copynumber: 3.2 Consensus size: 29
34299908 GACATTAAAG
34299918 TGTAACAA-AAT-TTTTTTAAATATAACA
1 TGTAACAATAATATTTTTTAAATATAACA
* *
34299945 TGTAACAATAATATTTTTTCAATATAACG
1 TGTAACAATAATATTTTTTAAATATAACA
* *
34299974 TGTAACAATAATATTTTTTTAATATAACT
1 TGTAACAATAATATTTTTTAAATATAACA
34300003 TGTAACA
1 TGTAACA
34300010 TATTTTAGTA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 8 0.14
28 3 0.05
29 48 0.81
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.42
Consensus pattern (29 bp):
TGTAACAATAATATTTTTTAAATATAACA
Found at i:34303640 original size:32 final size:33
Alignment explanation
Indices: 34303587--34303648 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
34303577 ATCCTTTATG
34303587 TTGTTTGGATAAATTATTG-AAAATATTTTCAA
1 TTGTTTGGATAAATTATTGAAAAATATTTTCAA
* *
34303619 TTGTTTGGAT-CATTTTATGAAAAATATTTT
1 TTGTTTGGATAAATTAT-TGAAAAATATTTT
34303649 TCATCATGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 4 0.15
32 12 0.46
33 10 0.38
ACGTcount: A:0.34, C:0.03, G:0.13, T:0.50
Consensus pattern (33 bp):
TTGTTTGGATAAATTATTGAAAAATATTTTCAA
Found at i:34309503 original size:2 final size:2
Alignment explanation
Indices: 34309498--34309536 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
34309488 GAGCTATCAT
34309498 TC TC TC TC TC TC 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 TC TC TC TC TC TC T
34309537 ATGTATATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:34317399 original size:27 final size:27
Alignment explanation
Indices: 34317361--34317414 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
34317351 TGGAAAGAAA
34317361 AACATTTGCTCAGTTACGTGTTACCTT
1 AACATTTGCTCAGTTACGTGTTACCTT
34317388 AACATTTGCTCAGTTACGTGTTACCTT
1 AACATTTGCTCAGTTACGTGTTACCTT
34317415 TATTGTATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (27 bp):
AACATTTGCTCAGTTACGTGTTACCTT
Found at i:34321868 original size:19 final size:19
Alignment explanation
Indices: 34321844--34321884 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
34321834 TAAAAGATTT
34321844 ATTTAAA-ATTTTTTAAATA
1 ATTTAAAGATTTTTTAAA-A
34321863 ATTTAAAGATTTTTTAAAA
1 ATTTAAAGATTTTTTAAAA
34321882 ATT
1 ATT
34321885 ATTGTGTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
ATTTAAAGATTTTTTAAAA
Found at i:34324457 original size:17 final size:16
Alignment explanation
Indices: 34324429--34324460 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
34324419 TACATAATGG
34324429 TTAAATATATAAATAA
1 TTAAATATATAAATAA
34324445 TTAAATAATATAAATA
1 TTAAAT-ATATAAATA
34324461 GAAAGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TTAAATATATAAATAA
Found at i:34324843 original size:49 final size:49
Alignment explanation
Indices: 34324764--34324903 Score: 116
Period size: 49 Copynumber: 2.9 Consensus size: 49
34324754 AACCATGAAG
* *
34324764 AATATAT-ATAAAATAAATAATTC-CATAAATTTTGAAAGAGACCATTTAA
1 AATATATAAT-AAATAAA-AATTCTAAAAAATTTTGAAAGAGACCATTTAA
* * *
34324813 AATATATAATAAATAAAAATTCTAAAAAATTTGGAATG-G-GCA-TTAA
1 AATATATAATAAATAAAAATTCTAAAAAATTTTGAAAGAGACCATTTAA
* *
34324859 TATATATATATATAATAAAAAATT-TTAAAAATTTTG--AGAGACCAT
1 AATATATA-ATA-AAT-AAAAATTCTAAAAAATTTTGAAAGAGACCAT
34324904 GACACTACCC
Statistics
Matches: 73, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
46 12 0.16
47 6 0.08
48 21 0.29
49 32 0.44
50 2 0.03
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.34
Consensus pattern (49 bp):
AATATATAATAAATAAAAATTCTAAAAAATTTTGAAAGAGACCATTTAA
Found at i:34326229 original size:8 final size:8
Alignment explanation
Indices: 34326216--34326243 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
34326206 TTAGGAATGA
34326216 AAAAAAAC
1 AAAAAAAC
34326224 AAAAAAAC
1 AAAAAAAC
34326232 AAAAAAAC
1 AAAAAAAC
34326240 AAAA
1 AAAA
34326244 GGGGGAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:34333452 original size:27 final size:28
Alignment explanation
Indices: 34333363--34333463 Score: 90
Period size: 27 Copynumber: 3.8 Consensus size: 28
34333353 TAATAATTTA
*
34333363 TTATA-AATATTAATAAATTATTATTGAAT
1 TTATACAATATTAATAATTTATT-TT-AAT
* *
34333392 TT-T--AATA-TGATTATTTATTTTAAT
1 TTATACAATATTAATAATTTATTTTAAT
*
34333416 TTATACAATATTAATAATTTATATTTCAT
1 TTATACAATATTAATAATTTAT-TTTAAT
34333445 TTA-A-AATATTAATAATTTA
1 TTATACAATATTAATAATTTA
34333464 AATTAAAACA
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
24 5 0.08
25 3 0.05
26 9 0.15
27 23 0.38
28 11 0.18
29 10 0.16
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (28 bp):
TTATACAATATTAATAATTTATTTTAAT
Found at i:34334092 original size:29 final size:29
Alignment explanation
Indices: 34334027--34334093 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
34334017 ATAATTTTTG
**
34334027 AAATTTTGAAAAGATATTTTTGTCCAATC
1 AAATTTTTTAAAGATATTTTTGTCCAATC
34334056 AAATTTTTTAAAGATATTTTTGTCCAATC
1 AAATTTTTTAAAGATATTTTTGTCCAATC
*
34334085 AAGTTTTTT
1 AAATTTTTT
34334094 TCTATTCTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.48
Consensus pattern (29 bp):
AAATTTTTTAAAGATATTTTTGTCCAATC
Found at i:34338292 original size:31 final size:31
Alignment explanation
Indices: 34338231--34338309 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
34338221 CATGTATATA
* **
34338231 AAAATATATATATATATGTAATTATATAAATG
1 AAAATGTA-ATATATAAATAATTATATAAATG
*
34338263 AAAATGTAATTTATAAATAATTGAT-TAAATG
1 AAAATGTAATATATAAATAATT-ATATAAATG
**
34338294 ATCATGTAATATATAA
1 AAAATGTAATATATAA
34338310 TCAATTTATT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
31 30 0.77
32 9 0.23
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.39
Consensus pattern (31 bp):
AAAATGTAATATATAAATAATTATATAAATG
Found at i:34354787 original size:47 final size:47
Alignment explanation
Indices: 34354734--34354824 Score: 182
Period size: 47 Copynumber: 1.9 Consensus size: 47
34354724 ACAGTTCAAA
34354734 AAAATTCAAATAAGTTTTTATATTTTTATTGTATTAAATCAAATCCT
1 AAAATTCAAATAAGTTTTTATATTTTTATTGTATTAAATCAAATCCT
34354781 AAAATTCAAATAAGTTTTTATATTTTTATTGTATTAAATCAAAT
1 AAAATTCAAATAAGTTTTTATATTTTTATTGTATTAAATCAAAT
34354825 ACTTATACTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (47 bp):
AAAATTCAAATAAGTTTTTATATTTTTATTGTATTAAATCAAATCCT
Found at i:34354867 original size:30 final size:28
Alignment explanation
Indices: 34354788--34354891 Score: 109
Period size: 30 Copynumber: 3.5 Consensus size: 28
34354778 CCTAAAATTC
* *
34354788 AAATAAGTTTTTATATTTTTATTGTATT
1 AAATAAATTTTTATATTTTTATTTTATT
** *
34354816 AAATCAAATACTTATACTTTTATTTTGAGTT
1 AAAT-AAATTTTTATATTTTTATTTT-A-TT
34354847 AAATAAATTTTTATATTTTTATTTTAAATT
1 AAATAAATTTTTATATTTTTATTTT--ATT
*
34354877 AAATAAAATTTTATA
1 AAATAAATTTTTATA
34354892 ATTAATTATT
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
28 4 0.06
29 16 0.26
30 35 0.56
31 7 0.11
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (28 bp):
AAATAAATTTTTATATTTTTATTTTATT
Found at i:34411383 original size:20 final size:20
Alignment explanation
Indices: 34411349--34411389 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
34411339 AGTGAGAGCA
*
34411349 AGAGAGAAGGTGAA-GATAC
1 AGAGAGAAGGGGAAGGATAC
34411368 AGAGAGGAAGGGGAAGGATAC
1 AGAGA-GAAGGGGAAGGATAC
34411389 A
1 A
34411390 AAATCTGCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 8 0.42
21 6 0.32
ACGTcount: A:0.46, C:0.05, G:0.41, T:0.07
Consensus pattern (20 bp):
AGAGAGAAGGGGAAGGATAC
Found at i:34412502 original size:13 final size:13
Alignment explanation
Indices: 34412484--34412527 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
34412474 ATGTTTTTCG
*
34412484 ATAATTTATAATT
1 ATAATTTAAAATT
*
34412497 ATAATTTAAAATG
1 ATAATTTAAAATT
*
34412510 ATAATTTAAAAAT
1 ATAATTTAAAATT
34412523 ATAAT
1 ATAAT
34412528 AAACAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (13 bp):
ATAATTTAAAATT
Found at i:34413790 original size:15 final size:17
Alignment explanation
Indices: 34413760--34413799 Score: 57
Period size: 15 Copynumber: 2.4 Consensus size: 17
34413750 GAATTAAATC
34413760 ATAAAATAATTTTATTA
1 ATAAAATAATTTTATTA
34413777 ATAAAA-AA-TTTATTA
1 ATAAAATAATTTTATTA
34413792 ACTAAAAT
1 A-TAAAAT
34413800 TATAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 8 0.38
16 7 0.33
17 6 0.29
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
ATAAAATAATTTTATTA
Found at i:34414948 original size:47 final size:46
Alignment explanation
Indices: 34414863--34414962 Score: 132
Period size: 47 Copynumber: 2.1 Consensus size: 46
34414853 TCTCTTTTAC
*
34414863 GGTAAAGAGCCAATGCAATGCACTAAGTATGTTGTACAATT-AGGTGG
1 GGTAAAGAGCCAATGCAATGCACTAAG-ATGTTATACAATTGA-GTGG
*
34414910 GGTAAAGAGCCACTGCAATGCACTAA-ATGCATTATACAATTGAGTGG
1 GGTAAAGAGCCAATGCAATGCACTAAGATG--TTATACAATTGAGTGG
34414957 GGTAAA
1 GGTAAA
34414963 ATGTCACGAC
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
45 3 0.06
47 44 0.92
48 1 0.02
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (46 bp):
GGTAAAGAGCCAATGCAATGCACTAAGATGTTATACAATTGAGTGG
Found at i:34415894 original size:2 final size:2
Alignment explanation
Indices: 34415889--34415988 Score: 111
Period size: 2 Copynumber: 51.5 Consensus size: 2
34415879 AGTTTTTTTA
*
34415889 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AN A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
34415929 AT AT AG AGT AGT AT TT A- AT -T TT AT -T AT AT AT AT AT AT AT AT
1 AT AT AT A-T A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34415970 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
34415989 AATGTATGAG
Statistics
Matches: 87, Mismatches: 5, Indels: 12
0.84 0.05 0.12
Matches are distributed among these distances:
1 5 0.06
2 78 0.90
3 4 0.05
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34419536 original size:23 final size:23
Alignment explanation
Indices: 34419486--34419536 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
34419476 ACTTTCAAAT
* *
34419486 TTATCTTCATCACTTTTTCTTTC
1 TTATCTTCATCAATTTTTCTCTC
*
34419509 ATATCTTCATCAA-TTTTCTCCTC
1 TTATCTTCATCAATTTTTCT-CTC
34419532 TTATC
1 TTATC
34419537 CATTTCTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.18, C:0.27, G:0.00, T:0.55
Consensus pattern (23 bp):
TTATCTTCATCAATTTTTCTCTC
Found at i:34433226 original size:85 final size:80
Alignment explanation
Indices: 34433105--34433268 Score: 238
Period size: 85 Copynumber: 2.0 Consensus size: 80
34433095 CAGAAAGACT
** *
34433105 ATCCACATAAAAAATTAAAAAAGTGATGCAAAGATGAATTAGAGTATGAAAATGTAAAGATACAG
1 ATCCACATAAAAAAAAAAAAAAGTGATGCAAAGATGAATTAGAGTATGAAAATATAAAGATAC--
34433170 AAGGTCTAGTTAAAAGAA
64 -AGGTCTAGTTAAAAGAA
* *
34433188 ATCCACATGAAAAATAAAAAAAAAGTGATGGAAAGATGAATTAGAGTATGAAAATATACAGATAC
1 ATCCACAT-AAAAA-AAAAAAAAAGTGATGCAAAGATGAATTAGAGTATGAAAATATAAAGATAC
34433253 AGGTCTAGTTAAAAGA
64 AGGTCTAGTTAAAAGA
34433269 GAAATTATAC
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
82 16 0.22
83 8 0.11
84 5 0.07
85 45 0.61
ACGTcount: A:0.53, C:0.07, G:0.18, T:0.21
Consensus pattern (80 bp):
ATCCACATAAAAAAAAAAAAAAGTGATGCAAAGATGAATTAGAGTATGAAAATATAAAGATACAG
GTCTAGTTAAAAGAA
Found at i:34437751 original size:4 final size:4
Alignment explanation
Indices: 34437742--34437766 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
34437732 GTTACTCACA
34437742 ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
34437767 AAAAAAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Done.