Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold106
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: 4928209
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 8888 characters in sequence are not A, C, G, or T
File 1 of 27
Found at i:6747 original size:86 final size:86
Alignment explanation
Indices: 6646--6818 Score: 319
Period size: 86 Copynumber: 2.0 Consensus size: 86
6636 CTTACGGAAC
*
6646 GCTAGTTGATGTTCATGGGAAGGCTGATCTGGGTGAAAGGACTTTCGTGGATTAAGCATATGAGA
1 GCTAGTTGATGTTCATGGGAAAGCTGATCTGGGTGAAAGGACTTTCGTGGATTAAGCATATGAGA
*
6711 CTCAGGGAACTTAGCCCTGAT
66 CTCAGGGAACTTAACCCTGAT
*
6732 GCTAGTTGATGTTCATGGGAAAGCTGGTCTGGGTGAAAGGACTTTCGTGGATTAAGCATATGAGA
1 GCTAGTTGATGTTCATGGGAAAGCTGATCTGGGTGAAAGGACTTTCGTGGATTAAGCATATGAGA
6797 CTCAGGGAACTTAACCCTGAT
66 CTCAGGGAACTTAACCCTGAT
6818 G
1 G
6819 AAGTAACGAC
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (86 bp):
GCTAGTTGATGTTCATGGGAAAGCTGATCTGGGTGAAAGGACTTTCGTGGATTAAGCATATGAGA
CTCAGGGAACTTAACCCTGAT
Found at i:14142 original size:2 final size:2
Alignment explanation
Indices: 14135--14169 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
14125 ACTTCTACAA
14135 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
14170 TCTAAAATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14588 original size:2 final size:2
Alignment explanation
Indices: 14581--14617 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
14571 GGTTAAGGGA
14581 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14618 AAGTAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14920 original size:13 final size:13
Alignment explanation
Indices: 14902--14953 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
14892 TCCATTATGA
14902 AAATATTATATTT
1 AAATATTATATTT
*
14915 AAATATTATATAT
1 AAATATTATATTT
* * *
14928 AACTGTTAAAATTAT
1 AAATATT-ATATT-T
14943 AAATATTATAT
1 AAATATTATAT
14954 AAAAATTTTA
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
13 17 0.59
14 6 0.21
15 6 0.21
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (13 bp):
AAATATTATATTT
Found at i:15377 original size:15 final size:15
Alignment explanation
Indices: 15357--15388 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15347 AAATATAGAC
*
15357 AATTAATTAAGAAGG
1 AATTAAATAAGAAGG
15372 AATTAAATAAGAAGG
1 AATTAAATAAGAAGG
15387 AA
1 AA
15389 AAGGAAGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (15 bp):
AATTAAATAAGAAGG
Found at i:15671 original size:14 final size:14
Alignment explanation
Indices: 15652--15685 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
15642 GTTATTAAAT
15652 TATTATGTTATTT-A
1 TATTAT-TTATTTAA
15666 TATTATTTATTTAA
1 TATTATTTATTTAA
15680 TATTAT
1 TATTAT
15686 ATTTATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (14 bp):
TATTATTTATTTAA
Found at i:16070 original size:7 final size:7
Alignment explanation
Indices: 16060--16093 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
16050 TAAAAATAAA
16060 AAATTTT
1 AAATTTT
16067 AAATTTT
1 AAATTTT
16074 AAATTTT
1 AAATTTT
16081 AAATTTT
1 AAATTTT
16088 AAATTT
1 AAATTT
16094 ATTAAGTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AAATTTT
Found at i:16077 original size:21 final size:21
Alignment explanation
Indices: 16053--16093 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
16043 GTTAATATAA
16053 AAATAAAAAATTTTAAATTTT
1 AAATAAAAAATTTTAAATTTT
***
16074 AAATTTTAAATTTTAAATTT
1 AAATAAAAAATTTTAAATTT
16094 ATTAAGTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATAAAAAATTTTAAATTTT
Found at i:16199 original size:19 final size:18
Alignment explanation
Indices: 16175--16231 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
16165 AATTTAAATT
16175 TTTTAAATATTATATAAAA
1 TTTT-AATATTATATAAAA
* *
16194 TTTTAATATGAATATAATA
1 TTTTAATAT-TATATAAAA
*
16213 TATTTAATAATATATAAAA
1 T-TTTAATATTATATAAAA
16232 ATAATATAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
18 5 0.16
19 19 0.61
20 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TTTTAATATTATATAAAA
Found at i:16243 original size:14 final size:13
Alignment explanation
Indices: 16218--16252 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
16208 TAATATATTT
16218 AATAATATATAAA
1 AATAATATATAAA
16231 AATAATATAATAAA
1 AATAATAT-ATAAA
*
16245 CATAATAT
1 AATAATAT
16253 GATATATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (13 bp):
AATAATATATAAA
Found at i:16629 original size:19 final size:18
Alignment explanation
Indices: 16607--16654 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
16597 TTTAAATATT
16607 ATATAAAAATTTAATACAA
1 ATATAAAAATTTAATA-AA
** *
16626 ATATAATATGTTTAATAAT
1 ATATAA-AAATTTAATAAA
16645 ATATAAAAAT
1 ATATAAAAAT
16655 AATATAATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
18 2 0.09
19 13 0.57
20 8 0.35
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (18 bp):
ATATAAAAATTTAATAAA
Found at i:18037 original size:10 final size:10
Alignment explanation
Indices: 18031--18092 Score: 55
Period size: 8 Copynumber: 6.7 Consensus size: 10
18021 AAAATAATTA
18031 AATATAATAT
1 AATATAATAT
*
18041 AATATAAAAAT
1 AATAT-AATAT
18052 AATATAA-AT
1 AATATAATAT
18061 AATAT-ATA-
1 AATATAATAT
18069 AATAT-ATA-
1 AATATAATAT
*
18077 AACAT-ATAT
1 AATATAATAT
18086 AATATAA
1 AATATAA
18093 ATTTTTAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
8 16 0.36
9 12 0.27
10 8 0.18
11 9 0.20
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (10 bp):
AATATAATAT
Found at i:18055 original size:11 final size:11
Alignment explanation
Indices: 18039--18087 Score: 52
Period size: 10 Copynumber: 4.8 Consensus size: 11
18029 TAAATATAAT
18039 ATAATATAAAA
1 ATAATATAAAA
18050 ATAATAT--AA
1 ATAATATAAAA
*
18059 ATAATATATAA
1 ATAATATAAAA
*
18070 AT-ATATAAAC
1 ATAATATAAAA
18080 AT-ATATAA
1 ATAATATAA
18088 TATAAATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 9 0.26
10 14 0.41
11 11 0.32
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:18084 original size:38 final size:39
Alignment explanation
Indices: 18009--18084 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 39
17999 TGATGATTTT
*
18009 AAATAATATGAAAAAATAATTAAATATAATATAATATAA
1 AAATAATATGAAAAAATAATTAAATATAATAAAATATAA
*
18048 AAATAATAT-AAATAAT-ATATAAATAT-ATAAACATATA
1 AAATAATATGAAAAAATAAT-TAAATATAATAAA-ATATA
18085 TAATATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
37 6 0.18
38 18 0.55
39 9 0.27
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (39 bp):
AAATAATATGAAAAAATAATTAAATATAATAAAATATAA
Found at i:18085 original size:20 final size:20
Alignment explanation
Indices: 18031--18087 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
18021 AAAATAATTA
*
18031 AATATAATATAATATAAAAAT
1 AATATAA-ACAATATAAAAAT
* *
18052 AATATAAATAATATATAAAT
1 AATATAAACAATATAAAAAT
18072 -ATATAAACATATATAA
1 AATATAAACA-ATATAA
18088 TATAAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.25
20 17 0.53
21 7 0.22
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AATATAAACAATATAAAAAT
Found at i:18788 original size:16 final size:15
Alignment explanation
Indices: 18767--18796 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
18757 CCGGTCGGAC
18767 AAGCAAGAAAAAAAAG
1 AAGCAA-AAAAAAAAG
18783 AAGCAAAAAAAAAA
1 AAGCAAAAAAAAAA
18797 AAAAAATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.80, C:0.07, G:0.13, T:0.00
Consensus pattern (15 bp):
AAGCAAAAAAAAAAG
Found at i:18797 original size:16 final size:16
Alignment explanation
Indices: 18767--18797 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18757 CCGGTCGGAC
*
18767 AAGCAAGAAAAAAAAG
1 AAGCAAAAAAAAAAAG
18783 AAGCAAAAAAAAAAA
1 AAGCAAAAAAAAAAA
18798 AAAAATCATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (16 bp):
AAGCAAAAAAAAAAAG
Found at i:21225 original size:41 final size:40
Alignment explanation
Indices: 21166--21244 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 40
21156 TTAATATGCG
* * *
21166 TAAGGGCCAGGCAAACTATTTCGTAAATGTAATGACAGCA
1 TAAGGGACAGGCAAACTATTCCATAAATGTAATGACAGCA
*
21206 TAAGGGACAGGACGAACTATTCCATAAATGTAATGACAG
1 TAAGGGACAGG-CAAACTATTCCATAAATGTAATGACAG
21245 AGCGACTGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
40 10 0.29
41 24 0.71
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (40 bp):
TAAGGGACAGGCAAACTATTCCATAAATGTAATGACAGCA
Found at i:21501 original size:18 final size:18
Alignment explanation
Indices: 21474--21517 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
21464 TTATTTTTAG
*
21474 AAATAAAAATAATATATT
1 AAATATAAATAATATATT
* *
21492 AAATATAAATAATTTTTT
1 AAATATAAATAATATATT
21510 AAAT-TAAA
1 AAATATAAA
21518 ATTAATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATATAAATAATATATT
Found at i:21519 original size:18 final size:18
Alignment explanation
Indices: 21474--21533 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
21464 TTATTTTTAG
* * *
21474 AAATAAAAATAATATATT
1 AAATTAAAATAATTTTTT
21492 AAA-TATAAATAATTTTTT
1 AAATTA-AAATAATTTTTT
*
21510 AAATTAAAATTAATATTTAT
1 AAATTAAAA-TAAT-TTTTT
21530 AAAT
1 AAAT
21534 ATCAATTAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 1 0.03
18 19 0.56
19 6 0.18
20 8 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATTAAAATAATTTTTT
Found at i:21556 original size:2 final size:2
Alignment explanation
Indices: 21549--21574 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21539 TTAAGTAAAC
21549 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
21575 AGGTTTTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21631 original size:2 final size:2
Alignment explanation
Indices: 21624--21648 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21614 TTAAAGTTGC
21624 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
21649 GCATTCAAGG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21919 original size:3 final size:3
Alignment explanation
Indices: 21911--21945 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
21901 CTTAGCTTAG
*
21911 TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
21946 TTTGGTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:23039 original size:17 final size:18
Alignment explanation
Indices: 23017--23056 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
23007 TTGTTCTTAG
**
23017 TTTCTTTTC-CTTTTTTT
1 TTTCTTTTCACTTCGTTT
23034 TTTCTTTTCACTTCGTTT
1 TTTCTTTTCACTTCGTTT
23052 TTTCT
1 TTTCT
23057 GTCTTATGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.03, C:0.20, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTCTTTTCACTTCGTTT
Found at i:23579 original size:19 final size:20
Alignment explanation
Indices: 23546--23591 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
23536 GGAAATAAAT
**
23546 AACTGTTTGTTTTTTC-ACA
1 AACTGTTTGACTTTTCAACA
23565 AACTGTTTGACTTTTCAAACA
1 AACTGTTTGACTTTTC-AACA
23586 AACTGT
1 AACTGT
23592 GATCTCTCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 14 0.61
21 9 0.39
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.43
Consensus pattern (20 bp):
AACTGTTTGACTTTTCAACA
Found at i:24233 original size:16 final size:17
Alignment explanation
Indices: 24185--24233 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
24175 AGTACCTAAA
24185 ATTTAATTATTTTAAACAT
1 ATTTAATT-TTTT-AACAT
*
24204 ATTT-TTTTTTTAACAT
1 ATTTAATTTTTTAACAT
24220 -TTTAATTTTTTAAC
1 ATTTAATTTTTTAAC
24234 GTTATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 3 0.11
16 14 0.52
17 4 0.15
18 2 0.07
19 4 0.15
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTAATTTTTTAACAT
Found at i:26104 original size:16 final size:15
Alignment explanation
Indices: 26083--26125 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
26073 AAATTTTTTG
26083 ACATTAAACTTATAGA
1 ACATTAAACTTATA-A
*
26099 ACATTAAAGTTATAA
1 ACATTAAACTTATAA
*
26114 ACAATAAACTTA
1 ACATTAAACTTA
26126 AATCAAAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (15 bp):
ACATTAAACTTATAA
Found at i:26121 original size:15 final size:16
Alignment explanation
Indices: 26087--26125 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
26077 TTTTTGACAT
*
26087 TAAACTTATAGAACAT
1 TAAACTTATAGAACAA
*
26103 TAAAGTTATA-AACAA
1 TAAACTTATAGAACAA
26118 TAAACTTA
1 TAAACTTA
26126 AATCAAAGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (16 bp):
TAAACTTATAGAACAA
Found at i:26498 original size:16 final size:16
Alignment explanation
Indices: 26474--26504 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26464 AAATATTTAA
*
26474 AATATATAATTATTAT
1 AATAAATAATTATTAT
26490 AATAAATAATTATTA
1 AATAAATAATTATTA
26505 ATGAGATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATAAATAATTATTAT
Found at i:26873 original size:23 final size:23
Alignment explanation
Indices: 26847--26904 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 23
26837 GAAGATTGGA
*
26847 ATTTGTAAAATTTCCA-TTCTTTT
1 ATTT-TAAAATTTCCATTTATTTT
* **
26870 ATTTTTAAATTTTTATTTATTTT
1 ATTTTAAAATTTCCATTTATTTT
26893 ATTTTTAAAATT
1 A-TTTTAAAATT
26905 AATTTTATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 8 0.29
23 11 0.39
24 9 0.32
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (23 bp):
ATTTTAAAATTTCCATTTATTTT
Found at i:26911 original size:23 final size:24
Alignment explanation
Indices: 26866--26921 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
26856 ATTTCCATTC
**
26866 TTTTATTTTTAAATTTTTATTTA-
1 TTTTATTTTTAAATTAATATTTAT
26889 TTTTATTTTTAAAATTAAT-TTTAT
1 TTTTATTTTT-AAATTAATATTTAT
26913 TTTTATTTT
1 TTTTATTTT
26922 ATTAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 14 0.48
24 15 0.52
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTATTTTTAAATTAATATTTAT
Found at i:26931 original size:29 final size:28
Alignment explanation
Indices: 26877--26932 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
26867 TTTATTTTTA
***
26877 AATTTTTATTTATTTTATTTTTAAAATT
1 AATTTTTATTTATTTTATTAAAAAAATT
*
26905 AATTTTATTTTTATTTTATTAAAAAAAT
1 AATTTT-TATTTATTTTATTAAAAAAAT
26933 AAAATATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (28 bp):
AATTTTTATTTATTTTATTAAAAAAATT
Found at i:28023 original size:21 final size:21
Alignment explanation
Indices: 28011--28079 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
28001 ATAAATTATG
28011 AAATATATGTTATTAATATTT
1 AAATATATGTTATTAATATTT
28032 AAATATAT-TTA--AAT-TTGT
1 AAATATATGTTATTAATATT-T
**
28050 -AATATAAATTATTAATATATT
1 AAATATATGTTATTAATAT-TT
28071 AAATTATAT
1 AAA-TATAT
28080 ATAAAATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
17 8 0.21
18 7 0.18
20 6 0.16
21 10 0.26
22 3 0.08
23 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (21 bp):
AAATATATGTTATTAATATTT
Found at i:28062 original size:38 final size:41
Alignment explanation
Indices: 28000--28084 Score: 113
Period size: 38 Copynumber: 2.1 Consensus size: 41
27990 AAAATAACAT
**
28000 TATAAATTATGAAATATATGTTATTAATAT-TTAAA-TATA
1 TATAAATTATGAAATATAAATTATTAATATATTAAATTATA
* *
28039 TTTAAATT-TGTAATATAAATTATTAATATATTAAATTATA
1 TATAAATTATGAAATATAAATTATTAATATATTAAATTATA
28079 TATAAA
1 TATAAA
28085 ATATATAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
38 18 0.46
39 12 0.31
40 9 0.23
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (41 bp):
TATAAATTATGAAATATAAATTATTAATATATTAAATTATA
Found at i:28099 original size:63 final size:61
Alignment explanation
Indices: 28031--28155 Score: 189
Period size: 63 Copynumber: 2.0 Consensus size: 61
28021 TATTAATATT
*
28031 TAAATATATTTAAATTTGTA-ATATAAATTATTAATATATTAAATTATATATAAAATATATAA
1 TAAA-ATATTTAAATTTATAGATATAAATTATTAATATATTAAATT-TATATAAAATATATAA
* *
28093 TAAAATATTTAAATTTATATGGTATGAATTATTAATATATTAAATTTATATAAAATATATAA
1 TAAAATATTTAAATTTATA-GATATAAATTATTAATATATTAAATTTATATAAAATATATAA
28155 T
1 T
28156 TATTAAATTT
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
61 14 0.24
62 21 0.36
63 23 0.40
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (61 bp):
TAAAATATTTAAATTTATAGATATAAATTATTAATATATTAAATTTATATAAAATATATAA
Found at i:28112 original size:31 final size:30
Alignment explanation
Indices: 28033--28178 Score: 110
Period size: 31 Copynumber: 4.9 Consensus size: 30
28023 TTAATATTTA
*
28033 AATATATTTAAATTTGTAATATAAAT-TAT--T
1 AATATA-TTAAATTTAT-ATA-AAATATATAAT
28063 AATATATTAAATTATATATAAAATATATAAT
1 AATATATTAAATT-TATATAAAATATATAAT
* *** *
28094 AAAATATTTAAATTTATATGGTATGA-ATTATT
1 AATATA-TTAAATTTATATAAAAT-ATA-TAAT
28126 AATATATTAAATTTATAT-AAA-ATAT-AT
1 AATATATTAAATTTATATAAAATATATAAT
28153 AAT-TATTAAATTTTATATAAAATATA
1 AATATATTAAA-TTTATATAAAATATA
28179 AAATTTGTTA
Statistics
Matches: 95, Mismatches: 10, Indels: 23
0.74 0.08 0.18
Matches are distributed among these distances:
26 7 0.07
27 11 0.12
28 9 0.09
29 17 0.18
30 9 0.09
31 26 0.27
32 16 0.17
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (30 bp):
AATATATTAAATTTATATAAAATATATAAT
Found at i:28167 original size:27 final size:28
Alignment explanation
Indices: 28033--28178 Score: 129
Period size: 27 Copynumber: 5.0 Consensus size: 28
28023 TTAATATTTA
*
28033 AATATATTTAAATTTGTAATATAAATTAT-T
1 AATATA-TTAAATTT-T-ATATAAAATATAT
*
28063 AATATATTAAATTATATATAAAATATAT
1 AATATATTAAATTTTATATAAAATATAT
* *
28091 AATAAAATATTTAAATTTATATGGTATGAAT-TATT
1 AAT---ATA-TTAAATTT-TAT-ATA-AAATATA-T
28126 AATATATTAAA-TTTATATAAAATATAT
1 AATATATTAAATTTTATATAAAATATAT
28153 AAT-TATTAAATTTTATATAAAATATA
1 AATATATTAAATTTTATATAAAATATA
28179 AAATTTGTTA
Statistics
Matches: 98, Mismatches: 7, Indels: 25
0.75 0.05 0.19
Matches are distributed among these distances:
26 7 0.07
27 32 0.33
28 9 0.09
29 10 0.10
30 8 0.08
31 8 0.08
32 10 0.10
33 3 0.03
34 4 0.04
35 7 0.07
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (28 bp):
AATATATTAAATTTTATATAAAATATAT
Found at i:32771 original size:2 final size:2
Alignment explanation
Indices: 32764--32800 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
32754 AATACGTTGC
32764 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
32801 GGGTTGGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:33564 original size:17 final size:18
Alignment explanation
Indices: 33542--33575 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33532 ATTATATTTT
*
33542 TATTTAA-AATTTTAATA
1 TATTTAACAATTATAATA
33559 TATTTAACAATTATAAT
1 TATTTAACAATTATAAT
33576 TTTATTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTTAACAATTATAATA
Found at i:34035 original size:32 final size:34
Alignment explanation
Indices: 33977--34053 Score: 83
Period size: 33 Copynumber: 2.4 Consensus size: 34
33967 TATAAAAGTC
*
33977 AATTTAAT-TTTTTTTGTTAAACTTATT-TTTTA
1 AATTTAATATTTTTTTGTTAAACTTATTATATTA
*
34009 AATTTAATATTTTTATT-TT-AATTTATTATATTA
1 AATTTAATATTTTT-TTGTTAAACTTATTATATTA
34042 ATATTTAA-ATTT
1 A-ATTTAATATTT
34054 AAACGAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
32 15 0.38
33 16 0.41
34 8 0.21
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (34 bp):
AATTTAATATTTTTTTGTTAAACTTATTATATTA
Found at i:34445 original size:2 final size:2
Alignment explanation
Indices: 34438--34464 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34428 AGATCTCTTT
34438 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
34465 GAGATGAAGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38516 original size:19 final size:19
Alignment explanation
Indices: 38481--38517 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
38471 AAAAAAAAAA
*
38481 TTATATAATTTTAATTAAT
1 TTATATAATTATAATTAAT
*
38500 TTATATAATTATCATTAA
1 TTATATAATTATAATTAA
38518 AAAATAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TTATATAATTATAATTAAT
Found at i:40583 original size:13 final size:13
Alignment explanation
Indices: 40565--40593 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
40555 ATAATAAGTT
40565 TATAATTAATAAA
1 TATAATTAATAAA
40578 TATAATTAATAAA
1 TATAATTAATAAA
40591 TAT
1 TAT
40594 GATATAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATAATTAATAAA
Found at i:42671 original size:13 final size:13
Alignment explanation
Indices: 42648--42680 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
42638 TAAAATTATT
42648 TAAAT-TTAAATA
1 TAAATATTAAATA
42660 TAAATATTAAATA
1 TAAATATTAAATA
42673 TAAATATT
1 TAAATATT
42681 TAAAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TAAATATTAAATA
Found at i:48436 original size:21 final size:20
Alignment explanation
Indices: 48410--48448 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
48400 CCTCCCTTTC
48410 CTCCTCTTTTCTTTTCTTTTT
1 CTCCTCTTTTC-TTTCTTTTT
48431 CTCCTCTTTTCTTTCTTT
1 CTCCTCTTTTCTTTCTTT
48449 GTCCTTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (20 bp):
CTCCTCTTTTCTTTCTTTTT
Found at i:48513 original size:4 final size:4
Alignment explanation
Indices: 48504--48532 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
48494 ACCCAAGAAT
48504 ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
48533 CCTATATGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:48669 original size:21 final size:21
Alignment explanation
Indices: 48643--48685 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
48633 TGGATGAAAT
*
48643 ATTTAATTTTTATATTATTAA
1 ATTTAATATTTATATTATTAA
*
48664 ATTTAATATTTATATTTTTAA
1 ATTTAATATTTATATTATTAA
48685 A
1 A
48686 ATTATATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTAATATTTATATTATTAA
Found at i:48826 original size:23 final size:23
Alignment explanation
Indices: 48798--48842 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
48788 ACTTAATTTT
*
48798 AAATTTAA-ATTTATTTTTATATA
1 AAATTTAATATTT-TTATTATATA
48821 AAATTTAATATTTTTATTATAT
1 AAATTTAATATTTTTATTATAT
48843 GACACGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
AAATTTAATATTTTTATTATATA
Found at i:48927 original size:14 final size:13
Alignment explanation
Indices: 48910--48958 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
48900 TTTTATATTT
48910 TTAAAATATAAAAA
1 TTAAAATAT-AAAA
* *
48924 TTAAAATGTTAAAT
1 TTAAAAT-ATAAAA
48938 TTAATAATATAAAA
1 TTAA-AATATAAAA
48952 TTAAAAT
1 TTAAAAT
48959 TTTTATTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
13 3 0.10
14 22 0.76
15 4 0.14
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (13 bp):
TTAAAATATAAAA
Found at i:48972 original size:28 final size:27
Alignment explanation
Indices: 48908--48979 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
48898 ATTTTTATAT
* **
48908 TTTTAAAATATAAAAATTAAAATGTTAAA
1 TTTTATAATAT-AAAATTAAAAT-TTTTA
*
48937 TTTAATAATATAAAATTAAAATTTTTA
1 TTTTATAATATAAAATTAAAATTTTTA
48964 TTATTATAATATAAAA
1 TT-TTATAATATAAAA
48980 AATTTTAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 5 0.14
28 23 0.62
29 9 0.24
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (27 bp):
TTTTATAATATAAAATTAAAATTTTTA
Found at i:49787 original size:28 final size:27
Alignment explanation
Indices: 49698--49787 Score: 87
Period size: 26 Copynumber: 3.4 Consensus size: 27
49688 TTAATGAATC
*
49698 ATAATAAATA-ATTTAACAAT-TTTGTT
1 ATAATAAATATATTTAA-AATATTTTTT
*
49724 ATAATAAGTAT-TTTAAAATATTTTTT
1 ATAATAAATATATTTAAAATATTTTTT
* * *
49750 AAAATTAATATATATAATAATATTTTTT
1 ATAATAAATATATTTAA-AATATTTTTT
*
49778 CTAATAAATA
1 ATAATAAATA
49788 AAAAATGATA
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
25 3 0.06
26 27 0.53
27 4 0.08
28 17 0.33
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (27 bp):
ATAATAAATATATTTAAAATATTTTTT
Found at i:55133 original size:17 final size:17
Alignment explanation
Indices: 55111--55145 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
55101 ATTTTAACTC
55111 AATTAAAAAAATTAAAA
1 AATTAAAAAAATTAAAA
* *
55128 AATTAATAATATTAAAA
1 AATTAAAAAAATTAAAA
55145 A
1 A
55146 CTTTCATATA
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AATTAAAAAAATTAAAA
Found at i:55836 original size:28 final size:26
Alignment explanation
Indices: 55715--55843 Score: 103
Period size: 25 Copynumber: 5.1 Consensus size: 26
55705 ACTTAGATTA
* *
55715 AAATAA-A-AAATTTTAAATAAAATT
1 AAATAATATAAATATTATATAAAATT
* *
55739 ATAATTATA-AAAT-TTA-ATAAAAAT
1 A-AATAATATAAATATTATATAAAATT
* *
55763 AAA-AATATAAAAATTATCT--AATT
1 AAATAATATAAATATTATATAAAATT
*
55786 AATTAGATATAAATATTATATAAAATAT
1 AAATA-ATATAAATATTATATAAAAT-T
55814 AAATAATATAAATAATTATATAAAATT
1 AAATAATATAAAT-ATTATATAAAATT
55841 AAA
1 AAA
55844 ATTTATAATA
Statistics
Matches: 84, Mismatches: 10, Indels: 19
0.74 0.09 0.17
Matches are distributed among these distances:
22 3 0.04
23 10 0.12
24 13 0.15
25 21 0.25
26 5 0.06
27 15 0.18
28 17 0.20
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.36
Consensus pattern (26 bp):
AAATAATATAAATATTATATAAAATT
Found at i:55851 original size:27 final size:27
Alignment explanation
Indices: 55792--55843 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
55782 AATTAATTAG
55792 ATATAAATATTATATAAAATATAAATA
1 ATATAAATATTATATAAAATATAAATA
55819 ATATAAATAATTATATAAAAT-TAAA
1 ATATAAAT-ATTATATAAAATATAAA
55844 ATTTATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (27 bp):
ATATAAATATTATATAAAATATAAATA
Found at i:55856 original size:15 final size:17
Alignment explanation
Indices: 55816--55872 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
55806 TAAAATATAA
*
55816 ATAATATAAATAATTAT
1 ATAATATTAATAATTAT
*
55833 ATAAAATTAA-AATT-T
1 ATAATATTAATAATTAT
55848 ATAATATT-ATAATATAT
1 ATAATATTAATAAT-TAT
*
55865 AGAATATT
1 ATAATATT
55873 TAAATACTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 1 0.03
15 11 0.33
16 5 0.15
17 16 0.48
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
ATAATATTAATAATTAT
Found at i:55859 original size:51 final size:52
Alignment explanation
Indices: 55731--55878 Score: 132
Period size: 51 Copynumber: 2.9 Consensus size: 52
55721 AAAATTTTAA
* *
55731 ATAAAATTATAA-TTATAAAATTTAATAAAA-ATAAA-AATATAAA-AATTAT
1 ATAAAATTAAAATTTATAATATTT-ATAAAATATAAATAATATAAATAATTAT
* * *
55780 CTAATTAATT-AGATATA-AATATTATATAAAATATAAATAATATAAATAATTAT
1 ATAA--AATTAAAATTTATAATATT-TATAAAATATAAATAATATAAATAATTAT
* *
55833 ATAAAATTAAAATTTATAATA-TTATAATATATAGAAT-ATTTAAATA
1 ATAAAATTAAAATTTATAATATTTATAAAATATA-AATAATATAAATA
55879 CTCTAAATGA
Statistics
Matches: 79, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
49 3 0.04
50 12 0.15
51 34 0.43
52 17 0.22
53 13 0.16
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (52 bp):
ATAAAATTAAAATTTATAATATTTATAAAATATAAATAATATAAATAATTAT
Found at i:56346 original size:3 final size:3
Alignment explanation
Indices: 56340--56379 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
56330 AATAATGATT
56340 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
56380 GTAATTTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:57095 original size:2 final size:2
Alignment explanation
Indices: 57088--57116 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
57078 GTGACGAGTG
57088 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
57117 AAATTCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59490 original size:13 final size:15
Alignment explanation
Indices: 59458--59488 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
59448 CAAATATATA
59458 TTTAATATAATTTTT
1 TTTAATATAATTTTT
59473 TTTAATAT-ATTTTT
1 TTTAATATAATTTTT
59487 TT
1 TT
59489 AAAAATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTAATATAATTTTT
Found at i:65560 original size:17 final size:16
Alignment explanation
Indices: 65538--65569 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
65528 TACAAAATAT
65538 ATAAGTTTTAGCAATTC
1 ATAAGTTTTAG-AATTC
65555 ATAAGTTTTAGAATT
1 ATAAGTTTTAGAATT
65570 TATTATCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (16 bp):
ATAAGTTTTAGAATTC
Found at i:71577 original size:17 final size:18
Alignment explanation
Indices: 71536--71577 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
71526 TTCTCTCATT
*
71536 ATTATTTTTTATAAATAA
1 ATTATTTATTATAAATAA
*
71554 ATATATTTATTA-AATTAA
1 AT-TATTTATTATAAATAA
71572 ATTATT
1 ATTATT
71578 GAAATTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 4 0.19
18 9 0.43
19 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTATTTATTATAAATAA
Found at i:71733 original size:29 final size:29
Alignment explanation
Indices: 71701--71779 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 29
71691 ATATAAGAAA
*
71701 AAAATATATTTAAAAATAATAATAA-ATT
1 AAAATATATATAAAAATAATAATAATATT
71729 CAAAATGAT-TCATAAAAAT-ATAATAATATT
1 -AAAAT-ATAT-ATAAAAATAATAATAATATT
* *
71759 AAAATAAAAATAAAAATAATA
1 AAAATATATATAAAAATAATA
71780 TATTCATTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
28 9 0.21
29 21 0.50
30 12 0.29
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (29 bp):
AAAATATATATAAAAATAATAATAATATT
Found at i:73379 original size:16 final size:16
Alignment explanation
Indices: 73358--73402 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
73348 AAAATTAAAT
73358 TTAAAATAATTTATAC
1 TTAAAATAATTTATAC
*
73374 TTAAAATAGTTTATAC
1 TTAAAATAATTTATAC
73390 TTAAAATAATTTA
1 TTAAAATAATTTA
73403 AATTCAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (16 bp):
TTAAAATAATTTATAC
Found at i:73411 original size:16 final size:15
Alignment explanation
Indices: 73340--73412 Score: 67
Period size: 16 Copynumber: 4.7 Consensus size: 15
73330 TTTAATTAAA
*
73340 AAATTAAAA-AAATT
1 AAATTAAAATAATTT
73354 AAATTTAAAATAATTT
1 AAA-TTAAAATAATTT
* *
73370 ATACTTAAAATAGTTT
1 A-AATTAAAATAATTT
*
73386 ATACTTAAAATAATTT
1 A-AATTAAAATAATTT
73402 AAATTCAAAAT
1 AAATT-AAAAT
73413 TAACCTGATT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
14 3 0.06
15 9 0.18
16 37 0.74
17 1 0.02
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.38
Consensus pattern (15 bp):
AAATTAAAATAATTT
Found at i:73800 original size:14 final size:15
Alignment explanation
Indices: 73781--73813 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
73771 TTATATTTTT
73781 ATTAAATTATGAA-A
1 ATTAAATTATGAATA
*
73795 ATTAAATTTTGAATA
1 ATTAAATTATGAATA
73810 ATTA
1 ATTA
73814 TTTAATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (15 bp):
ATTAAATTATGAATA
Found at i:74346 original size:2 final size:2
Alignment explanation
Indices: 74336--74468 Score: 130
Period size: 2 Copynumber: 72.0 Consensus size: 2
74326 GTTATTTTTT
74336 TA TA T- TA TA TA TA TA TA TA TA TA TA T- TA T- TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
74374 TA TA TG TA T- TA TA TA TA TA TA -A CTA TA TA -A TA GA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
74414 TA TA TA -A TA -A TA TA TA -A TA TA -A TA TA TA -A TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
74450 TA TA CA TA GTA TA TA TA TA
1 TA TA TA TA -TA TA TA TA TA
74469 ACATATAATA
Statistics
Matches: 110, Mismatches: 6, Indels: 30
0.75 0.04 0.21
Matches are distributed among these distances:
1 13 0.12
2 94 0.85
3 3 0.03
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:74370 original size:17 final size:18
Alignment explanation
Indices: 74336--74479 Score: 124
Period size: 17 Copynumber: 8.2 Consensus size: 18
74326 GTTATTTTTT
74336 TATAT-TATA-TATAT-A
1 TATATATATATTATATAA
74351 TATATATATATTAT-TAA
1 TATATATATATTATATAA
74368 TATATATATATGTAT-T-A
1 TATATATATAT-TATATAA
*
74385 TATATATATAACTATATAA
1 TATATATAT-ATTATATAA
*
74404 TAGATATATATATATAATAA
1 TATATATATAT-TAT-ATAA
*
74424 TATATAATATAATATATAA
1 TATAT-ATATATTATATAA
* *
74443 TATA-ATATA-TACATAG
1 TATATATATATTATATAA
**
74459 TATATATATAACATATAA
1 TATATATATATTATATAA
74477 TAT
1 TAT
74480 TTTGTTTATG
Statistics
Matches: 107, Mismatches: 10, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
15 5 0.05
16 14 0.13
17 38 0.36
18 14 0.13
19 20 0.19
20 11 0.10
21 5 0.05
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
TATATATATATTATATAA
Found at i:74370 original size:19 final size:20
Alignment explanation
Indices: 74336--74453 Score: 126
Period size: 19 Copynumber: 6.2 Consensus size: 20
74326 GTTATTTTTT
74336 TATATTATATATATATATATA
1 TATATTATATA-ATATATATA
74357 TATATTAT-TAATATATATA
1 TATATTATATAATATATATA
*
74376 TAT-GTAT-T-ATATATATA
1 TATATTATATAATATATATA
* *
74393 TA-ACTATATAATAGATATA
1 TATATTATATAATATATATA
74412 TATA-TATAATAATATATA-A
1 TATATTAT-ATAATATATATA
*
74431 TATAATATATAATATA-ATA
1 TATATTATATAATATATATA
74450 TATA
1 TATA
74454 CATAGTATAT
Statistics
Matches: 86, Mismatches: 4, Indels: 16
0.81 0.04 0.15
Matches are distributed among these distances:
17 14 0.16
18 6 0.07
19 43 0.50
20 15 0.17
21 8 0.09
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.47
Consensus pattern (20 bp):
TATATTATATAATATATATA
Found at i:74469 original size:27 final size:27
Alignment explanation
Indices: 74336--74479 Score: 151
Period size: 27 Copynumber: 5.4 Consensus size: 27
74326 GTTATTTTTT
*
74336 TATATTATATAT-ATA-TATATATATA
1 TATATAATATATAATAGTATATATATA
74361 T-TATTAATATATATATATGTAT-TATATA
1 TATA-TAATATATA-ATA-GTATATATATA
74389 TATATAACTATATAATAG-ATATATATA
1 TATATAA-TATATAATAGTATATATATA
74416 TATAATAATATATAATA-TA-ATATATA
1 TAT-ATAATATATAATAGTATATATATA
74442 -ATATAATATATACATAGTATATATATAA
1 TATATAATATATA-ATAGTATATATAT-A
*
74470 CATATAATAT
1 TATATAATAT
74480 TTTGTTTATG
Statistics
Matches: 103, Mismatches: 1, Indels: 26
0.79 0.01 0.20
Matches are distributed among these distances:
24 12 0.12
25 13 0.13
26 11 0.11
27 29 0.28
28 18 0.17
29 20 0.19
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (27 bp):
TATATAATATATAATAGTATATATATA
Found at i:74568 original size:35 final size:36
Alignment explanation
Indices: 74529--74596 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
74519 TTATATAAAA
74529 TTAC-TAATTTATTATATCTTGTATT-TTTTTTTGTT
1 TTACTTAATTTATTAT-TCTTGTATTATTTTTTTGTT
* * *
74564 TTACTTTATTTTTTATTTTTGTATTATTTTTTT
1 TTACTTAATTTATTATTCTTGTATTATTTTTTT
74597 CATTAAATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
35 12 0.43
36 16 0.57
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.74
Consensus pattern (36 bp):
TTACTTAATTTATTATTCTTGTATTATTTTTTTGTT
Found at i:74590 original size:18 final size:18
Alignment explanation
Indices: 74547--74595 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
74537 TTATTATATC
* *
74547 TTGTATTTTTTTTTGTTT
1 TTGTATTATTTTTTATTT
**
74565 TACT-TTATTTTTTATTT
1 TTGTATTATTTTTTATTT
74582 TTGTATTATTTTTT
1 TTGTATTATTTTTT
74596 TCATTAAATC
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.12, C:0.02, G:0.06, T:0.80
Consensus pattern (18 bp):
TTGTATTATTTTTTATTT
Found at i:76317 original size:22 final size:20
Alignment explanation
Indices: 76276--76321 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
76266 ATCCACACTT
*
76276 TTTTTTTCTTTCCTTCTTTC
1 TTTTTTTCTTTCCTCCTTTC
*
76296 TTTTTTTCTTATTCTCCTTTTC
1 TTTTTTTCTT-TCCTCC-TTTC
76318 TTTT
1 TTTT
76322 CTTGTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.45
21 4 0.18
22 8 0.36
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTTTCTTTCCTCCTTTC
Found at i:77812 original size:26 final size:27
Alignment explanation
Indices: 77761--77814 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
77751 GGCCAATTGG
**
77761 AAATTTAGAAATGCTCATATTTTGTTT
1 AAATTTAGAAATGCTCATATCGTGTTT
*
77788 AAATTTAG-TATGCTCATATCGTGTTT
1 AAATTTAGAAATGCTCATATCGTGTTT
77814 A
1 A
77815 TCTTATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (27 bp):
AAATTTAGAAATGCTCATATCGTGTTT
Found at i:77902 original size:11 final size:12
Alignment explanation
Indices: 77889--77934 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
77879 TTAATAATTT
77889 ATTTTTTATAT-
1 ATTTTTTATATA
*
77900 ATTTATTTATATC
1 ATTT-TTTATATA
*
77913 A-TATTTATATA
1 ATTTTTTATATA
77924 ATTTTTTATAT
1 ATTTTTTATAT
77935 TATATCAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
11 12 0.41
12 16 0.55
13 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (12 bp):
ATTTTTTATATA
Found at i:77923 original size:23 final size:23
Alignment explanation
Indices: 77893--77939 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
77883 TAATTTATTT
77893 TTTATAT-ATTTATTTATATCATA
1 TTTATATAATTT-TTTATATCATA
*
77916 TTTATATAATTTTTTATATTATA
1 TTTATATAATTTTTTATATCATA
77939 T
1 T
77940 CAAATTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTATATAATTTTTTATATCATA
Found at i:78450 original size:23 final size:22
Alignment explanation
Indices: 78423--78482 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
78413 AAATTAATTT
78423 ATTTTTAATAAATAAAATAAAAA
1 ATTTTTAATAAATAAAA-AAAAA
* *
78446 A-TTTTAAAAAATAAAAATAAA
1 ATTTTTAATAAATAAAAAAAAA
*
78467 TTTTGTTAAT-AATAAA
1 ATTT-TTAATAAATAAA
78483 TTATCGTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
21 4 0.13
22 22 0.71
23 5 0.16
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
ATTTTTAATAAATAAAAAAAAA
Found at i:85052 original size:30 final size:30
Alignment explanation
Indices: 85018--85078 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
85008 AATAAAAAGT
*
85018 TAAACATCTCCATTAAGTATATGATAGTAC
1 TAAACATCTCCAATAAGTATATGATAGTAC
* * *
85048 TAAACATCTCTAATAAGTATGTGATATTAC
1 TAAACATCTCCAATAAGTATATGATAGTAC
85078 T
1 T
85079 TAGTTTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (30 bp):
TAAACATCTCCAATAAGTATATGATAGTAC
Found at i:88902 original size:2 final size:2
Alignment explanation
Indices: 88869--88893 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
88859 ATCGTTACAA
88869 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
88894 CACATATATG
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:93362 original size:22 final size:22
Alignment explanation
Indices: 93332--93376 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
93322 GCATTTGATT
*
93332 TTTGATTTTT-TTTATTATCATA
1 TTTGATTTTTATTTAATAT-ATA
*
93354 TTTGCTTTTTATTTAATATATA
1 TTTGATTTTTATTTAATATATA
93376 T
1 T
93377 ATATATTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTGATTTTTATTTAATATATA
Found at i:96890 original size:23 final size:23
Alignment explanation
Indices: 96860--96904 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
96850 TTAGGTCATT
96860 TAAAGCAAACCAAAAATAATATC
1 TAAAGCAAACCAAAAATAATATC
96883 TAAAGCAAACCAAAAATAATAT
1 TAAAGCAAACCAAAAATAATAT
96905 TAGCCATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.62, C:0.16, G:0.04, T:0.18
Consensus pattern (23 bp):
TAAAGCAAACCAAAAATAATATC
Found at i:97065 original size:372 final size:372
Alignment explanation
Indices: 96373--100073 Score: 6979
Period size: 372 Copynumber: 10.0 Consensus size: 372
96363 AATGATAAAA
* * *
96373 GATATGATTATATGAGATAATGCCCAACATAAATGTTCTTTTTTTGTCATTTTTGCAATCTAGTT
1 GATATGATTATACGAGATAATGCCCAACACAAATGTTCTTTCTTTGTCATTTTT-CAATCTAGTT
* ** **
96438 TCTGCTTTTGCTCCTTTCTTTCTTTGTTCAGTCTTTAGGTCATTT--ACCATCCTCATATTCTTC
65 TCTGCTTTTGCTCCTTTCTTTCTTTGTTCAGTCTTTAGGTCATTTAAAGCAAAC-CA-A----AA
* *
96501 CTGCTATATCTAAAGCAAACCAAAAATAATATTAGCCATTGTTTTGTTCCTGAACTTGATGAGTG
124 AT--AATATCTAAAGCAAACCAAAAATAATATTAGCCATTGTTTTGTTCCTGAACTTGATGAGTG
96566 ATGGGCATAAAAATATGGAAGCGATGCTTGAAATGCCTATGCTTTTTTGGAAATGAGTGCTGTTC
187 ATGGGCATAAAAATATGGAAGCGATGCTTGAAATGCCTATGCTTTTTTGGAAATGAGTGCTGTTC
*
96631 ATTACTTGCTTTGTGGATTGCGACGTTTTTAGATGATCAAATTCTCTCTTGATGCAAAAAAGCCA
252 ATTACTTGCTTTGTGGATTGCGATGTTTTTAGATGATCAAATTCTCTCTTGATGCAAAAAAGCCA
96696 TTGGCTGCTTTTAGAAGATGACACAGCGTAGAGAATCGTCTTTCAGAATATCAGTC
317 TTGGCTGCTTTTAGAAGATGACACAGCGTAGAGAATCGTCTTTCAGAATATCAGTC
96752 GATATGATTATACGAGATAATGCCCAACACAAATGTTCTTTCTTTGTCATTTTTCAATCTAGTTT
1 GATATGATTATACGAGATAATGCCCAACACAAATGTTCTTTCTTTGTCATTTTTCAATCTAGTTT
96817 CTGCTTTTGCTCCTTTCTTTCTTTGTTCAGTCTTTAGGTCATTTAAAGCAAACCAAAAATAATAT
66 CTGCTTTTGCTCCTTTCTTTCTTTGTTCAGTCTTTAGGTCATTTAAAGCAAACCAAAAATAATAT
96882 CTAAAGCAAACCAAAAATAATATTAGCCATTGTTTTGTTCCTGAACTTGATGAGTGATGGGCATA
131 CTAAAGCAAACCAAAAATAATATTAGCCATTGTTTTGTTCCTGAACTTGATGAGTGATGGGCATA
96947 AAAATATGGAAGCGATGCTTGAAATGCCTATGCTTTTTTGGAAATGAGTGCTGTTCATTACTTGC
196 AAAATATGGAAGCGATGCTTGAAATGCCTATGCTTTTTTGGAAATGAGTGCTGTTCATTACTTGC
97012 TTTGTGGATTGCGATGTTTTTAGATGATCAAATTCTCTCTTGATGCAAAAAAGCCATTGGCTGCT
261 TTTGTGGATTGCGATGTTTTTAGATGATCAAATTCTCTCTTGATGCAAAAAAGCCATTGGCTGCT
97077 TTTAGAAGATGACACAGCGTAGAGAATCGTCTTTCAGAATATCAGTC
326 TTTAGAAGATGACACAGCGTAGAGAATCGTCTTTCAGAATATCAGTC
97124 GATATGATTATACGAGATAATGCCCAACACAAATGTTCTTTCTTTGTCATTTTTCAATCTAGTTT
1 GATATGATTATACGAGATAATGCCCAACACAAATGTTCTTTCTTTGTCATTTTTCAATCTAGTTT
97189 CTGCTTTTGCTCCTTTCTTTCTTTGTTCAGTCTTTAGGTCATTTAAAGCAAACCAAAAATAATAT
66 CTGCTTTTGCTCCTTTCTTTCTTTGTTCAGTCTTTAGGTCATTTAAAGCAAACCAAAAATAATAT
97254 CTAAAGCAAACCAAAAATAATATTAGCCATTGTTTTGTTCCTGAACTTGATGAGTGATGGGCATA
131 CTAAAGCAAACCAAAAATAATATTAGCCATTGTTTTGTTCCTGAACTTGATGAGTGATGGGCATA
97319 AAAATATGGAAGCGATGCTTGAAATGCCTATGCTTTTTTGGAAATGAGTGCTGTTCATTACTTGC
196 AAAATATGGAAGCGATGCTTGAAATGCCTATGCTTTTTTGGAAATGAGTGCTGTTCATTACTTGC
97384 TTTGTGGATTGCGATGTTTTTAGATGATCAAATTCTCTCTTGATGCAAAAAAGCCATTGGCTGCT
261 TTTGTGGATTGCGATGTTTTTAGATGATCAAATTCTCTCTTGATGCAAAAAAGCCATTGGCTGCT
97449 TTTAGAAGATGACACAGCGTAGAGAATCGTCTTTCAGAATATCAGTC
326 TTTAGAAGATGACACAGCGTAGAGAATCGTCTTTCAGAATATCAGTC
97496 GATATGATTATACGAGATAATGCCCAACACAAATGTTCTTTCTTTGTCATTTTTCAATCTAGTTT
1 GATATGATTATACGAGATAATGCCCAACACAAATGTTCTTTCTTTGTCATTTTTCAATCTAGTTT
97561 CTGCTTTTGCTCCTTTCTTTCTTTGTTCAGTCTTTAGGTCATTTAAAGCAAACCAAAAATAATAT
66 CTGCTTTTGCTCCTTTCTTTCTTTGTTCAGTCTTTAGGTCATTTAAAGCAAACCAAAAATAATAT
97626 CTAAAGCAAACCAAAAATAATATTAGCCATTGTTTTGTTCCTGAACTTGATGAGTGATGGGCATA
131 CTAAAGCAAACCAAAAATAATATTAGCCATTGTTTTGTTCCTGAACTTGATGAGTGATGGGCATA
97691 AAAATATGGAAGCGATGCTTGAAATGCCTATGCTTTTTTGGAAATGAGTGCTGTTCATTACTTGC
196 AAAATATGGAAGCGATGCTTGAAATGCCTATGCTTTTTTGGAAATGAGTGCTGTTCATTACTTGC
97756 TTTGTGGATTGCGATGTTTTTAGATGATCAAATTCTCTCTTGATGCAAAAAAGCCATTGGCTGCT
261 TTTGTGGATTGCGATGTTTTTAGATGATCAAATTCTCTCTTGATGCAAAAAAGCCATTGGCTGCT
97821 TTTAGAAGATGACACAGCGTAGAGAATCGTCTTTCAGAATATCAGTC
326 TTTAGAAGATGACACAGCGTAGAGAATCGTCTTTCAGAATATCAGTC
*
97868 GATATGATTATACGAGATAATGGCCAACACAAATGTTCTTTCTTTGTCATTTTTCAATCTAGTTT
1 GATATGATTATACGAGATAATGCCCAACACAAATGTTCTTTCTTTGTCATTTTTCAATCTAGTTT
97933 CTGCTTTTGCTCCTTTCTTTCTTTGTTCAGTCTTTAGGTCATTTAAAGCAAACCAAAAATAATAT
66 CTGCTTTTGCTCCTTTCTTTCTTTGTTCAGTCTTTAGGTCATTTAAAGCAAACCAAAAATAATAT
97998 CTAAAGCAAACCAAAAATAATATTAGCCATTGTTTTGTTCCTGAACTTGATGAGTGATGGGCATA
131 CTAAAGCAAACCAAAAATAATATTAGCCATTGTTTTGTTCCTGAACTTGATGAGTGATGGGCATA
98063 AAAATATGGAAGCGATGCTTGAAATGCCTATGCTTTTTTGGAAATGAGTGCTGTTCATTACTTGC
196 AAAATATGGAAGCGATGCTTGAAATGCCTATGCTTTTTTGGAAATGAGTGCTGTTCATTACTTGC
98128 TTTGTGGATTGCGATGTTTTTAGATGATCAAATTCTCTCTTGATGCAAAAAAGCCATTGGCTGCT
261 TTTGTGGATTGCGATGTTTTTAGATGATCAAATTCTCTCTTGATGCAAAAAAGCCATTGGCTGCT
98193 TTTAGAAGATGACACAGCGTAGAGAATCGTCTTTCAGAATATCAGTC
326 TTTAGAAGATGACACAGCGTAGAGAATCGTCTTTCAGAATATCAGTC
98240 GATATGATTATACGAGATAATGCCCAACACAAATGTTCTTTCTTTGTCATTTTTCAATCTAGTTT
1 GATATGATTATACGAGATAATGCCCAACACAAATGTTCTTTCTTTGTCATTTTTCAATCTAGTTT
98305 CTGCTTTTGCTCCTTTCTTTCTTTGTTCAGTCTTTAGGTCATTTAAAGCAAACCAAAAATAATAT
66 CTGCTTTTGCTCCTTTCTTTCTTTGTTCAGTCTTTAGGTCATTTAAAGCAAACCAAAAATAATAT
98370 CTAAAGCAAACCAAAAATAATATTAGCCATTGTTTTGTTCCTGAACTTGATGAGTGATGGGCATA
131 CTAAAGCAAACCAAAAATAATATTAGCCATTGTTTTGTTCCTGAACTTGATGAGTGATGGGCATA
98435 AAAATATGGAAGCGATGCTTGAAATGCCTATGCTTTTTTGGAAATGAGTGCTGTTCATTACTTGC
196 AAAATATGGAAGCGATGCTTGAAATGCCTATGCTTTTTTGGAAATGAGTGCTGTTCATTACTTGC
98500 TTTGTGGATTGCGATGTTTTTAGATGATCAAATTCTCTCTTGATGCAAAAAAGCCATTGGCTGCT
261 TTTGTGGATTGCGATGTTTTTAGATGATCAAATTCTCTCTTGATGCAAAAAAGCCATTGGCTGCT
98565 TTTAGAAGATGACACAGCGTAGAGAATCGTCTTTCAGAATATCAGTC
326 TTTAGAAGATGACACAGCGTAGAGAATCGTCTTTCAGAATATCAGTC
98612 GATATGATTATACGAGATAATGCCCAACACAAATGTTCTTTCTTTGTCATTTTTCAATCTAGTTT
1 GATATGATTATACGAGATAATGCCCAACACAAATGTTCTTTCTTTGTCATTTTTCAATCTAGTTT
98677 CTGCTTTTGCTCCTTTCTTTCTTTGTTCAGTCTTTAGGTCATTTAAAGCAAACCAAAAATAATAT
66 CTGCTTTTGCTCCTTTCTTTCTTTGTTCAGTCTTTAGGTCATTTAAAGCAAACCAAAAATAATAT
98742 CTAAAGCAAACCAAAAATAATATTAGCCATTGTTTTGTTCCTGAACTTGATGAGTGATGGGCATA
131 CTAAAGCAAACCAAAAATAATATTAGCCATTGTTTTGTTCCTGAACTTGATGAGTGATGGGCATA
98807 AAAATATGGAAGCGATGCTTGAAATGCCTATGCTTTTTTGGAAATGAGTGCTGTTCATTACTTGC
196 AAAATATGGAAGCGATGCTTGAAATGCCTATGCTTTTTTGGAAATGAGTGCTGTTCATTACTTGC
98872 TTTGTGGATTGCGATGTTTTTAGATGATCAAATTCTCTCTTGATGCAAAAAAGCCATTGGCTGCT
261 TTTGTGGATTGCGATGTTTTTAGATGATCAAATTCTCTCTTGATGCAAAAAAGCCATTGGCTGCT
98937 TTTAGAAGATGACACAGCGTAGAGAATCGTCTTTCAGAATATCAGTC
326 TTTAGAAGATGACACAGCGTAGAGAATCGTCTTTCAGAATATCAGTC
98984 GATATGATTATACGAGATAATGCCCAACACAAATGTTCTTTCTTTGTCATTTTTCAATCTAGTTT
1 GATATGATTATACGAGATAATGCCCAACACAAATGTTCTTTCTTTGTCATTTTTCAATCTAGTTT
99049 CTGCTTTTGCTCCTTTCTTTCTTTGTTCAGTCTTTAGGTCATTTAAAGCAAACCAAAAATAATAT
66 CTGCTTTTGCTCCTTTCTTTCTTTGTTCAGTCTTTAGGTCATTTAAAGCAAACCAAAAATAATAT
99114 CTAAAGCAAACCAAAAATAATATTAGCCATTGTTTTGTTCCTGAACTTGATGAGTGATGGGCATA
131 CTAAAGCAAACCAAAAATAATATTAGCCATTGTTTTGTTCCTGAACTTGATGAGTGATGGGCATA
99179 AAAATATGGAAGCGATGCTTGAAATGCCTATGC-TTTTTGGAAATGAGTGCTGTTCATTACTTGC
196 AAAATATGGAAGCGATGCTTGAAATGCCTATGCTTTTTTGGAAATGAGTGCTGTTCATTACTTGC
99243 TTTGTGGATTGCGATG-TTTTAGATGATCAAATTCTCTCTTGATGCAAAAAAGCCATTGGCTGCT
261 TTTGTGGATTGCGATGTTTTTAGATGATCAAATTCTCTCTTGATGCAAAAAAGCCATTGGCTGCT
99307 TTTAGAAGATGACACAGCGTAGAGAATCGTCTTTCAGAATATCAGTC
326 TTTAGAAGATGACACAGCGTAGAGAATCGTCTTTCAGAATATCAGTC
99354 GATATGATTATACGAGATAATGCCCAACACAAATGTTCTTTCTTTGTCATTTTTCAATCTAGTTT
1 GATATGATTATACGAGATAATGCCCAACACAAATGTTCTTTCTTTGTCATTTTTCAATCTAGTTT
*
99419 CTGCTTCTGCTCCTTTCTTTCTTTGTTCAGTCTTTAGGTCATTTAAAGCAAACCAAAAATAATAT
66 CTGCTTTTGCTCCTTTCTTTCTTTGTTCAGTCTTTAGGTCATTTAAAGCAAACCAAAAATAATAT
99484 CTAAAGCAAACCAAAAATAATATTAGCCATTGTTTTGTTCCTGAACTTGATGAGTGATGGGCATA
131 CTAAAGCAAACCAAAAATAATATTAGCCATTGTTTTGTTCCTGAACTTGATGAGTGATGGGCATA
99549 AAAATATGGAAGCGATGCTTGAAATGCCTATGCTTTTTTGGAAATGAGTGCTGTTCATTACTTGC
196 AAAATATGGAAGCGATGCTTGAAATGCCTATGCTTTTTTGGAAATGAGTGCTGTTCATTACTTGC
99614 TTTGTGGATTGCGATGTTTTTAGATGATCAAATTCTCTCTTGATGCAAAAAAGCCATTGGCTGCT
261 TTTGTGGATTGCGATGTTTTTAGATGATCAAATTCTCTCTTGATGCAAAAAAGCCATTGGCTGCT
99679 TTTAGAAGATGACACAGCGTAGAGAATCGTCTTTCAGAATATCAGTC
326 TTTAGAAGATGACACAGCGTAGAGAATCGTCTTTCAGAATATCAGTC
99726 GATATGATTATACGAGATAATGCCCAACACAAATGTTCTTTCTTTGTCATTTTTCAATCTAGTTT
1 GATATGATTATACGAGATAATGCCCAACACAAATGTTCTTTCTTTGTCATTTTTCAATCTAGTTT
*
99791 CTGCTTCTGCTCCTTTCTTTCTTTGTTCAGTCTTTAGG-----T---------C-------AT-T
66 CTGCTTTTGCTCCTTTCTTTCTTTGTTCAGTCTTTAGGTCATTTAAAGCAAACCAAAAATAATAT
99834 -TAAAGCAAACCAAAAATAATATTAGCCATTGTTTTGTTCCTGAACTTGATGAGTGATGGGCATA
131 CTAAAGCAAACCAAAAATAATATTAGCCATTGTTTTGTTCCTGAACTTGATGAGTGATGGGCATA
99898 AAAATATGGAAGCGATGCTTGAAATGCCTATGCTTTTTTGGAAATGAGTGCTGTTCATTACTTGC
196 AAAATATGGAAGCGATGCTTGAAATGCCTATGCTTTTTTGGAAATGAGTGCTGTTCATTACTTGC
*
99963 TTTGTGGATTGCGATGTTTTTAGATGATCAAATTCTCTCTTGATGCAAGAAAGCCATTGGCTGCT
261 TTTGTGGATTGCGATGTTTTTAGATGATCAAATTCTCTCTTGATGCAAAAAAGCCATTGGCTGCT
* *
100028 TTTAGAAGATGACACACCTTAGAGAATCGTCTTTCAGAATATCAGT
326 TTTAGAAGATGACACAGCGTAGAGAATCGTCTTTCAGAATATCAGT
100074 TGATCATTAA
Statistics
Matches: 3301, Mismatches: 17, Indels: 38
0.98 0.01 0.01
Matches are distributed among these distances:
349 237 0.07
350 1 0.00
351 2 0.00
358 1 0.00
367 1 0.00
370 322 0.10
371 94 0.03
372 2529 0.77
374 1 0.00
378 56 0.02
379 53 0.02
380 4 0.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (372 bp):
GATATGATTATACGAGATAATGCCCAACACAAATGTTCTTTCTTTGTCATTTTTCAATCTAGTTT
CTGCTTTTGCTCCTTTCTTTCTTTGTTCAGTCTTTAGGTCATTTAAAGCAAACCAAAAATAATAT
CTAAAGCAAACCAAAAATAATATTAGCCATTGTTTTGTTCCTGAACTTGATGAGTGATGGGCATA
AAAATATGGAAGCGATGCTTGAAATGCCTATGCTTTTTTGGAAATGAGTGCTGTTCATTACTTGC
TTTGTGGATTGCGATGTTTTTAGATGATCAAATTCTCTCTTGATGCAAAAAAGCCATTGGCTGCT
TTTAGAAGATGACACAGCGTAGAGAATCGTCTTTCAGAATATCAGTC
Found at i:97262 original size:23 final size:23
Alignment explanation
Indices: 97232--97276 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
97222 TTAGGTCATT
97232 TAAAGCAAACCAAAAATAATATC
1 TAAAGCAAACCAAAAATAATATC
97255 TAAAGCAAACCAAAAATAATAT
1 TAAAGCAAACCAAAAATAATAT
97277 TAGCCATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.62, C:0.16, G:0.04, T:0.18
Consensus pattern (23 bp):
TAAAGCAAACCAAAAATAATATC
Found at i:97634 original size:23 final size:23
Alignment explanation
Indices: 97604--97648 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
97594 TTAGGTCATT
97604 TAAAGCAAACCAAAAATAATATC
1 TAAAGCAAACCAAAAATAATATC
97627 TAAAGCAAACCAAAAATAATAT
1 TAAAGCAAACCAAAAATAATAT
97649 TAGCCATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.62, C:0.16, G:0.04, T:0.18
Consensus pattern (23 bp):
TAAAGCAAACCAAAAATAATATC
Found at i:98006 original size:23 final size:23
Alignment explanation
Indices: 97976--98020 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
97966 TTAGGTCATT
97976 TAAAGCAAACCAAAAATAATATC
1 TAAAGCAAACCAAAAATAATATC
97999 TAAAGCAAACCAAAAATAATAT
1 TAAAGCAAACCAAAAATAATAT
98021 TAGCCATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.62, C:0.16, G:0.04, T:0.18
Consensus pattern (23 bp):
TAAAGCAAACCAAAAATAATATC
Found at i:98378 original size:23 final size:23
Alignment explanation
Indices: 98348--98392 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
98338 TTAGGTCATT
98348 TAAAGCAAACCAAAAATAATATC
1 TAAAGCAAACCAAAAATAATATC
98371 TAAAGCAAACCAAAAATAATAT
1 TAAAGCAAACCAAAAATAATAT
98393 TAGCCATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.62, C:0.16, G:0.04, T:0.18
Consensus pattern (23 bp):
TAAAGCAAACCAAAAATAATATC
Found at i:98750 original size:23 final size:23
Alignment explanation
Indices: 98720--98764 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
98710 TTAGGTCATT
98720 TAAAGCAAACCAAAAATAATATC
1 TAAAGCAAACCAAAAATAATATC
98743 TAAAGCAAACCAAAAATAATAT
1 TAAAGCAAACCAAAAATAATAT
98765 TAGCCATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.62, C:0.16, G:0.04, T:0.18
Consensus pattern (23 bp):
TAAAGCAAACCAAAAATAATATC
Found at i:99122 original size:23 final size:23
Alignment explanation
Indices: 99092--99136 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
99082 TTAGGTCATT
99092 TAAAGCAAACCAAAAATAATATC
1 TAAAGCAAACCAAAAATAATATC
99115 TAAAGCAAACCAAAAATAATAT
1 TAAAGCAAACCAAAAATAATAT
99137 TAGCCATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.62, C:0.16, G:0.04, T:0.18
Consensus pattern (23 bp):
TAAAGCAAACCAAAAATAATATC
Found at i:99492 original size:23 final size:23
Alignment explanation
Indices: 99462--99506 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
99452 TTAGGTCATT
99462 TAAAGCAAACCAAAAATAATATC
1 TAAAGCAAACCAAAAATAATATC
99485 TAAAGCAAACCAAAAATAATAT
1 TAAAGCAAACCAAAAATAATAT
99507 TAGCCATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.62, C:0.16, G:0.04, T:0.18
Consensus pattern (23 bp):
TAAAGCAAACCAAAAATAATATC
Found at i:102615 original size:2 final size:2
Alignment explanation
Indices: 102608--102637 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
102598 ACATGTTAAG
102608 TC 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 TC
102638 CCCACCTCAC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:104898 original size:9 final size:9
Alignment explanation
Indices: 104884--104909 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
104874 CTTCTTCCAC
104884 AATTTTTTT
1 AATTTTTTT
104893 AATTTTTTT
1 AATTTTTTT
104902 AATTTTTT
1 AATTTTTT
104910 ATATTTGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
AATTTTTTT
Found at i:104946 original size:39 final size:38
Alignment explanation
Indices: 104903--104987 Score: 102
Period size: 38 Copynumber: 2.2 Consensus size: 38
104893 AATTTTTTTA
* *
104903 ATTTTTTAT-ATTTGTTAATTTATT-TTTAAATATAAATAT
1 ATTTTTAATAATTT-TTAA-TTATTATTT-AATACAAATAT
104942 ATTTTTAATAATTTTTAATTATTATTTAATACAAATAT
1 ATTTTTAATAATTTTTAATTATTATTTAATACAAATAT
*
104980 AATTTTAA
1 ATTTTTAA
104988 ATATTTAATG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 22 0.54
39 15 0.37
40 4 0.10
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (38 bp):
ATTTTTAATAATTTTTAATTATTATTTAATACAAATAT
Found at i:105020 original size:24 final size:24
Alignment explanation
Indices: 104964--105020 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
104954 TTTTAATTAT
104964 TATTTAATACAAATATAATTTTAAA
1 TATTTAATACAAATATAATTTT-AA
**
104989 TATTTAATGTAAATATATATTTT-A
1 TATTTAATACAAATATA-ATTTTAA
105013 TATTTAAT
1 TATTTAAT
105021 CATTATTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 9 0.31
25 15 0.52
26 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
TATTTAATACAAATATAATTTTAA
Found at i:106448 original size:20 final size:21
Alignment explanation
Indices: 106423--106469 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
106413 CAATGCAAAT
* *
106423 GTTTTTTTTCATT-TTTTTTA
1 GTTTTTTATAATTATTTTTTA
106443 GTTTTTTATAATTATTTTTTA
1 GTTTTTTATAATTATTTTTTA
106464 GTTTTT
1 GTTTTT
106470 AGTTTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.77
Consensus pattern (21 bp):
GTTTTTTATAATTATTTTTTA
Found at i:106489 original size:9 final size:9
Alignment explanation
Indices: 106425--106489 Score: 51
Period size: 9 Copynumber: 7.0 Consensus size: 9
106415 ATGCAAATGT
*
106425 TTTTTTTCAT
1 TTTTTTT-AA
*
106435 TTTTTTTAG
1 TTTTTTTAA
106444 TTTTTTATAA
1 TTTTTT-TAA
*
106454 TTATTTTTTA
1 TT-TTTTTAA
* *
106464 -GTTTTTAG
1 TTTTTTTAA
106472 TTTTTTTAA
1 TTTTTTTAA
106481 TTTTTTTAA
1 TTTTTTTAA
106490 CTATGTTTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
8 5 0.11
9 22 0.50
10 13 0.30
11 4 0.09
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:109921 original size:11 final size:12
Alignment explanation
Indices: 109895--109924 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
109885 AATTGAAAAG
109895 AAAATGACAATA
1 AAAATGACAATA
*
109907 AAAATGACAGTA
1 AAAATGACAATA
109919 AAAATG
1 AAAATG
109925 TATGAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.63, C:0.07, G:0.13, T:0.17
Consensus pattern (12 bp):
AAAATGACAATA
Found at i:110162 original size:89 final size:89
Alignment explanation
Indices: 110064--110432 Score: 483
Period size: 89 Copynumber: 4.1 Consensus size: 89
110054 CATATACATA
* * *
110064 TGTCACATCTTTC-GAGTTTTAATAAATTTATTAGGCATTAGTCAAATATTTTCTGTCGGGGT-A
1 TGTCACATCTTTCAG-GTTTCAAGAAATTTATTAGGCATTAGTCAAATATTTTCTGTC-AGGTCA
*
110127 GAAAGAATCTGATACCCACATGCATC
64 GAAAGAATCTGATACCCGCATGCATC
* * *
110153 TATCACATCTTTCGGGTTCCAAGAAATTTATTAGGCATTAGTCAAATATTTTCTGTCAGGTCAGA
1 TGTCACATCTTTCAGGTTTCAAGAAATTTATTAGGCATTAGTCAAATATTTTCTGTCAGGTCAGA
*
110218 AAGAATCTGATACCCGTATGCATC
66 AAGAATCTGATACCCGCATGCATC
* * * *
110242 TGTCATATTTTTCAGGTTTCAAGAAATTTATTAGGCATTAGTCAAATATTTTTTATCAGGTCAGA
1 TGTCACATCTTTCAGGTTTCAAGAAATTTATTAGGCATTAGTCAAATATTTTCTGTCAGGTCAGA
* *
110307 AAAAATCTAATACCCGCATGCATC
66 AAGAATCTGATACCCGCATGCATC
* * * * * **
110331 TGTCACATCTTTCAGGTTTTAAGAAATTTATTAGGCATTAGTTAAATATTTTTTATAAAATCAG-
1 TGTCACATCTTTCAGGTTTCAAGAAATTTATTAGGCATTAGTCAAATATTTTCTGTCAGGTCAGA
*
110395 AAGAAATCTAATACCCGCATGCATC
66 AAG-AATCTGATACCCGCATGCATC
*
110420 TGTTACATCTTTC
1 TGTCACATCTTTC
110433 GAGTTCTAAG
Statistics
Matches: 251, Mismatches: 26, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
88 5 0.02
89 245 0.98
90 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.37
Consensus pattern (89 bp):
TGTCACATCTTTCAGGTTTCAAGAAATTTATTAGGCATTAGTCAAATATTTTCTGTCAGGTCAGA
AAGAATCTGATACCCGCATGCATC
Found at i:110443 original size:89 final size:88
Alignment explanation
Indices: 110013--110443 Score: 471
Period size: 89 Copynumber: 4.9 Consensus size: 88
110003 CTATCATATT
* * ** * *
110013 ATTAGTTAAATA-TTT-TATC-GTGTCAGAAGAAATTTAATACCCATATACATATGTCACATCTT
1 ATTAGTCAAATATTTTCTATCAG-GTCAGAA-AAATCTAATACCCGCATGCATCTGTCACATCTT
* *
110075 TCGAGTTTTAATAAATTTATTAGGC
64 TCGAGTTCTAAGAAATTTATTAGGC
* * * * *
110100 ATTAGTCAAATATTTTCTGTCGGGGT-AGAAAGAATCTGATACCCACATGCATCTATCACATCTT
1 ATTAGTCAAATATTTTCTATC-AGGTCAGAAA-AATCTAATACCCGCATGCATCTGTCACATCTT
* *
110164 TCGGGTTCCAAGAAATTTATTAGGC
64 TCGAGTTCTAAGAAATTTATTAGGC
* * * * *
110189 ATTAGTCAAATATTTTCTGTCAGGTCAGAAAGAATCTGATACCCGTATGCATCTGTCATATTTTT
1 ATTAGTCAAATATTTTCTATCAGGTCAGAAA-AATCTAATACCCGCATGCATCTGTCACATCTTT
110254 C-AGGTT-TCAAGAAATTTATTAGGC
65 CGA-GTTCT-AAGAAATTTATTAGGC
*
110278 ATTAGTCAAATATTTTTTATCAGGTCAGAAAAAATCTAATACCCGCATGCATCTGTCACATCTTT
1 ATTAGTCAAATATTTTCTATCAGGTCAG-AAAAATCTAATACCCGCATGCATCTGTCACATCTTT
*
110343 C-AGGTTTTAAGAAATTTATTAGGC
65 CGA-GTTCTAAGAAATTTATTAGGC
* * * ** *
110367 ATTAGTTAAATATTTTTTATAAAATCAGAAGAAATCTAATACCCGCATGCATCTGTTACATCTTT
1 ATTAGTCAAATATTTTCTATCAGGTCAGAA-AAATCTAATACCCGCATGCATCTGTCACATCTTT
110432 CGAGTTCTAAGA
65 CGAGTTCTAAGA
110444 TTAATTTTAT
Statistics
Matches: 300, Mismatches: 32, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
87 11 0.04
88 9 0.03
89 272 0.91
90 7 0.02
91 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (88 bp):
ATTAGTCAAATATTTTCTATCAGGTCAGAAAAATCTAATACCCGCATGCATCTGTCACATCTTTC
GAGTTCTAAGAAATTTATTAGGC
Found at i:110792 original size:15 final size:15
Alignment explanation
Indices: 110774--110810 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
110764 TTTTCCTGAA
110774 TGGCTTCTTCTTGAG
1 TGGCTTCTTCTTGAG
* *
110789 TGGCTTCTTTTTGGG
1 TGGCTTCTTCTTGAG
110804 TGGCTTC
1 TGGCTTC
110811 ATCTGCAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.03, C:0.19, G:0.30, T:0.49
Consensus pattern (15 bp):
TGGCTTCTTCTTGAG
Found at i:113437 original size:16 final size:16
Alignment explanation
Indices: 113400--113448 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
113390 CACGAGGATA
113400 AAAATAATAATAATTTT
1 AAAATAATAAT-ATTTT
113417 --AAT-A-AAT-TTTT
1 AAAATAATAATATTTT
113428 AAAATAATAATATTTT
1 AAAATAATAATATTTT
113444 AAAAT
1 AAAAT
113449 TATTTTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 11
0.71 0.00 0.29
Matches are distributed among these distances:
11 4 0.15
13 6 0.22
14 2 0.07
15 6 0.22
16 9 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AAAATAATAATATTTT
Found at i:113439 original size:28 final size:28
Alignment explanation
Indices: 113400--113487 Score: 110
Period size: 28 Copynumber: 3.1 Consensus size: 28
113390 CACGAGGATA
*
113400 AAAATAATAATAATTTTAATAAATTTTT
1 AAAATAATAATAATTTTAATAATTTTTT
113428 AAAATAATAAT-ATTTTAA-AATTATTTT
1 AAAATAATAATAATTTTAATAATT-TTTT
*
113455 ATAAATAAAAATAA-TTTAATTAATTTTTT
1 A-AAATAATAATAATTTTAA-TAATTTTTT
113484 AAAA
1 AAAA
113488 AATTTAATTA
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
26 3 0.06
27 12 0.23
28 28 0.53
29 6 0.11
30 4 0.08
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
AAAATAATAATAATTTTAATAATTTTTT
Found at i:113540 original size:24 final size:23
Alignment explanation
Indices: 113460--113541 Score: 58
Period size: 27 Copynumber: 3.2 Consensus size: 23
113450 ATTTTATAAA
*
113460 TAAAAA-TAATTTAATTAATTTTT
1 TAAAAATTAATTT-ATTAATTTAT
*
113483 TAAAAAATTTAATTATGTTGAATTTAAGT
1 T-AAAAA-TTAATT-TATT-AATTT-A-T
113512 ATAAAAATTAAATTTATTAATTTAT
1 -TAAAAATT-AATTTATTAATTTAT
113537 TAAAA
1 TAAAA
113542 TAAGATAATT
Statistics
Matches: 47, Mismatches: 3, Indels: 17
0.70 0.04 0.25
Matches are distributed among these distances:
23 1 0.02
24 10 0.21
25 1 0.02
26 8 0.17
27 11 0.23
28 5 0.11
29 10 0.21
30 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (23 bp):
TAAAAATTAATTTATTAATTTAT
Found at i:116620 original size:2 final size:2
Alignment explanation
Indices: 116608--116658 Score: 75
Period size: 2 Copynumber: 25.0 Consensus size: 2
116598 TATACTCGAC
*
116608 TA TA CTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
116651 TA TG TA TA
1 TA TA TA TA
116659 GAGGGGACCA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 42 0.95
3 2 0.05
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:116729 original size:22 final size:23
Alignment explanation
Indices: 116686--116733 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
116676 GTCAAGTAGG
116686 TTTTATTTTTTAATTAAGTTTATT
1 TTTTATTTTTTAA-TAAGTTTATT
116710 TTTTATTTTTTTAA-AA-TTTATT
1 TTTTA-TTTTTTAATAAGTTTATT
116732 TT
1 TT
116734 AAATATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.35
23 2 0.09
24 5 0.22
25 8 0.35
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTATTTTTTAATAAGTTTATT
Found at i:116842 original size:22 final size:23
Alignment explanation
Indices: 116794--116841 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
116784 TGATTTAATA
* *
116794 TTTATATTTTTTTATTGATTATT
1 TTTAGATTTTTTAATTGATTATT
116817 TTTAGATTTTTTAATT-ATATATT
1 TTTAGATTTTTTAATTGAT-TATT
116840 TT
1 TT
116842 AAAAAGTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (23 bp):
TTTAGATTTTTTAATTGATTATT
Found at i:117976 original size:27 final size:29
Alignment explanation
Indices: 117931--117988 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 29
117921 TAAAAAATAA
117931 AAATTATTTTATTAATTATTTTAAATTTT
1 AAATTATTTTATTAATTATTTTAAATTTT
* * *
117960 AAATT-TTTTA-TATTTATTTTTATTTTT
1 AAATTATTTTATTAATTATTTTAAATTTT
117987 AA
1 AA
117989 TCAAGGAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 16 0.62
28 5 0.19
29 5 0.19
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (29 bp):
AAATTATTTTATTAATTATTTTAAATTTT
Found at i:118256 original size:17 final size:16
Alignment explanation
Indices: 118232--118264 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
118222 AAAAGTCTTA
118232 AATTTTTTATTTTATT
1 AATTTTTTATTTTATT
118248 AATTATTTTATTTTATT
1 AATT-TTTTATTTTATT
118265 TCTAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
AATTTTTTATTTTATT
Found at i:118993 original size:24 final size:24
Alignment explanation
Indices: 118965--119014 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
118955 TTTTTACGTG
*
118965 TTAATAT-TTTATTTTATATATATA
1 TTAATATATTTA-TATATATATATA
*
118989 TTAATATATTTATATATTTATATA
1 TTAATATATTTATATATATATATA
119013 TT
1 TT
119015 TGTGGTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TTAATATATTTATATATATATATA
Found at i:118997 original size:8 final size:8
Alignment explanation
Indices: 118983--119015 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
118973 TTATTTTATA
118983 TATATATT
1 TATATATT
*
118991 AATATATT
1 TATATATT
118999 TATATATT
1 TATATATT
119007 TATATATT
1 TATATATT
119015 T
1 T
119016 GTGGTATGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TATATATT
Found at i:119436 original size:16 final size:17
Alignment explanation
Indices: 119407--119441 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
119397 TTATAAAATC
*
119407 ATATAAACTTTTTATAT
1 ATATAAACTTTTTACAT
119424 ATATAAA-TTTTTACAT
1 ATATAAACTTTTTACAT
119440 AT
1 AT
119442 TAATATTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATAAACTTTTTACAT
Found at i:119663 original size:19 final size:19
Alignment explanation
Indices: 119618--119706 Score: 60
Period size: 19 Copynumber: 4.6 Consensus size: 19
119608 TGACGTATTC
*
119618 ATATTATTTTTTATATTTT
1 ATATTATTTATTATATTTT
119637 ATCA-TATTTAATTAT-TTTT
1 AT-ATTATTT-ATTATATTTT
119656 ATATTATTTTTATGTGATATTTT
1 ATATTA--TTTAT-T-ATATTTT
* *
119679 A-ATTAATT-TTATTTTTT
1 ATATTATTTATTATATTTT
*
119696 ATATAATTTAT
1 ATATTATTTAT
119707 CATAATAATT
Statistics
Matches: 55, Mismatches: 5, Indels: 20
0.69 0.06 0.25
Matches are distributed among these distances:
17 7 0.13
18 7 0.13
19 17 0.31
20 9 0.16
21 4 0.07
22 6 0.11
23 5 0.09
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.66
Consensus pattern (19 bp):
ATATTATTTATTATATTTT
Found at i:120911 original size:20 final size:22
Alignment explanation
Indices: 120875--120919 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
120865 TTGTTTAGAC
*
120875 TATCAAATATAATTATTTAT-T
1 TATCAAATATAACTATTTATAT
120896 TATCAAA-ATAACTATTTATAT
1 TATCAAATATAACTATTTATAT
120917 TAT
1 TAT
120920 GGTATCTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (22 bp):
TATCAAATATAACTATTTATAT
Found at i:121575 original size:19 final size:19
Alignment explanation
Indices: 121546--121613 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 19
121536 TTTTGGTAAC
121546 TTTTTATATTTTAAT-ATT
1 TTTTTATATTTTAATAATT
121564 TTTTTATGATTTTAATAATAT
1 TTTTTAT-ATTTTAATAAT-T
*
121585 TATTTTATTATGTTAATAATT
1 T-TTTTA-TATTTTAATAATT
*
121606 TTTATATA
1 TTTTTATA
121614 ATATAAGTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
18 7 0.16
19 10 0.23
20 6 0.14
21 4 0.09
22 15 0.35
23 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTTATATTTTAATAATT
Found at i:122865 original size:20 final size:22
Alignment explanation
Indices: 122827--122876 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
122817 TTTTTACGTG
*
122827 ATATAATTTTATTTAAAATTTT
1 ATATAATTTTATATAAAATTTT
122849 ATAT-ATTTTATAT-AAATTTT
1 ATATAATTTTATATAAAATTTT
122869 GATA-AATT
1 -ATATAATT
122877 AATAATTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 7 0.28
21 14 0.56
22 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
ATATAATTTTATATAAAATTTT
Found at i:122892 original size:32 final size:36
Alignment explanation
Indices: 122856--122929 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 36
122846 TTTATATATT
*
122856 TTATATAAATTTTGATA-AATTA-A-TA-ATTTATA
1 TTATATAAATTTTAATATAATTATATTATATTTATA
*
122888 TTATATAAATTTTAATATATTTATATTATATTTATA
1 TTATATAAATTTTAATATAATTATATTATATTTATA
122924 TTATAT
1 TTATAT
122930 TAATATTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
32 16 0.44
33 4 0.11
34 1 0.03
35 2 0.06
36 13 0.36
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (36 bp):
TTATATAAATTTTAATATAATTATATTATATTTATA
Found at i:122919 original size:11 final size:11
Alignment explanation
Indices: 122883--122938 Score: 64
Period size: 11 Copynumber: 5.4 Consensus size: 11
122873 AATTAATAAT
122883 TTATA-TTATA
1 TTATATTTATA
*
122893 -TAAATTT-TA
1 TTATATTTATA
*
122902 ATATATTTATA
1 TTATATTTATA
122913 TTATATTTATA
1 TTATATTTATA
*
122924 TTATATTAATA
1 TTATATTTATA
122935 TTAT
1 TTAT
122939 GTTTTATACC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
9 5 0.13
10 8 0.21
11 26 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTATATTTATA
Found at i:122937 original size:6 final size:5
Alignment explanation
Indices: 122883--122938 Score: 51
Period size: 5 Copynumber: 10.8 Consensus size: 5
122873 AATTAATAAT
* * *
122883 TTATA TTATA -TAAA TTTTA ATATA TTTATA TTATA TTTATA TTATA TTAATA
1 TTATA TTATA TTATA TTATA TTATA -TTATA TTATA -TTATA TTATA TT-ATA
122935 TTAT
1 TTAT
122939 GTTTTATACC
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
4 3 0.07
5 24 0.59
6 14 0.34
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:126693 original size:20 final size:20
Alignment explanation
Indices: 126670--126722 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
126660 ACACGCTCTT
*
126670 ATGTATTGATACAATTCATA
1 ATGTATCGATACAATTCATA
126690 ATGTATCGATACAATTCATA
1 ATGTATCGATACAATTCATA
126710 ATGTATCGATACA
1 ATGTATCGATACA
126723 TGCATTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACAATTCATA
Found at i:126857 original size:10 final size:10
Alignment explanation
Indices: 126837--126870 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
126827 TATTGATACC
*
126837 TGAACAATGA
1 TGAACAGTGA
*
126847 TGAATAGTGA
1 TGAACAGTGA
126857 TGAACAGTGA
1 TGAACAGTGA
126867 TGAA
1 TGAA
126871 AAATGGAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.44, C:0.06, G:0.26, T:0.24
Consensus pattern (10 bp):
TGAACAGTGA
Found at i:127412 original size:17 final size:19
Alignment explanation
Indices: 127377--127414 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
127367 AGGATAGGAA
*
127377 ATGTATTTTTTATTGATTT
1 ATGTATTTTTTATTAATTT
127396 ATGTA-TTTTT-TTAATTT
1 ATGTATTTTTTATTAATTT
127413 AT
1 AT
127415 TGATATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
18 5 0.28
19 5 0.28
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (19 bp):
ATGTATTTTTTATTAATTT
Found at i:127887 original size:8 final size:8
Alignment explanation
Indices: 127842--127890 Score: 59
Period size: 8 Copynumber: 6.4 Consensus size: 8
127832 TATCAACATA
*
127842 AAAAAATA
1 AAAAAATT
127850 AAAAAATT
1 AAAAAATT
127858 --AAAA-T
1 AAAAAATT
127863 AAAAAATT
1 AAAAAATT
127871 ACAAAAATT
1 A-AAAAATT
127880 AAAAAATT
1 AAAAAATT
127888 AAA
1 AAA
127891 TTATGAATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
5 1 0.03
6 4 0.11
7 4 0.11
8 19 0.53
9 8 0.22
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (8 bp):
AAAAAATT
Done.