Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold428
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: 186993
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 1 of 2
Found at i:1206 original size:31 final size:31
Alignment explanation
Indices: 1168--1245 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
1158 GATATATTAA
* *
1168 AAAATGTATCGATATATTTGGGTCAAAA-CT
1 AAAATGTATCGATACATTTGGATCAAAATCT
1198 CAAAATGTATCGATACATTTGGATCAAAATCT
1 -AAAATGTATCGATACATTTGGATCAAAATCT
1230 AAAATGTATCGATACA
1 AAAATGTATCGATACA
1246 ATGAAAATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
31 42 0.95
32 2 0.05
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (31 bp):
AAAATGTATCGATACATTTGGATCAAAATCT
Found at i:1393 original size:17 final size:17
Alignment explanation
Indices: 1368--1400 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1358 ATTCGAATTA
*
1368 AATTGAATTTTATTTTT
1 AATTAAATTTTATTTTT
1385 AATTAAATTTTATTTT
1 AATTAAATTTTATTTT
1401 GATAATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
AATTAAATTTTATTTTT
Found at i:1600 original size:2 final size:2
Alignment explanation
Indices: 1593--1630 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1583 TAGATTCAAC
1593 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1631 CTGGCGACCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4529 original size:2 final size:2
Alignment explanation
Indices: 4522--4553 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4512 ACATACATAA
4522 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4554 GCAAAACAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7120 original size:18 final size:18
Alignment explanation
Indices: 7085--7120 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7075 ATGTGTTTTA
*
7085 TTTTTTTATAATTTTTAT
1 TTTTTTTATAATTATTAT
*
7103 TTTTTTTATTATTATTAT
1 TTTTTTTATAATTATTAT
7121 AAGTAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTTATAATTATTAT
Found at i:7174 original size:8 final size:8
Alignment explanation
Indices: 7151--7189 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
7141 CATAATTTTA
7151 TATTATTAT
1 TATTATT-T
*
7160 TAGTATTT
1 TATTATTT
7168 TATTATTT
1 TATTATTT
*
7176 TATTTTTT
1 TATTATTT
7184 TATTAT
1 TATTAT
7190 AATTTTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
8 20 0.77
9 6 0.23
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (8 bp):
TATTATTT
Found at i:7175 original size:27 final size:27
Alignment explanation
Indices: 7145--7196 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
7135 TATTATCATA
7145 ATTTTATATTATTATTAGT-ATTTTATT
1 ATTTTATATTATTATTA-TAATTTTATT
* *
7172 ATTTTATTTTTTTATTATAATTTTA
1 ATTTTATATTATTATTATAATTTTA
7197 ATAAATGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 1 0.05
27 21 0.95
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (27 bp):
ATTTTATATTATTATTATAATTTTATT
Found at i:14757 original size:23 final size:23
Alignment explanation
Indices: 14651--14799 Score: 73
Period size: 22 Copynumber: 6.6 Consensus size: 23
14641 TATAATTATG
*
14651 TTTAT-ATATATACATAATA-TAA
1 TTTATAATATATA-ATATTATTAA
* *
14673 ATTATAATATATTTATATATTA-AAA
1 TTTATAATATA--TA-ATATTATTAA
* * * *
14698 TTTA-AATTTATAAAATCAATTCA
1 TTTATAATATATAATAT-TATTAA
14721 TTTA-AATAT-TAATATTATTAA
1 TTTATAATATATAATATTATTAA
*
14742 TTTATAATATATAATA-AATTAA
1 TTTATAATATATAATATTATTAA
* * * *
14764 TTTTTTATGT-TAACATATATTAA
1 TTTATAATATATAATAT-TATTAA
14787 TTT-TAATATATAA
1 TTTATAATATATAA
14800 ATATAATAAA
Statistics
Matches: 95, Mismatches: 22, Indels: 19
0.70 0.16 0.14
Matches are distributed among these distances:
21 15 0.16
22 33 0.35
23 30 0.32
24 5 0.05
25 12 0.13
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.49
Consensus pattern (23 bp):
TTTATAATATATAATATTATTAA
Found at i:18113 original size:17 final size:18
Alignment explanation
Indices: 18076--18121 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
18066 CACTTTTAAA
18076 ATTTATTAAATTAGATTG
1 ATTTATTAAATTAGATTG
* *
18094 ATTTATTCAA-TAGTTTG
1 ATTTATTAAATTAGATTG
18111 ATTT-TTAAATT
1 ATTTATTAAATT
18122 TAATTTGAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 4 0.17
17 11 0.46
18 9 0.38
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (18 bp):
ATTTATTAAATTAGATTG
Found at i:18171 original size:19 final size:19
Alignment explanation
Indices: 18147--18183 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
18137 TTATTTTAAA
18147 TTTTAAT-TTAAATTAAAAT
1 TTTTAATATT-AATTAAAAT
18166 TTTTAATATTAATTAAAA
1 TTTTAATATTAATTAAAA
18184 AAATTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTAATATTAATTAAAAT
Found at i:19438 original size:18 final size:17
Alignment explanation
Indices: 19417--19458 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
19407 TTATATTATT
19417 ATTTACTATAATATTAAA
1 ATTTA-TATAATATTAAA
* *
19435 ATTTATTTTATATTAAA
1 ATTTATATAATATTAAA
19452 ATTTATA
1 ATTTATA
19459 ATTATTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTATATAATATTAAA
Found at i:20194 original size:17 final size:17
Alignment explanation
Indices: 20172--20205 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
20162 AATTATTATT
20172 TAATAAA-TATAATAATA
1 TAATAAATTATAA-AATA
20189 TAATAAATTATAAAATA
1 TAATAAATTATAAAATA
20206 AACTTTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TAATAAATTATAAAATA
Found at i:22569 original size:19 final size:19
Alignment explanation
Indices: 22538--22583 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
22528 CAAGCAACTA
*
22538 ATAAAAGTAAAAATATTAA-T
1 ATAAAA-TAAAAAT-TAAATT
22558 ATAAAATAAAAATTAAATT
1 ATAAAATAAAAATTAAATT
22577 ATAAAAT
1 ATAAAAT
22584 TAAATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 3 0.12
19 15 0.62
20 6 0.25
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
ATAAAATAAAAATTAAATT
Found at i:30698 original size:32 final size:32
Alignment explanation
Indices: 30660--30730 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
30650 AACTTCGTAG
30660 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
* *
30692 TGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
30724 CGATACA
1 CGATACA
30731 AATCGTTGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:30724 original size:19 final size:19
Alignment explanation
Indices: 30668--30731 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
30658 AGCGATACAT
*
30668 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
*
30687 TGTATTGAT---ACA--T-
1 TGTATCGATACAACACTTA
30700 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
30719 TGTATCGATACAA
1 TGTATCGATACAA
30732 ATCGTTGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
13 8 0.22
14 1 0.03
16 5 0.14
18 1 0.03
19 21 0.58
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:31358 original size:15 final size:15
Alignment explanation
Indices: 31338--31368 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
31328 CCCTAACATT
31338 GGTAGGGTAGGGTAA
1 GGTAGGGTAGGGTAA
31353 GGTAGGGTAGGGTAA
1 GGTAGGGTAGGGTAA
31368 G
1 G
31369 TTTCAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.55, T:0.19
Consensus pattern (15 bp):
GGTAGGGTAGGGTAA
Found at i:37196 original size:19 final size:18
Alignment explanation
Indices: 37155--37198 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
37145 ATTAAGAATA
37155 TATAAATTTTAATATTAG
1 TATAAATTTTAATATTAG
* *
37173 AATAATATTTTAATATTAT
1 TATAA-ATTTTAATATTAG
37192 TATAAAT
1 TATAAAT
37199 AGTAAAATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TATAAATTTTAATATTAG
Found at i:38790 original size:24 final size:24
Alignment explanation
Indices: 38758--38806 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
38748 ATTCACCAAA
*
38758 CAAATTATCTGTTCTTGTTGCATG
1 CAAATTATCTGTTCTTCTTGCATG
* *
38782 CAAATTATCTTTTTTTCTTGCATG
1 CAAATTATCTGTTCTTCTTGCATG
38806 C
1 C
38807 TTTGCAGTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.49
Consensus pattern (24 bp):
CAAATTATCTGTTCTTCTTGCATG
Found at i:39501 original size:36 final size:35
Alignment explanation
Indices: 39456--39527 Score: 85
Period size: 35 Copynumber: 2.0 Consensus size: 35
39446 TAAATCGATA
* *
39456 TTTTACTATTTATTTTATTAAAA-ATTTATTT-TTAT
1 TTTTACTATTT-TATAATTAAAATA-TTATTTATTAT
39491 TTTTATCTATTTTATAATTAAAATATTATTTATTAT
1 TTTTA-CTATTTTATAATTAAAATATTATTTATTAT
39527 T
1 T
39528 AAATAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
35 20 0.62
36 12 0.38
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (35 bp):
TTTTACTATTTTATAATTAAAATATTATTTATTAT
Found at i:40950 original size:15 final size:17
Alignment explanation
Indices: 40930--40963 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
40920 CCAAATGTTA
40930 TATATTTAA-A-ATATT
1 TATATTTAATATATATT
40945 TATATTTAATATATATT
1 TATATTTAATATATATT
40962 TA
1 TA
40964 AATATAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 1 0.06
17 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTTAATATATATT
Found at i:40979 original size:24 final size:25
Alignment explanation
Indices: 40928--40992 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
40918 TGCCAAATGT
** *
40928 TATATATTTAAAATATTTATATTTAA
1 TATATATTT-AAATATAAATATTAAA
40954 TATATATTTAAATATAAATA-TAAA
1 TATATATTTAAATATAAATATTAAA
* *
40978 TATATAATAAAATAT
1 TATATATTTAAATAT
40993 TTTTAAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 16 0.47
25 9 0.26
26 9 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TATATATTTAAATATAAATATTAAA
Found at i:40992 original size:36 final size:37
Alignment explanation
Indices: 40952--41033 Score: 84
Period size: 36 Copynumber: 2.3 Consensus size: 37
40942 ATTTATATTT
*
40952 AATATATATTT-AAATA-TAAATATAAAT-ATATAATAA
1 AATATATATTTAAAAAATTAAATAT-AATCATATAA-AA
40988 AATAT-T-TTTAAAAAATTAAATATAATCATATAAAA
1 AATATATATTTAAAAAATTAAATATAATCATATAAAA
* *
41023 TATGTATATTT
1 AATATATATTT
41034 TTTTTGAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
34 3 0.08
35 13 0.34
36 19 0.50
37 3 0.08
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (37 bp):
AATATATATTTAAAAAATTAAATATAATCATATAAAA
Found at i:41308 original size:25 final size:23
Alignment explanation
Indices: 41280--41343 Score: 67
Period size: 25 Copynumber: 2.7 Consensus size: 23
41270 ATTTTTTTAA
41280 ATTTTTTTAATATTTATAAGATCAT
1 ATTTTTTTAATATTTA-AAGAT-AT
* *
41305 ATTTATTT-ATATTTAAATATAT
1 ATTTTTTTAATATTTAAAGATAT
41327 ATTTTTTATAAATATTT
1 ATTTTTT-T-AATATTT
41344 GAAAAAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 8 0.24
23 5 0.15
24 7 0.21
25 13 0.39
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
ATTTTTTTAATATTTAAAGATAT
Found at i:41600 original size:13 final size:14
Alignment explanation
Indices: 41575--41616 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
41565 AAAAACTCAA
41575 TTTAAATTAAAATT
1 TTTAAATTAAAATT
*
41589 TTTAAA-TAAAATA
1 TTTAAATTAAAATT
*
41602 ATTAAATTTAAAATT
1 TTTAAA-TTAAAATT
41617 AAAAATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 11 0.48
14 6 0.26
15 6 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTAAATTAAAATT
Found at i:44570 original size:17 final size:17
Alignment explanation
Indices: 44550--44584 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
44540 AATTTTAATT
* *
44550 TAGTTAATATTTTTGTC
1 TAGTCAATATGTTTGTC
44567 TAGTCAATATGTTTGTC
1 TAGTCAATATGTTTGTC
44584 T
1 T
44585 TTTTTAATAT
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:0.23, C:0.09, G:0.14, T:0.54
Consensus pattern (17 bp):
TAGTCAATATGTTTGTC
Found at i:44726 original size:18 final size:18
Alignment explanation
Indices: 44703--44741 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
44693 GGTTAATCAG
*
44703 ATAT-AAATTATATGAAAA
1 ATATAAAATTATGT-AAAA
44721 ATATAAAATTATGTAAAA
1 ATATAAAATTATGTAAAA
44739 ATA
1 ATA
44742 ATTAAGATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (18 bp):
ATATAAAATTATGTAAAA
Found at i:44996 original size:25 final size:27
Alignment explanation
Indices: 44920--45001 Score: 82
Period size: 26 Copynumber: 3.1 Consensus size: 27
44910 TAAAAATATT
*
44920 ATATTTTTA-ATATATATTTAATAATTAA
1 ATATTTTTATAT-TA-AATTAATAATTAA
*
44948 A-ATTTTTATATTAAATAAATAATTAA
1 ATATTTTTATATTAAATTAATAATTAA
* *
44974 ATATTTTT-TATTAACTTAA-AATTTA
1 ATATTTTTATATTAAATTAATAATTAA
44999 ATA
1 ATA
45002 AACTTGATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
25 8 0.17
26 21 0.45
27 15 0.32
28 3 0.06
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (27 bp):
ATATTTTTATATTAAATTAATAATTAA
Found at i:46424 original size:121 final size:122
Alignment explanation
Indices: 46209--46453 Score: 474
Period size: 121 Copynumber: 2.0 Consensus size: 122
46199 TTCGGTGAAA
46209 GGGGGAATTGAAAGAGGGAAAACCTTTTATTATTTGCCAGAAACTGGACTGGCTTCACAAAAGAT
1 GGGGGAATTGAAAGAGGGAAAACCTTTTATTATTTGCCAGAAACTGGACTGGCTTCACAAAAGAT
46274 TGGAATTCAATTACGATACTGGTTGGTTTTAACAGGGCTGGAGTAAAATCAATCTTT
66 TGGAATTCAATTACGATACTGGTTGGTTTTAACAGGGCTGGAGTAAAATCAATCTTT
*
46331 GGGGGAATTGAAAGAGGG-AACCCTTTTATTATTTGCCAGAAACTGGACTGGCTTCACAAAAGAT
1 GGGGGAATTGAAAGAGGGAAAACCTTTTATTATTTGCCAGAAACTGGACTGGCTTCACAAAAGAT
46395 TGGAATTCAATTACGATACTGGTTGGTTTTAACAGGGCTGGAGTAAAATCAATCTTT
66 TGGAATTCAATTACGATACTGGTTGGTTTTAACAGGGCTGGAGTAAAATCAATCTTT
46452 GG
1 GG
46454 ATGTACGGTT
Statistics
Matches: 122, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
121 104 0.85
122 18 0.15
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (122 bp):
GGGGGAATTGAAAGAGGGAAAACCTTTTATTATTTGCCAGAAACTGGACTGGCTTCACAAAAGAT
TGGAATTCAATTACGATACTGGTTGGTTTTAACAGGGCTGGAGTAAAATCAATCTTT
Found at i:49682 original size:25 final size:25
Alignment explanation
Indices: 49636--49684 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
49626 TGTTTATAAA
* ** *
49636 TATAATAAATTTTATTATAATTAAT
1 TATAATAAATATTAAAAAAATTAAT
49661 TATAATAAATATTAAAAAAATTAA
1 TATAATAAATATTAAAAAAATTAA
49685 AACTAATAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
TATAATAAATATTAAAAAAATTAAT
Found at i:56877 original size:25 final size:25
Alignment explanation
Indices: 56830--56877 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
56820 ATTACATGTT
* *
56830 ATATTATATATTATAATTTTATTAA
1 ATATTAAATATTATAATTATATTAA
56855 ATATTAAATATTAT-ATTAATATT
1 ATATTAAATATTATAATT-ATATT
56878 TATTTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
ATATTAAATATTATAATTATATTAA
Found at i:57157 original size:16 final size:15
Alignment explanation
Indices: 57119--57157 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
57109 CGAGTGAGAT
57119 AATTT-AATAAATTC
1 AATTTAAATAAATTC
*
57133 AATTTAAATAAATTT
1 AATTTAAATAAATTC
57148 AATGTTAAAT
1 AAT-TTAAAT
57158 TTTAATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.23
15 11 0.50
16 6 0.27
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (15 bp):
AATTTAAATAAATTC
Found at i:58956 original size:24 final size:24
Alignment explanation
Indices: 58923--58972 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
58913 TGAGGACGAC
*
58923 GATCCTGAGGAGACCATGGAAGAA
1 GATCCCGAGGAGACCATGGAAGAA
**
58947 GATCCCGAGGAGACTGTGGAAGAA
1 GATCCCGAGGAGACCATGGAAGAA
58971 GA
1 GA
58973 GGTGGAGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.36, C:0.16, G:0.36, T:0.12
Consensus pattern (24 bp):
GATCCCGAGGAGACCATGGAAGAA
Found at i:59013 original size:18 final size:17
Alignment explanation
Indices: 58965--59038 Score: 55
Period size: 18 Copynumber: 4.3 Consensus size: 17
58955 GGAGACTGTG
* *
58965 GAAGAAGAGGTGGAGTAT
1 GAAGAAGAGGAGGAG-AA
58983 GAAGAAGTA-GAGGTAGAA
1 GAAGAAG-AGGAGG-AGAA
59001 GAAGAAGAGGAGGA-AA
1 GAAGAAGAGGAGGAGAA
* *
59017 -TAGAAGAGGAGGTGGAA
1 GAAGAAGAGGAGG-AGAA
59034 GAAGA
1 GAAGA
59039 GGTTGAAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
15 11 0.24
16 2 0.04
17 4 0.09
18 25 0.56
19 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.43, T:0.09
Consensus pattern (17 bp):
GAAGAAGAGGAGGAGAA
Found at i:59049 original size:15 final size:15
Alignment explanation
Indices: 58983--59053 Score: 65
Period size: 15 Copynumber: 4.7 Consensus size: 15
58973 GGTGGAGTAT
*
58983 GAAGAAGTAGAGGTA-
1 GAAGAAGAAGAGG-AG
58998 GAAGAAGAAGAGGAG
1 GAAGAAGAAGAGGAG
59013 GAA-ATAGAAGAGGAG
1 GAAGA-AGAAGAGGAG
** **
59028 GTGGAAGAAGAGGTT
1 GAAGAAGAAGAGGAG
59043 GAAGAAGAAGA
1 GAAGAAGAAGA
59054 TCAGGATGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
14 2 0.04
15 43 0.93
16 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.42, T:0.08
Consensus pattern (15 bp):
GAAGAAGAAGAGGAG
Found at i:63650 original size:21 final size:22
Alignment explanation
Indices: 63613--63656 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
63603 ATTTATTAAA
*
63613 ATATTATTTTTATATT-AATTT
1 ATATTATTTATATATTAAATTT
63634 ATATTATGTTATA-ATTAAATTT
1 ATATTAT-TTATATATTAAATTT
63656 A
1 A
63657 AATAAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
ATATTATTTATATATTAAATTT
Found at i:63920 original size:17 final size:17
Alignment explanation
Indices: 63898--63932 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
63888 GATCAATATC
63898 TTTTTTA-TTAATTATTA
1 TTTTTTATTTAA-TATTA
63915 TTTTTTATTTAATATTA
1 TTTTTTATTTAATATTA
63932 T
1 T
63933 AAAAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTATTTAATATTA
Found at i:63983 original size:33 final size:31
Alignment explanation
Indices: 63929--64014 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 31
63919 TTATTTAATA
*
63929 TTATAAAAATATATTATAATTTTTAATAA-GTTT
1 TTATAAAAATATA--AAAATTTTT-ATAATGTTT
*
63962 ATGTATAAAAATATAAAAATTTATATAATGTTT
1 -T-TATAAAAATATAAAAATTTTTATAATGTTT
63995 TTA-AAAAATA-AAATAATTTT
1 TTATAAAAATATAAA-AATTTT
64015 AAAAAATAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
29 3 0.07
30 12 0.26
31 2 0.04
32 5 0.11
33 11 0.24
34 1 0.02
35 12 0.26
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.45
Consensus pattern (31 bp):
TTATAAAAATATAAAAATTTTTATAATGTTT
Found at i:65136 original size:44 final size:41
Alignment explanation
Indices: 65052--65136 Score: 107
Period size: 44 Copynumber: 2.0 Consensus size: 41
65042 TTAAATAAAT
* * * *
65052 TTAAATCATTAATTTTTATTAAATTTGATTAAATATAAAAC
1 TTAAATCATTAATTTTTATCAAATTCGATCAAATACAAAAC
65093 TTAAATCATTAAATTTTATATCCAAATTCGATCAAATACAAAAC
1 TTAAATCATT-AATTTT-TAT-CAAATTCGATCAAATACAAAAC
65137 AAAACTTATC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 10 0.27
42 6 0.16
43 3 0.08
44 18 0.49
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (41 bp):
TTAAATCATTAATTTTTATCAAATTCGATCAAATACAAAAC
Found at i:66089 original size:41 final size:41
Alignment explanation
Indices: 66044--66127 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
66034 TTCTTACCAC
66044 AAAATTACCTGGAAAAAGATCAACACTTCATTTTGAGGGTG
1 AAAATTACCTGGAAAAAGATCAACACTTCATTTTGAGGGTG
*
66085 AAAATTACCTGGTAAAAGATCAACACTTCATTTTGAGGGTG
1 AAAATTACCTGGAAAAAGATCAACACTTCATTTTGAGGGTG
66126 AA
1 AA
66128 TAAAGATCGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.27
Consensus pattern (41 bp):
AAAATTACCTGGAAAAAGATCAACACTTCATTTTGAGGGTG
Found at i:69951 original size:29 final size:30
Alignment explanation
Indices: 69905--69970 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
69895 TATCAATTTA
69905 ATTTTAAATAAAAATTTAT-TTAATTTAA-T
1 ATTTTAAATAAAAATTTATGTT-ATTTAATT
* *
69934 ATTTTATATAAAACTTTATGTTATTTAATT
1 ATTTTAAATAAAAATTTATGTTATTTAATT
69964 ATTTTAA
1 ATTTTAA
69971 TATTAATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 23 0.72
30 9 0.28
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (30 bp):
ATTTTAAATAAAAATTTATGTTATTTAATT
Found at i:70445 original size:18 final size:18
Alignment explanation
Indices: 70422--70463 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
70412 TAATTTATTT
70422 TTAAAT-AATTAAAAATAA
1 TTAAATCAATT-AAAATAA
* *
70440 TTAAATCAATTGAACTAA
1 TTAAATCAATTAAAATAA
70458 TTAAAT
1 TTAAAT
70464 TAAGTTAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (18 bp):
TTAAATCAATTAAAATAA
Found at i:70527 original size:19 final size:20
Alignment explanation
Indices: 70492--70552 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
70482 TTATAATTAA
*
70492 TTAATTTAA-TTTGATAAAT
1 TTAATTTAATTTTTATAAAT
70511 TTAA-TTAATTTTTATAAAAT
1 TTAATTTAATTTTTAT-AAAT
*
70531 TTATATTTAGTTTTTA-AAAT
1 TTA-ATTTAATTTTTATAAAT
70551 TT
1 TT
70553 TAAATATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
18 4 0.11
19 9 0.25
20 13 0.36
21 1 0.03
22 9 0.25
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TTAATTTAATTTTTATAAAT
Found at i:70852 original size:13 final size:13
Alignment explanation
Indices: 70834--70885 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
70824 TAAAATTTAA
* *
70834 TATATATATAATT
1 TATATAAATAAAT
70847 TATATAAATAAAT
1 TATATAAATAAAT
70860 TATA-AAATATAAT
1 TATATAAATA-AAT
* *
70873 AATATAATTAAAT
1 TATATAAATAAAT
70886 AAATATAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 5 0.15
13 24 0.73
14 4 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TATATAAATAAAT
Found at i:70860 original size:30 final size:30
Alignment explanation
Indices: 70826--70895 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
70816 AATTTATTTA
* *
70826 AAATT-TAATATATATATAAT-TTATATAAAT
1 AAATTATAAAATATA-ATAATATAAT-TAAAT
70856 AAATTATAAAATATAATAATATAATTAAAT
1 AAATTATAAAATATAATAATATAATTAAAT
70886 AAA-TATAAAA
1 AAATTATAAAA
70896 ATGAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 7 0.19
30 18 0.50
31 11 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (30 bp):
AAATTATAAAATATAATAATATAATTAAAT
Found at i:70863 original size:26 final size:26
Alignment explanation
Indices: 70799--70885 Score: 63
Period size: 27 Copynumber: 3.3 Consensus size: 26
70789 ATATAAAATA
* *
70799 AAAT-AATTATATATTTTAATTTATTT
1 AAATAAATTATATA-TATAATTTATAT
*
70825 AAAATTTAA-TATATATATAATTTATAT
1 -AAA-TAAATTATATATATAATTTATAT
* *
70852 AAATAAATTATAAAATATAA-TAATAT
1 AAATAAATTAT-ATATATAATTTATAT
*
70878 AATTAAAT
1 AAATAAAT
70886 AAATATAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
25 3 0.06
26 18 0.36
27 20 0.40
28 7 0.14
29 2 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
AAATAAATTATATATATAATTTATAT
Found at i:70911 original size:29 final size:28
Alignment explanation
Indices: 70846--70923 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 28
70836 TATATATAAT
* *
70846 TTATATAAATAAATTATAAAATATAATAATA
1 TTAT-TAAATAAA-TATAAAA-ATAAAAAAA
*
70877 TAATTAAATAAATATAAAAATGAAAAAAA
1 TTATTAAATAAATATAAAAAT-AAAAAAA
70906 TTATT-AA-AAATATAAAAA
1 TTATTAAATAAATATAAAAA
70924 ATTAAATTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
27 11 0.26
28 4 0.10
29 16 0.38
30 8 0.19
31 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (28 bp):
TTATTAAATAAATATAAAAATAAAAAAA
Found at i:70915 original size:19 final size:19
Alignment explanation
Indices: 70891--70927 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
70881 TAAATAAATA
70891 TAAAAATGA-AAAAAATTAT
1 TAAAAAT-ATAAAAAATTAT
70910 TAAAAATATAAAAAATTA
1 TAAAAATATAAAAAATTA
70928 AATTAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (19 bp):
TAAAAATATAAAAAATTAT
Found at i:71487 original size:27 final size:26
Alignment explanation
Indices: 71449--71551 Score: 68
Period size: 27 Copynumber: 3.8 Consensus size: 26
71439 AACTAAAACG
*
71449 TATAAATTTAATAATTTATATCAAATT
1 TATATATTTAATAATTTATAT-AAATT
* * *
71476 TATATATTTAATTATATAATAATTATATT
1 TATATATTTAATAAT-TTAT-A-TAAATT
*
71505 TAAAATATTT-AT-ATTTATATAAATAT
1 T-ATATATTTAATAATTTATATAAAT-T
*
71531 TA-ATATAATAATAATTTATAT
1 TATATAT-TTAATAATTTATAT
71552 TATATAAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
24 4 0.07
25 6 0.10
26 5 0.08
27 24 0.40
28 5 0.08
29 8 0.13
30 8 0.13
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (26 bp):
TATATATTTAATAATTTATATAAATT
Found at i:71504 original size:21 final size:21
Alignment explanation
Indices: 71478--71576 Score: 60
Period size: 21 Copynumber: 4.5 Consensus size: 21
71468 ATCAAATTTA
71478 TATATTTAATTATATAATAAT
1 TATATTTAATTATATAATAAT
* * *
71499 TATATTTAA-AATATTTATATT
1 TATATTTAATTATA-TAATAAT
**
71520 TATATAAATATTAATATAATAA-
1 TATATTTA-ATT-ATATAATAAT
71542 TA-ATTTATATTATATAAATAAAT
1 TATATTTA-ATTATAT-AAT-AAT
71565 TATTATATTAAT
1 TA-TAT-TTAAT
71577 ATCATATTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
20 7 0.12
21 30 0.52
22 5 0.09
23 6 0.10
24 3 0.05
25 4 0.07
26 3 0.05
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TATATTTAATTATATAATAAT
Found at i:71516 original size:15 final size:15
Alignment explanation
Indices: 71479--71521 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
71469 TCAAATTTAT
*
71479 ATATTTA-ATTATATA
1 ATATTTATATT-TAAA
*
71494 ATAATTATATTTAAA
1 ATATTTATATTTAAA
71509 ATATTTATATTTA
1 ATATTTATATTTA
71522 TATAAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 21 0.88
16 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTTATATTTAAA
Found at i:71523 original size:32 final size:32
Alignment explanation
Indices: 71479--71588 Score: 102
Period size: 32 Copynumber: 3.3 Consensus size: 32
71469 TCAAATTTAT
*
71479 ATATTTA-ATTATATAATAATTATATTTAA-A
1 ATATTTATATTATATAATAATTATATATAATA
71509 ATATTTATATTTATATAA-ATATTA-ATATAATA
1 ATATTTATA-TTATATAATA-ATTATATATAATA
71541 ATAATTTATATTATATAAATAAATTATTATATTAATA
1 AT-ATTTATATTATAT-AAT-AATTA-TATA-TAATA
71578 TCATATTTATA
1 --ATATTTATA
71589 AATTTTTATA
Statistics
Matches: 66, Mismatches: 1, Indels: 18
0.78 0.01 0.21
Matches are distributed among these distances:
30 7 0.11
31 7 0.11
32 21 0.32
33 9 0.14
34 4 0.06
35 1 0.02
36 3 0.05
37 5 0.08
38 7 0.11
39 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (32 bp):
ATATTTATATTATATAATAATTATATATAATA
Found at i:71583 original size:27 final size:27
Alignment explanation
Indices: 71548--71601 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
71538 ATAATAATTT
*
71548 ATATTATATAAATAAATTATTATATTA
1 ATATCATATAAATAAATTATTATATTA
** *
71575 ATATCATATTTATAAATTTTTATATTA
1 ATATCATATAAATAAATTATTATATTA
71602 TTTTATATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
ATATCATATAAATAAATTATTATATTA
Found at i:71626 original size:17 final size:17
Alignment explanation
Indices: 71592--71635 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
71582 ATTTATAAAT
71592 TTTTATATTATTTTATA
1 TTTTATATTATTTTATA
*
71609 TTTTA-ATTTTTTTAATA
1 TTTTATATTATTTT-ATA
71626 TTTTAT-TTAT
1 TTTTATATTAT
71636 AACATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATATTATTTTATA
Found at i:71627 original size:24 final size:26
Alignment explanation
Indices: 71580--71631 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 26
71570 TATTAATATC
*
71580 ATATTTATAAATTTTTATATTATTTT
1 ATATTTATAAATTTTTATAATATTTT
*
71606 ATATTT-T-AATTTTTTTAATATTTT
1 ATATTTATAAATTTTTATAATATTTT
71630 AT
1 AT
71632 TTATAACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 17 0.71
25 1 0.04
26 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (26 bp):
ATATTTATAAATTTTTATAATATTTT
Found at i:74262 original size:40 final size:41
Alignment explanation
Indices: 74180--74265 Score: 138
Period size: 40 Copynumber: 2.1 Consensus size: 41
74170 AATTATTTAC
*
74180 TTTATCATCAATAAAGTAACCAACACTATATTAAACGTATA
1 TTTATCATCAATAAAGTAACCAACACTATATTAAACGCATA
* *
74221 TTTATCGTCAATGAAGTAACCAA-ACTATATTAAACGCATA
1 TTTATCATCAATAAAGTAACCAACACTATATTAAACGCATA
74261 TTTAT
1 TTTAT
74266 ATCCAACAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 21 0.50
41 21 0.50
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (41 bp):
TTTATCATCAATAAAGTAACCAACACTATATTAAACGCATA
Found at i:74404 original size:24 final size:23
Alignment explanation
Indices: 74357--74442 Score: 79
Period size: 24 Copynumber: 3.7 Consensus size: 23
74347 TATAAATATG
* *
74357 ATAATATTAAATATGAA-ATGAAT
1 ATAATATAAAATAT-AATATAAAT
*
74380 ACAATATACAAATATAAT-TAAAAT
1 ATAATATA-AAATATAATAT-AAAT
*
74404 ATAATA-AAAAAATAATATAAAT
1 ATAATATAAAATATAATATAAAT
74426 ATAATATAAATATATAA
1 ATAATATAAA-ATATAA
74443 ATTATCGAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
22 18 0.35
23 14 0.27
24 19 0.37
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (23 bp):
ATAATATAAAATATAATATAAAT
Found at i:74405 original size:11 final size:11
Alignment explanation
Indices: 74389--74442 Score: 56
Period size: 11 Copynumber: 4.7 Consensus size: 11
74379 TACAATATAC
74389 AAATATAATTA
1 AAATATAATTA
*
74400 AAATATAATAA
1 AAATATAATTA
*
74411 AAAAATAA-TA
1 AAATATAATTA
74421 TAAATATAATATA
1 -AAATATAAT-TA
74434 AATATATAA
1 AA-ATATAA
74443 ATTATCGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 1 0.03
11 24 0.69
12 2 0.06
13 8 0.23
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAATATAATTA
Found at i:74565 original size:19 final size:19
Alignment explanation
Indices: 74541--74579 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
74531 AACGTCAATA
74541 TTTGGATATTCTTTGTTTT
1 TTTGGATATTCTTTGTTTT
74560 TTTGGATATTCTTTGTTTT
1 TTTGGATATTCTTTGTTTT
74579 T
1 T
74580 CTCAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.05, G:0.15, T:0.69
Consensus pattern (19 bp):
TTTGGATATTCTTTGTTTT
Found at i:74588 original size:20 final size:19
Alignment explanation
Indices: 74546--74589 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
74536 CAATATTTGG
***
74546 ATATTCTTTGTTTTTTTGG
1 ATATTCTTTGTTTTTTCAA
74565 ATATTCTTTGTTTTTCTCAA
1 ATATTCTTTGTTTTT-TCAA
74585 ATATT
1 ATATT
74590 ACCTTTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.64
Consensus pattern (19 bp):
ATATTCTTTGTTTTTTCAA
Found at i:74630 original size:2 final size:2
Alignment explanation
Indices: 74623--74647 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
74613 AATATCCAAA
74623 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
74648 AAATTATGAT
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:77800 original size:15 final size:15
Alignment explanation
Indices: 77745--77801 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 15
77735 TGATTTTTAT
*
77745 ACATATCATATATAG
1 ACATACCATATATAG
* *
77760 ACATACCAT-TACAA
1 ACATACCATATATAG
*
77774 ACATACCTTATATAG
1 ACATACCATATATAG
*
77789 ACATAGCATATAT
1 ACATACCATATAT
77802 GATATATAGA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
14 11 0.33
15 22 0.67
ACGTcount: A:0.46, C:0.19, G:0.05, T:0.30
Consensus pattern (15 bp):
ACATACCATATATAG
Found at i:77825 original size:24 final size:22
Alignment explanation
Indices: 77782--77869 Score: 72
Period size: 22 Copynumber: 3.9 Consensus size: 22
77772 AAACATACCT
*
77782 TATATAGACATAGCATATAT-G
1 TATATAGACATACCATATATCG
77803 ATATATAGACATACCATACATATCG
1 -TATATAGACATACCAT--ATATCG
* ** * *
77828 TATATAGATATAGTATTTATGG
1 TATATAGACATACCATATATCG
77850 TA-AGTAGACATACCATATAT
1 TATA-TAGACATACCATATAT
77870 AAACTTAGTA
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
21 1 0.02
22 33 0.63
24 17 0.33
25 1 0.02
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.34
Consensus pattern (22 bp):
TATATAGACATACCATATATCG
Found at i:82595 original size:17 final size:17
Alignment explanation
Indices: 82573--82668 Score: 67
Period size: 17 Copynumber: 5.7 Consensus size: 17
82563 AAATTATTAA
82573 AATATAATTTAAAATAT
1 AATATAATTTAAAATAT
82590 AATATAATTTAAAA-A-
1 AATATAATTTAAAATAT
* *
82605 AATATACATAT-AAACAT
1 AATATA-ATTTAAAATAT
* * *
82622 AATATAAATATATGATTAT
1 AATAT-AATTTA-AAATAT
82641 AATATAA--TAAAATAT
1 AATATAATTTAAAATAT
*
82656 ATAAATAATTTAA
1 A-ATATAATTTAA
82669 TTCGTTTATT
Statistics
Matches: 63, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
15 14 0.22
16 12 0.19
17 23 0.37
18 6 0.10
19 8 0.13
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.36
Consensus pattern (17 bp):
AATATAATTTAAAATAT
Found at i:84213 original size:46 final size:47
Alignment explanation
Indices: 84162--84252 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 47
84152 TTGTAAAATC
* * *
84162 ATATAATTTTATTTTATTTT-TTAATTTTAATTTTTC-TTTTTTTAAA
1 ATATAATTCTATTTT-TTTTGTTAATTTTAAATTTTCATATTTTTAAA
* *
84208 ATATAATTCTGTTTTTTTTGTTACTTTTAAATTTTCATATTTTTA
1 ATATAATTCTATTTTTTTTGTTAATTTTAAATTTTCATATTTTTA
84253 CGTAAAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
45 4 0.11
46 27 0.71
47 7 0.18
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (47 bp):
ATATAATTCTATTTTTTTTGTTAATTTTAAATTTTCATATTTTTAAA
Found at i:85655 original size:2 final size:2
Alignment explanation
Indices: 85648--85695 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
85638 AAATATGAAA
85648 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85690 AT AT AT
1 AT AT AT
85696 TACCTTGAGC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:85806 original size:2 final size:2
Alignment explanation
Indices: 85801--85828 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
85791 TATATATATC
85801 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
85829 TTAAATGCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:87193 original size:2 final size:2
Alignment explanation
Indices: 87188--87222 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
87178 AGTCTCTCAA
87188 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 T
87223 TGCTTTTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:88009 original size:3 final size:3
Alignment explanation
Indices: 88003--88028 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
87993 TAGTTTTATT
88003 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
88029 TATTATTATT
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:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:89378 original size:3 final size:3
Alignment explanation
Indices: 89370--89413 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
89360 TCTATTCCTT
89370 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
89414 CTATAAACTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:89931 original size:21 final size:22
Alignment explanation
Indices: 89896--89937 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
89886 TTATCTATTT
*
89896 ATGTCATGTTCATATTATTTTC
1 ATGTCATGTTCATATAATTTTC
89918 ATGTCATG-TCATATAATTTT
1 ATGTCATGTTCATATAATTTT
89938 ATTATATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.26, C:0.12, G:0.10, T:0.52
Consensus pattern (22 bp):
ATGTCATGTTCATATAATTTTC
Found at i:90353 original size:3 final size:3
Alignment explanation
Indices: 90347--90388 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
90337 ATTCTTCTTC
90347 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
90389 CAGCGTCGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:93593 original size:9 final size:9
Alignment explanation
Indices: 93526--93595 Score: 56
Period size: 9 Copynumber: 7.6 Consensus size: 9
93516 TATTAATTTT
93526 AAATATTAA
1 AAATATTAA
*
93535 TAATA--AA
1 AAATATTAA
93542 AAAT-TTAA
1 AAATATTAA
*
93550 AAATATAAA
1 AAATATTAA
93559 ATATATATTATA
1 A-A-ATATTA-A
93571 AATATATATAA
1 AA-ATAT-TAA
93582 AAATATTAA
1 AAATATTAA
93591 AAATA
1 AAATA
93596 ATAATTATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
7 5 0.10
8 6 0.12
9 16 0.32
10 5 0.10
11 14 0.28
12 4 0.08
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
AAATATTAA
Found at i:97637 original size:25 final size:25
Alignment explanation
Indices: 97609--97658 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
97599 AATAAATAGC
*
97609 AAATTAT-TGATTATTAAAGTATTAA
1 AAATTATCT-ATTATTAAAATATTAA
97634 AAATTATCTATTATTAAAATATTAA
1 AAATTATCTATTATTAAAATATTAA
97659 TGTTGAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 22 0.96
26 1 0.04
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (25 bp):
AAATTATCTATTATTAAAATATTAA
Found at i:97691 original size:15 final size:15
Alignment explanation
Indices: 97673--97705 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
97663 GAATATTAAC
97673 ATTT-ATAATAATAAT
1 ATTTAATAATAA-AAT
97688 ATTTAATAATAAAAT
1 ATTTAATAATAAAAT
97703 ATT
1 ATT
97706 ATATTACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTTAATAATAAAAT
Found at i:97951 original size:13 final size:14
Alignment explanation
Indices: 97886--97951 Score: 64
Period size: 13 Copynumber: 4.6 Consensus size: 14
97876 CTAAAATATT
*
97886 ATATTAATATT-AA
1 ATATTATTATTAAA
97899 ATATTATTATTAAA
1 ATATTATTATTAAA
97913 ATATTATTTTAATTAATA
1 ATATTA--TT-ATTAA-A
*
97931 AAATTATTATT-AA
1 ATATTATTATTAAA
97944 ATATTATT
1 ATATTATT
97952 TTTACAATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
13 18 0.40
14 9 0.20
15 3 0.07
16 4 0.09
17 5 0.11
18 6 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATTATTATTAAA
Found at i:97955 original size:32 final size:32
Alignment explanation
Indices: 97877--97953 Score: 113
Period size: 32 Copynumber: 2.4 Consensus size: 32
97867 TATTTAATGC
* *
97877 TAAAATATTATATTAATATTAAATATTATTAT
1 TAAAATATTATTTTAATAATAAATATTATTAT
97909 TAAAATATTATTTTAATTAATAAA-ATTATTAT
1 TAAAATATTATTTTAA-TAATAAATATTATTAT
97941 T-AAATATTATTTT
1 TAAAATATTATTTT
97954 TACAATTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
31 12 0.29
32 24 0.57
33 6 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (32 bp):
TAAAATATTATTTTAATAATAAATATTATTAT
Found at i:98043 original size:14 final size:14
Alignment explanation
Indices: 98020--98117 Score: 67
Period size: 14 Copynumber: 6.9 Consensus size: 14
98010 TATGATTTAT
98020 TATTAAAATAATAA
1 TATTAAAATAATAA
* * *
98034 TATTATAATATTAT
1 TATTAAAATAATAA
98048 TATTAAAAT-ATAAA
1 TATTAAAATAAT-AA
***
98062 TATGTACTTTAATAA
1 TAT-TAAAATAATAA
98077 TATTCAAAAT-ATAAA
1 TATT-AAAATAAT-AA
*
98092 TATTGAAAAT-ATAG
1 TATT-AAAATAATAA
98106 TATTAAAATAAT
1 TATTAAAATAAT
98118 TTTATATTAA
Statistics
Matches: 64, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
13 6 0.09
14 33 0.52
15 23 0.36
16 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (14 bp):
TATTAAAATAATAA
Found at i:98063 original size:28 final size:28
Alignment explanation
Indices: 98016--98115 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 28
98006 ATGTTATGAT
98016 TTATTATTAAAATA-ATAATATTATAATA
1 TTATTATTAAAATATA-AATATTATAATA
*
98044 TTATTATTAAAATATAAATATGTACT-TTA
1 TTATTATTAAAATATAAATAT-TA-TAATA
* * *
98073 ATAATATTCAAAATATAAATATTGAAAATA
1 TTATTATT-AAAATATAAATATT-ATAATA
*
98103 -TAGTATTAAAATA
1 TTATTATTAAAATA
98116 ATTTTATATT
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
28 25 0.42
29 18 0.30
30 17 0.28
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (28 bp):
TTATTATTAAAATATAAATATTATAATA
Found at i:98115 original size:13 final size:15
Alignment explanation
Indices: 98075--98104 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
98065 GTACTTTAAT
98075 AATATTCAAAATATA
1 AATATTCAAAATATA
*
98090 AATATTGAAAATATA
1 AATATTCAAAATATA
98105 GTATTAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (15 bp):
AATATTCAAAATATA
Found at i:98138 original size:23 final size:23
Alignment explanation
Indices: 98111--98174 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 23
98101 TATAGTATTA
**
98111 AAATAATTTTATATTAATATTTT
1 AAATAATTTTATATTAATAAATT
* *
98134 AAATATTTTTAAAATTAA-AAATT
1 AAATAATTTT-ATATTAATAAATT
98157 AAAT-ATTTT-TATTAATAA
1 AAATAATTTTATATTAATAA
98175 TAATATTTAG
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
20 5 0.15
21 2 0.06
22 4 0.12
23 16 0.48
24 6 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
AAATAATTTTATATTAATAAATT
Found at i:99441 original size:34 final size:35
Alignment explanation
Indices: 99389--99454 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 35
99379 TTATTACAAT
* *
99389 TTTTTTTAGTTACAAAAAATATTATACATTTTATA
1 TTTTTTCAGTTACAAAAAATATAATACATTTTATA
* *
99424 TTTTTTCAGTTGC-AAAAATATAATACCTTTT
1 TTTTTTCAGTTACAAAAAATATAATACATTTT
99455 TTAAATTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 16 0.59
35 11 0.41
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (35 bp):
TTTTTTCAGTTACAAAAAATATAATACATTTTATA
Found at i:101454 original size:16 final size:16
Alignment explanation
Indices: 101425--101476 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
101415 TTCAGATTTA
**
101425 AATCATTTCGAATTCG
1 AATCATTTTAAATTCG
* *
101441 AGTCATTTTAAATTTG
1 AATCATTTTAAATTCG
*
101457 AATTATTTTAAATTCG
1 AATCATTTTAAATTCG
101473 AATC
1 AATC
101477 GATCGATTTT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.44
Consensus pattern (16 bp):
AATCATTTTAAATTCG
Found at i:102652 original size:15 final size:16
Alignment explanation
Indices: 102632--102662 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
102622 TTAAATTATT
102632 TTTTAATTT-AAATCA
1 TTTTAATTTCAAATCA
102647 TTTTAATTTCAAATCA
1 TTTTAATTTCAAATCA
102663 CCTCATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAATTTCAAATCA
Found at i:102722 original size:19 final size:19
Alignment explanation
Indices: 102695--102733 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
102685 TTTTTTATTA
*
102695 TTTTAATTTTGAATCATTT
1 TTTTAATTTTAAATCATTT
* *
102714 TTTTGATTTTAAATTATTT
1 TTTTAATTTTAAATCATTT
102733 T
1 T
102734 CTTTTCTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTAATTTTAAATCATTT
Found at i:110620 original size:16 final size:16
Alignment explanation
Indices: 110601--110643 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
110591 TATTAATGAA
110601 AAAATATAATTAAAAT
1 AAAATATAATTAAAAT
* **
110617 AAAATATAAATATGAT
1 AAAATATAATTAAAAT
110633 AAAA-ATAATTA
1 AAAATATAATTA
110644 TAGTATATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (16 bp):
AAAATATAATTAAAAT
Found at i:112567 original size:34 final size:35
Alignment explanation
Indices: 112515--112584 Score: 124
Period size: 34 Copynumber: 2.0 Consensus size: 35
112505 TGTTAGACAC
*
112515 TCACAATCAAATCTGAGTAAAATCAGTCCAAAGTT
1 TCACAATCAAATCTGAGTAAAATAAGTCCAAAGTT
112550 TCACAATC-AATCTGAGTAAAATAAGTCCAAAGTT
1 TCACAATCAAATCTGAGTAAAATAAGTCCAAAGTT
112584 T
1 T
112585 TTGGATCGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 26 0.76
35 8 0.24
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (35 bp):
TCACAATCAAATCTGAGTAAAATAAGTCCAAAGTT
Found at i:116811 original size:29 final size:30
Alignment explanation
Indices: 116752--116811 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
116742 TTAAAATATT
* *
116752 TAAAATTAATTTTATATTAAATTTAAATAA
1 TAAAATTAATATTATATTAAATATAAATAA
*
116782 TAAAATT-ATATTATA-TAAATAATAATTAA
1 TAAAATTAATATTATATTAAAT-ATAAATAA
116811 T
1 T
116812 TATTTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 5 0.19
29 14 0.54
30 7 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
TAAAATTAATATTATATTAAATATAAATAA
Found at i:117005 original size:15 final size:15
Alignment explanation
Indices: 116954--117008 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
116944 TAATTTGATA
116954 ATCATATTAAATTAAT
1 ATCATATTAAA-TAAT
*
116970 ATTAT-TTAAATATATT
1 ATCATATTAAATA-A-T
*
116986 ATCATATCAAATAAT
1 ATCATATTAAATAAT
117001 ATCATATT
1 ATCATATT
117009 TGTTATATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
14 2 0.06
15 14 0.44
16 10 0.31
17 6 0.19
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
ATCATATTAAATAAT
Found at i:117045 original size:35 final size:36
Alignment explanation
Indices: 116998--117085 Score: 96
Period size: 36 Copynumber: 2.5 Consensus size: 36
116988 CATATCAAAT
*
116998 AATATCATATTTGTTATATTAATTTTA-TTCTAA-TAA
1 AATAT-ATATTTGTTATA-TAATTTTACATCTAATTAA
117034 AATATATATTTG-TATCATAATTTTACATCTAATTTAA
1 AATATATATTTGTTAT-ATAATTTTACATCTAA-TTAA
117071 AAT-TATATTT-TTATA
1 AATATATATTTGTTATA
117086 CTTTATTATT
Statistics
Matches: 46, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
34 11 0.24
35 14 0.30
36 15 0.33
37 6 0.13
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (36 bp):
AATATATATTTGTTATATAATTTTACATCTAATTAA
Found at i:117115 original size:14 final size:12
Alignment explanation
Indices: 117076--117127 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
117066 TTTAAAATTA
*
117076 TATTTTTATACTT
1 TATTATTATA-TT
117089 TATTATTATATT
1 TATTATTATATT
117101 TATTATATCATATT
1 TATTAT-T-ATATT
**
117115 TAAAATTATATT
1 TATTATTATATT
117127 T
1 T
117128 TCGTATTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
12 14 0.41
13 11 0.32
14 9 0.26
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATTATATT
Found at i:117350 original size:18 final size:17
Alignment explanation
Indices: 117318--117394 Score: 56
Period size: 18 Copynumber: 4.6 Consensus size: 17
117308 TTATACTAAT
117318 TAAATTCAT-ATATATTA
1 TAAATT-ATAATATATTA
117335 TAAATTATTAATATATTA
1 TAAATTA-TAATATATTA
*
117353 -AAA-TA-AATA-AATA
1 TAAATTATAATATATTA
*
117366 TATAATTATAATATAAATA
1 TA-AATTATAATAT-ATTA
*
117385 TAAAATATAA
1 TAAATTATAA
117395 AATCTAATTC
Statistics
Matches: 50, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
13 3 0.06
14 5 0.10
15 2 0.04
16 5 0.10
17 14 0.28
18 15 0.30
19 6 0.12
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATTATAATATATTA
Found at i:122201 original size:2 final size:2
Alignment explanation
Indices: 122196--122227 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
122186 TATATATATA
122196 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
122228 AGAAACAGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:123026 original size:71 final size:71
Alignment explanation
Indices: 122531--123008 Score: 661
Period size: 71 Copynumber: 6.8 Consensus size: 71
122521 AAATATATCT
* * * * * * * * *
122531 ATTTTTT-C-ATATGATAAACTCTTATCTATAATTAATTAGATACTTTTT-AAAAAATTTATCGA
1 ATTTTTTACTATATGGTAAAATTTTATTTATAATGAATTAGATAATTTTTGAAAAATTTTGTAGA
*
122593 TAATAA
66 TAATGA
*
122599 ATTTTTTATTATATGGTAAAATTTTATTTATAATGAATTAGATAATTTTTGAAAAATTTTGTAGA
1 ATTTTTTACTATATGGTAAAATTTTATTTATAATGAATTAGATAATTTTTGAAAAATTTTGTAGA
*
122664 TAATAA
66 TAATGA
*
122670 ATTTTTTACTATATGG------TTTATTTATAATGAATTAGATCATTTTT-AGAAAATTTTGTAG
1 ATTTTTTACTATATGGTAAAATTTTATTTATAATGAATTAGATAATTTTTGA-AAAATTTTGTAG
122728 ATAATGA
65 ATAATGA
*
122735 ATTTTTTACTATATGATAAAATTTTATTTATAATGAATTAGATAATTTTTGAAAAATTTTGTAGA
1 ATTTTTTACTATATGGTAAAATTTTATTTATAATGAATTAGATAATTTTTGAAAAATTTTGTAGA
122800 TAATGA
66 TAATGA
*
122806 ATTTTTTACTATATGGTAAAGTTTTATTTATAATGAATTAGATAATTTTTGAAAAATTTTGTAGA
1 ATTTTTTACTATATGGTAAAATTTTATTTATAATGAATTAGATAATTTTTGAAAAATTTTGTAGA
122871 TAATGA
66 TAATGA
* * * *
122877 ATTTTTTACTCTATGGTAAATTTTTATTTATAATGAATTAGATAATTTTTGAAAAATTTTATAAA
1 ATTTTTTACTATATGGTAAAATTTTATTTATAATGAATTAGATAATTTTTGAAAAATTTTGTAGA
**
122942 TAACAA
66 TAATGA
* *
122948 ATTTTTTACTATATGGTAAAATTTTATTTATAATGAGTTAGATAATTTTTTGAAAATTTTT
1 ATTTTTTACTATATGGTAAAATTTTATTTATAATGAATTAGATAA-TTTTTGAAAAATTTT
123009 ATTGCCTACA
Statistics
Matches: 371, Mismatches: 27, Indels: 20
0.89 0.06 0.05
Matches are distributed among these distances:
64 1 0.00
65 60 0.16
68 7 0.02
70 34 0.09
71 254 0.68
72 15 0.04
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.49
Consensus pattern (71 bp):
ATTTTTTACTATATGGTAAAATTTTATTTATAATGAATTAGATAATTTTTGAAAAATTTTGTAGA
TAATGA
Found at i:124602 original size:29 final size:28
Alignment explanation
Indices: 124550--124619 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 28
124540 ACTTGAATTT
* * * *
124550 TATAAAATTAATATCACAAGTTAATTTAA
1 TATAAAATTAATATAAAAAATTAA-ATAA
124579 T-TAAAAATTAATATAAAAAATTAAATAA
1 TAT-AAAATTAATATAAAAAATTAAATAA
124607 TATAAAATTAATA
1 TATAAAATTAATA
124620 AAGTTTTGTC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 15 0.43
29 20 0.57
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (28 bp):
TATAAAATTAATATAAAAAATTAAATAA
Found at i:124619 original size:14 final size:14
Alignment explanation
Indices: 124576--124620 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
124566 CAAGTTAATT
*
124576 TAATTAAAAATTAA
1 TAATAAAAAATTAA
124590 T-ATAAAAAATTAAA
1 TAATAAAAAATT-AA
*
124604 TAATATAAAATTAA
1 TAATAAAAAATTAA
124618 TAA
1 TAA
124621 AGTTTTGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 9 0.33
14 9 0.33
15 9 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAATAAAAAATTAA
Found at i:125317 original size:17 final size:18
Alignment explanation
Indices: 125264--125320 Score: 62
Period size: 17 Copynumber: 3.0 Consensus size: 18
125254 TATAATTATA
125264 TTAAATATTTATAGATTC
1 TTAAATATTTATAGATTC
*
125282 TATAATTTTATTATATAGATT-
1 T-TAA--ATATT-TATAGATTC
125303 TTAAATATTTATAGATTC
1 TTAAATATTTATAGATTC
125321 ATATAATTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
17 8 0.25
18 5 0.16
19 3 0.09
20 3 0.09
21 5 0.16
22 8 0.25
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.53
Consensus pattern (18 bp):
TTAAATATTTATAGATTC
Found at i:125343 original size:39 final size:39
Alignment explanation
Indices: 125264--125343 Score: 110
Period size: 39 Copynumber: 2.1 Consensus size: 39
125254 TATAATTATA
* *
125264 TTAAATATTTATAGATTCTATAATTTTATTATATAGATT
1 TTAAATATTTATAGATTCTATAATTTTATAATATAAATT
125303 TTAAATATTTATAGATTCATATAATTTGT-TAAT-TAAATT
1 TTAAATATTTATAGATTC-TATAATTT-TATAATATAAATT
125342 TT
1 TT
125344 TTATTATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
39 25 0.68
40 11 0.30
41 1 0.03
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.54
Consensus pattern (39 bp):
TTAAATATTTATAGATTCTATAATTTTATAATATAAATT
Found at i:125397 original size:21 final size:22
Alignment explanation
Indices: 125368--125414 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
125358 ATTATTAAAT
125368 TTAATTTTAAGTATTAAATTAA
1 TTAATTTTAAGTATTAAATTAA
* *
125390 TTAA-TTTAATTATTAAATTAT
1 TTAATTTTAAGTATTAAATTAA
125411 TTAA
1 TTAA
125415 ATCAATCTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TTAATTTTAAGTATTAAATTAA
Found at i:126487 original size:21 final size:21
Alignment explanation
Indices: 126458--126506 Score: 77
Period size: 19 Copynumber: 2.5 Consensus size: 21
126448 ATTTTTAATA
126458 ATTTATATAT-TTAT-ATTAT
1 ATTTATATATATTATAATTAT
126477 ATTTATATATATTATAATTAT
1 ATTTATATATATTATAATTAT
126498 ATTTA-ATAT
1 ATTTATATAT
126507 CTTAAATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.36
20 8 0.29
21 10 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTATATATATTATAATTAT
Found at i:126489 original size:15 final size:15
Alignment explanation
Indices: 126469--126499 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
126459 TTTATATATT
*
126469 TATATTATATTTATA
1 TATATTATAATTATA
126484 TATATTATAATTATA
1 TATATTATAATTATA
126499 T
1 T
126500 TTAATATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATATTATAATTATA
Found at i:126520 original size:20 final size:21
Alignment explanation
Indices: 126458--126523 Score: 61
Period size: 20 Copynumber: 3.3 Consensus size: 21
126448 ATTTTTAATA
126458 ATTT-ATATATT-T-ATATTAT
1 ATTTAATATATTATAATATT-T
*
126477 ATTTATATATATTATAAT-TAT
1 ATTTA-ATATATTATAATATTT
*
126498 ATTTAATATCTTA-AATATTT
1 ATTTAATATATTATAATATTT
126518 ATTTAA
1 ATTTAA
126524 AATTTTTATC
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
19 7 0.18
20 15 0.38
21 13 0.33
22 2 0.05
23 2 0.05
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTAATATATTATAATATTT
Found at i:126868 original size:30 final size:30
Alignment explanation
Indices: 126819--126906 Score: 108
Period size: 30 Copynumber: 3.0 Consensus size: 30
126809 AAATTAATTT
*
126819 ATATT-AAAATTTATCTAAATATAAATTGAG
1 ATATTAAAAATTTATTTAAATATAAATT-AG
* *
126849 A-GTTAAAAATATATTTAAATATAAATTAG
1 ATATTAAAAATTTATTTAAATATAAATTAG
* *
126878 ATATTAAAAATTTATTTATATAAAAATTA
1 ATATTAAAAATTTATTTAAATATAAATTA
126907 AAAATCAAGA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
29 5 0.10
30 44 0.90
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (30 bp):
ATATTAAAAATTTATTTAAATATAAATTAG
Found at i:127515 original size:5 final size:5
Alignment explanation
Indices: 127491--127611 Score: 89
Period size: 5 Copynumber: 25.2 Consensus size: 5
127481 AATAATTTTA
*
127491 AATAT AAT-T -ATAT AAATAT AATAT AA-AT AAAAT AATTAT AATAT AATAT
1 AATAT AATAT AATAT -AATAT AATAT AATAT AATAT AA-TAT AATAT AATAT
* * * *
127540 AATAT AAT-T -ATAT GATAT -ATA- AATAT AAAAT ATTTT AAATAT AATTAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT -AATAT AA-TAT
*
127588 AATAT AATAA AATAT -ATA- AATAT A
1 AATAT AATAT AATAT AATAT AATAT A
127612 TAAATTATCA
Statistics
Matches: 94, Mismatches: 9, Indels: 26
0.73 0.07 0.20
Matches are distributed among these distances:
3 4 0.04
4 20 0.21
5 54 0.57
6 16 0.17
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:127525 original size:9 final size:11
Alignment explanation
Indices: 127500--127603 Score: 89
Period size: 11 Copynumber: 10.0 Consensus size: 11
127490 AAATATAATT
127500 ATATAAATATA
1 ATATAAATATA
127511 ATATAAATA-A
1 ATATAAATATA
*
127521 A-ATAATTATA
1 ATATAAATATA
127531 ATAT-AATATA
1 ATATAAATATA
*
127541 ATATAATTAT-
1 ATATAAATATA
*
127551 ATGATATATA-A
1 AT-ATAAATATA
127562 ATATAAA-ATA
1 ATATAAATATA
* *
127572 TTTTAAATATA
1 ATATAAATATA
127583 AT-TATAATATA
1 ATATA-AATATA
127594 ATA-AAATATA
1 ATATAAATATA
127604 TAAATATATA
Statistics
Matches: 75, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
9 7 0.09
10 33 0.44
11 35 0.47
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (11 bp):
ATATAAATATA
Found at i:127603 original size:45 final size:46
Alignment explanation
Indices: 127491--127616 Score: 134
Period size: 47 Copynumber: 2.7 Consensus size: 46
127481 AATAATTTTA
127491 AATATAATTATATAA-ATATAATATAAATAAAATAATTATAATATAATAT
1 AATATAATTATA-AATATATAA-AT--ATAAAATAATTATAATATAATAT
* *
127540 AATATAATTATATGATATATAAATATAAAAT-ATTTTAAATATAATTAT
1 AATATAATTATA-AATATATAAATATAAAATAATTAT-AATATAA-TAT
127588 AATATAA-TA-AAATATATAAATATATAAAT
1 AATATAATTATAAATATATAAATATA-AAAT
127617 TATCAAATCA
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
45 13 0.19
46 9 0.13
47 16 0.23
48 10 0.14
49 16 0.23
50 6 0.09
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.40
Consensus pattern (46 bp):
AATATAATTATAAATATATAAATATAAAATAATTATAATATAATAT
Found at i:127608 original size:8 final size:8
Alignment explanation
Indices: 127492--127616 Score: 64
Period size: 8 Copynumber: 15.0 Consensus size: 8
127482 ATAATTTTAA
*
127492 ATATAATT
1 ATATAAAT
127500 ATATAAAT
1 ATATAAAT
127508 ATAATATAA-
1 AT-ATA-AAT
127517 ATA-AAAT
1 ATATAAAT
127524 A-ATTATAAT
1 ATA-TA-AAT
*
127533 ATA-ATAT
1 ATATAAAT
*
127540 AATATAATT
1 -ATATAAAT
*
127549 ATAT-GAT
1 ATATAAAT
127556 ATATAAAT
1 ATATAAAT
127564 ATA-AAAT
1 ATATAAAT
*
127571 ATTTTAAAT
1 A-TATAAAT
127580 ATAATTATAAT
1 AT-A-TA-AAT
127591 ATAATAAAAT
1 AT-AT-AAAT
127601 ATATAAAT
1 ATATAAAT
127609 ATATAAAT
1 ATATAAAT
127617 TATCAAATCA
Statistics
Matches: 92, Mismatches: 9, Indels: 32
0.69 0.07 0.24
Matches are distributed among these distances:
6 3 0.03
7 14 0.15
8 38 0.41
9 18 0.20
10 11 0.12
11 8 0.09
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (8 bp):
ATATAAAT
Found at i:128355 original size:20 final size:18
Alignment explanation
Indices: 128320--128388 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
128310 TAATAATTTA
128320 TTTATATAATTTTTATAC
1 TTTATATAATTTTTATAC
* *
128338 TTTATATATTTATATTATAT
1 TTTATATAATT-T-TTATAC
*
128358 TTTA-ATTATTTTTATA-
1 TTTATATAATTTTTATAC
*
128374 -TCATATAATTTTTAT
1 TTTATATAATTTTTAT
128389 CCAAATTATC
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
15 2 0.05
16 10 0.24
17 5 0.12
18 11 0.26
19 5 0.12
20 9 0.21
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTATATAATTTTTATAC
Found at i:128596 original size:11 final size:11
Alignment explanation
Indices: 128576--128709 Score: 61
Period size: 11 Copynumber: 12.3 Consensus size: 11
128566 TTTTTAAAAT
128576 AATATAATATA
1 AATATAATATA
128587 AATATGATATATA
1 AATAT-A-ATATA
* *
128600 TAAAATAATAAA
1 -AATATAATATA
*
128612 AATAAAATATA
1 AATATAATATA
128623 AAT-T-A-A-A
1 AATATAATATA
*
128630 AATATATTATTA
1 AATATAATA-TA
*
128642 AA-ATTTATATA
1 AATA-TAATATA
128653 AA-ATTAATATA
1 AATA-TAATATA
*
128664 AATATAAAAT-
1 AATATAATATA
*
128674 ATTATAAT-TAA
1 AATATAATAT-A
128685 AATTATAATAT-
1 AA-TATAATATA
*
128696 AATAAAATATA
1 AATATAATATA
128707 AAT
1 AAT
128710 TATTAAATTT
Statistics
Matches: 93, Mismatches: 15, Indels: 30
0.67 0.11 0.22
Matches are distributed among these distances:
7 4 0.04
8 2 0.02
9 2 0.02
10 14 0.15
11 42 0.45
12 18 0.19
13 7 0.08
14 4 0.04
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.37
Consensus pattern (11 bp):
AATATAATATA
Found at i:128608 original size:25 final size:25
Alignment explanation
Indices: 128574--128706 Score: 88
Period size: 25 Copynumber: 5.0 Consensus size: 25
128564 ATTTTTTAAA
* **
128574 ATAATATAATATAAATATGATATAT
1 ATAAAATAATATAAATAAAATATAT
* *
128599 ATAAAATAATAAAAATAAAATATAA
1 ATAAAATAATATAAATAAAATATAT
* * *
128624 ATTAAAA-ATATATTATTAAAATTTAT
1 A-TAAAATA-ATATAAATAAAATATAT
128650 ATAAAATTAATATAAATATAAAATATTAT
1 ATAAAA-TAATAT-AA-ATAAAATA-TAT
*
128679 AATTAAAATTATAATATAATAAAATATA
1 -A-TAAAATAAT-ATA-AATAAAATATA
128707 AATTATTAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
25 27 0.33
26 22 0.27
27 2 0.02
28 6 0.07
29 5 0.06
30 13 0.16
31 8 0.10
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (25 bp):
ATAAAATAATATAAATAAAATATAT
Found at i:128673 original size:41 final size:40
Alignment explanation
Indices: 128570--128709 Score: 121
Period size: 41 Copynumber: 3.4 Consensus size: 40
128560 TTATATTTTT
*
128570 TAAAATAATAT-AATAT-AAATATGATATATATAAAA-TAATA
1 TAAAATAATATAAATATAAAATAT-AT-TAT-TAAAATTTATA
128610 -AAAATAAAATATAAAT-TAAAAATATATTATTAAAATTTATA
1 TAAAAT--AATATAAATAT-AAAATATATTATTAAAATTTATA
*
128651 TAAAATTAATATAAATATAAAATATTATAATTAAAATTATAATA
1 TAAAA-TAATATAAATATAAAATA-TATTATTAAAATT-T-ATA
128695 TAATAA-AATATAAAT
1 TAA-AATAATATAAAT
128710 TATTAAATTT
Statistics
Matches: 85, Mismatches: 2, Indels: 23
0.77 0.02 0.21
Matches are distributed among these distances:
39 5 0.06
40 5 0.06
41 28 0.33
42 22 0.26
43 17 0.20
44 6 0.07
45 2 0.02
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (40 bp):
TAAAATAATATAAATATAAAATATATTATTAAAATTTATA
Found at i:128698 original size:17 final size:16
Alignment explanation
Indices: 128597--128716 Score: 75
Period size: 15 Copynumber: 8.0 Consensus size: 16
128587 AATATGATAT
* *
128597 ATATAAAATAATAAAA
1 ATATAATATAATTAAA
*
128613 ATAAAATATAAATTAAA
1 ATATAATAT-AATTAAA
*
128630 A-AT-ATATTATTAAA
1 ATATAATATAATTAAA
128644 AT-T--TAT-A-TAAA
1 ATATAATATAATTAAA
128655 AT-TAATATAAATATAAA
1 ATATAATAT-AAT-TAAA
128672 ATAT--TATAATTAAA
1 ATATAATATAATTAAA
128686 ATTATAATATAA-TAAA
1 A-TATAATATAATTAAA
*
128702 ATATAA-ATTATTAAA
1 ATATAATATAATTAAA
128717 TTTAATACAA
Statistics
Matches: 85, Mismatches: 6, Indels: 27
0.72 0.05 0.23
Matches are distributed among these distances:
11 7 0.08
12 1 0.01
13 6 0.07
14 16 0.19
15 20 0.24
16 16 0.19
17 18 0.21
18 1 0.01
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
ATATAATATAATTAAA
Found at i:131247 original size:38 final size:38
Alignment explanation
Indices: 131193--131276 Score: 125
Period size: 38 Copynumber: 2.2 Consensus size: 38
131183 GTTTAACCTA
* *
131193 ATAAAAATATTTTTATTTATATTTAATTA-TAAAATAT
1 ATAAATATATTTTTATTTAAATTTAATTATTAAAATAT
131230 ATAAATATAATTTTTATTTAAATTTAATTATTTAAAATAT
1 ATAAATAT-ATTTTTATTTAAATTTAATTA-TTAAAATAT
131270 ATAAATA
1 ATAAATA
131277 ATACTTTGTA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
37 7 0.17
38 20 0.48
40 15 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (38 bp):
ATAAATATATTTTTATTTAAATTTAATTATTAAAATAT
Found at i:134377 original size:6 final size:6
Alignment explanation
Indices: 134328--134358 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
134318 TTATAAATAA
134328 AATATT AATATT AATATT AATATT AAT-TT AA
1 AATATT AATATT AATATT AATATT AATATT AA
134359 AAATATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATATT
Found at i:136459 original size:15 final size:15
Alignment explanation
Indices: 136439--136471 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
136429 GATGAATCTA
*
136439 GGTTATTTGGACTCG
1 GGTTATTCGGACTCG
136454 GGTTATTCGGACTCG
1 GGTTATTCGGACTCG
136469 GGT
1 GGT
136472 GTGAGTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.15, G:0.36, T:0.36
Consensus pattern (15 bp):
GGTTATTCGGACTCG
Found at i:137121 original size:27 final size:26
Alignment explanation
Indices: 137091--137162 Score: 63
Period size: 32 Copynumber: 2.5 Consensus size: 26
137081 TGATAATTAT
137091 ATTTAATATATTTTATATTTATATAAA
1 ATTTAATATATTTTATA-TTATATAAA
137118 ATTTGATATAATAATAATTTATATTATATAAA
1 ATTT-A-AT-AT-AT--TTTATATTATATAAA
* *
137150 TTTTAAAATATTT
1 ATTTAATATATTT
137163 ATCTATATCG
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
26 2 0.05
27 4 0.11
28 3 0.08
29 4 0.11
30 3 0.08
31 3 0.08
32 12 0.32
33 6 0.16
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (26 bp):
ATTTAATATATTTTATATTATATAAA
Found at i:137126 original size:18 final size:16
Alignment explanation
Indices: 137102--137154 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
137092 TTTAATATAT
137102 TTTATATTTATATAAAA
1 TTTATA-TTATATAAAA
137119 TTTGATA-TA-ATAATAA
1 TTT-ATATTATATAA-AA
*
137135 TTTATATTATATAAAT
1 TTTATATTATATAAAA
137151 TTTA
1 TTTA
137155 AAATATTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
15 7 0.23
16 14 0.45
17 7 0.23
18 3 0.10
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TTTATATTATATAAAA
Found at i:137154 original size:16 final size:16
Alignment explanation
Indices: 137087--137154 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
137077 TATATGATAA
*
137087 TTATATT-TAATATATT
1 TTATATTAT-ATAAATT
137103 TTATATTTATATAAAATT
1 TTATA-TTATAT-AAATT
* *
137121 TGATA-TA-ATAATAAT
1 TTATATTATATAA-ATT
137136 TTATATTATATAAATT
1 TTATATTATATAAATT
137152 TTA
1 TTA
137155 AAATATTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
14 2 0.05
15 8 0.20
16 14 0.34
17 8 0.20
18 9 0.22
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (16 bp):
TTATATTATATAAATT
Found at i:137449 original size:15 final size:16
Alignment explanation
Indices: 137410--137455 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
137400 GTATTTAAAG
*
137410 TATATTTAAATTTTATT
1 TATAATTAAA-TTTATT
*
137427 TTTAATTAAATTT-TT
1 TATAATTAAATTTATT
137442 TATAATTAAATTTA
1 TATAATTAAATTTA
137456 AATAAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 14 0.56
16 3 0.12
17 8 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TATAATTAAATTTATT
Found at i:150822 original size:11 final size:11
Alignment explanation
Indices: 150806--150936 Score: 62
Period size: 11 Copynumber: 12.0 Consensus size: 11
150796 TTATTTTTTA
150806 AAATATTATAT
1 AAATATTATAT
* *
150817 AAATATAAAAT
1 AAATATTATAT
150828 AAATTATTA-AT
1 AAA-TATTATAT
*
150839 ATATA-TATAT
1 AAATATTATAT
*
150849 AAATATAAATAT
1 AAATAT-TATAT
*
150861 AATATATT-TTT
1 AA-ATATTATAT
150872 AAAATATTATAT
1 -AAATATTATAT
* * *
150884 TAATTTTATTT
1 AAATATTATAT
150895 AAAT-TTATTAT
1 AAATATTA-TAT
*
150906 ATTATATT-TATT
1 A-AATATTATA-T
150918 AAATA-TAT-T
1 AAATATTATAT
150927 AAAT-TTATAT
1 AAATATTATAT
150937 TATGTCATAA
Statistics
Matches: 90, Mismatches: 16, Indels: 29
0.67 0.12 0.21
Matches are distributed among these distances:
9 10 0.11
10 13 0.14
11 43 0.48
12 18 0.20
13 6 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AAATATTATAT
Found at i:150827 original size:18 final size:18
Alignment explanation
Indices: 150804--150883 Score: 57
Period size: 18 Copynumber: 4.7 Consensus size: 18
150794 TTTTATTTTT
150804 TAAAATATTATATAAATA
1 TAAAATATTATATAAATA
150822 TAAAATAAATTAT-T-AATA
1 TAAAAT--ATTATATAAATA
150840 T---ATA-TATATAAATA
1 TAAAATATTATATAAATA
* ** *
150854 T-AAATATAATATATTTT
1 TAAAATATTATATAAATA
150871 TAAAATATTATAT
1 TAAAATATTATAT
150884 TAATTTTATT
Statistics
Matches: 49, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 5 0.10
15 2 0.04
16 3 0.06
17 7 0.14
18 21 0.43
19 1 0.02
20 5 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAAATATTATATAAATA
Done.