Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold64
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: 7997333
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 95991 characters in sequence are not A, C, G, or T
File 26 of 45
Found at i:4650792 original size:48 final size:48
Alignment explanation
Indices: 4650740--4650834 Score: 136
Period size: 48 Copynumber: 2.0 Consensus size: 48
4650730 TGTTGGAGGT
* * *
4650740 ATGTTTCATCATAGATGATTTTGTGCATGGGCTTTTTAACTTGTAACC
1 ATGTTTCATCATAGATGATTTTGTGCATGGACTTGTTAACCTGTAACC
** *
4650788 ATGTTTTGTTATAGATGATTTTGTGCATGGACTTGTTAACCTGTAAC
1 ATGTTTCATCATAGATGATTTTGTGCATGGACTTGTTAACCTGTAAC
4650835 TCTCTTTACT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.44
Consensus pattern (48 bp):
ATGTTTCATCATAGATGATTTTGTGCATGGACTTGTTAACCTGTAACC
Found at i:4653112 original size:2 final size:2
Alignment explanation
Indices: 4653107--4653133 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4653097 ATATATATAT
4653107 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
4653134 GATAAACGTA
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4662589 original size:52 final size:52
Alignment explanation
Indices: 4662476--4662634 Score: 248
Period size: 52 Copynumber: 3.1 Consensus size: 52
4662466 TATTTATAGT
* * * * * * *
4662476 TTTTAATATAATATAATATAACATAATGGATGGTAGTTCATCA-TGATTGAC
1 TTTTAATAAAATAAAATATAACATTATAGATTGTTGTTCATCACAGATTGAC
4662527 TTTTAATAAAATAAAATATAACATTATAGATTGTTGTTCATCACAGATTGAC
1 TTTTAATAAAATAAAATATAACATTATAGATTGTTGTTCATCACAGATTGAC
4662579 TTTTAATAAAATAAAATATAACATTATAGATTGTTGTTCATCACAGATTGAC
1 TTTTAATAAAATAAAATATAACATTATAGATTGTTGTTCATCACAGATTGAC
4662631 TTTT
1 TTTT
4662635 GGTCTCCACG
Statistics
Matches: 100, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
51 37 0.37
52 63 0.63
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (52 bp):
TTTTAATAAAATAAAATATAACATTATAGATTGTTGTTCATCACAGATTGAC
Found at i:4663698 original size:1 final size:1
Alignment explanation
Indices: 4663683--4663722 Score: 62
Period size: 1 Copynumber: 40.0 Consensus size: 1
4663673 ACCAAGAATG
* *
4663683 AAAACAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4663723 GGAGCTTCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.95, C:0.03, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:4665088 original size:16 final size:16
Alignment explanation
Indices: 4665057--4665086 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4665047 ACTTTTATAA
4665057 AAAATGAAAAATTTTC
1 AAAATGAAAAATTTTC
4665073 AAAAT-AAAAATTTT
1 AAAATGAAAAATTTT
4665087 TCTAGAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (16 bp):
AAAATGAAAAATTTTC
Found at i:4667334 original size:2 final size:2
Alignment explanation
Indices: 4667318--4667372 Score: 55
Period size: 2 Copynumber: 29.5 Consensus size: 2
4667308 TGATAGTAGT
* * *
4667318 TA TA -A TA TA TG TA TA TA TA TA -A TA TA TG CA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4667357 TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA T
4667373 TATGAAAACA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
1 4 0.09
2 39 0.91
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:4667340 original size:17 final size:17
Alignment explanation
Indices: 4667318--4667372 Score: 73
Period size: 17 Copynumber: 3.5 Consensus size: 17
4667308 TGATAGTAGT
4667318 TATAATATATGTATATA
1 TATAATATATGTATATA
*
4667335 TATAATATATGCATATA
1 TATAATATATGTATATA
4667352 -AT-ATATA--TATATA
1 TATAATATATGTATATA
4667365 TATAATAT
1 TATAATAT
4667373 TATGAAAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 5 0.15
14 2 0.06
15 9 0.26
16 2 0.06
17 16 0.47
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (17 bp):
TATAATATATGTATATA
Found at i:4667363 original size:13 final size:13
Alignment explanation
Indices: 4667329--4667372 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
4667319 ATAATATATG
4667329 TATATATATAATA
1 TATATATATAATA
**
4667342 TATGCATATAATA
1 TATATATATAATA
4667355 TATATATAT-ATA
1 TATATATATAATA
4667367 TA-ATAT
1 TATATAT
4667373 TATGAAAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 4 0.15
12 5 0.19
13 18 0.67
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (13 bp):
TATATATATAATA
Found at i:4668965 original size:50 final size:51
Alignment explanation
Indices: 4668886--4668982 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
4668876 AAGTAGAGAA
**
4668886 TTTTTTATTAAATATGACTAATTTTTTTTAAGAGTAGGT-ATTTTTTAAAAT
1 TTTTTTATTAAATATGAC-AAGGTTTTTTAAGAGTAGGTAATTTTTTAAAAT
*
4668937 TTTTTTATTAAATATGAGC-AGGTTTTTTAAGAGTGGGTAATTTTTT
1 TTTTTTATTAAATATGA-CAAGGTTTTTTAAGAGTAGGTAATTTTTT
4668983 TTTAATTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
50 16 0.39
51 24 0.59
52 1 0.02
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.54
Consensus pattern (51 bp):
TTTTTTATTAAATATGACAAGGTTTTTTAAGAGTAGGTAATTTTTTAAAAT
Found at i:4669666 original size:13 final size:13
Alignment explanation
Indices: 4669629--4669666 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
4669619 TTCTTCCTTT
4669629 TTTTTAA-AAAAA
1 TTTTTAATAAAAA
* *
4669641 TTTTTATTTAAAA
1 TTTTTAATAAAAA
4669654 TTTTTAATAAAAA
1 TTTTTAATAAAAA
4669667 GATTAATACT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTTTAATAAAAA
Found at i:4671771 original size:8 final size:8
Alignment explanation
Indices: 4671758--4671791 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
4671748 AAACAAACAG
4671758 AGCAGGCT
1 AGCAGGCT
4671766 AGCAGGCT
1 AGCAGGCT
*
4671774 AGCAGGCG
1 AGCAGGCT
4671782 AGCA-GCT
1 AGCAGGCT
4671789 AGC
1 AGC
4671792 TGTTCGTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 5 0.21
8 19 0.79
ACGTcount: A:0.26, C:0.26, G:0.38, T:0.09
Consensus pattern (8 bp):
AGCAGGCT
Found at i:4671849 original size:2 final size:2
Alignment explanation
Indices: 4671842--4671873 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4671832 TTCATTCTTA
4671842 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
4671874 TTGTGTTATG
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:4674805 original size:14 final size:14
Alignment explanation
Indices: 4674786--4674821 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4674776 AACATTTATT
4674786 TAATTAAATATTTA
1 TAATTAAATATTTA
* *
4674800 TAATTAATTTTTTA
1 TAATTAAATATTTA
4674814 TAATTAAA
1 TAATTAAA
4674822 AAGTAATTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TAATTAAATATTTA
Found at i:4675010 original size:22 final size:23
Alignment explanation
Indices: 4674973--4675016 Score: 72
Period size: 22 Copynumber: 1.9 Consensus size: 23
4674963 AATATTAATA
4674973 AATAGTTAAATATATTTTTATATT
1 AATAGTT-AATATATTTTTATATT
4674997 AATAGTT-ATATATTTTTATA
1 AATAGTTAATATATTTTTATA
4675017 ATTATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 13 0.65
24 7 0.35
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (23 bp):
AATAGTTAATATATTTTTATATT
Found at i:4675038 original size:16 final size:16
Alignment explanation
Indices: 4675019--4675052 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4675009 TTTTTATAAT
*
4675019 TATTTTTAAATAAAAA
1 TATTATTAAATAAAAA
*
4675035 TATTATTAAATAATAA
1 TATTATTAAATAAAAA
4675051 TA
1 TA
4675053 CAAGTATGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TATTATTAAATAAAAA
Found at i:4675427 original size:23 final size:24
Alignment explanation
Indices: 4675401--4675457 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
4675391 TAATTTTTTA
* *
4675401 AAAATTTTTA-TCTTTTTAGTTAT
1 AAAATTTTAATTCTTTTTAATTAT
*
4675424 AAAATTTTAATTTTTTTTAATTAT
1 AAAATTTTAATTCTTTTTAATTAT
*
4675448 ATAATTTTAA
1 AAAATTTTAA
4675458 AAAATTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 9 0.31
24 20 0.69
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (24 bp):
AAAATTTTAATTCTTTTTAATTAT
Found at i:4675477 original size:22 final size:22
Alignment explanation
Indices: 4675452--4675506 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
4675442 AATTATATAA
4675452 TTTTAAAAAATTAAAAAAATAT
1 TTTTAAAAAATTAAAAAAATAT
4675474 TTTTAAAAAATTAAAAAAATAT
1 TTTTAAAAAATTAAAAAAATAT
4675496 TTTTAAAAAAT
1 TTTTAAAAAAT
4675507 CCCTTTTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTTAAAAAATTAAAAAAATAT
Found at i:4676055 original size:14 final size:15
Alignment explanation
Indices: 4676031--4676059 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4676021 ATATATTGTC
4676031 TAATATAAAAAATTA
1 TAATATAAAAAATTA
4676046 TAAT-TAAAAAATTA
1 TAATATAAAAAATTA
4676060 AATCAAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TAATATAAAAAATTA
Found at i:4677269 original size:2 final size:2
Alignment explanation
Indices: 4677256--4677288 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
4677246 TTGATTTCGT
4677256 TG TG TCG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG T-G TG TG TG TG TG TG TG TG TG TG TG TG TG
4677289 AATGGGGGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.00, C:0.03, G:0.48, T:0.48
Consensus pattern (2 bp):
TG
Found at i:4680444 original size:19 final size:19
Alignment explanation
Indices: 4680420--4680458 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4680410 TATTTTAAAA
4680420 ATATATTAATAAAATATTT
1 ATATATTAATAAAATATTT
**
4680439 ATATATTTTTAAAATATTT
1 ATATATTAATAAAATATTT
4680458 A
1 A
4680459 AAATTTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATATATTAATAAAATATTT
Found at i:4680459 original size:42 final size:43
Alignment explanation
Indices: 4680413--4680501 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 43
4680403 AGATATTTAT
4680413 TTTAAAAATATATTAATA-A-AATATTTATATA-T-T-TTTAAAATA
1 TTTAAAAAT-T-TTAATACATAATATTT-TATACTCTATTT-AAATA
4680455 TTT-AAAATTTTAATACATAATATTTTATACTCTATTTAAATA
1 TTTAAAAATTTTAATACATAATATTTTATACTCTATTTAAATA
4680497 TTTAA
1 TTTAA
4680502 TTAGTTAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
39 6 0.15
40 6 0.15
41 13 0.32
42 12 0.29
43 4 0.10
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.49
Consensus pattern (43 bp):
TTTAAAAATTTTAATACATAATATTTTATACTCTATTTAAATA
Found at i:4682678 original size:24 final size:26
Alignment explanation
Indices: 4682603--4682683 Score: 73
Period size: 25 Copynumber: 3.2 Consensus size: 26
4682593 TATTTTAATA
* *
4682603 AAAATGTAATATTTAAAAAT-AT-TTT
1 AAAATGT-ATAATTAAAACTAATATTT
4682628 AATAATGTATAATTAAAACTAATATTT
1 AA-AATGTATAATTAAAACTAATATTT
4682655 AAAAT-TAT-ATTGAAAA-TAATATTT
1 AAAATGTATAATT-AAAACTAATATTT
*
4682679 TAAAT
1 AAAAT
4682684 AAATAAACTT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
24 15 0.31
25 19 0.39
26 10 0.20
27 5 0.10
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (26 bp):
AAAATGTATAATTAAAACTAATATTT
Found at i:4682683 original size:12 final size:12
Alignment explanation
Indices: 4682609--4682685 Score: 59
Period size: 12 Copynumber: 6.2 Consensus size: 12
4682599 AATAAAAATG
4682609 TAATATTT-AAA
1 TAATATTTAAAA
4682620 -AATATTTTAATAA
1 TAATA-TTTAA-AA
* *
4682633 TGTATAATTAAAA
1 T-AATATTTAAAA
4682646 CTAATATTTAAAA
1 -TAATATTTAAAA
* *
4682659 TTATATTGAAAA
1 TAATATTTAAAA
*
4682671 TAATATTTTAAA
1 TAATATTTAAAA
4682683 TAA
1 TAA
4682686 ATAAACTTTA
Statistics
Matches: 51, Mismatches: 9, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
10 4 0.08
11 3 0.06
12 23 0.45
13 13 0.25
14 5 0.10
15 3 0.06
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (12 bp):
TAATATTTAAAA
Found at i:4683011 original size:22 final size:23
Alignment explanation
Indices: 4682986--4683031 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
4682976 TTCAAACTAA
*
4682986 TAAAT-TATATTCATACT-ATTTT
1 TAAATATATAGTCA-ACTAATTTT
4683008 TAAATATATAGTCAACTAATTTT
1 TAAATATATAGTCAACTAATTTT
4683031 T
1 T
4683032 GTAAATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (23 bp):
TAAATATATAGTCAACTAATTTT
Found at i:4683063 original size:26 final size:25
Alignment explanation
Indices: 4683026--4683074 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
4683016 TAGTCAACTA
* *
4683026 ATTTTTGTAAATATTAATTTATTTT
1 ATTTTTATAAATAATAATTTATTTT
*
4683051 ATTTTTATAAAATAATACTTTATT
1 ATTTTTAT-AAATAATAATTTATT
4683075 ATGCGATTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (25 bp):
ATTTTTATAAATAATAATTTATTTT
Found at i:4683688 original size:27 final size:28
Alignment explanation
Indices: 4683631--4683688 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 28
4683621 TTGCATTTAT
*
4683631 AATTTTATTTTATATTAATAAATATAATA
1 AATTTTATTTTATA-TAAAAAATATAATA
4683660 AATTTTATTTTATA-AAAAAATATAATA
1 AATTTTATTTTATATAAAAAATATAATA
4683687 AA
1 AA
4683689 ATTACTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 14 0.50
29 14 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
AATTTTATTTTATATAAAAAATATAATA
Found at i:4684159 original size:14 final size:14
Alignment explanation
Indices: 4684111--4684168 Score: 55
Period size: 14 Copynumber: 4.0 Consensus size: 14
4684101 ATTTTAAAAT
*
4684111 TTTATTTAAATATGA
1 TTTATTTAAAT-TAA
4684126 -TTATTTAAAATTAAA
1 TTTATTT-AAATT-AA
*
4684141 TTTATTTAAATTTA
1 TTTATTTAAATTAA
*
4684155 TTTATTTTAATTAA
1 TTTATTTAAATTAA
4684169 ATAAATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
14 20 0.56
15 10 0.28
16 6 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TTTATTTAAATTAA
Found at i:4684160 original size:30 final size:29
Alignment explanation
Indices: 4684111--4684170 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
4684101 ATTTTAAAAT
4684111 TTTATTTAAATATGATTATTTAAAATTAAA
1 TTTATTTAAATATGATTATTT-AAATTAAA
* *
4684141 TTTATTTAAAT-TTATTTATTTTAATTAAA
1 TTTATTTAAATATGA-TTATTTAAATTAAA
4684170 T
1 T
4684171 AAATTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (29 bp):
TTTATTTAAATATGATTATTTAAATTAAA
Found at i:4684324 original size:16 final size:16
Alignment explanation
Indices: 4684288--4684346 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 16
4684278 TACGTTATTT
4684288 TTAAATATAAA-ATAA
1 TTAAATATAAATATAA
* *
4684303 TAAAATATAAATGTAA
1 TTAAATATAAATATAA
* *
4684319 TTAAATTTAAATTATTA
1 TTAAATATAAA-TATAA
*
4684336 TTAAATGTAAA
1 TTAAATATAAA
4684347 AAAAAATAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
15 10 0.29
16 12 0.34
17 13 0.37
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
TTAAATATAAATATAA
Found at i:4684438 original size:38 final size:38
Alignment explanation
Indices: 4684396--4684472 Score: 104
Period size: 38 Copynumber: 2.0 Consensus size: 38
4684386 CTACACAATT
4684396 ATAAAATACAAATAA-TAT-TAATAATATAAATAAATAAA
1 ATAAAATACAAATAATTATATAATAAT-TAAAT-AATAAA
* *
4684434 ATAAATTACAAATAATTATATTATAATTAAATAATAAA
1 ATAAAATACAAATAATTATATAATAATTAAATAATAAA
4684472 A
1 A
4684473 AATTTTAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 21 0.60
39 8 0.23
40 6 0.17
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (38 bp):
ATAAAATACAAATAATTATATAATAATTAAATAATAAA
Found at i:4684537 original size:15 final size:15
Alignment explanation
Indices: 4684489--4684552 Score: 58
Period size: 15 Copynumber: 4.2 Consensus size: 15
4684479 AAGTTATTAA
4684489 TAAATA-AATTTATTTT
1 TAAATATAATTTA--TT
* * *
4684505 TAAATATAAATAAAT
1 TAAATATAATTTATT
*
4684520 TAAATATATTTTATT
1 TAAATATAATTTATT
*
4684535 TAAATTTAATTTATT
1 TAAATATAATTTATT
4684550 TAA
1 TAA
4684553 TAATTAAACA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
15 28 0.74
16 6 0.16
17 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAAATATAATTTATT
Found at i:4684642 original size:4 final size:4
Alignment explanation
Indices: 4684633--4684665 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
4684623 AGGAGATTAT
4684633 TAAA TAAA TAAA TAAA TAAA TAAA TAAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA T-AAA TAAA
4684666 AGAAAAACTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:4694416 original size:15 final size:15
Alignment explanation
Indices: 4694389--4694437 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
4694379 AATTAGACGG
4694389 GTTAGATTTATTTTAA
1 GTTAGA-TTATTTTAA
* *
4694405 GTTGGATTATTTTGA
1 GTTAGATTATTTTAA
*
4694420 GTAAGATTATTTTAA
1 GTTAGATTATTTTAA
4694435 GTT
1 GTT
4694438 TTAAAATTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 22 0.81
16 5 0.19
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (15 bp):
GTTAGATTATTTTAA
Found at i:4695048 original size:15 final size:15
Alignment explanation
Indices: 4695028--4695069 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
4695018 CGGGTTAAAT
*
4695028 TTATTTTAAGTTGGA
1 TTATTTTAAGTTAGA
*
4695043 TTATTTTGAGTTAGA
1 TTATTTTAAGTTAGA
*
4695058 TTATTTCAAGTT
1 TTATTTTAAGTT
4695070 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.26, C:0.02, G:0.17, T:0.55
Consensus pattern (15 bp):
TTATTTTAAGTTAGA
Found at i:4696223 original size:22 final size:23
Alignment explanation
Indices: 4696172--4696224 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
4696162 ATTTTACCAA
*
4696172 TTTAAATTAAATTAAATTTAAAT
1 TTTAAATTAAATTAAATTAAAAT
*
4696195 TTAAAATT-AATT-AATTAAAATT
1 TTTAAATTAAATTAAATTAAAA-T
4696217 TTTAAATT
1 TTTAAATT
4696225 CGAGCCATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 7 0.27
22 12 0.46
23 7 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTAAATTAAATTAAATTAAAAT
Found at i:4696224 original size:14 final size:15
Alignment explanation
Indices: 4696171--4696224 Score: 51
Period size: 14 Copynumber: 3.6 Consensus size: 15
4696161 TATTTTACCA
4696171 ATTTAAATT-AAATT
1 ATTTAAATTAAAATT
4696185 AAATTTAAATTTAAAATT
1 --ATTTAAA-TTAAAATT
*
4696203 AATT-AATTAAAATT
1 ATTTAAATTAAAATT
4696217 -TTTAAATT
1 ATTTAAATT
4696225 CGAGCCATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 2 0.06
14 12 0.36
15 2 0.06
16 10 0.30
17 2 0.06
18 5 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTTAAATTAAAATT
Found at i:4697142 original size:6 final size:7
Alignment explanation
Indices: 4697104--4697141 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
4697094 TTAAAATTAC
4697104 ATTTGAA
1 ATTTGAA
4697111 ATTTGAA
1 ATTTGAA
4697118 ATTTGAA
1 ATTTGAA
*
4697125 ATTTAAA
1 ATTTGAA
4697132 ATTT-AA
1 ATTTGAA
4697138 ATTT
1 ATTT
4697142 AGATTTGTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (7 bp):
ATTTGAA
Found at i:4697181 original size:22 final size:21
Alignment explanation
Indices: 4697139--4697183 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
4697129 AAAATTTAAA
* *
4697139 TTTAGATTTGTATTTGGAATT
1 TTTAGATTTGGATTTAGAATT
*
4697160 TTTAGATTTTGGATTTATAATT
1 TTTAGA-TTTGGATTTAGAATT
4697182 TT
1 TT
4697184 CAAGTTCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (21 bp):
TTTAGATTTGGATTTAGAATT
Found at i:4697746 original size:13 final size:14
Alignment explanation
Indices: 4697722--4697750 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4697712 TTAATCAAAG
4697722 TTCTTGTCTTTTTT
1 TTCTTGTCTTTTTT
4697736 TTCTT-TCTTTTTT
1 TTCTTGTCTTTTTT
4697749 TT
1 TT
4697751 TTTTTACATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (14 bp):
TTCTTGTCTTTTTT
Found at i:4697819 original size:5 final size:5
Alignment explanation
Indices: 4697806--4697844 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
4697796 CTAGCTGAAG
* * *
4697806 TTTTG TTTTA TTTTT TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
4697845 TGATAATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.85
Consensus pattern (5 bp):
TTTTC
Found at i:4704274 original size:9 final size:9
Alignment explanation
Indices: 4704258--4704287 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
4704248 TCCTGGGCGG
4704258 TCTTCTTTT
1 TCTTCTTTT
*
4704267 TTTTCTTTT
1 TCTTCTTTT
4704276 TCTTCTTTT
1 TCTTCTTTT
4704285 TCT
1 TCT
4704288 CAGAAAGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (9 bp):
TCTTCTTTT
Found at i:4704451 original size:2 final size:2
Alignment explanation
Indices: 4704439--4704480 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
4704429 GCACTTCTGT
*
4704439 GA GA AA GA GA GA GA 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 GA GA GA GA GA GA GA
4704481 AGAAAAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4708513 original size:13 final size:15
Alignment explanation
Indices: 4708490--4708524 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
4708480 ATTTTATATG
4708490 TTAATATAA-ATTTTA
1 TTAATA-AATATTTTA
4708505 TTAATAAATATTTTA
1 TTAATAAATATTTTA
4708520 TTAAT
1 TTAAT
4708525 TTTATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTAATAAATATTTTA
Found at i:4708543 original size:29 final size:29
Alignment explanation
Indices: 4708501--4708558 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
4708491 TAATATAAAT
*
4708501 TTTATTAATAAATAT-TTTATTAATTTTA
1 TTTATTAATAAATATATTTAATAATTTTA
* *
4708529 TTTATTTATAAAATATATTTAATATTTTTA
1 TTTATTAAT-AAATATATTTAATAATTTTA
4708559 AAAATTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 8 0.32
29 6 0.24
30 11 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (29 bp):
TTTATTAATAAATATATTTAATAATTTTA
Found at i:4709889 original size:2 final size:2
Alignment explanation
Indices: 4709882--4709907 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4709872 ATTTTATCTT
4709882 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
4709908 AATTTGTTGT
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:4714734 original size:2 final size:2
Alignment explanation
Indices: 4714727--4714760 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4714717 ATACACATAC
4714727 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
4714761 TAGTTTTGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4715431 original size:23 final size:24
Alignment explanation
Indices: 4715387--4715441 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
4715377 AAATAAGATT
*
4715387 AATTTAATTAAAAAATTAAAAA-A
1 AATTTAAATAAAAAATTAAAAATA
** *
4715410 AATTTAAATAAAATTTTTAAAATA
1 AATTTAAATAAAAAATTAAAAATA
*
4715434 AATATAAA
1 AATTTAAA
4715442 ATTAAAGTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
AATTTAAATAAAAAATTAAAAATA
Found at i:4715737 original size:8 final size:8
Alignment explanation
Indices: 4715724--4715790 Score: 50
Period size: 8 Copynumber: 8.1 Consensus size: 8
4715714 TAATATTAAA
4715724 ATTTATAT
1 ATTTATAT
4715732 ATTTATATCAT
1 A-TT-TAT-AT
4715743 ATTTATAT
1 ATTTATAT
4715751 ATTT-TATT
1 ATTTATA-T
4715759 ATATTATA-
1 AT-TTATAT
* *
4715767 ATTAAAAT
1 ATTTATAT
4715775 ATTT-TAT
1 ATTTATAT
4715782 ATTTATAT
1 ATTTATAT
4715790 A
1 A
4715791 AATTTTAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
7 11 0.23
8 19 0.40
9 7 0.15
10 7 0.15
11 3 0.06
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (8 bp):
ATTTATAT
Found at i:4715748 original size:19 final size:19
Alignment explanation
Indices: 4715724--4715795 Score: 70
Period size: 19 Copynumber: 4.2 Consensus size: 19
4715714 TAATATTAAA
*
4715724 ATTTATATATTTATATCAT
1 ATTTATATATTTATATAAT
*
4715743 ATTTATATATTT-TATTAT
1 ATTTATATATTTATATAAT
4715761 A-TTATA-A-TTA-A-AAT
1 ATTTATATATTTATATAAT
4715775 ATTT-TATATTTATATAA-
1 ATTTATATATTTATATAAT
4715792 ATTT
1 ATTT
4715796 TAAAATATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
14 5 0.11
15 6 0.13
16 4 0.09
17 10 0.22
18 8 0.18
19 12 0.27
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTATATATTTATATAAT
Found at i:4715761 original size:23 final size:24
Alignment explanation
Indices: 4715734--4715781 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4715724 ATTTATATAT
* *
4715734 TTATATCAT-ATTTATATATTTTA
1 TTATATCATAATTAAAATATTTTA
*
4715757 TTATATTATAATTAAAATATTTTA
1 TTATATCATAATTAAAATATTTTA
4715781 T
1 T
4715782 ATTTATATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
TTATATCATAATTAAAATATTTTA
Found at i:4715821 original size:39 final size:38
Alignment explanation
Indices: 4715719--4715831 Score: 94
Period size: 39 Copynumber: 3.1 Consensus size: 38
4715709 AAGATTAATA
*
4715719 TTAAAAT-TTAT--ATATTTATATCATATTTATATATT
1 TTAAAATATTATAAATATTTATATTATATTTATATATT
** * ** *
4715754 TTATTATATTATAATTAAAATATTTTATATTTATATAAATT
1 TTAAAATATTATAAAT-ATTTATATTATATTTATAT--ATT
4715795 TTAAAATATTA-AAATATTTATATTATATTT-TA-ATT
1 TTAAAATATTATAAATATTTATATTATATTTATATATT
4715830 TT
1 TT
4715832 TTTATATATC
Statistics
Matches: 59, Mismatches: 13, Indels: 12
0.70 0.15 0.14
Matches are distributed among these distances:
35 10 0.17
36 4 0.07
38 3 0.05
39 27 0.46
40 3 0.05
41 12 0.20
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (38 bp):
TTAAAATATTATAAATATTTATATTATATTTATATATT
Found at i:4716321 original size:17 final size:17
Alignment explanation
Indices: 4716280--4716324 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
4716270 ATGTCCAAGT
*
4716280 ATTGATTTAAATTCACA
1 ATTGATTTAAATTCAAA
* *
4716297 A-GGATTTAAATTTAAA
1 ATTGATTTAAATTCAAA
4716313 ATTGATTTAAAT
1 ATTGATTTAAAT
4716325 ATAACCTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.42
Consensus pattern (17 bp):
ATTGATTTAAATTCAAA
Found at i:4722308 original size:17 final size:16
Alignment explanation
Indices: 4722269--4722316 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
4722259 TTAAAAGTTA
4722269 TATAGAATAAATAATAT
1 TATA-AATAAATAATAT
* *
4722286 TTTAAATATAATTATAT
1 TATAAATA-AATAATAT
4722303 TATAAA-AAATAATA
1 TATAAATAAATAATA
4722317 CGATATAGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 6 0.23
16 5 0.19
17 15 0.58
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (16 bp):
TATAAATAAATAATAT
Found at i:4722707 original size:18 final size:18
Alignment explanation
Indices: 4722686--4722751 Score: 51
Period size: 18 Copynumber: 3.5 Consensus size: 18
4722676 TACTTAAATT
4722686 TTTATTTTAAATAAAAAA
1 TTTATTTTAAATAAAAAA
****
4722704 TTTATTTATATTAATATTTTA
1 TTTATTT-TA--AATAAAAAA
* *
4722725 TTTATTATAAATTAAAAA
1 TTTATTTTAAATAAAAAA
4722743 TTTATTTTA
1 TTTATTTTA
4722752 TACACATAAA
Statistics
Matches: 34, Mismatches: 11, Indels: 6
0.67 0.22 0.12
Matches are distributed among these distances:
18 19 0.56
19 2 0.06
20 2 0.06
21 11 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTATTTTAAATAAAAAA
Found at i:4722724 original size:17 final size:16
Alignment explanation
Indices: 4722667--4722729 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 16
4722657 TTATTATATT
4722667 TTTTATTTATACTTAAA
1 TTTTATTTATA-TTAAA
* *
4722684 TTTTTATTTTAAATAAAAA
1 -TTTTA-TTTATAT-TAAA
*
4722703 ATTTATTTATATTAATA
1 TTTTATTTATATTAA-A
4722720 TTTTATTTAT
1 TTTTATTTAT
4722730 TATAAATTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
16 2 0.06
17 16 0.44
18 10 0.28
19 8 0.22
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTTATTTATATTAAA
Found at i:4722735 original size:35 final size:36
Alignment explanation
Indices: 4722668--4722754 Score: 104
Period size: 39 Copynumber: 2.3 Consensus size: 36
4722658 TATTATATTT
4722668 TTTATTTATACTTAAATTTTTATTTTAAATAAAAAA
1 TTTATTTATACTTAAATTTTTATTTTAAATAAAAAA
* *
4722704 TTTATTTATA-TTAATATTTTATTTATTATAAATTAAAAA
1 TTTATTTATACTTAA-A--TT-TTTATTTTAAATAAAAAA
4722743 TTTATTTTATAC
1 TTTA-TTTATAC
4722755 ACATAAAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
35 4 0.09
36 11 0.26
38 2 0.05
39 20 0.47
40 6 0.14
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (36 bp):
TTTATTTATACTTAAATTTTTATTTTAAATAAAAAA
Found at i:4722738 original size:22 final size:21
Alignment explanation
Indices: 4722703--4722749 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
4722693 TAAATAAAAA
* * *
4722703 ATTTATTTATATTAATATTTT
1 ATTTATTTAAATTAAAAATTT
4722724 ATTTATTATAAATTAAAAATTT
1 ATTTATT-TAAATTAAAAATTT
4722746 ATTT
1 ATTT
4722750 TATACACATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTATTTAAATTAAAAATTT
Found at i:4723340 original size:18 final size:18
Alignment explanation
Indices: 4723296--4723340 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
4723286 TATCTTCTAA
4723296 TTATATTTA-AAATGTTT
1 TTATATTTATAAATGTTT
*
4723313 TTA-ATATATAAAT-TTT
1 TTATATTTATAAATGTTT
4723329 TATATATTTATA
1 T-TATATTTATA
4723341 TTATTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 8 0.35
17 9 0.39
18 6 0.26
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TTATATTTATAAATGTTT
Found at i:4723365 original size:28 final size:24
Alignment explanation
Indices: 4723327--4723378 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 24
4723317 TATATAAATT
4723327 TTTATATATTTATATTATTATTTTTTA
1 TTTATATATTTA-A-TATT-TTTTTTA
4723354 TTTATGATATTTAATATTTTTTTTA
1 TTTAT-ATATTTAATATTTTTTTTA
4723379 GTTCTGTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 7 0.29
26 4 0.17
27 6 0.25
28 7 0.29
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTATATATTTAATATTTTTTTTA
Found at i:4724322 original size:3 final size:3
Alignment explanation
Indices: 4724314--4724340 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4724304 GCTTCATTAT
4724314 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
4724341 CGATATATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4725261 original size:29 final size:29
Alignment explanation
Indices: 4725224--4725283 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
4725214 TTTAAAAAAT
* *
4725224 AATTATTAAATATTA-TTTTTTATATTTAA
1 AATTATTAAAAATAATTTTTTTAT-TTTAA
*
4725253 AATTTTTAAAAATAATTTTTTTATTTTAA
1 AATTATTAAAAATAATTTTTTTATTTTAA
4725282 AA
1 AA
4725284 ATAATTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (29 bp):
AATTATTAAAAATAATTTTTTTATTTTAA
Found at i:4725271 original size:13 final size:13
Alignment explanation
Indices: 4725198--4725272 Score: 53
Period size: 14 Copynumber: 5.4 Consensus size: 13
4725188 ATTTTAAAAT
4725198 TTTTTAAAAATATA
1 TTTTTAAAAATA-A
4725212 TTTTTAAAAAATAA
1 TTTTT-AAAAATAA
* * *
4725226 TTATTAAATATTAT
1 TTTTTAAA-AATAA
*
4725240 TTTTTATATTTAA-AA
1 TTTTTA-A--AAATAA
4725255 TTTTTAAAAATAA
1 TTTTTAAAAATAA
4725268 TTTTT
1 TTTTT
4725273 TTATTTTAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 13
0.69 0.12 0.19
Matches are distributed among these distances:
12 2 0.04
13 10 0.21
14 19 0.40
15 15 0.32
16 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTTTTAAAAATAA
Found at i:4725272 original size:14 final size:14
Alignment explanation
Indices: 4725195--4725273 Score: 61
Period size: 15 Copynumber: 5.6 Consensus size: 14
4725185 GTTATTTTAA
4725195 AATTTTTTAAAAAT
1 AATTTTTTAAAAAT
*
4725209 ATATTTTTAAAAAAT
1 A-ATTTTTTAAAAAT
* *
4725224 AA-TTATTAAATAT
1 AATTTTTTAAAAAT
* * **
4725237 TATTTTTTATATTT
1 AATTTTTTAAAAAT
*
4725251 AAAATTTTTAAAAAT
1 -AATTTTTTAAAAAT
4725266 AATTTTTT
1 AATTTTTT
4725274 TATTTTAAAA
Statistics
Matches: 48, Mismatches: 14, Indels: 6
0.71 0.21 0.09
Matches are distributed among these distances:
13 9 0.19
14 17 0.35
15 22 0.46
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
AATTTTTTAAAAAT
Found at i:4725591 original size:20 final size:21
Alignment explanation
Indices: 4725568--4725613 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
4725558 CTATATTTAA
4725568 TATTTATTTAAT-GTTAACAT
1 TATTTATTTAATAGTTAACAT
* *
4725588 TATTTATTTAATATTTAACTT
1 TATTTATTTAATAGTTAACAT
4725609 TATTT
1 TATTT
4725614 CAATTGGACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (21 bp):
TATTTATTTAATAGTTAACAT
Found at i:4726085 original size:30 final size:28
Alignment explanation
Indices: 4726034--4726103 Score: 81
Period size: 30 Copynumber: 2.5 Consensus size: 28
4726024 TAAGTTTTAT
4726034 TTATTA-TTTAATAAATCATTTATATAA
1 TTATTATTTTAATAAATCATTTATATAA
* *
4726061 TTATTATTTTAAATAAAATTATTTATATAT
1 TTATTATTTT-AAT-AAATCATTTATATAA
*
4726091 TTTTTA-TTTAATA
1 TTATTATTTTAATA
4726104 TTTTTTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 7 0.19
28 6 0.16
29 6 0.16
30 18 0.49
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (28 bp):
TTATTATTTTAATAAATCATTTATATAA
Found at i:4726104 original size:14 final size:15
Alignment explanation
Indices: 4726079--4726110 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
4726069 TTAAATAAAA
4726079 TTATTTATATATTTT
1 TTATTTATATATTTT
4726094 TTATTTA-ATATTTT
1 TTATTTATATATTTT
4726108 TTA
1 TTA
4726111 AAATGTGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTATTTATATATTTT
Found at i:4726174 original size:20 final size:20
Alignment explanation
Indices: 4726151--4726192 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4726141 AATTTAATAA
*
4726151 TTTTAAATA-ATTTATTAATT
1 TTTTAAATATA-TTATAAATT
4726171 TTTTAAATATATTATAAATT
1 TTTTAAATATATTATAAATT
4726191 TT
1 TT
4726193 ATTATATCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTAAATATATTATAAATT
Found at i:4727803 original size:38 final size:38
Alignment explanation
Indices: 4727659--4727826 Score: 126
Period size: 38 Copynumber: 4.4 Consensus size: 38
4727649 TTCACTTTGA
* * * * * *
4727659 AATTCCCTAACCGTCAGTCATCAGCCAATTCCAAATTA
1 AATTCTCTAACCATCAGCCACCAGCCAATTTCAAATTG
** *
4727697 AATTCTCT-A-GTTGCTAGCCACC-GACCAATTTTAAATTG
1 AATTCTCTAACCAT-C-AGCCACCAG-CCAATTTCAAATTG
* * *
4727735 AATTCTCTAATCATTAGCCACCAGCTAATTTCAAATTG
1 AATTCTCTAACCATCAGCCACCAGCCAATTTCAAATTG
* ***
4727773 AATTCTCTAACCGTCAGCTGTCAGCCAATTTCAAATTG
1 AATTCTCTAACCATCAGCCACCAGCCAATTTCAAATTG
* *
4727811 AATTCTTTAACTATCA
1 AATTCTCTAACCATCA
4727827 ACCAATTTAA
Statistics
Matches: 101, Mismatches: 23, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
36 1 0.01
37 3 0.03
38 94 0.93
39 2 0.02
40 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.33
Consensus pattern (38 bp):
AATTCTCTAACCATCAGCCACCAGCCAATTTCAAATTG
Found at i:4733322 original size:30 final size:30
Alignment explanation
Indices: 4733288--4733351 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 30
4733278 TTAAATGTAA
*
4733288 ATATATTT--AAAATTAATATATTTATTTTTT
1 ATATATTTAAAAAATT-ATAT-TTTAATTTTT
4733318 ATATATTTAAAAAATTATATTTTAATTTTT
1 ATATATTTAAAAAATTATATTTTAATTTTT
4733348 ATAT
1 ATAT
4733352 TATAATATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 21 0.68
31 4 0.13
32 6 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (30 bp):
ATATATTTAAAAAATTATATTTTAATTTTT
Found at i:4733382 original size:13 final size:13
Alignment explanation
Indices: 4733361--4733390 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4733351 TTATAATATT
*
4733361 TATTTAATATAAA
1 TATTAAATATAAA
4733374 TATTAAATATAAA
1 TATTAAATATAAA
4733387 TATT
1 TATT
4733391 TTTAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TATTAAATATAAA
Found at i:4737049 original size:2 final size:2
Alignment explanation
Indices: 4737042--4737089 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
4737032 TAAAGATTGT
* *
4737042 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4737084 TA TA TA
1 TA TA TA
4737090 AAAAAAAGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:4737061 original size:14 final size:14
Alignment explanation
Indices: 4737041--4737089 Score: 89
Period size: 14 Copynumber: 3.5 Consensus size: 14
4737031 TTAAAGATTG
4737041 TTATATATATATAT
1 TTATATATATATAT
*
4737055 ATATATATATATAT
1 TTATATATATATAT
4737069 TTATATATATATAT
1 TTATATATATATAT
4737083 TTATATA
1 TTATATA
4737090 AAAAAAAGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTATATATATATAT
Found at i:4739321 original size:195 final size:195
Alignment explanation
Indices: 4738989--4739574 Score: 1073
Period size: 195 Copynumber: 3.0 Consensus size: 195
4738979 AGGCCAAGTT
4738989 TTGTGATGCCGAATTCACATATCCAATGTATGAATTGGTTAGTCTTAAGCAAATTAACACAGTAA
1 TTGTGATGCCGAATTCACATATCCAATGTATGAATTGGTTAGTCTTAAGCAAATTAACACAGTAA
*
4739054 AAGAGTATTATGAAGAATTTGAAGAGCTATTGAATTTGTTACAATTATCTGATGAGTATGTACTT
66 AAGAGTATTATGAAGAATTTGAAGAGCTATTGAATTTGTTACAATTATCTGATGAGTATGGACTT
*
4739119 AGTATCTTTGCCAGCAATTTAAAGCCTGAAATTCAAAAGCAATTAGGATGTCCTATCCTAAAACA
131 AGTATCTTTGCCAGCAATTTAAAGCCTGAAATTCGAAAGCAATTAGGATGTCCTATCCTAAAACA
4739184 TTGTGATGCCGAATTCACATATCCAATGTATGAATTGGTTAGTCTTAAGCAAATTAACACAGTAA
1 TTGTGATGCCGAATTCACATATCCAATGTATGAATTGGTTAGTCTTAAGCAAATTAACACAGTAA
* *
4739249 AAGAGTATTATGACGAATTTGAAGAGCCATTGAATTTGTTACAATTATCTGATGAGTATGGACTT
66 AAGAGTATTATGAAGAATTTGAAGAGCTATTGAATTTGTTACAATTATCTGATGAGTATGGACTT
*
4739314 AGTATCTTTGCCAGCAATTTAGAGCCTGAAATTCGAAAGCAATTAGGATGTCCTATCCTAAAACA
131 AGTATCTTTGCCAGCAATTTAAAGCCTGAAATTCGAAAGCAATTAGGATGTCCTATCCTAAAACA
* *
4739379 TTGTAATGCAGAATTCACATATCCAATGTATGAATTGGTTAGTCTTAAGCAAATTAACACAGTAA
1 TTGTGATGCCGAATTCACATATCCAATGTATGAATTGGTTAGTCTTAAGCAAATTAACACAGTAA
*
4739444 AAGAGTATTATGAAGAATTTGAAGAGCTATTGAATTTGTTACAAATTTTCTGATGAGTATGGACT
66 AAGAGTATTATGAAGAATTTGAAGAGCTATTGAATTTGTTAC-AATTATCTGATGAGTATGGACT
* *
4739509 TAGCATCTTTGCCAGCAATTTAAAGCGTGAAATTCGAAAGCAATTAGGATGTCCTATCCTAAAAC
130 TAGTATCTTTGCCAGCAATTTAAAGCCTGAAATTCGAAAGCAATTAGGATGTCCTATCCTAAAAC
4739574 A
195 A
4739575 AATAGGATTT
Statistics
Matches: 377, Mismatches: 13, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
195 293 0.78
196 84 0.22
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (195 bp):
TTGTGATGCCGAATTCACATATCCAATGTATGAATTGGTTAGTCTTAAGCAAATTAACACAGTAA
AAGAGTATTATGAAGAATTTGAAGAGCTATTGAATTTGTTACAATTATCTGATGAGTATGGACTT
AGTATCTTTGCCAGCAATTTAAAGCCTGAAATTCGAAAGCAATTAGGATGTCCTATCCTAAAACA
Found at i:4740411 original size:2 final size:2
Alignment explanation
Indices: 4740393--4740429 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
4740383 GCATTCTACG
*
4740393 AT AT A- AT AT AT AC 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
4740430 GTAAAAAGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:4740573 original size:28 final size:29
Alignment explanation
Indices: 4740532--4740609 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 29
4740522 CAAAACTAAT
*
4740532 AAAATCAATGAGTTAAG-TTAACATGGAC
1 AAAATCAATAAGTTAAGATTAACATGGAC
4740560 AAAATCAATAAGTTAATAAAAGATTAACATGGAC
1 AAAATCAATAAG-T--T--AAGATTAACATGGAC
4740594 AAAATCAATAAGTTAA
1 AAAATCAATAAGTTAA
4740610 TAAAAGATGG
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
28 11 0.26
29 3 0.07
31 2 0.05
33 4 0.09
34 23 0.53
ACGTcount: A:0.54, C:0.09, G:0.13, T:0.24
Consensus pattern (29 bp):
AAAATCAATAAGTTAAGATTAACATGGAC
Found at i:4740592 original size:34 final size:34
Alignment explanation
Indices: 4740549--4740617 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
4740539 ATGAGTTAAG
4740549 TTAACATGGACAAAATCAATAAGTTAATAAAAGA
1 TTAACATGGACAAAATCAATAAGTTAATAAAAGA
4740583 TTAACATGGACAAAATCAATAAGTTAATAAAAGA
1 TTAACATGGACAAAATCAATAAGTTAATAAAAGA
4740617 T
1 T
4740618 GGTCAGGACG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.55, C:0.09, G:0.12, T:0.25
Consensus pattern (34 bp):
TTAACATGGACAAAATCAATAAGTTAATAAAAGA
Found at i:4740797 original size:19 final size:20
Alignment explanation
Indices: 4740754--4740801 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
4740744 GATGATTACA
4740754 TATTTTTATGTTTTTTTTGG
1 TATTTTTATGTTTTTTTTGG
*
4740774 T-TTTTTA-GTTTTTTCTT-T
1 TATTTTTATGTTTTTT-TTGG
4740792 TATTTTTATG
1 TATTTTTATG
4740802 AATACATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 8 0.33
19 14 0.58
20 2 0.08
ACGTcount: A:0.10, C:0.02, G:0.10, T:0.77
Consensus pattern (20 bp):
TATTTTTATGTTTTTTTTGG
Found at i:4742240 original size:167 final size:167
Alignment explanation
Indices: 4741964--4742288 Score: 632
Period size: 167 Copynumber: 1.9 Consensus size: 167
4741954 GCTTTTTTTC
*
4741964 TTTTTCTTTGAATATCTAAAATCACCTCTTTCTAGGTTAGACGGTTACGGTTGTGTTATTAAGTC
1 TTTTTCTTTGAATATCTAAAATCACATCTTTCTAGGTTAGACGGTTACGGTTGTGTTATTAAGTC
*
4742029 ATCCATCTCATCTAAAGAAACTTGAGTTTCACATCTATTCTCAGTGCTCTTCTCATCATTTATCT
66 ATCCATCTCATCTAAAGAAACTTGAGTTTCACATCTATTCTCAGTGCTCCTCTCATCATTTATCT
4742094 TATGATGACCTTCATGTTCAGCTCTTAAAGAAACTTT
131 TATGATGACCTTCATGTTCAGCTCTTAAAGAAACTTT
4742131 TTTTTCTTTGAATATCTAAAATCACATCTTTCTAGGTTAGACGGTTACGGTTGTGTTATTAAGTC
1 TTTTTCTTTGAATATCTAAAATCACATCTTTCTAGGTTAGACGGTTACGGTTGTGTTATTAAGTC
4742196 ATCCATCTCATCTAAAGAAACTTGAGTTTCACATCTATTCTCAGTGCTCCTCTCATCATTTATCT
66 ATCCATCTCATCTAAAGAAACTTGAGTTTCACATCTATTCTCAGTGCTCCTCTCATCATTTATCT
4742261 TATGATGACCTTCATGTTCAGCTCTTAA
131 TATGATGACCTTCATGTTCAGCTCTTAA
4742289 TTTTTCGATG
Statistics
Matches: 156, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
167 156 1.00
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.41
Consensus pattern (167 bp):
TTTTTCTTTGAATATCTAAAATCACATCTTTCTAGGTTAGACGGTTACGGTTGTGTTATTAAGTC
ATCCATCTCATCTAAAGAAACTTGAGTTTCACATCTATTCTCAGTGCTCCTCTCATCATTTATCT
TATGATGACCTTCATGTTCAGCTCTTAAAGAAACTTT
Found at i:4745084 original size:2 final size:2
Alignment explanation
Indices: 4745077--4745108 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4745067 TAAATTTATG
4745077 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
4745109 GGTTATAAAT
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:4748598 original size:25 final size:27
Alignment explanation
Indices: 4748581--4748637 Score: 84
Period size: 25 Copynumber: 2.2 Consensus size: 27
4748571 TTTTTATATT
*
4748581 AATATTTATATATTTTTTATTAAATAA
1 AATAATTATATATTTTTTATTAAATAA
4748608 AATAATTATATA--TTTTATTAAAT-A
1 AATAATTATATATTTTTTATTAAATAA
4748632 AATAAT
1 AATAAT
4748638 AATTAAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 7 0.24
25 11 0.38
27 11 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
AATAATTATATATTTTTTATTAAATAA
Found at i:4748723 original size:5 final size:5
Alignment explanation
Indices: 4748704--4748755 Score: 58
Period size: 5 Copynumber: 11.2 Consensus size: 5
4748694 TATTTTAAAA
* *
4748704 ATAAT ATAAT -T-AT ATAAT ATAAA ATAAT -TAA- AAAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
4748750 ATAAT A
1 ATAAT A
4748756 AATTATGATT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
3 2 0.05
4 7 0.18
5 30 0.77
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:4748730 original size:18 final size:18
Alignment explanation
Indices: 4748700--4748749 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
4748690 AGTGTATTTT
*
4748700 AAAA-ATAATATAATTAT
1 AAAATATAATATAATTAA
* *
4748717 ATAATATAAAATAATTAA
1 AAAATATAATATAATTAA
4748735 AAAATATAATATAAT
1 AAAATATAATATAAT
4748750 ATAATAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 3 0.11
18 24 0.89
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAATATAATATAATTAA
Found at i:4748730 original size:23 final size:23
Alignment explanation
Indices: 4748701--4748761 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
4748691 GTGTATTTTA
4748701 AAAATAATATAATTATATAATAT
1 AAAATAATATAATTATATAATAT
**
4748724 AAAATAAT-TAAAAAATATAATAT
1 AAAATAATAT-AATTATATAATAT
*
4748747 AATATAATA-AATTAT
1 AAAATAATATAATTAT
4748762 GATTATAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 5 0.16
23 26 0.84
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
AAAATAATATAATTATATAATAT
Found at i:4748796 original size:25 final size:28
Alignment explanation
Indices: 4748748--4748799 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 28
4748738 ATATAATATA
*
4748748 ATATAATAAATTATGATTATAATTTATT
1 ATATAATAAATTATGATTAAAATTTATT
4748776 ATAT-ATAAA-TAT-ATTAAAATTTAT
1 ATATAATAAATTATGATTAAAATTTAT
4748800 ATAAATGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.48
26 3 0.13
27 5 0.22
28 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (28 bp):
ATATAATAAATTATGATTAAAATTTATT
Found at i:4749510 original size:10 final size:10
Alignment explanation
Indices: 4749482--4749520 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
4749472 GGGATGCAGA
*
4749482 TATATATCTT
1 TATATATATT
4749492 TATTATATATT
1 TA-TATATATT
4749503 TATATATATT
1 TATATATATT
4749513 TATATATA
1 TATATATA
4749521 AATATAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (10 bp):
TATATATATT
Found at i:4749882 original size:23 final size:25
Alignment explanation
Indices: 4749830--4749890 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 25
4749820 AAGATTAAAT
* *
4749830 TAAATAAATATAAATTTTATTTTGAA
1 TAAATAAAT-TTATTTTTATTTTGAA
4749856 -AAATAAATTTATTTTTA-TTT-AA
1 TAAATAAATTTATTTTTATTTTGAA
4749878 TAAATAAATTTAT
1 TAAATAAATTTAT
4749891 ATATTAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 2 0.06
23 15 0.47
24 7 0.22
25 8 0.25
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
TAAATAAATTTATTTTTATTTTGAA
Found at i:4749918 original size:41 final size:42
Alignment explanation
Indices: 4749839--4749920 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
4749829 TTAAATAAAT
* **
4749839 ATAAATTTTATTTTGAAAAATAAATTTATTTTTATTTAATAA
1 ATAAATTTTATATTGAAAAATAAATTTAAATTTATTTAATAA
4749881 ATAAATTTATATATT-AAAAA-AAATTTTAAATTT-TTTAATA
1 ATAAATTT-TATATTGAAAAATAAA-TTTAAATTTATTTAATA
4749921 TAAATATGAC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
41 10 0.29
42 20 0.57
43 5 0.14
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (42 bp):
ATAAATTTTATATTGAAAAATAAATTTAAATTTATTTAATAA
Found at i:4750606 original size:2 final size:2
Alignment explanation
Indices: 4750601--4750628 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4750591 ATAAAAAATT
4750601 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4750629 AGAAATGAAT
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:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4750905 original size:26 final size:24
Alignment explanation
Indices: 4750871--4750948 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 24
4750861 TTAATATTTT
4750871 TTTA-AATTTATTAATAAAATATCA
1 TTTATAATTTATTAATAAAATAT-A
*
4750895 TCTTATAATTTATTAATAATATATA
1 T-TTATAATTTATTAATAAAATATA
*
4750920 TTTATATATTAATAATACATAAAATATA
1 TTTATA-ATT--TATTA-ATAAAATATA
4750948 T
1 T
4750949 GCCTAACCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
24 6 0.13
25 8 0.18
26 17 0.38
27 4 0.09
28 10 0.22
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
TTTATAATTTATTAATAAAATATA
Found at i:4751377 original size:24 final size:23
Alignment explanation
Indices: 4751346--4751392 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
4751336 TTGTTATTTA
*
4751346 TTTATTATTATATTAATTTAAATT
1 TTTATTATTATAATAA-TTAAATT
*
4751370 TTTATTATTTTAATAATTAAATT
1 TTTATTATTATAATAATTAAATT
4751393 AATATTTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTATTATTATAATAATTAAATT
Found at i:4751925 original size:2 final size:2
Alignment explanation
Indices: 4751918--4751945 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4751908 TCTTAATTCC
4751918 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4751946 ATATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4755590 original size:43 final size:43
Alignment explanation
Indices: 4755542--4755629 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
4755532 ATATTTTTTG
*
4755542 ACATTTTAATTTCTTATGATATATTTTCAGAGAAGTACTCAAT
1 ACATTTTAATTTCCTATGATATATTTTCAGAGAAGTACTCAAT
* * *
4755585 ACATTTTAATTTCCTATGGTATTTTTTCAGAGCAGTACTCAAT
1 ACATTTTAATTTCCTATGATATATTTTCAGAGAAGTACTCAAT
4755628 AC
1 AC
4755630 TTAAAAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (43 bp):
ACATTTTAATTTCCTATGATATATTTTCAGAGAAGTACTCAAT
Found at i:4760514 original size:16 final size:16
Alignment explanation
Indices: 4760492--4760538 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
4760482 CTTTTTTAAA
*
4760492 AAATATTAATTAAAAT
1 AAATATTAAATAAAAT
* *
4760508 TAATATTAAATATAAT
1 AAATATTAAATAAAAT
*
4760524 AAATATTTAATAAAA
1 AAATATTAAATAAAA
4760539 CTATATATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATTAAATAAAAT
Found at i:4760792 original size:37 final size:36
Alignment explanation
Indices: 4760707--4760792 Score: 88
Period size: 37 Copynumber: 2.4 Consensus size: 36
4760697 AATAAGTTTA
4760707 AATTATTAT-TTAAATAATAAAAAATATTTAAATTT
1 AATTATTATATTAAATAATAAAAAATATTTAAATTT
* * *
4760742 AATTATAAATATTAATATAA-AAATAATTTTTAAAATTT
1 AATTAT-TATATTAA-ATAATAAAAAATATTT-AAATTT
4760780 -ATTATTAGTATTA
1 AATTATTA-TATTA
4760793 TTTGGAATGA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
35 6 0.14
36 3 0.07
37 23 0.55
38 10 0.24
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (36 bp):
AATTATTATATTAAATAATAAAAAATATTTAAATTT
Found at i:4762177 original size:16 final size:16
Alignment explanation
Indices: 4762156--4762199 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 16
4762146 TTATAAATTT
4762156 TAATAAAAATTTAATA
1 TAATAAAAATTTAATA
4762172 TAATAACAACAATTTAATA
1 TAAT-A-AA-AATTTAATA
4762191 TAATTAAAA
1 TAA-TAAAA
4762200 CTTGTTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 4 0.17
17 2 0.08
18 4 0.17
19 13 0.54
20 1 0.04
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (16 bp):
TAATAAAAATTTAATA
Found at i:4763626 original size:16 final size:16
Alignment explanation
Indices: 4763588--4763630 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4763578 TAAGTCAGTC
*
4763588 AATATTATTTTTTATAA
1 AATATT-TTTTTTAAAA
**
4763605 TTTATTTTTTTTAAAA
1 AATATTTTTTTTAAAA
4763621 AATATTTTTT
1 AATATTTTTT
4763631 AAAATTTGAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
AATATTTTTTTTAAAA
Found at i:4763744 original size:25 final size:25
Alignment explanation
Indices: 4763716--4763783 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
4763706 ATAATATTAC
4763716 ATATATATTTTATATAATAAAAATT
1 ATATATATTTTATATAATAAAAATT
* *
4763741 ATATA-A-TGTATAAAATATAAAATT
1 ATATATATTTTATATAATA-AAAATT
*
4763765 A-ATATATATTATATAATAA
1 ATATATATTTTATATAATAA
4763784 TAAAATGGCT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
23 12 0.34
24 10 0.29
25 13 0.37
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (25 bp):
ATATATATTTTATATAATAAAAATT
Found at i:4763930 original size:15 final size:14
Alignment explanation
Indices: 4763910--4763940 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
4763900 ACTTTTTTAA
4763910 AAATTAAATAAATTT
1 AAATTAAAT-AATTT
4763925 AAATTAAATAATTT
1 AAATTAAATAATTT
4763939 AA
1 AA
4763941 TTTTTAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATTAAATAATTT
Found at i:4764454 original size:15 final size:15
Alignment explanation
Indices: 4764430--4764467 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
4764420 GCATAATTTT
*
4764430 ATTT-ATAAATATTA
1 ATTTAATAAATAATA
4764444 ATTTAATAAATAATA
1 ATTTAATAAATAATA
4764459 ATTATAATA
1 ATT-TAATA
4764468 TAAAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.19
15 12 0.57
16 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTTAATAAATAATA
Found at i:4765805 original size:32 final size:32
Alignment explanation
Indices: 4765769--4765839 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
4765759 TCAATTTATC
* *
4765769 TTTAAATAAATATCATA-TTTTATTTAAATATG
1 TTTAAATAAATATAATATTTTTATATAAAT-TG
* *
4765801 TTT-AATAAATTTAATATTTTTATATAAATTT
1 TTTAAATAAATATAATATTTTTATATAAATTG
4765832 TTTAAATA
1 TTTAAATA
4765840 TCAAATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
31 15 0.45
32 18 0.55
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (32 bp):
TTTAAATAAATATAATATTTTTATATAAATTG
Found at i:4765816 original size:18 final size:20
Alignment explanation
Indices: 4765790--4765831 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
4765780 ATCATATTTT
4765790 ATTTAAATATGTTTA-ATAA
1 ATTTAAATATGTTTATATAA
*
4765809 ATTT-AATATTTTTATATAA
1 ATTTAAATATGTTTATATAA
4765828 ATTT
1 ATTT
4765832 TTTAAATATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
ATTTAAATATGTTTATATAA
Found at i:4765927 original size:5 final size:5
Alignment explanation
Indices: 4765917--4765943 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
4765907 ATAATATTTT
4765917 TAAAA TAAAA TAAAA TAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TA
4765944 GATAAACAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:4766564 original size:19 final size:19
Alignment explanation
Indices: 4766519--4766593 Score: 75
Period size: 19 Copynumber: 3.9 Consensus size: 19
4766509 GTCCAACTTA
4766519 ATTTATAT-TT-TAATTAT
1 ATTTATATATTATAATTAT
* *
4766536 TTTATATATATTATATTTAT
1 ATT-TATATATTATAATTAT
4766556 ATTTATATATTAATAATTAT
1 ATTTATATATT-ATAATTAT
*
4766576 -TTTATACATTAATAATTA
1 ATTTATATATT-ATAATTA
4766594 AAAAACTCTA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
17 2 0.04
18 5 0.10
19 27 0.55
20 15 0.31
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTATATATTATAATTAT
Found at i:4766857 original size:18 final size:16
Alignment explanation
Indices: 4766834--4766872 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
4766824 TAAAATTTTA
4766834 AAAAATTATATTAAATT
1 AAAAA-TATATTAAATT
*
4766851 AATAA-ATATTAAATT
1 AAAAATATATTAAATT
4766866 AAAAATA
1 AAAAATA
4766873 ATATAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
15 14 0.74
16 1 0.05
17 4 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAAATATATTAAATT
Found at i:4766861 original size:15 final size:14
Alignment explanation
Indices: 4766841--4766872 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
4766831 TTAAAAAATT
4766841 ATATTAAATTAATAA
1 ATATTAAATTAA-AA
4766856 ATATTAAATTAAAA
1 ATATTAAATTAAAA
4766870 ATA
1 ATA
4766873 ATATAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
ATATTAAATTAAAA
Found at i:4766863 original size:36 final size:34
Alignment explanation
Indices: 4766785--4766863 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 34
4766775 ATATTATATT
* **
4766785 ATATTATAATATTAAAAAATATATTAAACTATTT
1 ATATTAAAATATTAAAAAATATATTAAACTATAA
* *
4766819 ATATTTAAAATTTTAAAAAATTATATTAAATTAATAA
1 ATA-TTAAAATATTAAAAAA-TATATTAAACT-ATAA
4766856 ATATTAAA
1 ATATTAAA
4766864 TTAAAAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
34 3 0.08
35 14 0.38
36 15 0.41
37 5 0.14
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (34 bp):
ATATTAAAATATTAAAAAATATATTAAACTATAA
Found at i:4766865 original size:35 final size:33
Alignment explanation
Indices: 4766785--4766865 Score: 81
Period size: 35 Copynumber: 2.3 Consensus size: 33
4766775 ATATTATATT
* **
4766785 ATATTATAATATTAAAAAATATATTAAACTATTT
1 ATATTA-AATTTTAAAAAATATATTAAACTATAA
*
4766819 ATATTTAAAATTTTAAAAAATTATATTAAATTAATAA
1 ATA-TT-AAATTTTAAAAAA-TATATTAAACT-ATAA
4766856 ATATTAAATT
1 ATATTAAATT
4766866 AAAAATAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
34 3 0.08
35 18 0.46
36 13 0.33
37 5 0.13
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (33 bp):
ATATTAAATTTTAAAAAATATATTAAACTATAA
Found at i:4767164 original size:22 final size:24
Alignment explanation
Indices: 4767122--4767169 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 24
4767112 ATGTATTCTT
4767122 ATTTAATAATAAAAAATTATATAA
1 ATTTAATAATAAAAAATTATATAA
*
4767146 ATTTAATTAT-AAAAA-TATATAA
1 ATTTAATAATAAAAAATTATATAA
4767168 AT
1 AT
4767170 ATTATAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.39
23 5 0.22
24 9 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
ATTTAATAATAAAAAATTATATAA
Found at i:4767181 original size:24 final size:23
Alignment explanation
Indices: 4767133--4767181 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
4767123 TTTAATAATA
**
4767133 AAAAATTATATAAATTTAATTAT
1 AAAAATTATATAAATTTAAACAT
4767156 AAAAA-TATATAAATATTATAACAT
1 AAAAATTATATAAAT-TTA-AACAT
4767180 AA
1 AA
4767182 TTTTTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 9 0.41
23 8 0.36
24 5 0.23
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
AAAAATTATATAAATTTAAACAT
Found at i:4774115 original size:14 final size:15
Alignment explanation
Indices: 4774096--4774124 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4774086 TCAGCTAAAC
4774096 AAGAAAAAAA-AAAA
1 AAGAAAAAAAGAAAA
4774110 AAGAAAAAAAGAAAA
1 AAGAAAAAAAGAAAA
4774125 GGTTTTATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAGAAAAAAAGAAAA
Found at i:4777830 original size:15 final size:15
Alignment explanation
Indices: 4777794--4777831 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
4777784 ATGATTGAAT
*
4777794 ATATTTTGAATATAA
1 ATATTTTAAATATAA
4777809 ATA--TTAAATATAA
1 ATATTTTAAATATAA
4777822 ATATTTTAAA
1 ATATTTTAAA
4777832 AAATAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
13 12 0.60
15 8 0.40
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (15 bp):
ATATTTTAAATATAA
Found at i:4778538 original size:109 final size:111
Alignment explanation
Indices: 4778420--4778659 Score: 394
Period size: 109 Copynumber: 2.2 Consensus size: 111
4778410 TTTTTATTTT
*
4778420 AATATTTTTTAAAAAATTCAAAATATAATAATAGTATTAATAACTTATTGTTAATTATTTTATAA
1 AATAATTTTTAAAAAATTCAAAATATAATAATAGTATTAATAACTTATTGTTAATTATTTTATAA
* * *
4778485 TATTTTTTATATTTTCTATTTG-TTTTGTTGC-AAAAATTTTTATA
66 TATTTTTTATATTTTCCATTTGTTTTTGTTCCAAAAAATTTATATA
*
4778529 AATAATTTTTAAAAAAATCAAAATATAATAATAGTATTAATAACTTATTGTTAATTATTTTATAA
1 AATAATTTTTAAAAAATTCAAAATATAATAATAGTATTAATAACTTATTGTTAATTATTTTATAA
4778594 TATTTTTTATATTTTCCATTTGTTTTTGTTCCAAAAAAATTTATATA
66 TATTTTTTATATTTTCCATTTGTTTTTGTTCC-AAAAAATTTATATA
*
4778641 AATAATTTTTTTAAAAATT
1 AATAA-TTTTTAAAAAATT
4778660 TTTTTTTTCT
Statistics
Matches: 120, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
109 84 0.70
110 8 0.07
112 17 0.14
113 11 0.09
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (111 bp):
AATAATTTTTAAAAAATTCAAAATATAATAATAGTATTAATAACTTATTGTTAATTATTTTATAA
TATTTTTTATATTTTCCATTTGTTTTTGTTCCAAAAAATTTATATA
Found at i:4780355 original size:3 final size:3
Alignment explanation
Indices: 4780347--4780377 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
4780337 ATTTTCGACT
4780347 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4780378 CAATGTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4782421 original size:21 final size:21
Alignment explanation
Indices: 4782397--4782462 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
4782387 AAATTAAAAT
4782397 ATAATTTAATTATAAA-ATTAA
1 ATAATTTAATT-TAAATATTAA
*
4782418 ATAAATTAATTTAAATATTAA
1 ATAATTTAATTTAAATATTAA
4782439 A-AA-TTAA--T-AATATTTAA
1 ATAATTTAATTTAAATA-TTAA
4782456 ATAATTT
1 ATAATTT
4782463 TTTTATAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
16 4 0.10
17 6 0.15
18 2 0.05
19 6 0.15
20 6 0.15
21 16 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATAATTTAATTTAAATATTAA
Found at i:4782442 original size:19 final size:21
Alignment explanation
Indices: 4782387--4782446 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 21
4782377 TAAAAATATT
4782387 AAATTAAAATATAATTTAATTATA
1 AAATT-AAATA-AA-TTAATTATA
4782411 AAATTAAATAAATTAATT-TA
1 AAATTAAATAAATTAATTATA
4782431 AATATT-AA-AAATTAAT
1 AA-ATTAAATAAATTAAT
4782447 AATATTTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
19 8 0.23
20 6 0.17
21 9 0.26
22 2 0.06
23 5 0.14
24 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATTAAATAAATTAATTATA
Found at i:4782448 original size:27 final size:27
Alignment explanation
Indices: 4782384--4782445 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 27
4782374 TTATAAAAAT
*
4782384 ATTAAATTAAAATATAATTTAATTATAAA
1 ATTAAA-T-AAATATAATTTAAATATAAA
4782413 ATTAAATAAAT-TAATTTAAATATTAAAA
1 ATTAAATAAATATAATTTAAATA-T-AAA
4782441 ATTAA
1 ATTAA
4782446 TAATATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 10 0.33
27 5 0.17
28 9 0.30
29 6 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (27 bp):
ATTAAATAAATATAATTTAAATATAAA
Found at i:4785840 original size:14 final size:13
Alignment explanation
Indices: 4785821--4785854 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
4785811 ACCTAAGATT
4785821 AATATAAATGATAA
1 AATATAAAT-ATAA
4785835 AATATAAATATAA
1 AATATAAATATAA
4785848 AA-ATAAA
1 AATATAAA
4785855 GTTATCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.25
13 6 0.30
14 9 0.45
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (13 bp):
AATATAAATATAA
Found at i:4785898 original size:14 final size:15
Alignment explanation
Indices: 4785872--4785900 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4785862 TTAATTTTAT
4785872 ATATTATTATTAAAA
1 ATATTATTATTAAAA
4785887 ATATTA-TATTAAAA
1 ATATTATTATTAAAA
4785901 TTGTTATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATTATTATTAAAA
Found at i:4786917 original size:17 final size:17
Alignment explanation
Indices: 4786881--4786953 Score: 80
Period size: 17 Copynumber: 4.4 Consensus size: 17
4786871 ATTAAATTAA
* *
4786881 ATATTTATTT-TTATTA
1 ATATTTATTTAATATTT
*
4786897 ATTATTT-TTTAAAATTT
1 A-TATTTATTTAATATTT
4786914 ATTATTTATTTAATA-TT
1 A-TATTTATTTAATATTT
4786931 ATATTTATTTAATATTT
1 ATATTTATTTAATATTT
4786948 ATATTT
1 ATATTT
4786954 TTAATTAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
16 17 0.35
17 26 0.53
18 6 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATATTTATTTAATATTT
Found at i:4787738 original size:14 final size:14
Alignment explanation
Indices: 4787719--4787746 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4787709 ATATTAAAAA
4787719 AATATTTTTATATT
1 AATATTTTTATATT
4787733 AATATTTTTATATT
1 AATATTTTTATATT
4787747 TTTATAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
AATATTTTTATATT
Done.