Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold160
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: 5021213
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 92036 characters in sequence are not A, C, G, or T
File 30 of 30
Found at i:4921037 original size:67 final size:67
Alignment explanation
Indices: 4920941--4921131 Score: 215
Period size: 67 Copynumber: 2.8 Consensus size: 67
4920931 ACTGAAAGGA
* * *
4920941 AATCCGTAAGCTTGACTCACCTTAGAAAAAGACTAAGTTCGATTGAAAAAGAAAAAGACCTAAAC
1 AATCCTTAAGCTTGACTCACCTTAGAAAAAGATTGAGTTCGATT-AAAAAGAAAAAGACCTAAAC
4921006 AAC
65 AAC
* * * * * * *
4921009 AAT-CTTAAGCTCGACTC-CCTTTAAAAAAAAATTGAGTTTGACTAAATAAGAAAAAGATCTAGA
1 AATCCTTAAGCTTGACTCACC-TTAGAAAAAGATTGAGTTCGATTAAA-AAGAAAAAGACCTAAA
*
4921072 CAGC
64 CAAC
* *
4921076 AATCCTTAAGCTTAACTCACCTTAGAAAAAGATTGAGTTCAATTTAAAAAGAAAAA
1 AATCCTTAAGCTTGACTCACCTTAGAAAAAGATTGAGTTCGA-TTAAAAAGAAAAA
4921132 AAAAAAAAAA
Statistics
Matches: 100, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
66 5 0.05
67 49 0.49
68 40 0.40
69 6 0.06
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.24
Consensus pattern (67 bp):
AATCCTTAAGCTTGACTCACCTTAGAAAAAGATTGAGTTCGATTAAAAAGAAAAAGACCTAAACA
AC
Found at i:4923095 original size:33 final size:34
Alignment explanation
Indices: 4923052--4923137 Score: 112
Period size: 31 Copynumber: 2.7 Consensus size: 34
4923042 AAATAATATA
* *
4923052 AAATAAAAATTTTATTAATTTTATT-TTTAACAT
1 AAATATAAATTTTAATAATTTTATTATTTAACAT
4923085 AAATATAAA-TTTAATAA--TTATTATTTAACAT
1 AAATATAAATTTTAATAATTTTATTATTTAACAT
4923116 AAATAT-AATTTTAAT-ATTTTAT
1 AAATATAAATTTTAATAATTTTAT
4923138 AATTATTTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
30 8 0.17
31 20 0.43
32 11 0.23
33 8 0.17
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (34 bp):
AAATATAAATTTTAATAATTTTATTATTTAACAT
Found at i:4923165 original size:38 final size:38
Alignment explanation
Indices: 4923080--4923168 Score: 94
Period size: 38 Copynumber: 2.4 Consensus size: 38
4923070 TTTTATTTTT
* *
4923080 AACATAAATATAA-ATTTAATAATTATTATTTAACATA
1 AACATAATTTTAATATTTAATAATTATTATTTAACATA
* *
4923117 AATATAATTTTAATATTTTATAATTATTTATTTTAA-ATA
1 AACATAATTTTAATATTTAATAATTA-TTA-TTTAACATA
*
4923156 TACAT-ATTTTAAT
1 AACATAATTTTAAT
4923169 TTATTATTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
37 10 0.23
38 19 0.44
39 9 0.21
40 5 0.12
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.49
Consensus pattern (38 bp):
AACATAATTTTAATATTTAATAATTATTATTTAACATA
Found at i:4925399 original size:2 final size:2
Alignment explanation
Indices: 4925394--4925421 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4925384 GTTTCCTCAA
4925394 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
4925422 TTTCTTTTGG
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):
AT
Found at i:4926435 original size:23 final size:23
Alignment explanation
Indices: 4926407--4926453 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
4926397 ATAGATAGTG
4926407 TTAAAATCATGGAGGAGACTAAA
1 TTAAAATCATGGAGGAGACTAAA
*
4926430 TTAAAATCATGGAGGAGATTAAA
1 TTAAAATCATGGAGGAGACTAAA
4926453 T
1 T
4926454 GGAGGTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (23 bp):
TTAAAATCATGGAGGAGACTAAA
Found at i:4926511 original size:23 final size:23
Alignment explanation
Indices: 4926483--4926550 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
4926473 GAAGGCTAAA
4926483 TTTAAATTAATTTACTTTAAAAT
1 TTTAAATTAATTTACTTTAAAAT
4926506 TTTAAATTAATTTAACTTT-AAAT
1 TTTAAATTAATTT-ACTTTAAAAT
* *
4926529 TTTGAA-TAATTTA-TTAAAAAT
1 TTTAAATTAATTTACTTTAAAAT
4926550 T
1 T
4926551 AAAATTTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 2 0.05
21 6 0.15
22 6 0.15
23 22 0.54
24 5 0.12
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (23 bp):
TTTAAATTAATTTACTTTAAAAT
Found at i:4926816 original size:19 final size:19
Alignment explanation
Indices: 4926750--4926816 Score: 50
Period size: 21 Copynumber: 3.5 Consensus size: 19
4926740 TTTAACATAA
4926750 ATATATTTATATT-T-TATT
1 ATATATTTA-ATTATCTATT
* * *
4926768 ATTTAATTAATTATAACTTTT
1 ATATATTTAATTAT--CTATT
4926789 ATA-ATTTTAATTATCTATT
1 ATATA-TTTAATTATCTATT
4926808 ATATATTTA
1 ATATATTTA
4926817 TAAATATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
17 3 0.08
18 8 0.22
19 11 0.30
20 2 0.05
21 13 0.35
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (19 bp):
ATATATTTAATTATCTATT
Found at i:4927235 original size:16 final size:18
Alignment explanation
Indices: 4927209--4927241 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4927199 TAATTATAAA
4927209 TTTATTAAAT-ATTATTT
1 TTTATTAAATAATTATTT
4927226 TTTA-TAAATAATTATT
1 TTTATTAAATAATTATT
4927242 ATTATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATTAAATAATTATTT
Found at i:4927727 original size:17 final size:17
Alignment explanation
Indices: 4927704--4927746 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
4927694 TAACTTTTTT
*
4927704 TTAAAAAATACTTATTA
1 TTAAAAAATACTTATAA
* *
4927721 TTTAAAAATATTTATAA
1 TTAAAAAATACTTATAA
4927738 TTAAAAAAT
1 TTAAAAAAT
4927747 TTAATAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
TTAAAAAATACTTATAA
Found at i:4928163 original size:18 final size:18
Alignment explanation
Indices: 4928078--4928212 Score: 66
Period size: 18 Copynumber: 7.3 Consensus size: 18
4928068 ATAGTTATAT
4928078 TAAAATA-ATATATAAATAA
1 TAAAATATA-ATATAAAT-A
* *
4928097 TAAAAATATGATGT-AATA
1 T-AAAATATAATATAAATA
* * *
4928115 TAATATA-AATATATATT
1 TAAAATATAATATAAATA
* **
4928132 TAAAAAATTTTATAAATA
1 TAAAATATAATATAAATA
4928150 TAAAATATAATATAATATGA
1 TAAAATATAATATAA-AT-A
4928170 TATAAATAT-ATATTATAATA
1 TA-AAATATAATA-TA-AATA
*
4928190 TAAAA-AT-ATATGAATA
1 TAAAATATAATATAAATA
4928206 TATAAAT
1 TA-AAAT
4928213 TATTCAATGT
Statistics
Matches: 88, Mismatches: 17, Indels: 23
0.69 0.13 0.18
Matches are distributed among these distances:
16 9 0.10
17 16 0.18
18 25 0.28
19 9 0.10
20 18 0.20
21 10 0.11
22 1 0.01
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
TAAAATATAATATAAATA
Found at i:4928200 original size:28 final size:28
Alignment explanation
Indices: 4928117--4928209 Score: 88
Period size: 28 Copynumber: 3.5 Consensus size: 28
4928107 ATGTAATATA
*
4928117 ATATAAATATATATT-T-A-A-AAAATT
1 ATATAAATATATATTATAATATAAAAAT
* * * *
4928141 TTATAAATATAAAATATAATAT-AATAT
1 ATATAAATATATATTATAATATAAAAAT
4928168 GATATAAATATATATTATAATATAAAAAT
1 -ATATAAATATATATTATAATATAAAAAT
*
4928197 ATATGAATATATA
1 ATATAAATATATA
4928210 AATTATTCAA
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
24 12 0.23
25 1 0.02
26 1 0.02
27 4 0.08
28 31 0.58
29 4 0.08
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (28 bp):
ATATAAATATATATTATAATATAAAAAT
Found at i:4929167 original size:23 final size:23
Alignment explanation
Indices: 4929114--4929168 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 23
4929104 AATTTACTAT
**
4929114 TTAAAATAATATTAAAAAATATT
1 TTAAAATAATATTAAAAAATAAA
* * * *
4929137 TTATAATAATATTCATAATTAAA
1 TTAAAATAATATTAAAAAATAAA
4929160 TTAAAATAA
1 TTAAAATAA
4929169 AAAATATTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
TTAAAATAATATTAAAAAATAAA
Found at i:4929569 original size:16 final size:16
Alignment explanation
Indices: 4929548--4929579 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4929538 GTATATTAAT
4929548 TTTAAAAAATTATATA
1 TTTAAAAAATTATATA
*
4929564 TTTAAAAGATTATATA
1 TTTAAAAAATTATATA
4929580 ATATATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
TTTAAAAAATTATATA
Found at i:4930185 original size:13 final size:13
Alignment explanation
Indices: 4930167--4930191 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4930157 CATAAAGTGT
4930167 TGTATCGATACAA
1 TGTATCGATACAA
4930180 TGTATCGATACA
1 TGTATCGATACA
4930192 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4930202 original size:32 final size:33
Alignment explanation
Indices: 4930147--4930212 Score: 125
Period size: 32 Copynumber: 2.0 Consensus size: 33
4930137 TTCAACGATT
4930147 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
4930180 TGTATCGATACAT-AAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
4930212 T
1 T
4930213 TTAAGCTACT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 20 0.61
33 13 0.39
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:4935308 original size:28 final size:28
Alignment explanation
Indices: 4935268--4935324 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
4935258 ATTTTTAAGG
*
4935268 TAATGTATCAAAAATAATGCCAAAAAAT
1 TAATGTATAAAAAATAATGCCAAAAAAT
* * *
4935296 TAATGTATAAAAAGTAATGTCAAATAAT
1 TAATGTATAAAAAATAATGCCAAAAAAT
4935324 T
1 T
4935325 TATACTAGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.30
Consensus pattern (28 bp):
TAATGTATAAAAAATAATGCCAAAAAAT
Found at i:4936356 original size:13 final size:13
Alignment explanation
Indices: 4936338--4936369 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
4936328 CACTTTCCAT
4936338 AATAATCTAACTC
1 AATAATCTAACTC
4936351 AATAATCTAACTC
1 AATAATCTAACTC
4936364 AATAAT
1 AATAAT
4936370 TCCAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (13 bp):
AATAATCTAACTC
Found at i:4940951 original size:20 final size:20
Alignment explanation
Indices: 4940909--4941037 Score: 142
Period size: 20 Copynumber: 6.5 Consensus size: 20
4940899 AAGGTGGTTT
* **
4940909 TGTATTGATACATTTCAAGCA
1 TGTATCGATACA-TTCACTCA
4940930 TGTATTC-ATACATTCACTCA
1 TGTA-TCGATACATTCACTCA
4940950 TGTATCGATACATTCACTCA
1 TGTATCGATACATTCACTCA
* *
4940970 TGTATCGATACATTTA-TTA
1 TGTATCGATACATTCACTCA
4940989 TTTGTATCGATACATTCACTCA
1 --TGTATCGATACATTCACTCA
4941011 TGTATCGAT--A-TCACTCA
1 TGTATCGATACATTCACTCA
4941028 TGTATCGATA
1 TGTATCGATA
4941038 TATTATTATT
Statistics
Matches: 95, Mismatches: 7, Indels: 15
0.81 0.06 0.13
Matches are distributed among these distances:
17 16 0.17
18 1 0.01
19 4 0.04
20 47 0.49
21 24 0.25
22 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTCACTCA
Found at i:4940960 original size:41 final size:40
Alignment explanation
Indices: 4940909--4941037 Score: 142
Period size: 41 Copynumber: 3.2 Consensus size: 40
4940899 AAGGTGGTTT
* **
4940909 TGTATTGATACATTTCAAGCATGTATTC-ATACATTCACTCA
1 TGTATCGATACA-TTCACTCATGTA-TCGATACATTCACTCA
* *
4940950 TGTATCGATACATTCACTCATGTATCGATACATTTA-TTA
1 TGTATCGATACATTCACTCATGTATCGATACATTCACTCA
4940989 TTTGTATCGATACATTCACTCATGTATCGAT--A-TCACTCA
1 --TGTATCGATACATTCACTCATGTATCGATACATTCACTCA
4941028 TGTATCGATA
1 TGTATCGATA
4941038 TATTATTATT
Statistics
Matches: 77, Mismatches: 7, Indels: 12
0.80 0.07 0.12
Matches are distributed among these distances:
37 10 0.13
38 2 0.03
39 7 0.09
40 18 0.23
41 40 0.52
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (40 bp):
TGTATCGATACATTCACTCATGTATCGATACATTCACTCA
Found at i:4940982 original size:61 final size:57
Alignment explanation
Indices: 4940909--4941059 Score: 155
Period size: 61 Copynumber: 2.6 Consensus size: 57
4940899 AAGGTGGTTT
*
4940909 TGTATTGATACATTTCA-AGCATGTATTC-ATACATTCACTCATGTATCGATACATTCACTCA
1 TGTATCGATACATTT-ATA-CATGTA-TCGATACATTCACTCATGTATCGAT--A-TCACTCA
**
4940970 TGTATCGATACATTTATTATTTGTATCGATACATTCACTCATGTATCGATATCACTCA
1 TGTATCGATACATTTA-TACATGTATCGATACATTCACTCATGTATCGATATCACTCA
* **
4941028 TGTATCGATATA-TTATTATTTGTATCGATACA
1 TGTATCGATACATTTA-TACATGTATCGATACA
4941060 ATTTGTAAAA
Statistics
Matches: 83, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
57 20 0.24
58 18 0.22
59 1 0.01
60 3 0.04
61 40 0.48
62 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (57 bp):
TGTATCGATACATTTATACATGTATCGATACATTCACTCATGTATCGATATCACTCA
Found at i:4941026 original size:17 final size:17
Alignment explanation
Indices: 4941004--4941038 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4940994 ATCGATACAT
4941004 TCACTCATGTATCGATA
1 TCACTCATGTATCGATA
4941021 TCACTCATGTATCGATA
1 TCACTCATGTATCGATA
4941038 T
1 T
4941039 ATTATTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (17 bp):
TCACTCATGTATCGATA
Found at i:4943722 original size:2 final size:2
Alignment explanation
Indices: 4943708--4943751 Score: 63
Period size: 2 Copynumber: 22.0 Consensus size: 2
4943698 TACATCTGGA
*
4943708 AT AT AT A- AGT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4943750 AT
1 AT
4943752 TCCTTGTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 1 0.03
2 36 0.95
3 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4944299 original size:36 final size:37
Alignment explanation
Indices: 4944258--4944337 Score: 101
Period size: 38 Copynumber: 2.2 Consensus size: 37
4944248 AAATTATATT
4944258 ATATATATATATAATAT-ATATATGTC-ATTGCAGCAA
1 ATATATA-ATATAATATAATATATGTCTATTGCAGCAA
* * *
4944294 ATATATAATATAATATAATTTTTGTCTTTTTGCAGCAA
1 ATATATAATATAATATAATATATGTC-TATTGCAGCAA
4944332 ATATAT
1 ATATAT
4944338 GTCATTAGTC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 9 0.24
36 14 0.37
38 15 0.39
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (37 bp):
ATATATAATATAATATAATATATGTCTATTGCAGCAA
Found at i:4944372 original size:2 final size:2
Alignment explanation
Indices: 4944365--4944389 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4944355 GGTCACGTGC
4944365 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
4944390 GTTTTCGTCT
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:4944432 original size:82 final size:78
Alignment explanation
Indices: 4944294--4944499 Score: 272
Period size: 82 Copynumber: 2.6 Consensus size: 78
4944284 ATTGCAGCAA
* *
4944294 ATATATA-ATATAATATAATTTTTGTCTTTTTGCAGCAAATATATGTCATTAGTCTTTCTTTGGT
1 ATATATATATATAATATAGTTTTTGTCTTTTTGCAGAAAATATATGTCATTAGTCTTTCTTTGGT
4944358 CACGTGCATATAT
66 CACGTGCATATAT
* *
4944371 ATATATATATATATATATAGTTTTCGTCTTTTTGCGATAATATATATATGTCATT-GATCTTTCT
1 ATATATATATATA-ATATAGTTTTTGTCTTTTTGC-AGAA-A-ATATATGTCATTAG-TCTTTCT
*
4944435 TTGGTCACGTGCATCTAT
61 TTGGTCACGTGCATATAT
* * *
4944453 ATATATATATATAATATAGTTTTTATCTTTTTGAAGCAATATATATG
1 ATATATATATATAATATAGTTTTTGTCTTTTTGCAG-AAAATATATG
4944500 ACTTCTCATT
Statistics
Matches: 112, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
77 7 0.06
78 5 0.04
79 26 0.23
80 3 0.03
81 22 0.20
82 49 0.44
ACGTcount: A:0.31, C:0.10, G:0.11, T:0.48
Consensus pattern (78 bp):
ATATATATATATAATATAGTTTTTGTCTTTTTGCAGAAAATATATGTCATTAGTCTTTCTTTGGT
CACGTGCATATAT
Found at i:4945885 original size:41 final size:41
Alignment explanation
Indices: 4945840--4945934 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
4945830 ATTTGACGAG
* * *
4945840 GTTTCACTTAAAAATATCGTTAAATTACT-TTAAATAGTGAT
1 GTTTCACTTAAAAACATCGCTAAATTA-TATTAAATAGTGAC
* * *
4945881 GTTTCACTTTAAAACGTTGCTAAATTATATTAAATAGTGAC
1 GTTTCACTTAAAAACATCGCTAAATTATATTAAATAGTGAC
*
4945922 ATTTCACTTAAAA
1 GTTTCACTTAAAA
4945935 TGCTGCTAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
40 1 0.02
41 44 0.98
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (41 bp):
GTTTCACTTAAAAACATCGCTAAATTATATTAAATAGTGAC
Found at i:4945944 original size:40 final size:41
Alignment explanation
Indices: 4945860--4945992 Score: 121
Period size: 40 Copynumber: 3.3 Consensus size: 41
4945850 AAAATATCGT
** *
4945860 TAAATTACTTTAAATAGTGATGTTTCACTTTAAAACGTTGC
1 TAAATTACTTTAAATAGTGACATTTCACTTTAAAACGCTGC
*
4945901 TAAATTA-TATTAAATAGTGACATTTCAC-TTAAAATGCTGC
1 TAAATTACT-TTAAATAGTGACATTTCACTTTAAAACGCTGC
* ** * * * *
4945941 TAAATTACATTGCATAGCGGCATTTAAC-CTAAAACG-TAGC
1 TAAATTACTTTAAATAGTGACATTTCACTTTAAAACGCT-GC
4945981 TAAATTACTTTA
1 TAAATTACTTTA
4945993 CATAACAGTA
Statistics
Matches: 75, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
39 1 0.01
40 50 0.67
41 24 0.32
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (41 bp):
TAAATTACTTTAAATAGTGACATTTCACTTTAAAACGCTGC
Found at i:4947574 original size:2 final size:2
Alignment explanation
Indices: 4947567--4947603 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4947557 CGTAATATGC
4947567 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4947604 CACACACAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4947823 original size:19 final size:21
Alignment explanation
Indices: 4947801--4947845 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 21
4947791 TAAAAAAATT
*
4947801 AAAATAT-TATATAACAT-AA
1 AAAATATAAATATAACATGAA
*
4947820 AAAA-ATAAATATAATATGAA
1 AAAATATAAATATAACATGAA
4947840 AAAATA
1 AAAATA
4947846 AATACGTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
18 2 0.10
19 12 0.57
20 6 0.29
21 1 0.05
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAATATAAATATAACATGAA
Found at i:4947829 original size:24 final size:26
Alignment explanation
Indices: 4947778--4947836 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
4947768 ACGGTTATAT
*
4947778 AATA-AATATAATATAAAAAAATTAA
1 AATATAATATAACATAAAAAAATTAA
*
4947803 AATATTATATAACATAAAAAAA-T-A
1 AATATAATATAACATAAAAAAATTAA
4947827 AATATAATAT
1 AATATAATAT
4947837 GAAAAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.33
25 5 0.17
26 15 0.50
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (26 bp):
AATATAATATAACATAAAAAAATTAA
Found at i:4947846 original size:19 final size:19
Alignment explanation
Indices: 4947809--4947849 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
4947799 TTAAAATATT
4947809 ATATAACATAAAAAAATAA
1 ATATAACATAAAAAAATAA
* *
4947828 ATATAATATGAAAAAATAA
1 ATATAACATAAAAAAATAA
4947847 ATA
1 ATA
4947850 CGTAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (19 bp):
ATATAACATAAAAAAATAA
Found at i:4951826 original size:15 final size:15
Alignment explanation
Indices: 4951795--4951829 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
4951785 TTTTTAAAAG
4951795 TTTATGATTTTATTT
1 TTTATGATTTTATTT
*
4951810 TTTATTATTATTATTT
1 TTTATGATT-TTATTT
4951826 TTTA
1 TTTA
4951830 ACTAACATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (15 bp):
TTTATGATTTTATTT
Found at i:4952472 original size:2 final size:2
Alignment explanation
Indices: 4952465--4952490 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4952455 AGCTTATTTT
4952465 AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC
4952491 CCATACAACA
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4952694 original size:2 final size:2
Alignment explanation
Indices: 4952687--4952717 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4952677 TATACCTATT
4952687 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 T
4952718 ATATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4952722 original size:2 final size:2
Alignment explanation
Indices: 4952717--4952747 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4952707 TCTCTCTCTC
4952717 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4952748 CTTAAGAGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4953397 original size:18 final size:18
Alignment explanation
Indices: 4953374--4953410 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
4953364 ATTTAGTGAA
4953374 TGTGGCTTTTATAAAATT
1 TGTGGCTTTTATAAAATT
4953392 TGTGGCTTTTATAAAATT
1 TGTGGCTTTTATAAAATT
4953410 T
1 T
4953411 CTATTTAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.51
Consensus pattern (18 bp):
TGTGGCTTTTATAAAATT
Found at i:4955338 original size:26 final size:26
Alignment explanation
Indices: 4955307--4955367 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
4955297 TTTGTTTGCA
*
4955307 GATTGAGTTAATGGAATTTATTTATG
1 GATTGAGTTAATGAAATTTATTTATG
* *
4955333 GATTGAGCTATTGAAATTTATTTATG
1 GATTGAGTTAATGAAATTTATTTATG
*
4955359 AATTGAGTT
1 GATTGAGTT
4955368 GTTGGTTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (26 bp):
GATTGAGTTAATGAAATTTATTTATG
Found at i:4958969 original size:14 final size:15
Alignment explanation
Indices: 4958940--4958969 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4958930 ATTTTTACAA
4958940 ATAAAATTATTATTT
1 ATAAAATTATTATTT
4958955 ATAAAATTA-TATTT
1 ATAAAATTATTATTT
4958969 A
1 A
4958970 AATTAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATAAAATTATTATTT
Found at i:4958987 original size:15 final size:15
Alignment explanation
Indices: 4958969--4959023 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
4958959 AATTATATTT
4958969 AAATTAATTTTAAAA
1 AAATTAATTTTAAAA
*
4958984 AAATTATAATTT-AAA
1 AAATTA-ATTTTAAAA
* * *
4958999 AGA-TAATATTAAAT
1 AAATTAATTTTAAAA
4959013 AAATTAATTTT
1 AAATTAATTTT
4959024 TTATTTTTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
13 3 0.10
14 6 0.20
15 17 0.57
16 4 0.13
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
AAATTAATTTTAAAA
Found at i:4959008 original size:41 final size:42
Alignment explanation
Indices: 4958942--4959023 Score: 105
Period size: 41 Copynumber: 1.9 Consensus size: 42
4958932 TTTTACAAAT
* *
4958942 AAAATTATTATTTATAAAATTATATT-TAAATTAATTTTAAA
1 AAAATTATAATTTATAAAATAATATTATAAATTAATTTTAAA
4958983 AAAATTATAATTTA-AAAGATAATATTAAATAAATTAATTTT
1 AAAATTATAATTTATAAA-ATAATATT--ATAAATTAATTTT
4959024 TTATTTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
40 3 0.09
41 20 0.57
44 12 0.34
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (42 bp):
AAAATTATAATTTATAAAATAATATTATAAATTAATTTTAAA
Found at i:4959011 original size:29 final size:26
Alignment explanation
Indices: 4958957--4959022 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 26
4958947 TATTATTTAT
* *
4958957 AAAATTATATTTAAATTAATTTTAAA
1 AAAATTATATTTAAAATAATATTAAA
4958983 AAAATTATAATTTAAAAGATAATATTAAA
1 AAAATTAT-ATTT-AAA-ATAATATTAAA
*
4959012 TAAATTA-ATTT
1 AAAATTATATTT
4959023 TTTATTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 8 0.24
27 8 0.24
28 3 0.09
29 15 0.44
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (26 bp):
AAAATTATATTTAAAATAATATTAAA
Found at i:4959476 original size:2 final size:2
Alignment explanation
Indices: 4959469--4959536 Score: 52
Period size: 2 Copynumber: 35.5 Consensus size: 2
4959459 TTTAATATTT
* * ** * *
4959469 TA TA TA TA TA TA TA TA TG TA AA CG TG TG TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
4959511 TA TA T- TA CA T- TA TA TA TA -A TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4959537 GAGCTATGCA
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
1 3 0.06
2 51 0.94
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (2 bp):
TA
Found at i:4959782 original size:19 final size:19
Alignment explanation
Indices: 4959733--4959770 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 19
4959723 TTTTAATATT
4959733 AAATAATT-AAAAA--TAA
1 AAATAATTAAAAAATCTAA
4959749 AAATAATTAAAAAATCTAA
1 AAATAATTAAAAAATCTAA
4959768 AAA
1 AAA
4959771 AAGTTATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 5 0.26
19 6 0.32
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (19 bp):
AAATAATTAAAAAATCTAA
Found at i:4959831 original size:18 final size:17
Alignment explanation
Indices: 4959810--4959852 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
4959800 AAATATATTC
*
4959810 TAAAAACTCTAAAGAAAA
1 TAAAAA-TCTAAAAAAAA
4959828 TAAAAATCTAAAAAAAA
1 TAAAAATCTAAAAAAAA
4959845 TGAAAAAT
1 T-AAAAAT
4959853 TCAATTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.19
Consensus pattern (17 bp):
TAAAAATCTAAAAAAAA
Found at i:4959832 original size:17 final size:18
Alignment explanation
Indices: 4959811--4959852 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
4959801 AATATATTCT
*
4959811 AAAAACTCTAAAGAAAAT-
1 AAAAA-TCTAAAAAAAATG
4959829 AAAAATCTAAAAAAAATG
1 AAAAATCTAAAAAAAATG
4959847 AAAAAT
1 AAAAAT
4959853 TCAATTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.71, C:0.07, G:0.05, T:0.17
Consensus pattern (18 bp):
AAAAATCTAAAAAAAATG
Found at i:4960212 original size:22 final size:20
Alignment explanation
Indices: 4960180--4960238 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 20
4960170 GATTAGTTTA
4960180 TTTT-AAAAATAAATAAATAGT
1 TTTTAAAAAATAAATAAA-A-T
4960201 TTTTAAAAAATAATAATAAAAT
1 TTTTAAAAAAT-A-AATAAAAT
*
4960223 TTTTCAAAATATAAAT
1 TTTT-AAAAAATAAAT
4960239 TATATAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
21 7 0.21
22 12 0.36
23 8 0.24
24 6 0.18
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
TTTTAAAAAATAAATAAAAT
Found at i:4961338 original size:32 final size:30
Alignment explanation
Indices: 4961299--4961357 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
4961289 AAGATTTAGG
4961299 TTAAATTATTTTGGGTATGAAATTTTTTGTGT
1 TTAAATTATTTT-GG-ATGAAATTTTTTGTGT
*
4961331 TTAAATTATTTTGGATTAAATTTTTTG
1 TTAAATTATTTTGGATGAAATTTTTTG
4961358 GTATTTGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 12 0.46
31 2 0.08
32 12 0.46
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (30 bp):
TTAAATTATTTTGGATGAAATTTTTTGTGT
Found at i:4961370 original size:16 final size:16
Alignment explanation
Indices: 4961299--4961372 Score: 66
Period size: 16 Copynumber: 4.7 Consensus size: 16
4961289 AAGATTTAGG
4961299 TTAAATTATTTTGGGTA-
1 TTAAATT-TTTT-GGTAT
* *
4961316 TGAAATTTTTT-GTGT
1 TTAAATTTTTTGGTAT
4961331 TTAAATTATTTTGG-A-
1 TTAAATT-TTTTGGTAT
4961346 TTAAATTTTTTGGTAT
1 TTAAATTTTTTGGTAT
*
4961362 TTGAATTTTTT
1 TTAAATTTTTT
4961373 TAGTTTTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
14 8 0.17
15 14 0.30
16 18 0.38
17 7 0.15
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (16 bp):
TTAAATTTTTTGGTAT
Found at i:4961632 original size:17 final size:17
Alignment explanation
Indices: 4961602--4961642 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
4961592 GCATAAAAAA
* *
4961602 TAAAAAAATTAATTTAT
1 TAAATAAATAAATTTAT
*
4961619 TATATAAATAAATTTAT
1 TAAATAAATAAATTTAT
4961636 TAAATAA
1 TAAATAA
4961643 TTTATTTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATAAATAAATTTAT
Found at i:4962905 original size:15 final size:17
Alignment explanation
Indices: 4962874--4962907 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
4962864 AGTTATAATC
4962874 TATAATATATATAAAAA
1 TATAATATATATAAAAA
4962891 TATAA-ATAT-TAAAAA
1 TATAATATATATAAAAA
4962906 TA
1 TA
4962908 ATTTTTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 4 0.24
17 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TATAATATATATAAAAA
Found at i:4963683 original size:40 final size:40
Alignment explanation
Indices: 4963636--4963712 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
4963626 TTTTAAATAA
*
4963636 TTATCAATTAATTTATTATTTACATGAAGTAAAAATAAAT
1 TTATCAATTAATTCATTATTTACATGAAGTAAAAATAAAT
*
4963676 TTATCAATTAATTCATTATTTACATGGAGTAAAAATA
1 TTATCAATTAATTCATTATTTACATGAAGTAAAAATA
4963713 TATTATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (40 bp):
TTATCAATTAATTCATTATTTACATGAAGTAAAAATAAAT
Found at i:4964674 original size:21 final size:21
Alignment explanation
Indices: 4964648--4964687 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4964638 TTAATTTTAG
* *
4964648 TTATTTTAAAATATAAAATTA
1 TTATTTAAAAATAAAAAATTA
4964669 TTATTTAAAAATAAAAAAT
1 TTATTTAAAAATAAAAAAT
4964688 AATGAACAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTATTTAAAAATAAAAAATTA
Found at i:4964962 original size:14 final size:14
Alignment explanation
Indices: 4964923--4964962 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
4964913 TATTTATTCA
4964923 ATTTGTTTCATAAT
1 ATTTGTTTCATAAT
*
4964937 -TTT-CTT-ATAAT
1 ATTTGTTTCATAAT
4964948 ATTTGTTTCATAAT
1 ATTTGTTTCATAAT
4964962 A
1 A
4964963 AAAAATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 6
0.72 0.07 0.21
Matches are distributed among these distances:
11 5 0.24
12 5 0.24
13 5 0.24
14 6 0.29
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.57
Consensus pattern (14 bp):
ATTTGTTTCATAAT
Found at i:4967358 original size:14 final size:16
Alignment explanation
Indices: 4967334--4967370 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
4967324 TATTAATTAA
* *
4967334 TATAAAAAATAAAAAT
1 TATAAAATATAATAAT
4967350 TATAAAATATAATAAT
1 TATAAAATATAATAAT
4967366 TATAA
1 TATAA
4967371 TATCATGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
TATAAAATATAATAAT
Found at i:4967721 original size:22 final size:24
Alignment explanation
Indices: 4967696--4967741 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
4967686 ATTTTAAATC
*
4967696 AATTAAATTT-AAT-ATTTATGTT
1 AATTAAATTTGAATCAATTATGTT
*
4967718 AATTAATTTTGAATCAATTATGTT
1 AATTAAATTTGAATCAATTATGTT
4967742 TAATATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 9 0.45
23 3 0.15
24 8 0.40
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (24 bp):
AATTAAATTTGAATCAATTATGTT
Found at i:4967733 original size:37 final size:37
Alignment explanation
Indices: 4967686--4967757 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
4967676 GATTTAGATT
*
4967686 ATTTTAAATCAATTAAATTTAATATTTATGTTAATTA
1 ATTTTAAATCAATTAAATTTAATATTTAAGTTAATTA
* **
4967723 ATTTTGAATCAATTATGTTTAATATTTAAGTTAAT
1 ATTTTAAATCAATTAAATTTAATATTTAAGTTAAT
4967758 CAGATTTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (37 bp):
ATTTTAAATCAATTAAATTTAATATTTAAGTTAATTA
Found at i:4969768 original size:20 final size:20
Alignment explanation
Indices: 4969745--4969782 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4969735 ATTTTTTATC
4969745 TAAAT-TTAATTATAAATATA
1 TAAATATTAA-TATAAATATA
4969765 TAAATATTAATATAAATA
1 TAAATATTAATATAAATA
4969783 ATATTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAATATTAATATAAATATA
Found at i:4970806 original size:2 final size:2
Alignment explanation
Indices: 4970799--4970831 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4970789 TGACTGACTC
4970799 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4970832 AGATTAATCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4973388 original size:19 final size:20
Alignment explanation
Indices: 4973361--4973404 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
4973351 CAAAAACAAT
* *
4973361 ATAACTATGACATAA-ATAC
1 ATAAATATGACAAAATATAC
*
4973380 ATAAATATGTCAAAATATAC
1 ATAAATATGACAAAATATAC
4973400 ATAAA
1 ATAAA
4973405 ATTATTAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (20 bp):
ATAAATATGACAAAATATAC
Found at i:4973625 original size:22 final size:22
Alignment explanation
Indices: 4973585--4973627 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4973575 AATATAACAG
*
4973585 AAATATATGAATGTGTATAAAA
1 AAATATATAAATGTGTATAAAA
* *
4973607 AAATATATAAATTTTTATAAA
1 AAATATATAAATGTGTATAAA
4973628 TTTATAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (22 bp):
AAATATATAAATGTGTATAAAA
Found at i:4973699 original size:16 final size:16
Alignment explanation
Indices: 4973678--4973719 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
4973668 AGACACACAA
4973678 TTTTTTCTTT-CTCTAT
1 TTTTTTCTTTCCT-TAT
*
4973694 TTTTTTCTTTCCTTTT
1 TTTTTTCTTTCCTTAT
4973710 TTTTTTCTTT
1 TTTTTTCTTT
4973720 TTATCTTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 22 0.92
17 2 0.08
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTCTTTCCTTAT
Found at i:4973704 original size:4 final size:4
Alignment explanation
Indices: 4973681--4973748 Score: 50
Period size: 4 Copynumber: 16.5 Consensus size: 4
4973671 CACACAATTT
* * * *
4973681 TTTC TTTC TCTA TTTT TTTC TTTCC TTT- TTTT TTTC TTT- TTATC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTT-C TTTC TTTC TTTC TTTC TT-TC TTTC
4973729 TTATC TTTTC TTTC TTTC TT
1 TT-TC -TTTC TTTC TTTC TT
4973749 CCCTTCATGA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
3 5 0.10
4 35 0.67
5 10 0.19
6 2 0.04
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:4977613 original size:2 final size:2
Alignment explanation
Indices: 4977608--4977669 Score: 58
Period size: 2 Copynumber: 32.5 Consensus size: 2
4977598 GAAAAAATAA
* * * *
4977608 AT AT AT AT GT A- AT AT AT A- AT AT AT AT -T TT AA AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
4977647 GT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
4977670 ATTAGACATC
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
1 3 0.06
2 45 0.94
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4977646 original size:31 final size:33
Alignment explanation
Indices: 4977605--4977666 Score: 101
Period size: 31 Copynumber: 1.9 Consensus size: 33
4977595 AGAGAAAAAA
4977605 TAAATATATATGTA-ATATATA-ATATATATTT
1 TAAATATATATGTATATATATATATATATATTT
*
4977636 TAAATTTATATGTATATATATATATATATAT
1 TAAATATATATGTATATATATATATATATAT
4977667 ATAATTAGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 13 0.46
32 7 0.25
33 8 0.29
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (33 bp):
TAAATATATATGTATATATATATATATATATTT
Found at i:4979244 original size:21 final size:21
Alignment explanation
Indices: 4979186--4979244 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
4979176 CTTTAAAAAA
*
4979186 TTAAAAATAATTAATAATTATCT
1 TTAAAAAT-TTTAA-AATTATCT
** *
4979209 TTAAAAATTAAAAAATTATTT
1 TTAAAAATTTTAAAATTATCT
*
4979230 TTAAAAGTTTTAAAA
1 TTAAAAATTTTAAAA
4979245 ATAAAAAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
21 19 0.66
22 2 0.07
23 8 0.28
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
TTAAAAATTTTAAAATTATCT
Found at i:4979542 original size:14 final size:15
Alignment explanation
Indices: 4979523--4979551 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4979513 TTAATTATAA
4979523 AATATAT-AAATATT
1 AATATATAAAATATT
4979537 AATATATAAAATATT
1 AATATATAAAATATT
4979552 TTTTAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATATATAAAATATT
Found at i:4980561 original size:16 final size:17
Alignment explanation
Indices: 4980538--4980587 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
4980528 ATTATAATTT
4980538 AAAT-TAATTATTT-TA
1 AAATATAATTATTTATA
4980553 AAATATAATTAATTTATA
1 AAATATAATT-ATTTATA
*
4980571 AACATATAAATATTTAT
1 AA-ATATAATTATTTAT
4980588 TTAAATTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 4 0.13
16 5 0.17
17 4 0.13
18 10 0.33
19 7 0.23
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
AAATATAATTATTTATA
Found at i:4981564 original size:18 final size:18
Alignment explanation
Indices: 4981510--4981564 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
4981500 TGTAAATAAA
* *
4981510 TATTTTATATTTTATAAAT
1 TATTTAATATTATA-AAAT
4981529 TATTTAATATCTATAAAAT
1 TATTTAATAT-TATAAAAT
4981548 TAATTTAA-ATTATAAAA
1 T-ATTTAATATTATAAAA
4981565 AAATTATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 7 0.22
19 16 0.50
20 9 0.28
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTTAATATTATAAAAT
Found at i:4981565 original size:19 final size:19
Alignment explanation
Indices: 4981525--4981564 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
4981515 TATATTTTAT
4981525 AAATTATTTAATATCTATA
1 AAATTATTTAATATCTATA
4981544 AAATTAATTTAA-AT-TATA
1 AAATT-ATTTAATATCTATA
4981562 AAA
1 AAA
4981565 AAATTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 7 0.35
20 6 0.30
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATTATTTAATATCTATA
Found at i:4982873 original size:19 final size:19
Alignment explanation
Indices: 4982846--4982884 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4982836 TTAAAAATAA
4982846 AATAATTTAAGAATTTTAT
1 AATAATTTAAGAATTTTAT
* *
4982865 AATATTTTAATAATTTTAT
1 AATAATTTAAGAATTTTAT
4982884 A
1 A
4982885 TTGATATTAT
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:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
AATAATTTAAGAATTTTAT
Found at i:4983263 original size:13 final size:13
Alignment explanation
Indices: 4983247--4983274 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4983237 AAATTAAAAT
4983247 TAAATTATTATAA
1 TAAATTATTATAA
4983260 TAAATTATTATAA
1 TAAATTATTATAA
4983273 TA
1 TA
4983275 TAATAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAAATTATTATAA
Found at i:4983264 original size:18 final size:18
Alignment explanation
Indices: 4983243--4983318 Score: 56
Period size: 18 Copynumber: 4.3 Consensus size: 18
4983233 TTTAAAATTA
4983243 AAATTAAATTATTATAAT
1 AAATTAAATTATTATAAT
4983261 AAATT--ATTATAATATAAT
1 AAATTAAATTAT--TATAAT
*
4983279 AAA--AAA-T-TTAAAATT
1 AAATTAAATTATTATAA-T
*
4983294 AAAATTAAAGTATTATAAT
1 -AAATTAAATTATTATAAT
4983313 AAATTA
1 AAATTA
4983319 TACGAAAGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 20
0.68 0.03 0.29
Matches are distributed among these distances:
14 4 0.09
15 1 0.02
16 9 0.20
17 1 0.02
18 24 0.52
19 2 0.04
20 5 0.11
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (18 bp):
AAATTAAATTATTATAAT
Found at i:4983294 original size:52 final size:52
Alignment explanation
Indices: 4983216--4983319 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
4983206 ATATATATGA
* *
4983216 TATAATTATAATTAAAATTTAAAATTAAAATTAAATTATTATAATAAATTAT
1 TATAATTATAATAAAAATTTAAAATTAAAATTAAAGTATTATAATAAATTAT
4983268 TATAA-TATAATAAAAAATTTAAAATTAAAATTAAAGTATTATAATAAATTAT
1 TATAATTATAAT-AAAAATTTAAAATTAAAATTAAAGTATTATAATAAATTAT
4983320 ACGAAAGATT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 6 0.12
52 43 0.88
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (52 bp):
TATAATTATAATAAAAATTTAAAATTAAAATTAAAGTATTATAATAAATTAT
Found at i:4983740 original size:13 final size:13
Alignment explanation
Indices: 4983722--4983841 Score: 55
Period size: 13 Copynumber: 9.8 Consensus size: 13
4983712 TTAATTTTAA
*
4983722 ATATGATATAATT
1 ATATGATATAAAT
4983735 ATATGATATAAAT
1 ATATGATATAAAT
* *
4983748 ATATTATAAAAAT
1 ATATGATATAAAT
4983761 A-AT--TAT-AAT
1 ATATGATATAAAT
4983770 ATA--ATATTAAAT
1 ATATGATA-TAAAT
4983782 ATA--ATATAAAAT
1 ATATGATAT-AAAT
*
4983794 AATACGATATAAA-
1 -ATATGATATAAAT
* * *
4983807 AAATAATAAAAAT
1 ATATGATATAAAT
*
4983820 ATAAT-ATATATAT
1 AT-ATGATATAAAT
4983833 ATAT-ATATA
1 ATATGATATA
4983842 TATGAATATA
Statistics
Matches: 86, Mismatches: 11, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
9 4 0.05
10 5 0.06
11 2 0.02
12 30 0.35
13 36 0.42
14 5 0.06
15 4 0.05
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.38
Consensus pattern (13 bp):
ATATGATATAAAT
Found at i:4983767 original size:17 final size:17
Alignment explanation
Indices: 4983742--4983792 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
4983732 ATTATATGAT
*
4983742 ATAAATATATTATAAAA
1 ATAAATATAATATAAAA
* *
4983759 ATAATTATAATATAATA
1 ATAAATATAATATAAAA
*
4983776 TTAAATATAATATAAAA
1 ATAAATATAATATAAAA
4983793 TAATACGATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
ATAAATATAATATAAAA
Found at i:4983795 original size:27 final size:27
Alignment explanation
Indices: 4983765--4983961 Score: 80
Period size: 27 Copynumber: 7.4 Consensus size: 27
4983755 AAAAATAATT
4983765 ATAATATAATATTAAATATAATATAAA
1 ATAATATAATATTAAATATAATATAAA
** * * *
4983792 ATAATACGATATAAAAAATAATAAAAA
1 ATAATATAATATTAAATATAATATAAA
* *
4983819 TATAATAT-ATA-TATATATATATATATGA
1 -ATAATATAATATTAAATATA-ATATA-AA
* *
4983847 AT-ATATCAAAATT-TATATAATATAAA
1 ATAATAT-AATATTAAATATAATATAAA
* * *
4983873 TTATTA-ATATATTAAA-AT-TTATATAA
1 ATAATATA-ATATTAAATATAATATA-AA
*
4983899 AT-ATATAATATTTTAAAAATAATTATAATA
1 ATAATATAATA--TTAAATATAA-TATAA-A
4983929 CATAA-A-AATA-TAAA-A-AATATAAA
1 -ATAATATAATATTAAATATAATATAAA
4983952 A-AATATAATA
1 ATAATATAATA
4983962 AAGATACACA
Statistics
Matches: 128, Mismatches: 21, Indels: 46
0.66 0.11 0.24
Matches are distributed among these distances:
21 2 0.02
22 2 0.02
23 5 0.04
24 5 0.04
25 12 0.09
26 22 0.17
27 48 0.38
28 17 0.13
29 2 0.02
30 9 0.07
31 3 0.02
32 1 0.01
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (27 bp):
ATAATATAATATTAAATATAATATAAA
Found at i:4983865 original size:32 final size:32
Alignment explanation
Indices: 4983826--4983905 Score: 106
Period size: 32 Copynumber: 2.4 Consensus size: 32
4983816 AAATATAATA
4983826 TATATATATATATATATATGAATATATCAAAATT
1 TATATA-ATATATAT-TATGAATATATCAAAATT
* * *
4983860 TATATAATATAAATTATTAATATATTAAAATT
1 TATATAATATATATTATGAATATATCAAAATT
4983892 TATATAAATATATA
1 TATAT-AATATATA
4983906 ATATTTTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
32 21 0.51
33 14 0.34
34 6 0.15
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (32 bp):
TATATAATATATATTATGAATATATCAAAATT
Found at i:4983905 original size:10 final size:10
Alignment explanation
Indices: 4983719--4983905 Score: 84
Period size: 10 Copynumber: 18.0 Consensus size: 10
4983709 AAATTAATTT
4983719 TAAATATGATA
1 TAAATAT-ATA
4983730 TAATTATATGATA
1 TAA--ATAT-ATA
4983743 TAAATATATTA
1 TAAATATA-TA
*
4983754 TAAAAATA-A
1 TAAATATATA
4983763 TTATAATATAATA
1 -TA-AATAT-ATA
4983776 TTAAATATAATA
1 -TAAATAT-ATA
4983788 TAAA-ATA-A
1 TAAATATATA
*
4983796 TACGATATA-A
1 TA-AATATATA
*
4983806 AAAATA-ATA
1 TAAATATATA
*
4983815 AAAATATA-A
1 TAAATATATA
*
4983824 TATATATATA
1 TAAATATATA
*
4983834 TATATATATA
1 TAAATATATA
*
4983844 TGAATATATCA
1 TAAATATAT-A
*
4983855 -AAATTTATA
1 TAAATATATA
*
4983864 TAATATAAATTA
1 TAA-ATATA-TA
*
4983876 TTAATATAT-
1 TAAATATATA
*
4983885 TAAAATTTATA
1 T-AAATATATA
4983896 TAAATATATA
1 TAAATATATA
4983906 ATATTTTAAA
Statistics
Matches: 140, Mismatches: 18, Indels: 37
0.72 0.09 0.19
Matches are distributed among these distances:
8 4 0.03
9 22 0.16
10 52 0.37
11 33 0.24
12 14 0.10
13 15 0.11
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (10 bp):
TAAATATATA
Found at i:4983944 original size:9 final size:9
Alignment explanation
Indices: 4983932--4983959 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
4983922 TATAATACAT
4983932 AAAAATATA
1 AAAAATATA
4983941 AAAAATATA
1 AAAAATATA
4983950 AAAAATATA
1 AAAAATATA
4983959 A
1 A
4983960 TAAAGATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAATATA
Found at i:4984182 original size:20 final size:21
Alignment explanation
Indices: 4984157--4984219 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 21
4984147 ATCGGTTAAA
4984157 TATATTTA-TATTTATT-TTAT
1 TATATTTATTA-TTATTATTAT
4984177 TATATTTATTATTATTATTAT
1 TATATTTATTATTATTATTAT
* *
4984198 T-TATTT-TTAAT-TTAATAT
1 TATATTTATTATTATTATTAT
4984216 TATA
1 TATA
4984220 AAAATATTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
18 7 0.18
19 6 0.16
20 18 0.47
21 7 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TATATTTATTATTATTATTAT
Found at i:4984295 original size:43 final size:41
Alignment explanation
Indices: 4984247--4984332 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 41
4984237 TAAAATAAAA
*
4984247 TTAGTATATAATAT-AAATATATATT-AAAAGTATATATTTGATT
1 TTAGTAAAT-ATATCAAATATATATTGAAAA-TATA-ATTT-ATT
4984290 TTAGTAAATATATCAAATATATATTGAAAATATAATTTATT
1 TTAGTAAATATATCAAATATATATTGAAAATATAATTTATT
4984331 TT
1 TT
4984333 TAAAGCATGA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
41 5 0.12
42 8 0.20
43 23 0.57
44 4 0.10
ACGTcount: A:0.47, C:0.01, G:0.06, T:0.47
Consensus pattern (41 bp):
TTAGTAAATATATCAAATATATATTGAAAATATAATTTATT
Found at i:4984935 original size:11 final size:11
Alignment explanation
Indices: 4984904--4984937 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
4984894 TAAAATCATG
4984904 TAAAATTTAT-
1 TAAAATTTATA
4984914 TAAAATATTATA
1 TAAAAT-TTATA
4984926 TAAAATTTATA
1 TAAAATTTATA
4984937 T
1 T
4984938 TTACAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.27
11 10 0.45
12 6 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TAAAATTTATA
Found at i:4985427 original size:18 final size:19
Alignment explanation
Indices: 4985382--4985427 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 19
4985372 TATATTTAAA
4985382 ATATTATATATTTATATTT
1 ATATTATATATTTATATTT
4985401 AT-TTATATA-TTATTAATTT
1 ATATTATATATTTA-T-ATTT
4985420 ATATTATA
1 ATATTATA
4985428 AAATTTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 3 0.12
18 8 0.33
19 8 0.33
20 5 0.21
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATATTATATATTTATATTT
Found at i:4985512 original size:39 final size:36
Alignment explanation
Indices: 4985441--4985512 Score: 83
Period size: 37 Copynumber: 1.9 Consensus size: 36
4985431 TTTTGAAACG
* *
4985441 TTTATATATTTATATTATATCATATTTTATTTATTT
1 TTTATATATTTATATTATATCACATTTAATTTATTT
4985477 TTTATTATATTTATATTGTATAATCACA-TTAATTTA
1 TTTA-TATATTTATA-T-TAT-ATCACATTTAATTTA
4985513 AAATTAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
36 4 0.13
37 10 0.33
38 1 0.03
39 10 0.33
40 5 0.17
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (36 bp):
TTTATATATTTATATTATATCACATTTAATTTATTT
Found at i:4985887 original size:23 final size:23
Alignment explanation
Indices: 4985859--4985902 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
4985849 GTTAATATAT
*
4985859 TATATTTTAT-ATGAAAATTTTTA
1 TATATTTAATAAT-AAAATTTTTA
4985882 TATATTTAATAATAAAATTTT
1 TATATTTAATAATAAAATTTT
4985903 GTTATGTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
TATATTTAATAATAAAATTTTTA
Found at i:4986234 original size:14 final size:15
Alignment explanation
Indices: 4986208--4986236 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4986198 TTCAGTAAGT
4986208 TAATTTCTTTTTAAA
1 TAATTTCTTTTTAAA
4986223 TAATTT-TTTTTAAA
1 TAATTTCTTTTTAAA
4986237 GAAAACTATA
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:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TAATTTCTTTTTAAA
Found at i:4986342 original size:19 final size:21
Alignment explanation
Indices: 4986318--4986365 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 21
4986308 TTTAAAATAT
*
4986318 AAAATAATAA-CTTAGATA-A
1 AAAATAATAATCTAAGATACA
4986337 AAAATAATAATTCTAAGATACA
1 AAAATAATAA-TCTAAGATACA
4986359 AAAATAA
1 AAAATAA
4986366 ATTAGATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 10 0.40
21 7 0.28
22 8 0.32
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.25
Consensus pattern (21 bp):
AAAATAATAATCTAAGATACA
Found at i:4987204 original size:16 final size:17
Alignment explanation
Indices: 4987175--4987215 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
4987165 AACTTTTAAC
*
4987175 TTTAATTTTGGTTGACT
1 TTTAGTTTTGGTTGACT
4987192 TTTAGTTTT-GTTGACT
1 TTTAGTTTTGGTTGACT
*
4987208 TTAAGTTT
1 TTTAGTTT
4987216 AATTTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.17, C:0.05, G:0.17, T:0.61
Consensus pattern (17 bp):
TTTAGTTTTGGTTGACT
Found at i:4995121 original size:19 final size:20
Alignment explanation
Indices: 4995062--4995121 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
4995052 ATTTTAAAAT
*
4995062 TTATAAATATGAAAACATGAA
1 TTATAAATATGAAAATAT-AA
*
4995083 TTACTTAATAT-AAAATTATAA
1 TTA-TAAATATGAAAA-TATAA
4995104 -TATAAATATGAAAATATA
1 TTATAAATATGAAAATATA
4995122 GATGACCTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
19 10 0.30
20 6 0.18
21 9 0.27
22 8 0.24
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (20 bp):
TTATAAATATGAAAATATAA
Found at i:4997058 original size:20 final size:20
Alignment explanation
Indices: 4997033--4997086 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
4997023 GTTACAAGCA
*
4997033 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
4997053 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
4997073 ATGTATCGATACAA
1 ATGTATCGATACAA
4997087 ACAGTGGTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:4997168 original size:19 final size:18
Alignment explanation
Indices: 4997114--4997171 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
4997104 ACTGCCAGTT
4997114 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
* *
4997133 TCCATGTATCCAAACAATG
1 T-CATGTATCGATACAATG
*
4997152 ATCATATATCGATACAATG
1 -TCATGTATCGATACAATG
4997171 T
1 T
4997172 ATCGATACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 1 0.03
19 17 0.53
20 14 0.44
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:4999716 original size:13 final size:13
Alignment explanation
Indices: 4999698--4999724 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4999688 ATCGTAACCC
4999698 ATGTATCGATACA
1 ATGTATCGATACA
4999711 ATGTATCGATACA
1 ATGTATCGATACA
4999724 A
1 A
4999725 GGAATGTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4999783 original size:20 final size:20
Alignment explanation
Indices: 4999758--4999841 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
4999748 GATTTTCTAG
4999758 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
*
4999778 ATGTATCAATACATTCTGGAAAATTTTCA
1 ATGTATCGATACATTC--------T-TCA
4999807 AATGTATCGATACATTCTTCA
1 -ATGTATCGATACATTCTTCA
4999828 ATGTATCGATACAT
1 ATGTATCGATACAT
4999842 CGATACTTCT
Statistics
Matches: 52, Mismatches: 2, Indels: 20
0.70 0.03 0.27
Matches are distributed among these distances:
20 29 0.56
21 3 0.06
22 1 0.02
28 1 0.02
29 3 0.06
30 15 0.29
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:5004356 original size:18 final size:18
Alignment explanation
Indices: 5004335--5004369 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5004325 TCCAAGCTAC
5004335 CATCATCATCATCATTAT
1 CATCATCATCATCATTAT
*
5004353 CATCTTCATCATCATTA
1 CATCATCATCATCATTA
5004370 ATGGTTAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (18 bp):
CATCATCATCATCATTAT
Found at i:5005991 original size:13 final size:13
Alignment explanation
Indices: 5005951--5006003 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
5005941 CCGTTACAAG
5005951 CAATGTATCGATA
1 CAATGTATCGATA
5005964 CAA--T-TCG-T-
1 CAATGTATCGATA
5005972 C-ATGTATCGATA
1 CAATGTATCGATA
5005984 CAATGTATCGATA
1 CAATGTATCGATA
5005997 CAATGTA
1 CAATGTA
5006004 CCATGTATCG
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 2 0.06
10 6 0.18
11 2 0.06
12 1 0.03
13 21 0.62
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:5005991 original size:33 final size:32
Alignment explanation
Indices: 5005951--5006019 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 32
5005941 CCGTTACAAG
5005951 CAATGTATCGATACAATTCGT-CATGTATCGATA
1 CAATGTATCGATACAA-T-GTACATGTATCGATA
5005984 CAATGTATCGATACAATGTACCATGTATCGATA
1 CAATGTATCGATACAATGTA-CATGTATCGATA
5006017 CAA
1 CAA
5006020 ATAGTGGTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
31 2 0.06
32 1 0.03
33 31 0.91
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.30
Consensus pattern (32 bp):
CAATGTATCGATACAATGTACATGTATCGATA
Found at i:5006092 original size:19 final size:18
Alignment explanation
Indices: 5006047--5006104 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
5006037 ACTGCTAGTT
5006047 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
5006066 TCCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
*
5006085 ATCATGTATCGATATAATG
1 -TCATGTATCGATACAATG
5006104 T
1 T
5006105 ATCGATACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.53
20 16 0.44
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:5006110 original size:32 final size:33
Alignment explanation
Indices: 5006069--5006131 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
5006059 ACAATTGTCC
* *
5006069 ATGTATCGATACAATG-ATCATGTATCGATATA
1 ATGTATCGATACAAAGCATAATGTATCGATATA
5006101 ATGTATCGATACAAAGCATAATGTATCGATA
1 ATGTATCGATACAAAGCATAATGTATCGATA
5006132 CATATGGGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAAAGCATAATGTATCGATATA
Found at i:5014799 original size:14 final size:13
Alignment explanation
Indices: 5014778--5014814 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
5014768 CTTTTTTGAA
*
5014778 AAAAAAAAAAACT
1 AAAAAAAAAAACC
5014791 AAAATAAAAAAACC
1 AAAA-AAAAAAACC
5014805 AAAAAAAAAA
1 AAAAAAAAAA
5014815 GAAAAGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.86, C:0.08, G:0.00, T:0.05
Consensus pattern (13 bp):
AAAAAAAAAAACC
Found at i:5014824 original size:29 final size:29
Alignment explanation
Indices: 5014776--5014832 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 29
5014766 TTCTTTTTTG
5014776 AAAAAAAAAAAAACTAAAATAA-AAAAACC
1 AAAAAAAAAAAAAC-AAAATAAGAAAAACC
5014805 AAAAAAAAAAGAAA-AGAAATAAGAAAAA
1 AAAAAAAAAA-AAACA-AAATAAGAAAAA
5014833 AACCCACTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 1 0.04
29 16 0.64
30 8 0.32
ACGTcount: A:0.84, C:0.05, G:0.05, T:0.05
Consensus pattern (29 bp):
AAAAAAAAAAAAACAAAATAAGAAAAACC
Found at i:5015904 original size:61 final size:61
Alignment explanation
Indices: 5015801--5016238 Score: 362
Period size: 61 Copynumber: 7.2 Consensus size: 61
5015791 AACCTTTTAT
* * * * * * *
5015801 CCTTCTAGTCTTTAAAAAGCAAGATGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTTAAAGAGCAAGACGACTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
5015862 CTTTTTAGTCCTGAAAGAGCAAGACGACTTTTCCTTTCAAAGCCTACACAAGTTAGTGGCA
1 CCTTTTAGTCCTTAAAGAGCAAGACGACTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * * ** *
5015923 CCTTTCAGTCCTCAAGGAGCAGGACGTCTTCTCCTTTTAAAACCTGCACAAGTTAGTGGCA
1 CCTTTTAGTCCTTAAAGAGCAAGACGACTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * * *
5015984 GTTTTTAGTCCTTAAAGAGCAAGAC-AC-TTTCCTTTCAAAGCCCATATAAGTTGGTGGCA
1 CCTTTTAGTCCTTAAAGAGCAAGACGACTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * ** *
5016043 CCTTTCAGTTCTTAAAGAGTAGGACGCCTTCCCCTTTTAAAGCCCAAACAAGTTGGTGGCA
1 CCTTTTAGTCCTTAAAGAGCAAGACGACTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
5016104 CCTTTTAGTCCTTAAAGACCAAGATGCCTTTTCTTTTTAAAGCCCACATAAGTTGGTGG-A
1 CCTTTTAGTCCTTAAAGAGCAAGACGACTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * ** * **
5016164 TTTTTTAGTCCTCAAAGAGCTGGAC-ACTTTCTTTTTTCTTTTAAAGCCCACACAAACTGGTGGC
1 CCTTTTAGTCCTTAAAGAGCAAGACGA----C-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
5016228 A
61 A
*
5016229 CCTTCTAGTC
1 CCTTTTAGTC
5016239 TTCAAAAAGC
Statistics
Matches: 293, Mismatches: 76, Indels: 12
0.77 0.20 0.03
Matches are distributed among these distances:
59 43 0.15
60 21 0.07
61 194 0.66
63 1 0.00
64 26 0.09
65 8 0.03
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (61 bp):
CCTTTTAGTCCTTAAAGAGCAAGACGACTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:5016079 original size:120 final size:121
Alignment explanation
Indices: 5015826--5016188 Score: 426
Period size: 120 Copynumber: 3.0 Consensus size: 121
5015816 AAAGCAAGAT
* * * *
5015826 GCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTGAAAGAGCAAGACGACT
1 GCCTTCCCCTTTTAAAACCCACACAAGTTGGTGGCACTTTTTAGTCCTTAAAGAGCAAGAC-ACT
* * * *
5015891 TTTCCTTTCAAAGCCTACACAAGTTAGTGGCACCTTTCAGTCCTCAAGGAGCAGGAC
65 TTTCCTTTCAAAGCCCACATAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC
* * ** * *
5015948 GTCTTCTCCTTTTAAAACCTGCACAAGTTAGTGGCAGTTTTTAGTCCTTAAAGAGCAAGACAC-T
1 GCCTTCCCCTTTTAAAACCCACACAAGTTGGTGGCACTTTTTAGTCCTTAAAGAGCAAGACACTT
* * * *
5016012 TTCCTTTCAAAGCCCATATAAGTTGGTGGCACCTTTCAGTTCTTAAAGAGTAGGAC
66 TTCCTTTCAAAGCCCACATAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC
* * * *
5016068 GCCTTCCCCTTTTAAAGCCCAAACAAGTTGGTGGCACCTTTTAGTCCTTAAAGACCAAGATGC-C
1 GCCTTCCCCTTTTAAAACCCACACAAGTTGGTGGCACTTTTTAGTCCTTAAAGAGCAAGA--CAC
* * ** * *
5016132 TTTTCTTTTTAAAGCCCACATAAGTTGGTGG-ATTTTTTAGTCCTCAAAGAGCTGGAC
64 TTTTCCTTTCAAAGCCCACATAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC
5016189 ACTTTCTTTT
Statistics
Matches: 202, Mismatches: 36, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
120 99 0.49
121 22 0.11
122 81 0.40
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (121 bp):
GCCTTCCCCTTTTAAAACCCACACAAGTTGGTGGCACTTTTTAGTCCTTAAAGAGCAAGACACTT
TTCCTTTCAAAGCCCACATAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC
Found at i:5016144 original size:181 final size:180
Alignment explanation
Indices: 5015839--5016194 Score: 406
Period size: 181 Copynumber: 2.0 Consensus size: 180
5015829 TTCTCTTTTT
* * **
5015839 AAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTGAAAGAGCAAGACGACTTTTCCTTTCAAAG
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTGAAAGAGCAAGACGACTTCCCCTTTCAAAG
* * * * * * **
5015904 CCTACACAAGTTAGTGGCACCTTTCAGTCCTCAAGGAGCAGGACGTCTTCTCCTTTTAAAACCTG
66 CCCAAACAAGTTAGTGGCACCTTTCAGTCCTCAAAGACCAAGACGCCTTCTCCTTTTAAAACCCA
*
5015969 CACAAGTTAGTGGCAGTTTTTAGTCCTTAAAGAGCAAGACACTTTCCTTTC
131 CACAAGTTAGTGG-AGTTTTTAGTCCTCAAAGAGCAAGACACTTTCCTTTC
* * * * * * * *
5016020 AAAGCCCATATAAGTTGGTGGCACCTTTCAGTTCTTAAAGAGTAGGACGCCTTCCCCTTTTAAAG
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTGAAAGAGCAAGACGACTTCCCCTTTCAAAG
* * * * * * *
5016085 CCCAAACAAGTTGGTGGCACCTTTTAGTCCTTAAAGACCAAGATGCCTTTTCTTTTTAAAGCCCA
66 CCCAAACAAGTTAGTGGCACCTTTCAGTCCTCAAAGACCAAGACGCCTTCTCCTTTTAAAACCCA
* * * **
5016150 CATAAGTTGGTGGATTTTTTAGTCCTCAAAGAGCTGGACACTTTC
131 CACAAGTTAGTGGAGTTTTTAGTCCTCAAAGAGCAAGACACTTTC
5016195 TTTTTTCTTT
Statistics
Matches: 142, Mismatches: 33, Indels: 1
0.81 0.19 0.01
Matches are distributed among these distances:
180 28 0.20
181 114 0.80
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (180 bp):
AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTGAAAGAGCAAGACGACTTCCCCTTTCAAAG
CCCAAACAAGTTAGTGGCACCTTTCAGTCCTCAAAGACCAAGACGCCTTCTCCTTTTAAAACCCA
CACAAGTTAGTGGAGTTTTTAGTCCTCAAAGAGCAAGACACTTTCCTTTC
Found at i:5016924 original size:20 final size:20
Alignment explanation
Indices: 5016877--5016932 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 20
5016867 GCTAAGTAAA
5016877 TGTATCGATACATACTTATAGT
1 TGTATCGATACAT--TTATAGT
*
5016899 TATATCGATACATTTATCA-T
1 TGTATCGATACATTTAT-AGT
5016919 TGTATCGATACATT
1 TGTATCGATACATT
5016933 CTAGGTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 18 0.58
21 1 0.03
22 12 0.39
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTTATAGT
Found at i:5019037 original size:31 final size:27
Alignment explanation
Indices: 5018983--5019038 Score: 67
Period size: 31 Copynumber: 1.9 Consensus size: 27
5018973 TTTTACCATC
*
5018983 GGGGATATCTAATCCTTTTATTTTTGA
1 GGGGATATCTAATCCTTTCATTTTTGA
5019010 GGGGATACTCTAACTCCAGTTTCATTTTT
1 GGGGATA-TCTAA-TCC--TTTCATTTTT
5019039 AAAATATCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 7 0.29
28 5 0.21
29 3 0.12
31 9 0.38
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.45
Consensus pattern (27 bp):
GGGGATATCTAATCCTTTCATTTTTGA
Found at i:5019172 original size:128 final size:128
Alignment explanation
Indices: 5019011--5019276 Score: 315
Period size: 128 Copynumber: 2.1 Consensus size: 128
5019001 TATTTTTGAG
* * * * * *
5019011 GGGATACTCTAACTCCAGTTTCATTTTTAAAATATCGATTTTTCATCATC-GGAGATACTCGCAC
1 GGGATACTCCAACTCCAGTTTCATTTTTAAAATATCAAATTTTCACCATCAAG-GATACTCGAAC
** * * ** * **
5019075 TTCGTTATTTTCGAGAA-GATGCTTCAACCTCGGTTTTATTTTTAAAATATCGATTTTTTTCCAT
65 CCCGTTATTTTCGA-AAGGATACTCCAACCTCAATTCTATTTTTAAAATATCGA-TTTTCACCAT
5019139 C
128 C
*
5019140 GGGATACTCCAAC-CCAG-TTCTATTTTTAAAATATCAAATTTTCACCATCAAGGATACTCTAAC
1 GGGATACTCCAACTCCAGTTTC-ATTTTTAAAATATCAAATTTTCACCATCAAGGATACTCGAAC
5019203 CCCGTTATTTTCGAAAGGATACTCCAACCTCAATTCTATTTTTAAAATATCGATTTTCACCATC
65 CCCGTTATTTTCGAAAGGATACTCCAACCTCAATTCTATTTTTAAAATATCGATTTTCACCATC
5019267 GAGGATACTC
1 G-GGATACTC
5019277 TAATCCTGTT
Statistics
Matches: 117, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
127 15 0.13
128 89 0.76
129 13 0.11
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.38
Consensus pattern (128 bp):
GGGATACTCCAACTCCAGTTTCATTTTTAAAATATCAAATTTTCACCATCAAGGATACTCGAACC
CCGTTATTTTCGAAAGGATACTCCAACCTCAATTCTATTTTTAAAATATCGATTTTCACCATC
Found at i:5019223 original size:78 final size:78
Alignment explanation
Indices: 5019141--5019362 Score: 329
Period size: 78 Copynumber: 2.8 Consensus size: 78
5019131 TTTTCCATCG
* *
5019141 GGATACTCCAACCCAGTTCTATTTTTAAAATATCAAATTTTCACCATCAAGGATACTCTAACCCC
1 GGATACTCCAACCCAATTCTATTTTTAAAATATCAAATTTTCACCATCGAGGATACTCTAACCCC
5019206 GTTATTTTCGAAA
66 GTTATTTTCGAAA
* *
5019219 GGATACTCCAACCTCAATTCTATTTTTAAAATATC-GATTTTCACCATCGAGGATACTCTAATCC
1 GGATACTCCAACC-CAATTCTATTTTTAAAATATCAAATTTTCACCATCGAGGATACTCTAACCC
* *
5019283 TGTTATTTTCGAGA
65 CGTTATTTTCGAAA
* * * * *
5019297 GGATACTCCAACCCATTTTTATTTCTAAAATATCAATTTTTCACCATCGGGGATACTCTAACCCC
1 GGATACTCCAACCCAATTCTATTTTTAAAATATCAAATTTTCACCATCGAGGATACTCTAACCCC
5019362 G
66 G
5019363 GTTTTATTTC
Statistics
Matches: 128, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
77 18 0.14
78 90 0.70
79 20 0.16
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (78 bp):
GGATACTCCAACCCAATTCTATTTTTAAAATATCAAATTTTCACCATCGAGGATACTCTAACCCC
GTTATTTTCGAAA
Found at i:5019351 original size:128 final size:129
Alignment explanation
Indices: 5019219--5019509 Score: 390
Period size: 129 Copynumber: 2.3 Consensus size: 129
5019209 ATTTTCGAAA
* **
5019219 GGATACTCCAACCTCAATTCTATTTTTAAAATATCGA-TTTTCACCATC-GAGGATACTCTAATC
1 GGATACTCCAACCCCAATTCTATTTCCAAAATATCGATTTTTCACCATCGGA-GATACTCTAA-C
* *
5019282 CTGTTATTTTCGAGAGGATACTCCAA-CCCATTTTTATTTCTAAAATATCAATTTTTCACCATCG
64 CCGTTATTTTCGAGAGGATACTCCAATCCCATTTTTATTTCCAAAATATCAATTTTTCACCATCG
5019346 G
129 G
* ** * * * *
5019347 GGATACTCTAACCCCGGTTTTATTTCCCAAATATCGATTTTTTACCATCGGAGATACTTTAACCC
1 GGATACTCCAACCCCAATTCTATTTCCAAAATATCGATTTTTCACCATCGGAGATACTCTAACCC
* *
5019412 GTTATTTTCGAGAGGATACTCCAATCCTATTTTTATTTCCAAAATATCAATTTTTCACTATCGG
66 GTTATTTTCGAGAGGATACTCCAATCCCATTTTTATTTCCAAAATATCAATTTTTCACCATCGG
* * *
5019476 GGATACTCCAACCCCATTTTTATCTCCAAAATAT
1 GGATACTCCAACCCCAATTCTATTTCCAAAATAT
5019510 TAAATTTTTC
Statistics
Matches: 141, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
128 55 0.39
129 84 0.60
130 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.37
Consensus pattern (129 bp):
GGATACTCCAACCCCAATTCTATTTCCAAAATATCGATTTTTCACCATCGGAGATACTCTAACCC
GTTATTTTCGAGAGGATACTCCAATCCCATTTTTATTTCCAAAATATCAATTTTTCACCATCGG
Found at i:5019360 original size:50 final size:50
Alignment explanation
Indices: 5019297--5019411 Score: 140
Period size: 51 Copynumber: 2.3 Consensus size: 50
5019287 ATTTTCGAGA
* * *
5019297 GGATACTCCAACCCATTTTTATTTCTAAAATATCAATTTTTCACCATCGG
1 GGATACTCTAACCCAGTTTTATTTCCAAAATATCAATTTTTCACCATCGG
* * * *
5019347 GGATACTCTAACCCCGGTTTTATTTCCCAAATATCGATTTTTTACCATCGG
1 GGATACTCTAA-CCCAGTTTTATTTCCAAAATATCAATTTTTCACCATCGG
* *
5019398 AGATACTTTAACCC
1 GGATACTCTAACCC
5019412 GTTATTTTCG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 13 0.24
51 42 0.76
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (50 bp):
GGATACTCTAACCCAGTTTTATTTCCAAAATATCAATTTTTCACCATCGG
Found at i:5019379 original size:51 final size:51
Alignment explanation
Indices: 5019313--5019411 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
5019303 TCCAACCCAT
* *
5019313 TTTTATTTCTAAAATATCAATTTTTCACCATCGGGGATACTCTAACCCCGG
1 TTTTATTTCCAAAATATCAATTTTTCACCATCGGAGATACTCTAACCCCGG
* * * *
5019364 TTTTATTTCCCAAATATCGATTTTTTACCATCGGAGATACTTTAACCC
1 TTTTATTTCCAAAATATCAATTTTTCACCATCGGAGATACTCTAACCC
5019412 GTTATTTTCG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.39
Consensus pattern (51 bp):
TTTTATTTCCAAAATATCAATTTTTCACCATCGGAGATACTCTAACCCCGG
Found at i:5019420 original size:206 final size:206
Alignment explanation
Indices: 5019033--5019488 Score: 510
Period size: 206 Copynumber: 2.2 Consensus size: 206
5019023 CTCCAGTTTC
* * * *
5019033 ATTTTTAAAATATCGATTTTTCATCATCGGAGATACTCGCACTTCGTTATTTTCGAGAAGATGCT
1 ATTTTTAAAATATCGATTTTTCACCATCGG-GATACTCGAACCTCGTTATTTTCGAGAAGATACT
* * * * **
5019098 TCAACCTCGGTTTTATTTTTAAAATATCGATTTTTTTCCATCGGGATACTCCAACCCAGTTCTAT
65 CCAACCTCAGTTTTATTTCTAAAATATCAATTTTTCACCATCGGGATACTCCAACCCAGTTCTAT
**
5019163 TTTTAAAATATCAAATTTTCACCATCAAGGATACTCTAACCCCGTTATTTTCGAAAGGATACTCC
130 TTCCAAAATATCAAATTTTCACCATCAAGGATACTCTAACCCCGTTATTTTCGAAAGGATACTCC
5019228 AA-CCTCAATTCT
195 AATCCT-AATTCT
* *
5019240 ATTTTTAAAATATCGA-TTTTCACCATCGAGGATACTCTAATCCT-GTTATTTTCGAGAGGATAC
1 ATTTTTAAAATATCGATTTTTCACCATCG-GGATACTCGAA-CCTCGTTATTTTCGAGAAGATAC
* * * *
5019303 TCCAACC-CATTTTTATTTCTAAAATATCAATTTTTCACCATCGGGGATACTCTAACCCCGGTTT
64 TCCAACCTCAGTTTTATTTCTAAAATATCAATTTTTCACCATC-GGGATACTCCAA-CCCAGTTC
* * * * * * *
5019367 TATTTCCCAAATATCGATTTTTTACCATC-GGAGATACTTTAA-CCCGTTATTTTCGAGAGGATA
127 TATTTCCAAAATATCAAATTTTCACCATCAAG-GATACTCTAACCCCGTTATTTTCGAAAGGATA
* *
5019430 CTCCAATCCTATTTTT
191 CTCCAATCCTAATTCT
** * * *
5019446 ATTTCCAAAATATCAATTTTTCACTATCGGGGATACTCCAACC
1 ATTTTTAAAATATCGATTTTTCACCATC-GGGATACTCGAACC
5019489 CCATTTTTAT
Statistics
Matches: 209, Mismatches: 32, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
205 29 0.14
206 99 0.47
207 80 0.38
208 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (206 bp):
ATTTTTAAAATATCGATTTTTCACCATCGGGATACTCGAACCTCGTTATTTTCGAGAAGATACTC
CAACCTCAGTTTTATTTCTAAAATATCAATTTTTCACCATCGGGATACTCCAACCCAGTTCTATT
TCCAAAATATCAAATTTTCACCATCAAGGATACTCTAACCCCGTTATTTTCGAAAGGATACTCCA
ATCCTAATTCT
Found at i:5019570 original size:129 final size:127
Alignment explanation
Indices: 5019291--5019572 Score: 297
Period size: 129 Copynumber: 2.2 Consensus size: 127
5019281 CCTGTTATTT
* *
5019291 TCGAGAGGATACTCCAACCC-ATTTTTATTTCTAAAATATCAATTTTTCACCATCGGGGATACTC
1 TCGAGAGGACACTCCAACCCTATTTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTC
* * * * * * **
5019355 TAACCCCGGTTTTATTTCCCAAATATCGATTTTTTACCATCGGAGATACTTTAACCCGTTATTT
66 CAACCCCAGTTTTATCTCCAAAATATCAAATTTTTA-CATCGGAGATACTTTAACCCG-TATAC
* * *
5019419 TCGAGAGGATACTCCAATCCTATTTTTATTTCCAAAATATCAATTTTTCACTATCGGGGATACTC
1 TCGAGAGGACACTCCAACCCTATTTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTC
* *
5019484 CAACCCCATTTTTATCTCCAAAATATTAAATTTTT-CATCAGGA-A-ACGTATTCCAACCC-TAT
66 CAACCCCAGTTTTATCTCCAAAATATCAAATTTTTACATC-GGAGATAC-T-TT--AACCCGTAT
5019545 AC
126 AC
*
5019547 TC-AGAGGGAACACTCTAACCCTATTT
1 TCGAGA-GG-ACACTCCAACCCTATTT
5019573 CTTTTCAAAT
Statistics
Matches: 130, Mismatches: 16, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
126 2 0.02
127 9 0.07
128 31 0.24
129 83 0.64
130 5 0.04
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (127 bp):
TCGAGAGGACACTCCAACCCTATTTTTATTTCCAAAATATCAATTTTTCACCATCGGGGATACTC
CAACCCCAGTTTTATCTCCAAAATATCAAATTTTTACATCGGAGATACTTTAACCCGTATAC
Done.