Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 26 of 143
Found at i:7778480 original size:9 final size:9
Alignment explanation
Indices: 7778466--7778499 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
7778456 GAAAGAAAAA
7778466 GGAAGAAGG
1 GGAAGAAGG
7778475 GGAAGAAGG
1 GGAAGAAGG
*
7778484 AGAAGAAGG
1 GGAAGAAGG
7778493 GGAAGAA
1 GGAAGAA
7778500 AGAGAAAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (9 bp):
GGAAGAAGG
Found at i:7778488 original size:18 final size:18
Alignment explanation
Indices: 7778463--7778505 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
7778453 AAAGAAAGAA
7778463 AAAG-GAAGAAGGGGAAG
1 AAAGAGAAGAAGGGGAAG
*
7778480 AAGGAGAAGAAGGGGAAG
1 AAAGAGAAGAAGGGGAAG
7778498 AAAGAGAA
1 AAAGAGAA
7778506 AGAAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (18 bp):
AAAGAGAAGAAGGGGAAG
Found at i:7778895 original size:20 final size:21
Alignment explanation
Indices: 7778854--7778898 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
7778844 TAATTTACTT
7778854 TAATTTAATTTTGCTAGTTAG
1 TAATTTAATTTTGCTAGTTAG
* *
7778875 TAATTTTATTTTG-TTGTTAG
1 TAATTTAATTTTGCTAGTTAG
7778895 TAAT
1 TAAT
7778899 AGTAAGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (21 bp):
TAATTTAATTTTGCTAGTTAG
Found at i:7779030 original size:95 final size:95
Alignment explanation
Indices: 7778856--7779123 Score: 365
Period size: 95 Copynumber: 2.9 Consensus size: 95
7778846 ATTTACTTTA
7778856 ATTT-AATTTTGCTAGTTAGTAATTTTATTTTGTTG-T--TAGTAATAGTAAGTAAAAAATATTG
1 ATTTAAATTTTGCTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAATAGTAAGTAAAAAATATTG
* *
7778917 TTAAGATTTATTGATTTAAAATTTAATAAT
66 TTCATATTTATTGATTTAAAATTTAATAAT
* * *
7778947 ATTTAAATTTTGCTAGTTAATAATTTTATTTTGTTGTTAGTAGTAATAGTAAGTAAAAAACATTA
1 ATTTAAATTTTGCTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAATAGTAAGTAAAAAATATTG
* *
7779012 TTCATACTTATTAATTTAAAATTTAATAAT
66 TTCATATTTATTGATTTAAAATTTAATAAT
* ***
7779042 GTTTAAAAAAAT--TAGTTAGTAATTTTATTTTGTTGTTAGTAG---TAGTAAGTAAAAAATATT
1 ATTT-AAATTTTGCTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAATAGTAAGTAAAAAATATT
7779102 GTTCATATTTATTGATTTAAAA
65 GTTCATATTTATTGATTTAAAA
7779124 AATAATATAA
Statistics
Matches: 156, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
91 40 0.26
92 30 0.19
93 1 0.01
94 29 0.19
95 52 0.33
96 4 0.03
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (95 bp):
ATTTAAATTTTGCTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAATAGTAAGTAAAAAATATTG
TTCATATTTATTGATTTAAAATTTAATAAT
Found at i:7781885 original size:4 final size:4
Alignment explanation
Indices: 7781876--7781914 Score: 60
Period size: 4 Copynumber: 9.5 Consensus size: 4
7781866 ATACACATTA
*
7781876 TCTT TCTT TCTT CTCCT TCTT TCTT TCTT TCTT TCTT TC
1 TCTT TCTT TCTT -TCTT TCTT TCTT TCTT TCTT TCTT TC
7781915 CCATTTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 29 0.91
5 3 0.09
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
TCTT
Found at i:7794430 original size:23 final size:23
Alignment explanation
Indices: 7794404--7794448 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7794394 AACATTTTGT
*
7794404 ATTT-GAACTTGACATTTTTTTTA
1 ATTTAGAACTT-AAATTTTTTTTA
*
7794427 ATTTAGTACTTAAATTTTTTTT
1 ATTTAGAACTTAAATTTTTTTT
7794449 GATCCAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.60
Consensus pattern (23 bp):
ATTTAGAACTTAAATTTTTTTTA
Found at i:7794530 original size:29 final size:29
Alignment explanation
Indices: 7794441--7794587 Score: 84
Period size: 29 Copynumber: 4.9 Consensus size: 29
7794431 AGTACTTAAA
* *
7794441 TTTTTTTTGATCCAATTTGGTACATGAAC
1 TTTTTTTTGACCCAATTTGGTACCTGAAC
* * * *
7794470 TTGACATTTTTT--CCTAATTTGATATCTAAAC
1 TT----TTTTTTGACCCAATTTGGTACCTGAAC
7794501 TTTTTTTTGACCCAATTTGGTACCTGAAC
1 TTTTTTTTGACCCAATTTGGTACCTGAAC
** * *
7794530 TTGGCATTTTTTTTCCTAATTTGGTATCT-AAC
1 TT----TTTTTTGACCCAATTTGGTACCTGAAC
**
7794562 TTTTTTTTAGATTCAATTTGGTACCT
1 TTTTTTTT-GACCCAATTTGGTACCT
7794588 AAATTTATTA
Statistics
Matches: 87, Mismatches: 20, Indels: 22
0.67 0.16 0.17
Matches are distributed among these distances:
27 6 0.07
28 6 0.07
29 30 0.34
31 15 0.17
32 5 0.06
33 25 0.29
ACGTcount: A:0.22, C:0.16, G:0.12, T:0.50
Consensus pattern (29 bp):
TTTTTTTTGACCCAATTTGGTACCTGAAC
Found at i:7794551 original size:62 final size:60
Alignment explanation
Indices: 7794407--7794587 Score: 228
Period size: 62 Copynumber: 3.0 Consensus size: 60
7794397 ATTTTGTATT
* *
7794407 TGAACTTGACATTTTTT-TTAATTT-AGTA-CTTAAA-TTTTTTTTGATCCAATTTGGTACA
1 TGAACTTGACATTTTTTCCTAATTTGA-TATC-TAAACTTTTTTTTGATCCAATTTGGTACC
*
7794465 TGAACTTGACATTTTTTCCTAATTTGATATCTAAACTTTTTTTTGACCCAATTTGGTACC
1 TGAACTTGACATTTTTTCCTAATTTGATATCTAAACTTTTTTTTGATCCAATTTGGTACC
* * *
7794525 TGAACTTGGCATTTTTTTTCCTAATTTGGTATCT-AACTTTTTTTTAGATTCAATTTGGTACC
1 TGAACTTGACA--TTTTTTCCTAATTTGATATCTAAACTTTTTTTT-GATCCAATTTGGTACC
7794587 T
1 T
7794588 AAATTTATTA
Statistics
Matches: 109, Mismatches: 7, Indels: 10
0.87 0.06 0.08
Matches are distributed among these distances:
58 17 0.16
59 12 0.11
60 34 0.31
61 11 0.10
62 35 0.32
ACGTcount: A:0.24, C:0.14, G:0.11, T:0.50
Consensus pattern (60 bp):
TGAACTTGACATTTTTTCCTAATTTGATATCTAAACTTTTTTTTGATCCAATTTGGTACC
Found at i:7794749 original size:29 final size:30
Alignment explanation
Indices: 7794716--7794781 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
7794706 TTATACTTAA
* *
7794716 CAAATTAATAATAAAAA-AAGATTAGGTAC
1 CAAATTAAGAAAAAAAACAAGATTAGGTAC
* *
7794745 CAAATTAGGAAAAAAAATCAAGTTTAGGTAC
1 CAAATTAAGAAAAAAAA-CAAGATTAGGTAC
7794776 CAAATT
1 CAAATT
7794782 GGACCTCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 14 0.45
31 17 0.55
ACGTcount: A:0.55, C:0.09, G:0.12, T:0.24
Consensus pattern (30 bp):
CAAATTAAGAAAAAAAACAAGATTAGGTAC
Found at i:7803163 original size:23 final size:23
Alignment explanation
Indices: 7803119--7803163 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7803109 AATATATAAA
**
7803119 TTATATATTTAATTTTGTAATAG
1 TTATATATTTAATTTTAAAATAG
7803142 TTATAT-TTTAATATTTAAAATA
1 TTATATATTTAAT-TTTAAAATA
7803164 TAGTTTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (23 bp):
TTATATATTTAATTTTAAAATAG
Found at i:7807114 original size:19 final size:20
Alignment explanation
Indices: 7807079--7807116 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7807069 CCTATATTAT
7807079 CATCAATTACAGAAATTTAA
1 CATCAATTACAGAAATTTAA
*
7807099 CATCAATTTC-GAAATTTA
1 CATCAATTACAGAAATTTA
7807117 TGCACTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (20 bp):
CATCAATTACAGAAATTTAA
Found at i:7815692 original size:20 final size:22
Alignment explanation
Indices: 7815648--7815698 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 22
7815638 TTTTATTATT
*
7815648 TATTTTT-ATTTTATTATTTGC
1 TATTTTTAATTTAATTATTTGC
7815669 -ATTTTTAATTTAATT-TTT-C
1 TATTTTTAATTTAATTATTTGC
7815688 TA-TTTTAATTT
1 TATTTTTAATTT
7815699 TTTCCCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 10 0.37
20 10 0.37
21 7 0.26
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.71
Consensus pattern (22 bp):
TATTTTTAATTTAATTATTTGC
Found at i:7821174 original size:11 final size:11
Alignment explanation
Indices: 7821158--7821203 Score: 60
Period size: 10 Copynumber: 4.3 Consensus size: 11
7821148 TCATGTTTTT
7821158 AAAAAAATTGAA
1 AAAAAAATTG-A
7821170 AAAAAAATT-A
1 AAAAAAATTGA
*
7821180 AAAAAATTTG-
1 AAAAAAATTGA
7821190 AAAAAAATTGA
1 AAAAAAATTGA
7821201 AAA
1 AAA
7821204 GTTCAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
10 18 0.60
11 3 0.10
12 9 0.30
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.20
Consensus pattern (11 bp):
AAAAAAATTGA
Found at i:7821175 original size:12 final size:12
Alignment explanation
Indices: 7821158--7821196 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
7821148 TCATGTTTTT
7821158 AAAAAAATTGAA
1 AAAAAAATTGAA
7821170 AAAAAAATT--A
1 AAAAAAATTGAA
*
7821180 AAAAAATTTGAA
1 AAAAAAATTGAA
7821192 AAAAA
1 AAAAA
7821197 TTGAAAAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 9 0.38
12 15 0.62
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (12 bp):
AAAAAAATTGAA
Found at i:7821182 original size:21 final size:22
Alignment explanation
Indices: 7821156--7821196 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
7821146 TTTCATGTTT
7821156 TTAAAAAAA-TTGAAAAAAAAA
1 TTAAAAAAATTTGAAAAAAAAA
7821177 TTAAAAAAATTTGAAAAAAA
1 TTAAAAAAATTTGAAAAAAA
7821197 TTGAAAAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (22 bp):
TTAAAAAAATTTGAAAAAAAAA
Found at i:7821248 original size:17 final size:17
Alignment explanation
Indices: 7821222--7821264 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
7821212 AAAAAAGTTT
*
7821222 ATTTTCATTTTTAATTTA
1 ATTTTAATTTTT-ATTTA
7821240 A-TTTAATTTTTATTTA
1 ATTTTAATTTTTATTTA
7821256 ATTTTAATT
1 ATTTTAATT
7821265 ATGCACTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 6 0.26
17 16 0.70
18 1 0.04
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTTAATTTTTATTTA
Found at i:7821256 original size:11 final size:11
Alignment explanation
Indices: 7821231--7821264 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
7821221 TATTTTCATT
7821231 TTTAA-TTTAA
1 TTTAATTTTAA
*
7821241 TTTAATTTTTA
1 TTTAATTTTAA
7821252 TTTAATTTTAA
1 TTTAATTTTAA
7821263 TT
1 TT
7821265 ATGCACTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTAATTTTAA
Found at i:7822229 original size:17 final size:18
Alignment explanation
Indices: 7822183--7822229 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
7822173 TATTATTTAA
7822183 AAAAAGAAAAAAAAAGTCG
1 AAAAA-AAAAAAAAAGTCG
**
7822202 AAAAATGAAAAAAA-TCG
1 AAAAAAAAAAAAAAGTCG
7822219 AAAAAAAAAAA
1 AAAAAAAAAAA
7822230 TTCAGAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 12 0.50
18 7 0.29
19 5 0.21
ACGTcount: A:0.79, C:0.04, G:0.11, T:0.06
Consensus pattern (18 bp):
AAAAAAAAAAAAAAGTCG
Found at i:7822239 original size:17 final size:15
Alignment explanation
Indices: 7822189--7822239 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 15
7822179 TTAAAAAAAG
*
7822189 AAAAAAAAAGTCGAA
1 AAAAAAAAAATCGAA
7822204 AAATGAAAAAAATCGAA
1 AAA--AAAAAAATCGAA
*
7822221 AAAAAAAAATTCAGAA
1 AAAAAAAAAATC-GAA
7822237 AAA
1 AAA
7822240 GAAGAAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 11 0.35
16 6 0.19
17 14 0.45
ACGTcount: A:0.75, C:0.06, G:0.10, T:0.10
Consensus pattern (15 bp):
AAAAAAAAAATCGAA
Found at i:7825639 original size:23 final size:25
Alignment explanation
Indices: 7825612--7825657 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
7825602 CTAATTAGGG
7825612 AATTA-TTGTTTAG-ATTTAATTCT
1 AATTATTTGTTTAGAATTTAATTCT
*
7825635 AATTATTTTTTTAGAATTTAATT
1 AATTATTTGTTTAGAATTTAATT
7825658 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 8 0.40
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.59
Consensus pattern (25 bp):
AATTATTTGTTTAGAATTTAATTCT
Found at i:7827716 original size:19 final size:20
Alignment explanation
Indices: 7827692--7827730 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
7827682 ACAAAAAAAG
7827692 TAAGATTTTCA-TTATTATT
1 TAAGATTTTCAGTTATTATT
*
7827711 TAAGATTTTTAGTTATTATT
1 TAAGATTTTCAGTTATTATT
7827731 ATTTAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.59
Consensus pattern (20 bp):
TAAGATTTTCAGTTATTATT
Found at i:7830321 original size:18 final size:18
Alignment explanation
Indices: 7830298--7830332 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7830288 ACCTTGATAA
* *
7830298 CAAGTCTGTGAGCTCACT
1 CAAGTCTATGAACTCACT
7830316 CAAGTCTATGAACTCAC
1 CAAGTCTATGAACTCAC
7830333 CAAATGTGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (18 bp):
CAAGTCTATGAACTCACT
Found at i:7830398 original size:17 final size:18
Alignment explanation
Indices: 7830354--7830402 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
7830344 GTTTTACAAA
*
7830354 ACTGCGAGCTAACTCAAG
1 ACTGCGAGCTCACTCAAG
* *
7830372 AATGCTAGCTCAC-CAAG
1 ACTGCGAGCTCACTCAAG
7830389 ACTGCGAGCTCACT
1 ACTGCGAGCTCACT
7830403 AAAGGTGCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (18 bp):
ACTGCGAGCTCACTCAAG
Found at i:7833722 original size:49 final size:48
Alignment explanation
Indices: 7833549--7834301 Score: 542
Period size: 49 Copynumber: 15.6 Consensus size: 48
7833539 AGATTCACCT
* * *
7833549 TTGCGGCTTCAACCTTTCCCTCA-ATACTCTAGGGTTCAAGATTCGCCG
1 TTGCGGCTTCAACCTTTCCCTCATAT-CTCTAAGGTACAAGGTTCGCCG
* * ** ** * *
7833597 TTACGGCTTCAATCTTTCCCTCCATA-CT-TTGGTGTTTAAGATTCGTCG
1 TTGCGGCTTCAACCTTTCCCT-CATATCTCTAAG-GTACAAGGTTCGCCG
* * * * * *
7833645 TTGCAGCTTCAATCTTTCCCATCACATCTCTAAGGTATAAGGTTCACCA
1 TTGCGGCTTCAACCTTTCCC-TCATATCTCTAAGGTACAAGGTTCGCCG
* * * * *
7833694 TCGCGGCTTCAACCTTTCCCATCACATCTCTAAGGTATAAGGTTCACCA
1 TTGCGGCTTCAACCTTTCCC-TCATATCTCTAAGGTACAAGGTTCGCCG
* * * **
7833743 TCGCGGCTTCAACCTTTCCCTC-TATACTCTAGGGTACAAGATTTACCG
1 TTGCGGCTTCAACCTTTCCCTCATAT-CTCTAAGGTACAAGGTTCGCCG
* * * *
7833791 TTGCGGCTTCAATCTTTCGCATCACATCTCAAAGGTACAAGGTT---C-
1 TTGCGGCTTCAACCTTTC-CCTCATATCTCTAAGGTACAAGGTTCGCCG
* * * *
7833836 --GCAGCTTCAACCTTTCCCTCCATATCTCTATGGTACAAGATTCACCG
1 TTGCGGCTTCAACCTTTCCCT-CATATCTCTAAGGTACAAGGTTCGCCG
* * * * *
7833883 TTGCGGTTTCAATCTTTCCCATCATACCTCTAAGGTATAAGGTTCGTCG
1 TTGCGGCTTCAACCTTTCCC-TCATATCTCTAAGGTACAAGGTTCGCCG
* * * * * *
7833932 TTGTGACTTCAACCTTTCCCTCCATA-CTTTAAGGTACAAGATTTGTCG
1 TTGCGGCTTCAACCTTTCCCT-CATATCTCTAAGGTACAAGGTTCGCCG
* * * * * * * *
7833980 TTTCGACTTCAATCTTTCTCATCACATCTCTAGGGTATAAGGTTCGCTG
1 TTGCGGCTTCAACCTTTC-CCTCATATCTCTAAGGTACAAGGTTCGCCG
* * * *
7834029 TTGCGGCTTCAACCTTTCTCTCCATATCCCTAAGGTACAAGGTTTGTCG
1 TTGCGGCTTCAACCTTTCCCT-CATATCTCTAAGGTACAAGGTTCGCCG
* * * *
7834078 TTGCAGCTTCAACCTTTCCCTTCACATCTCTAGGGTACAAGATTCGCCG
1 TTGCGGCTTCAACCTTTCCC-TCATATCTCTAAGGTACAAGGTTCGCCG
* * * *
7834127 TTGCGACTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTCGCCG
1 TTGCGGCTTCAACCTTTCCCT-CATATCTCTAAGGTACAAGGTTCGCCG
* * * * * **
7834176 TTGCGGCTTCAATCTTTCTCATCATATGTCTAAGGTATAAGGTCCTTCG
1 TTGCGGCTTCAACCTTTC-CCTCATATCTCTAAGGTACAAGGTTCGCCG
* * *
7834225 TTGCGG-TTCAACCTTTCCCTCCATATCTCTAGGGTATC-AGATTCGCCA
1 TTGCGGCTTCAACCTTTCCCT-CATATCTCTAAGGTA-CAAGGTTCGCCG
* * *
7834273 TTGCGACTTTAATCTTTCCCTTCATATCT
1 TTGCGGCTTCAACCTTTCCC-TCATATCT
7834302 TCAGGGTATA
Statistics
Matches: 561, Mismatches: 116, Indels: 55
0.77 0.16 0.08
Matches are distributed among these distances:
42 2 0.00
43 32 0.06
46 2 0.00
47 7 0.01
48 162 0.29
49 346 0.62
50 10 0.02
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (48 bp):
TTGCGGCTTCAACCTTTCCCTCATATCTCTAAGGTACAAGGTTCGCCG
Found at i:7833750 original size:146 final size:146
Alignment explanation
Indices: 7833538--7834316 Score: 601
Period size: 146 Copynumber: 5.4 Consensus size: 146
7833528 TTAGGGACGT
* *
7833538 AAGATTCACCTTTGCGGCTTCAACCTTTCCCTCA-ATACTCTAGGGT-TCAAGATTCGCCGTTAC
1 AAGATTCACCGTTGCGGCTTCAACCTTTCCCTCACAT-CTCTAGGGTAT-AAGATTCGCCGTTGC
** ** *
7833601 GGCTTCAATCTTTCCCTCCATA-CT-TTGGTGTTTAAGATTCGTCGTTGCAGCTTCAATCTTTCC
64 GGCTTCAATCTTTCCCTCCATACCTCTAAG-GTACAAGATTCGTCGTTGCAGCTTCAACCTTTCC
*
7833664 CATCACATCTCTAAGGTAT
128 CATCACATCTCTAAGGTAC
* * * * * * * *
7833683 AAGGTTCACCATCGCGGCTTCAACCTTTCCCATCACATCTCTAAGGTATAAGGTTCACCATCGCG
1 AAGATTCACCGTTGCGGCTTCAACCTTTCCC-TCACATCTCTAGGGTATAAGATTCGCCGTTGCG
* * * *** * * *
7833748 GCTTCAACCTTTCCCTCTATA-CTCTAGGGTACAAGATTTACCGTTGCGGCTTCAATCTTTCGCA
65 GCTTCAATCTTTCCCTCCATACCTCTAAGGTACAAGATTCGTCGTTGCAGCTTCAACCTTTCCCA
*
7833812 TCACATCTCAAAGGTAC
130 TCACATCTCTAAGGTAC
* * * * * *
7833829 AAGGTT---C---GCAGCTTCAACCTTTCCCTCCATATCTCTATGGTACAAGATTCACCGTTGCG
1 AAGATTCACCGTTGCGGCTTCAACCTTTCCCT-CACATCTCTAGGGTATAAGATTCGCCGTTGCG
* * * *
7833888 GTTTCAATCTTTCCCAT-CATACCTCTAAGGTATAAGGTTCGTCGTTG-TGACTTCAACCTTTCC
65 GCTTCAATCTTTCCC-TCCATACCTCTAAGGTACAAGATTCGTCGTTGCAG-CTTCAACCTTTCC
*
7833951 C-TC-CATACTTTAAGGTAC
128 CATCACAT-CTCTAAGGTAC
*** * * * * * *
7833969 AAGATTTGTCGTTTCGACTTCAATCTTTCTCATCACATCTCTAGGGTATAAGGTTCGCTGTTGCG
1 AAGATTCACCGTTGCGGCTTCAACCTTTC-CCTCACATCTCTAGGGTATAAGATTCGCCGTTGCG
* * * *
7834034 GCTTCAACCTTTCTCTCCATATCC-CTAAGGTACAAGGTTTGTCGTTGCAGCTTCAACCTTTCCC
65 GCTTCAATCTTTCCCTCCATA-CCTCTAAGGTACAAGATTCGTCGTTGCAGCTTCAACCTTTCCC
* *
7834098 TTCACATCTCTAGGGTAC
129 ATCACATCTCTAAGGTAC
* * * * * *
7834116 AAGATTCGCCGTTGCGACTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTCGCCGTTGCG
1 AAGATTCACCGTTGCGGCTTCAACCTTTCCCT-CACATCTCTAGGGTATAAGATTCGCCGTTGCG
* ** * * * * *
7834181 GCTTCAATCTTTCTCAT-CATATGTCTAAGGTATAAGGTCCTTCGTTGC-GGTTCAACCTTTCCC
65 GCTTCAATCTTTC-CCTCCATACCTCTAAGGTACAAGATTCGTCGTTGCAGCTTCAACCTTTCCC
* *
7834244 -TCCATATCTCTAGGGTATC
129 AT-CACATCTCTAAGGTA-C
* * * * * *
7834263 -AGATTCGCCATTGCGACTTTAATCTTTCCCTTCATATCT-TCAGGGTATAAGATT
1 AAGATTCACCGTTGCGGCTTCAACCTTTCCC-TCACATCTCT-AGGGTATAAGATT
7834317 TAACATTTCC
Statistics
Matches: 516, Mismatches: 90, Indels: 55
0.78 0.14 0.08
Matches are distributed among these distances:
139 4 0.01
140 76 0.15
141 32 0.06
143 2 0.00
145 30 0.06
146 257 0.50
147 111 0.22
148 4 0.01
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.34
Consensus pattern (146 bp):
AAGATTCACCGTTGCGGCTTCAACCTTTCCCTCACATCTCTAGGGTATAAGATTCGCCGTTGCGG
CTTCAATCTTTCCCTCCATACCTCTAAGGTACAAGATTCGTCGTTGCAGCTTCAACCTTTCCCAT
CACATCTCTAAGGTAC
Found at i:7833944 original size:189 final size:189
Alignment explanation
Indices: 7833549--7834301 Score: 679
Period size: 195 Copynumber: 3.9 Consensus size: 189
7833539 AGATTCACCT
* * * * * *
7833549 TTGCGGCTTCAACCTTTCCCTCAATACTCTAGGGTTCAAGATTCGCCGTTACGGCTTCAATCTTT
1 TTGCGACTTCAACCTTTCCCTCCATACTCTAAGGTACAAGATTTGCCGTTGCGGCTTCAATCTTT
* ** * * * *
7833614 C-CCTC-CATACT-TTGGTGTTTAAGATTCGTCGTTGCAGCTTCAATCTTTCCCAT-CACATCTC
66 CTCATCACAT-CTCTAAG-GTATAAG----GT--TCGCAGCTTCAACCTTTCCC-TCCATATCTC
* * * *
7833675 TAAGGTATAAGGTTCACCATCGCGGCTTCAACCTTTCCCATCACATCTCTAAGGTATAAGGTTCA
122 TAAGGTACAAGATTCACCATTGCGGCTTCAACCTTTCCCATCACATCTCTAAGGTATAAGGTTCG
*
7833740 CCA
187 CCG
* * * * *
7833743 TCGCGGCTTCAACCTTTCCCTCTATACTCTAGGGTACAAGATTTACCGTTGCGGCTTCAATCTTT
1 TTGCGACTTCAACCTTTCCCTCCATACTCTAAGGTACAAGATTTGCCGTTGCGGCTTCAATCTTT
* * * *
7833808 CGCATCACATCTCAAAGGTACAAGGTTCGCAGCTTCAACCTTTCCCTCCATATCTCTATGGTACA
66 CTCATCACATCTCTAAGGTATAAGGTTCGCAGCTTCAACCTTTCCCTCCATATCTCTAAGGTACA
* * * * * *
7833873 AGATTCACCGTTGCGGTTTCAATCTTTCCCATCATACCTCTAAGGTATAAGGTTCGTCG
131 AGATTCACCATTGCGGCTTCAACCTTTCCCATCACATCTCTAAGGTATAAGGTTCGCCG
* * * * *
7833932 TTGTGACTTCAACCTTTCCCTCCATACTTTAAGGTACAAGATTTGTCGTTTCGACTTCAATCTTT
1 TTGCGACTTCAACCTTTCCCTCCATACTCTAAGGTACAAGATTTGCCGTTGCGGCTTCAATCTTT
* * * *
7833997 CTCATCACATCTCTAGGGTATAAGGTTCGCTGTTGCGGCTTCAACCTTTCTCTCCATATCCCTAA
66 CTCATCACATCTCTAAGGTATAAGGTT--C----GCAGCTTCAACCTTTCCCTCCATATCTCTAA
* *** * * * * * *
7834062 GGTACAAGGTTTGTCGTTGCAGCTTCAACCTTTCCCTTCACATCTCTAGGGTACAAGATTCGCCG
125 GGTACAAGATTCACCATTGCGGCTTCAACCTTTCCCATCACATCTCTAAGGTATAAGGTTCGCCG
* * *
7834127 TTGCGACTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTCGCCGTTGCGGCTTCAATCTT
1 TTGCGACTTCAACCTTTCCCTCCATA-CTCTAAGGTACAAGATTTGCCGTTGCGGCTTCAATCTT
* * ** *
7834192 TCTCATCATATGTCTAAGGTATAAGGTCCTTCGTTGCGGTTCAACCTTTCCCTCCATATCTCTAG
65 TCTCATCACATCTCTAAGGTATAAGG---TTCGCAGC--TTCAACCTTTCCCTCCATATCTCTAA
* * * * * *
7834257 GGTATC-AGATTCGCCATTGCGACTTTAATCTTTCCCTTCATATCT
125 GGTA-CAAGATTCACCATTGCGGCTTCAACCTTTCCCATCACATCT
7834302 TCAGGGTATA
Statistics
Matches: 458, Mismatches: 84, Indels: 33
0.80 0.15 0.06
Matches are distributed among these distances:
188 1 0.00
189 159 0.35
191 3 0.01
193 3 0.01
194 60 0.13
195 170 0.37
196 59 0.13
197 1 0.00
199 2 0.00
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (189 bp):
TTGCGACTTCAACCTTTCCCTCCATACTCTAAGGTACAAGATTTGCCGTTGCGGCTTCAATCTTT
CTCATCACATCTCTAAGGTATAAGGTTCGCAGCTTCAACCTTTCCCTCCATATCTCTAAGGTACA
AGATTCACCATTGCGGCTTCAACCTTTCCCATCACATCTCTAAGGTATAAGGTTCGCCG
Found at i:7834130 original size:98 final size:98
Alignment explanation
Indices: 7833549--7834301 Score: 708
Period size: 97 Copynumber: 7.8 Consensus size: 98
7833539 AGATTCACCT
* * * * *
7833549 TTGCGGCTTCAACCTTTCCCTCAATA-CTCTAGGGTTCAAGATTCGCCGTTACGGCTTCAATCTT
1 TTGCGGCTTCAACCTTTCCCTCCATATCTCTAAGGTACAAGATTTGCCGTTGCGGCTTCAATCTT
** * * *
7833613 TCCC-TC-CATACT-TTGGTGTTTAAGATTCGTCG
66 TCCCATCACAT-CTCTAAG-GTATAAGGTTCGCCG
* * * * * ** * * *
7833645 TTGCAGCTTCAATCTTTCCCAT-CACATCTCTAAGGTATAAGGTTCACCATCGCGGCTTCAACCT
1 TTGCGGCTTCAACCTTTCCC-TCCATATCTCTAAGGTACAAGATTTGCCGTTGCGGCTTCAATCT
* *
7833709 TTCCCATCACATCTCTAAGGTATAAGGTTCACCA
65 TTCCCATCACATCTCTAAGGTATAAGGTTCGCCG
* * * *
7833743 TCGCGGCTTCAACCTTTCCCTCTATA-CTCTAGGGTACAAGATTTACCGTTGCGGCTTCAATCTT
1 TTGCGGCTTCAACCTTTCCCTCCATATCTCTAAGGTACAAGATTTGCCGTTGCGGCTTCAATCTT
* * *
7833807 TCGCATCACATCTCAAAGGTACAAGGTT---C-
66 TCCCATCACATCTCTAAGGTATAAGGTTCGCCG
* * ** *
7833836 --GCAGCTTCAACCTTTCCCTCCATATCTCTATGGTACAAGATTCACCGTTGCGGTTTCAATCTT
1 TTGCGGCTTCAACCTTTCCCTCCATATCTCTAAGGTACAAGATTTGCCGTTGCGGCTTCAATCTT
* * *
7833899 TCCCATCATACCTCTAAGGTATAAGGTTCGTCG
66 TCCCATCACATCTCTAAGGTATAAGGTTCGCCG
* * * * * *
7833932 TTGTGACTTCAACCTTTCCCTCCATA-CTTTAAGGTACAAGATTTGTCGTTTCGACTTCAATCTT
1 TTGCGGCTTCAACCTTTCCCTCCATATCTCTAAGGTACAAGATTTGCCGTTGCGGCTTCAATCTT
* * *
7833996 TCTCATCACATCTCTAGGGTATAAGGTTCGCTG
66 TCCCATCACATCTCTAAGGTATAAGGTTCGCCG
* * * * * *
7834029 TTGCGGCTTCAACCTTTCTCTCCATATCCCTAAGGTACAAGGTTTGTCGTTGCAGCTTCAACCTT
1 TTGCGGCTTCAACCTTTCCCTCCATATCTCTAAGGTACAAGATTTGCCGTTGCGGCTTCAATCTT
* * * *
7834094 TCCCTTCACATCTCTAGGGTACAAGATTCGCCG
66 TCCCATCACATCTCTAAGGTATAAGGTTCGCCG
* * * *
7834127 TTGCGACTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTCGCCGTTGCGGCTTCAATCTT
1 TTGCGGCTTCAACCTTTCCCTCCATATCTCTAAGGTACAAGATTTGCCGTTGCGGCTTCAATCTT
* * * * **
7834192 TCTCATCATATGTCTAAGGTATAAGGTCCTTCG
66 TCCCATCACATCTCTAAGGTATAAGGTTCGCCG
* * * * *
7834225 TTGCGG-TTCAACCTTTCCCTCCATATCTCTAGGGTATC-AGATTCGCCATTGCGACTTTAATCT
1 TTGCGGCTTCAACCTTTCCCTCCATATCTCTAAGGTA-CAAGATTTGCCGTTGCGGCTTCAATCT
* *
7834288 TTCCCTTCATATCT
65 TTCCCATCACATCT
7834302 TCAGGGTATA
Statistics
Matches: 536, Mismatches: 106, Indels: 29
0.80 0.16 0.04
Matches are distributed among these distances:
91 22 0.04
92 58 0.11
94 1 0.00
95 1 0.00
96 20 0.04
97 232 0.43
98 197 0.37
99 5 0.01
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (98 bp):
TTGCGGCTTCAACCTTTCCCTCCATATCTCTAAGGTACAAGATTTGCCGTTGCGGCTTCAATCTT
TCCCATCACATCTCTAAGGTATAAGGTTCGCCG
Found at i:7835187 original size:47 final size:48
Alignment explanation
Indices: 7835136--7835226 Score: 123
Period size: 47 Copynumber: 1.9 Consensus size: 48
7835126 TCCTCTCTTT
*
7835136 TTTTAAGATGCCT-TTTAAGGGTTTTCATCTCGA-CCTCTTTTTTAGGA
1 TTTTAAGAT-CCTCTTCAAGGGTTTTCATCTCGACCCTCTTTTTTAGGA
** *
7835183 TTTTAAGATCCTCTTCGTGGGTTTTCATCTTGACCCTCTTTTTT
1 TTTTAAGATCCTCTTCAAGGGTTTTCATCTCGACCCTCTTTTTT
7835227 TAAGTGAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
46 3 0.08
47 25 0.66
48 10 0.26
ACGTcount: A:0.15, C:0.20, G:0.15, T:0.49
Consensus pattern (48 bp):
TTTTAAGATCCTCTTCAAGGGTTTTCATCTCGACCCTCTTTTTTAGGA
Found at i:7849860 original size:33 final size:33
Alignment explanation
Indices: 7849823--7849913 Score: 121
Period size: 33 Copynumber: 2.8 Consensus size: 33
7849813 TGGTCCTGCC
* *
7849823 ATGGTCTCACATTCATAATGCCATAACCCGGTT
1 ATGGTCTAACATTCAAAATGCCATAACCCGGTT
* * *
7849856 ATGGTCTTACATTCAGAATGCCAAAACCCGGTT
1 ATGGTCTAACATTCAAAATGCCATAACCCGGTT
7849889 ATGGTCTTAACA-TCAAAATGCCATA
1 ATGGTC-TAACATTCAAAATGCCATA
7849914 GCCTAACTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
33 47 0.92
34 4 0.08
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (33 bp):
ATGGTCTAACATTCAAAATGCCATAACCCGGTT
Found at i:7849925 original size:33 final size:33
Alignment explanation
Indices: 7849888--7849963 Score: 116
Period size: 33 Copynumber: 2.3 Consensus size: 33
7849878 AAAACCCGGT
*
7849888 TATGGTCTTAACATCAAAATGCCATAGCCTAAC
1 TATGGTCTTAACATCAAAATGCCATAGCCCAAC
* * *
7849921 TATGGTCATATCATCAAAATGCCATATCCCAAC
1 TATGGTCTTAACATCAAAATGCCATAGCCCAAC
7849954 TATGGTCTTA
1 TATGGTCTTA
7849964 CGTATATACA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (33 bp):
TATGGTCTTAACATCAAAATGCCATAGCCCAAC
Found at i:7857630 original size:35 final size:35
Alignment explanation
Indices: 7857591--7857661 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
7857581 AACATAATAT
7857591 ATTTTATTTAACTTGACTTGCAAACAATCTCTTAA
1 ATTTTATTTAACTTGACTTGCAAACAATCTCTTAA
* * *
7857626 ATTTTATTTAATTTGATTTGCAAACAATTTCTTAA
1 ATTTTATTTAACTTGACTTGCAAACAATCTCTTAA
7857661 A
1 A
7857662 GTCACGCAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (35 bp):
ATTTTATTTAACTTGACTTGCAAACAATCTCTTAA
Found at i:7860606 original size:66 final size:65
Alignment explanation
Indices: 7860494--7860621 Score: 175
Period size: 65 Copynumber: 2.0 Consensus size: 65
7860484 AAAATAAAAT
* * * *
7860494 ATATTAAATTTTGAATAGGAAAAAAGAATTTTTTTAACTACGGTTTATAATTTGTGTAAACTAAA
1 ATATTAAAATTTGAAAAAGAAAAAAGAATTTTTTTAACTACGGTTTATAATTTGGGTAAACTAAA
** * *
7860559 ATATTAAAATTTGAAAAAGAAATTAGAGTTTTTTCTAATTACGGTTTATAATTTGGGTAAACT
1 ATATTAAAATTTGAAAAAGAAAAAAGAATTTTTT-TAACTACGGTTTATAATTTGGGTAAACT
7860622 GTATCCTGCT
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
65 28 0.52
66 26 0.48
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (65 bp):
ATATTAAAATTTGAAAAAGAAAAAAGAATTTTTTTAACTACGGTTTATAATTTGGGTAAACTAAA
Found at i:7862630 original size:11 final size:11
Alignment explanation
Indices: 7862616--7862648 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
7862606 TCTAAGAAGA
7862616 TAAATATAAAT
1 TAAATATAAAT
*
7862627 TAAATACAAAT
1 TAAATATAAAT
7862638 TAAATATAAAT
1 TAAATATAAAT
7862649 AATATTCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAATATAAAT
Found at i:7865241 original size:25 final size:23
Alignment explanation
Indices: 7865213--7865258 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
7865203 GTTGGATCTA
7865213 AATTAAATTCTAAAAAGATAATTTG
1 AATTAAA-TCTAAAAA-ATAATTTG
*
7865238 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
7865259 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTTG
Found at i:7867799 original size:24 final size:24
Alignment explanation
Indices: 7867771--7867831 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
7867761 AGAAATAATC
7867771 TTTCAGTTAAACTCTATTTATTTG
1 TTTCAGTTAAACTCTATTTATTTG
*
7867795 TTTCAATTAAACTCTATTTATTTG
1 TTTCAGTTAAACTCTATTTATTTG
* *
7867819 TTTGAGTCAAACT
1 TTTCAGTTAAACT
7867832 TTTATTACTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (24 bp):
TTTCAGTTAAACTCTATTTATTTG
Found at i:7869804 original size:24 final size:24
Alignment explanation
Indices: 7869753--7869807 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
7869743 TCTTTCAGTT
* * *
7869753 AAACTCTGTTTATTTGTTTTAATT
1 AAACTCTATTTATTTGTTTGAATC
*
7869777 AAACTCTATTTATTTGTTTGAGTC
1 AAACTCTATTTATTTGTTTGAATC
7869801 AAACTCT
1 AAACTCT
7869808 TATTATTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.27, C:0.13, G:0.09, T:0.51
Consensus pattern (24 bp):
AAACTCTATTTATTTGTTTGAATC
Found at i:7869813 original size:24 final size:24
Alignment explanation
Indices: 7869753--7869814 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
7869743 TCTTTCAGTT
* *
7869753 AAACTCTGT-TTATTTGTTTTAATT
1 AAACTCT-TATTATTTGTTTGAATC
*
7869777 AAACTC-TATTTATTTGTTTGAGTC
1 AAACTCTTA-TTATTTGTTTGAATC
7869801 AAACTCTTATTATT
1 AAACTCTTATTATT
7869815 ATTTGACTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
22 1 0.03
24 29 0.91
25 2 0.06
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.53
Consensus pattern (24 bp):
AAACTCTTATTATTTGTTTGAATC
Found at i:7870532 original size:31 final size:31
Alignment explanation
Indices: 7870497--7870561 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
7870487 ATTGTATAAG
7870497 TTTTATTTGCACCAAAATCAAATATTGAATT
1 TTTTATTTGCACCAAAATCAAATATTGAATT
7870528 TTTTATTTGCACCAAAATCAAATATTGAATT
1 TTTTATTTGCACCAAAATCAAATATTGAATT
7870559 TTT
1 TTT
7870562 CTGTAGCATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (31 bp):
TTTTATTTGCACCAAAATCAAATATTGAATT
Found at i:7870884 original size:21 final size:21
Alignment explanation
Indices: 7870860--7870899 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7870850 TAATGTCATA
* *
7870860 TTAGTATTTTTATCCTGAATT
1 TTAGCATTTTCATCCTGAATT
*
7870881 TTAGCATTTTCATCTTGAA
1 TTAGCATTTTCATCCTGAA
7870900 AAAAATCAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.10, T:0.53
Consensus pattern (21 bp):
TTAGCATTTTCATCCTGAATT
Found at i:7874185 original size:29 final size:30
Alignment explanation
Indices: 7874145--7874205 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
7874135 TAAATTTAAA
* *
7874145 AAAAAATAAAAAA-TATATAAATTATTTTT
1 AAAAAATAAAAAACTATAAAAAATATTTTT
* *
7874174 AAAAAATTAAAAACTTTAAAAAATATTTTT
1 AAAAAATAAAAAACTATAAAAAATATTTTT
7874204 AA
1 AA
7874206 TTTTTAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (30 bp):
AAAAAATAAAAAACTATAAAAAATATTTTT
Found at i:7875001 original size:62 final size:62
Alignment explanation
Indices: 7874910--7875034 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
7874900 TTTATCAAAC
7874910 ATAATAATAGATAAACGATGTGATATCATGAAGTTGACATTATTAATATGTTTAATGAAAAA
1 ATAATAATAGATAAACGATGTGATATCATGAAGTTGACATTATTAATATGTTTAATGAAAAA
*
7874972 ATAATAATAGATAAACGATGTGATGTCATGAAGTTGACATTATTAATATGTTTAATGAAAAA
1 ATAATAATAGATAAACGATGTGATATCATGAAGTTGACATTATTAATATGTTTAATGAAAAA
7875034 A
1 A
7875035 AAGTTGTTAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.34
Consensus pattern (62 bp):
ATAATAATAGATAAACGATGTGATATCATGAAGTTGACATTATTAATATGTTTAATGAAAAA
Found at i:7879141 original size:50 final size:50
Alignment explanation
Indices: 7879070--7879165 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 50
7879060 AAAATAAAAT
* *
7879070 ATCTGAACAAAACAATATAAATAAATATTTATGTTTAACTAAAACACCAA
1 ATCTAAACAAAACAATATAAATAAATATTTATATTTAACTAAAACACCAA
**
7879120 ATCTAAACAAAACAA-ATTAAATAAATATTTATATTTATTTAAAACA
1 ATCTAAACAAAACAATA-TAAATAAATATTTATATTTAACTAAAACA
7879166 TTAGATTTGC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 1 0.02
50 40 0.98
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.31
Consensus pattern (50 bp):
ATCTAAACAAAACAATATAAATAAATATTTATATTTAACTAAAACACCAA
Found at i:7881482 original size:42 final size:40
Alignment explanation
Indices: 7881426--7881534 Score: 116
Period size: 37 Copynumber: 2.7 Consensus size: 40
7881416 TTATGCTTTA
* * *
7881426 TCGAGTCATAAGTCTTCCTTTTACCATATTCTCATTCTCATC
1 TCGAGACATGAGTCTTCCTTTT--CATAATCTCATTCTCATC
* *
7881468 TCGAGACATGAGTC-T--TATTCATAATCTCATTCTCATT
1 TCGAGACATGAGTCTTCCTTTTCATAATCTCATTCTCATC
*
7881505 TCGAGAAATGAGTCTTCCTTATTCATAATC
1 TCGAGACATGAGTCTTCCTT-TTCATAATC
7881535 CCATGCTTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
37 29 0.52
38 1 0.02
39 3 0.05
40 1 0.02
41 10 0.18
42 12 0.21
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (40 bp):
TCGAGACATGAGTCTTCCTTTTCATAATCTCATTCTCATC
Found at i:7881557 original size:41 final size:41
Alignment explanation
Indices: 7881481--7881561 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
7881471 AGACATGAGT
* * *
7881481 CTTATTCATAATCTCATTCTCATTTCGAGAAATGAGTCTTC
1 CTTATTCATAATCCCATGCTCATTCCGAGAAATGAGTCTTC
* **
7881522 CTTATTCATAATCCCATGCTTATTCCGAGTTATGAGTCTT
1 CTTATTCATAATCCCATGCTCATTCCGAGAAATGAGTCTT
7881562 TTGTTTTACA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.42
Consensus pattern (41 bp):
CTTATTCATAATCCCATGCTCATTCCGAGAAATGAGTCTTC
Found at i:7882173 original size:16 final size:15
Alignment explanation
Indices: 7882126--7882173 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
7882116 AATTTAATTT
*
7882126 TTTATTTATATTGTTT
1 TTTATTTATATT-TTA
7882142 TTTATTTCAT-TTTTA
1 TTTATTT-ATATTTTA
7882157 TTTATTTATGATTTTA
1 TTTATTTAT-ATTTTA
7882173 T
1 T
7882174 ATAAATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 2 0.07
15 9 0.32
16 15 0.54
17 2 0.07
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (15 bp):
TTTATTTATATTTTA
Found at i:7883410 original size:30 final size:29
Alignment explanation
Indices: 7883362--7883521 Score: 115
Period size: 30 Copynumber: 5.3 Consensus size: 29
7883352 ATGTTTTGAT
* *
7883362 CCTAAATCTTCTAAAAATTTAAATTTAAC
1 CCTAAATTTTCCAAAAATTTAAATTTAAC
* * *
7883391 CCTAAATTTTCCAAAAAATTCAGAATTGACC
1 CCTAAATTTTCC-AAAAATTTA-AATTTAAC
* * * ***
7883422 CCTAAACTCTCTAAAAATTTTGTTTTAAC
1 CCTAAATTTTCCAAAAATTTAAATTTAAC
* * *
7883451 TCTCAAAATTTCCAAAAATTTAAATTTTACC
1 CCT-AAATTTTCCAAAAATTTAAA-TTTAAC
*
7883482 CCAAAATTTTCCAAAAATTCT-AATTTAACC
1 CCTAAATTTTCCAAAAATT-TAAATTTAA-C
*
7883512 CCTAATTTTT
1 CCTAAATTTT
7883522 TTGAAAATTC
Statistics
Matches: 97, Mismatches: 28, Indels: 11
0.71 0.21 0.08
Matches are distributed among these distances:
29 20 0.21
30 55 0.57
31 22 0.23
ACGTcount: A:0.40, C:0.21, G:0.02, T:0.38
Consensus pattern (29 bp):
CCTAAATTTTCCAAAAATTTAAATTTAAC
Found at i:7883483 original size:60 final size:60
Alignment explanation
Indices: 7883362--7883512 Score: 148
Period size: 60 Copynumber: 2.5 Consensus size: 60
7883352 ATGTTTTGAT
*
7883362 CCTAAATCTTCTAAAAATTTAAATTTAACCCTAAATTTTCCAAAAAATTCAGAATTGACC
1 CCTAAATCTTCTAAAAATTTAAATTTAACCCTAAAATTTCCAAAAAATTCAGAATTGACC
*** * * *
7883422 CCTAAA-CTCTCTAAAAATTTTGTTTTAACTCTCAAAATTTCC-AAAAATTTA-AATTTTACC
1 CCTAAATCT-TCTAAAAATTTAAATTTAACCCT-AAAATTTCCAAAAAATTCAGAA-TTGACC
* * *
7883482 CCAAAATTTTCCAAAAATTCT-AATTTAACCC
1 CCTAAATCTTCTAAAAATT-TAAATTTAACCC
7883513 CTAATTTTTT
Statistics
Matches: 73, Mismatches: 13, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
59 4 0.05
60 59 0.81
61 10 0.14
ACGTcount: A:0.41, C:0.21, G:0.02, T:0.36
Consensus pattern (60 bp):
CCTAAATCTTCTAAAAATTTAAATTTAACCCTAAAATTTCCAAAAAATTCAGAATTGACC
Found at i:7883530 original size:90 final size:91
Alignment explanation
Indices: 7883330--7883516 Score: 231
Period size: 90 Copynumber: 2.1 Consensus size: 91
7883320 ATTATTTTTG
* * * * * *
7883330 ACCCCCAAACTTTCTAAAAATTATGTTTTGA-TC-CTAAATCTTCTAAAAATTTAAATTTAACCC
1 ACCCCTAAACTCTCTAAAAATTTTGTTTTAACTCTCAAAATCTTCCAAAAATTTAAATTTAACCC
* *
7883393 TAAATTTTCCAAAAAATTCAGAATTG
66 AAAATTTTCCAAAAAATTCAGAATTA
*
7883419 ACCCCTAAACTCTCTAAAAATTTTGTTTTAACTCTCAAAAT-TTCCAAAAATTTAAATTTTACCC
1 ACCCCTAAACTCTCTAAAAATTTTGTTTTAACTCTCAAAATCTTCCAAAAATTTAAA-TTTAACC
*
7883483 CAAAATTTTCC-AAAAATTCTA-ATTTA
65 CAAAATTTTCCAAAAAATTC-AGAATTA
7883509 ACCCCTAA
1 ACCCCTAA
7883517 TTTTTTTGAA
Statistics
Matches: 84, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
89 27 0.32
90 35 0.42
91 22 0.26
ACGTcount: A:0.40, C:0.21, G:0.03, T:0.36
Consensus pattern (91 bp):
ACCCCTAAACTCTCTAAAAATTTTGTTTTAACTCTCAAAATCTTCCAAAAATTTAAATTTAACCC
AAAATTTTCCAAAAAATTCAGAATTA
Found at i:7883539 original size:90 final size:91
Alignment explanation
Indices: 7883365--7883540 Score: 196
Period size: 90 Copynumber: 1.9 Consensus size: 91
7883355 TTTTGATCCT
* * *
7883365 AAATCTTCTAAAAATTTAAATTTAACCCTAAATTTTCCAAAAAATTCAGAATTGACCCCTAAACT
1 AAATCTTCCAAAAATTTAAATTTAACCCAAAATTTTCCAAAAAATTCAGAATTAACCCCTAAACT
** *
7883430 CTCTAAAAATTTTGTTTTAACTCTCA
66 CTCTAAAAATTCCGATTTAACTCTCA
* * *
7883456 AAAT-TTCCAAAAATTTAAATTTTACCCCAAAATTTTCC-AAAAATTCTA-ATTTAACCCCTAAT
1 AAATCTTCCAAAAATTTAAA-TTTAACCCAAAATTTTCCAAAAAATTC-AGAATTAACCCCTAAA
* * * *
7883518 TTTTTTGAAAATTCCGATTTAAC
64 CTCTCTAAAAATTCCGATTTAAC
7883541 CCCTGATTTT
Statistics
Matches: 70, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
90 49 0.70
91 21 0.30
ACGTcount: A:0.40, C:0.19, G:0.03, T:0.38
Consensus pattern (91 bp):
AAATCTTCCAAAAATTTAAATTTAACCCAAAATTTTCCAAAAAATTCAGAATTAACCCCTAAACT
CTCTAAAAATTCCGATTTAACTCTCA
Found at i:7883561 original size:31 final size:30
Alignment explanation
Indices: 7883494--7883558 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
7883484 AAAATTTTCC
*
7883494 AAAAATTCTAATTTAACCCCTAATTTTTTT
1 AAAAATTCCAATTTAACCCCTAATTTTTTT
* * *
7883524 GAAAATTCCGATTTAACCCCTGATTTTTTT
1 AAAAATTCCAATTTAACCCCTAATTTTTTT
7883554 AAAAA
1 AAAAA
7883559 ATTTGATCTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.42
Consensus pattern (30 bp):
AAAAATTCCAATTTAACCCCTAATTTTTTT
Found at i:7884664 original size:17 final size:17
Alignment explanation
Indices: 7884642--7884674 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7884632 CTCCTTCGTG
7884642 AGGTTTTCACCTCCATT
1 AGGTTTTCACCTCCATT
7884659 AGGTTTTCACCTCCAT
1 AGGTTTTCACCTCCAT
7884675 GCAGGATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.30, G:0.12, T:0.39
Consensus pattern (17 bp):
AGGTTTTCACCTCCATT
Found at i:7894734 original size:21 final size:22
Alignment explanation
Indices: 7894708--7894757 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
7894698 ACTTTAGCAA
*
7894708 TTTTTAATCAATATTTGCTAT-
1 TTTTTAATCAACATTTGCTATC
* *
7894729 TTTTT-ACCAACATTTGTTATC
1 TTTTTAATCAACATTTGCTATC
7894750 TTTTTAAT
1 TTTTTAAT
7894758 GATTGATGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 12 0.52
21 10 0.43
22 1 0.04
ACGTcount: A:0.26, C:0.12, G:0.04, T:0.58
Consensus pattern (22 bp):
TTTTTAATCAACATTTGCTATC
Found at i:7895459 original size:40 final size:40
Alignment explanation
Indices: 7895391--7895599 Score: 205
Period size: 39 Copynumber: 5.3 Consensus size: 40
7895381 TACAACTCCA
*
7895391 AATCTTTTACCCTAACCA-GAGGGTAGATTGAAGACCATCC
1 AATCTTTTACCCTAACCATG-GGGCAGATTGAAGACCATCC
* * *
7895431 GATCTTTTACCTTGACCATGGGGCAGATTGAAGTA--ATCC
1 AATCTTTTACCCTAACCATGGGGCAGATTGAAG-ACCATCC
* *
7895470 AATCTTTTACCCTAACTATAGGGCAGATTGAAGACCATCC
1 AATCTTTTACCCTAACCATGGGGCAGATTGAAGACCATCC
* * * * *
7895510 GATCTTTTGCCCTAACCATGGGACAAATTGAAG-CAATCC
1 AATCTTTTACCCTAACCATGGGGCAGATTGAAGACCATCC
* * * * *
7895549 AATCTTTTATCCTAACTA-GAGGGTAGATTG-AGACAATCT
1 AATCTTTTACCCTAACCATG-GGGCAGATTGAAGACCATCC
7895588 AATCTTTTACCC
1 AATCTTTTACCC
7895600 CTAAAGTTAT
Statistics
Matches: 138, Mismatches: 25, Indels: 13
0.78 0.14 0.07
Matches are distributed among these distances:
38 4 0.03
39 74 0.54
40 58 0.42
41 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (40 bp):
AATCTTTTACCCTAACCATGGGGCAGATTGAAGACCATCC
Found at i:7895603 original size:79 final size:79
Alignment explanation
Indices: 7895391--7895599 Score: 294
Period size: 79 Copynumber: 2.7 Consensus size: 79
7895381 TACAACTCCA
* * * *
7895391 AATCTTTTACCCTAACCAGAGGGTAGATTGAAGACCATCCGATCTTTTACCTTGACCATGGGGCA
1 AATCTTTTACCCTAACTAGAGGGTAGATTGAAGACCATCCGATCTTTTACCCTAACCATGGGACA
* *
7895456 GATTGAAGTAATCC
66 AATTGAAGCAATCC
* * *
7895470 AATCTTTTACCCTAACTATAGGGCAGATTGAAGACCATCCGATCTTTTGCCCTAACCATGGGACA
1 AATCTTTTACCCTAACTAGAGGGTAGATTGAAGACCATCCGATCTTTTACCCTAACCATGGGACA
7895535 AATTGAAGCAATCC
66 AATTGAAGCAATCC
* * **
7895549 AATCTTTTATCCTAACTAGAGGGTAGATTG-AGACAATCTAATCTTTTACCC
1 AATCTTTTACCCTAACTAGAGGGTAGATTGAAGACCATCCGATCTTTTACCC
7895600 CTAAAGTTAT
Statistics
Matches: 114, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
78 17 0.15
79 97 0.85
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (79 bp):
AATCTTTTACCCTAACTAGAGGGTAGATTGAAGACCATCCGATCTTTTACCCTAACCATGGGACA
AATTGAAGCAATCC
Found at i:7896538 original size:13 final size:13
Alignment explanation
Indices: 7896499--7896540 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
7896489 TTAAGGTATA
7896499 TTATTT-TATATT
1 TTATTTATATATT
* *
7896511 CTATTTATCTATT
1 TTATTTATATATT
*
7896524 TTATTTATATTTT
1 TTATTTATATATT
7896537 TTAT
1 TTAT
7896541 CTTTCGAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTTATATATT
Found at i:7897257 original size:30 final size:29
Alignment explanation
Indices: 7897209--7897277 Score: 86
Period size: 30 Copynumber: 2.4 Consensus size: 29
7897199 TCTTGTCATA
* * *
7897209 TTTT-AAAATTGTTTTTGACCTCTAAATT
1 TTTTAAAAATTATTTTTGACCCCTAAATC
7897237 TTTTAAAAATTATGTTTTGACCCCTAAATC
1 TTTTAAAAATTAT-TTTTGACCCCTAAATC
*
7897267 TTTCAAAAATT
1 TTTTAAAAATT
7897278 TAAATTTAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 4 0.11
29 7 0.20
30 24 0.69
ACGTcount: A:0.33, C:0.13, G:0.06, T:0.48
Consensus pattern (29 bp):
TTTTAAAAATTATTTTTGACCCCTAAATC
Found at i:7897390 original size:30 final size:29
Alignment explanation
Indices: 7897252--7897497 Score: 131
Period size: 30 Copynumber: 8.2 Consensus size: 29
7897242 AAAATTATGT
*
7897252 TTTGACCCCT-AAATCTTTCAAAAATTTAAA
1 TTTGA-CCCTAAAAT-TTTCAAAAATTCAAA
* *
7897282 TTT-AACCTTAAATTTTCCAAAAAATTCAAA
1 TTTGACCCTAAAATTTT-C-AAAAATTCAAA
* * * * * *
7897312 ATTAACCCCTAAACTCTTCAAAAATTCCAT
1 TTTGA-CCCTAAAATTTTCAAAAATTCAAA
* ** *
7897342 TTTGGCAATCAAAATTTCCAAAAATTCAAA
1 TTTGACCCT-AAAATTTTCAAAAATTCAAA
*
7897372 TTTGACCCTAAAATTTTCCAAAAATTCTAA
1 TTTGACCCTAAAATTTT-CAAAAATTCAAA
* ** *
7897402 TTTAACCCTAATTTTTTTCAAAATTTTC-AA
1 TTTGACCCTAA-AATTTTCAAAA-ATTCAAA
* * * *
7897432 TTTAACCCCTAAATTTTTTAAAAATTTC-GA
1 TTTGA-CCCTAAAATTTTCAAAAA-TTCAAA
* **
7897462 TCTGACCCTTAAGGTTTTCAAAAATTCAAA
1 TTTGACCC-TAAAATTTTCAAAAATTCAAA
7897492 TTTGAC
1 TTTGAC
7897498 TCGATTTTAA
Statistics
Matches: 164, Mismatches: 39, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
28 6 0.04
29 21 0.13
30 114 0.70
31 15 0.09
32 8 0.05
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.37
Consensus pattern (29 bp):
TTTGACCCTAAAATTTTCAAAAATTCAAA
Found at i:7897603 original size:6 final size:6
Alignment explanation
Indices: 7897594--7897628 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
7897584 TAATCCCTTT
7897594 TATATG TATATG TATATG TATATG TATATG TATAT
1 TATATG TATATG TATATG TATATG TATATG TATAT
7897629 TATTTTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:7898680 original size:22 final size:21
Alignment explanation
Indices: 7898633--7898680 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
7898623 GACTTTCATA
*
7898633 ATTAACTTAATTAATCATCTT
1 ATTAACTTAATTAATCATATT
*
7898654 TTTAACCTTAATTAATGC-TATT
1 ATTAA-CTTAATTAAT-CATATT
7898676 ATTAA
1 ATTAA
7898681 TCAATATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 4 0.18
22 17 0.77
23 1 0.05
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (21 bp):
ATTAACTTAATTAATCATATT
Found at i:7900050 original size:290 final size:290
Alignment explanation
Indices: 7899530--7900111 Score: 1155
Period size: 290 Copynumber: 2.0 Consensus size: 290
7899520 TGCTTTTACA
7899530 GAGATTGCATTACATATCCCCTTTCCACGTAAGTCTATATCAGGCACATAGGTCTATATCAAACA
1 GAGATTGCATTACATATCCCCTTTCCACGTAAGTCTATATCAGGCACATAGGTCTATATCAAACA
7899595 CTTCCTTGGAAATTTCTTCCATAGATTGGCTTCATTAGCTTTAACTTTCTTCAGAAGCCTACAGT
66 CTTCCTTGGAAATTTCTTCCATAGATTGGCTTCATTAGCTTTAACTTTCTTCAGAAGCCTACAGT
7899660 CAGATGACTTGTGCCCCATCTTGTTCCAATTGAAGTATTTCCCTTGAAATTTTTTCTTCTTAGAA
131 CAGATGACTTGTGCCCCATCTTGTTCCAATTGAAGTATTTCCCTTGAAATTTTTTCTTCTTAGAA
7899725 ATGCCACATTTTGGTCCTAGTTTAGACCCATTTTGAGGTTATTTTCCCTTCTTGAAGTCCTTCTT
196 ATGCCACATTTTGGTCCTAGTTTAGACCCATTTTGAGGTTATTTTCCCTTCTTGAAGTCCTTCTT
7899790 GACTTCTACCATATTTTCCTTAGCACCATT
261 GACTTCTACCATATTTTCCTTAGCACCATT
7899820 GAGATTGCATTACATATCCCCTTTCCACGTAAGTCTATATCAGGCACATAGGTCTATATCAAACA
1 GAGATTGCATTACATATCCCCTTTCCACGTAAGTCTATATCAGGCACATAGGTCTATATCAAACA
*
7899885 CTTCCTTGGAAATTTCTTCCATAGATTGGCTTCATTAGCTTTAACTTTCTTCGGAAGCCTACAGT
66 CTTCCTTGGAAATTTCTTCCATAGATTGGCTTCATTAGCTTTAACTTTCTTCAGAAGCCTACAGT
7899950 CAGATGACTTGTGCCCCATCTTGTTCCAATTGAAGTATTTCCCTTGAAATTTTTTCTTCTTAGAA
131 CAGATGACTTGTGCCCCATCTTGTTCCAATTGAAGTATTTCCCTTGAAATTTTTTCTTCTTAGAA
7900015 ATGCCACATTTTGGTCCTAGTTTAGACCCATTTTGAGGTTATTTTCCCTTCTTGAAGTCCTTCTT
196 ATGCCACATTTTGGTCCTAGTTTAGACCCATTTTGAGGTTATTTTCCCTTCTTGAAGTCCTTCTT
7900080 GACTTCTACCATATTTTCCTTAGCACCATT
261 GACTTCTACCATATTTTCCTTAGCACCATT
7900110 GA
1 GA
7900112 CATTTGTTGT
Statistics
Matches: 291, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
290 291 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.39
Consensus pattern (290 bp):
GAGATTGCATTACATATCCCCTTTCCACGTAAGTCTATATCAGGCACATAGGTCTATATCAAACA
CTTCCTTGGAAATTTCTTCCATAGATTGGCTTCATTAGCTTTAACTTTCTTCAGAAGCCTACAGT
CAGATGACTTGTGCCCCATCTTGTTCCAATTGAAGTATTTCCCTTGAAATTTTTTCTTCTTAGAA
ATGCCACATTTTGGTCCTAGTTTAGACCCATTTTGAGGTTATTTTCCCTTCTTGAAGTCCTTCTT
GACTTCTACCATATTTTCCTTAGCACCATT
Found at i:7901736 original size:15 final size:15
Alignment explanation
Indices: 7901716--7901746 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7901706 GACATTTACA
*
7901716 ATGATATCTTTGAAG
1 ATGATATCTATGAAG
7901731 ATGATATCTATGAAG
1 ATGATATCTATGAAG
7901746 A
1 A
7901747 CGGGTATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.35
Consensus pattern (15 bp):
ATGATATCTATGAAG
Found at i:7903499 original size:17 final size:18
Alignment explanation
Indices: 7903477--7903512 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
7903467 TAAATGAGTT
7903477 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
7903494 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
7903512 A
1 A
7903513 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:7907359 original size:23 final size:24
Alignment explanation
Indices: 7907329--7907458 Score: 99
Period size: 23 Copynumber: 5.5 Consensus size: 24
7907319 GGAACACTAG
*
7907329 CGTGCTCTCAGTTTAGCAC-GTCT
1 CGTGCTCTCTGTTTAGCACTGTCT
*
7907352 CGTGCTCTCTGTTATTAGCACTGTGT
1 CGTGCTCTCTG-T-TTAGCACTGTCT
* * *
7907378 -GTGCTCTCTGATTAGCACTTTAT
1 CGTGCTCTCTGTTTAGCACTGTCT
* * * *
7907401 -GTGCTCTCTGATTAGTACTTTGT
1 CGTGCTCTCTGTTTAGCACTGTCT
* *
7907424 -GTACTCTCTGTTTAGCACTGTGT
1 CGTGCTCTCTGTTTAGCACTGTCT
*
7907447 -GTGCTCTTTGTT
1 CGTGCTCTCTGTT
7907459 GCCCAGTACT
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
23 70 0.77
24 1 0.01
25 17 0.19
26 3 0.03
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (24 bp):
CGTGCTCTCTGTTTAGCACTGTCT
Found at i:7907432 original size:46 final size:47
Alignment explanation
Indices: 7907353--7907453 Score: 132
Period size: 46 Copynumber: 2.1 Consensus size: 47
7907343 AGCACGTCTC
* *
7907353 GTGCTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTAT
1 GTGCTCTCTG-TATTAGCACTGTGTGTACTCTCTGATTAGCACTGTAT
* * * *
7907401 GTGCTCTCTG-ATTAGTACTTTGTGTACTCTCTGTTTAGCACTGTGT
1 GTGCTCTCTGTATTAGCACTGTGTGTACTCTCTGATTAGCACTGTAT
7907447 GTGCTCT
1 GTGCTCT
7907454 TTGTTGCCCA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
46 37 0.79
48 10 0.21
ACGTcount: A:0.13, C:0.21, G:0.22, T:0.45
Consensus pattern (47 bp):
GTGCTCTCTGTATTAGCACTGTGTGTACTCTCTGATTAGCACTGTAT
Found at i:7907472 original size:71 final size:68
Alignment explanation
Indices: 7907356--7907506 Score: 173
Period size: 71 Copynumber: 2.1 Consensus size: 68
7907346 ACGTCTCGTG
7907356 CTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTATGTGCTCTCTGATT-AGTACT
1 CTCTCTG-T-TTAGCACTGTGTGTGCTCTCTGATTAGCACTTTATGTGCTCTCTG-TTCAGTACT
*
7907420 TTGTGTA
63 TCG-GTA
* *
7907427 CTCTCTGTTTAGCACTGTGTGTGCTCTTTG-TT-GCCCAGTACTTATGTGCTCTCTGTTCAGTAC
1 CTCTCTGTTTAGCACTGTGTGTGCTCTCTGATTAG--CACT--TTATGTGCTCTCTGTTCAGTAC
7907490 TTCGGTA
62 TTCGGTA
*
7907497 CTCTCCGTTT
1 CTCTCTGTTT
7907507 GTTCCGTTTA
Statistics
Matches: 71, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
67 1 0.01
68 2 0.03
69 24 0.34
70 15 0.21
71 29 0.41
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (68 bp):
CTCTCTGTTTAGCACTGTGTGTGCTCTCTGATTAGCACTTTATGTGCTCTCTGTTCAGTACTTCG
GTA
Found at i:7913574 original size:23 final size:24
Alignment explanation
Indices: 7913544--7913673 Score: 108
Period size: 23 Copynumber: 5.5 Consensus size: 24
7913534 GGAACACTAG
7913544 CGTGCTCTCTGTTTAGCAC-GTCT
1 CGTGCTCTCTGTTTAGCACTGTCT
*
7913567 CGTGCTCTCTGTTATTAGCACTGTGT
1 CGTGCTCTCTG-T-TTAGCACTGTCT
* * *
7913593 -GTGCTCTCTGATTAGCACTTTGT
1 CGTGCTCTCTGTTTAGCACTGTCT
* ** * *
7913616 -GTGCTCTCTGATTAGTGCTTTGT
1 CGTGCTCTCTGTTTAGCACTGTCT
* *
7913639 -GTACTCTCTGTTTAGCACTGTGT
1 CGTGCTCTCTGTTTAGCACTGTCT
7913662 -GTGCTCTCTGTT
1 CGTGCTCTCTGTT
7913674 CAGTACTTCG
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
23 72 0.77
24 1 0.01
25 17 0.18
26 3 0.03
ACGTcount: A:0.10, C:0.23, G:0.23, T:0.44
Consensus pattern (24 bp):
CGTGCTCTCTGTTTAGCACTGTCT
Found at i:7913620 original size:48 final size:48
Alignment explanation
Indices: 7913545--7913673 Score: 156
Period size: 46 Copynumber: 2.7 Consensus size: 48
7913535 GAACACTAGC
*
7913545 GTGCTCTCTGTTTAGCACGTCT-CGTGCTCTCTGTTATTAGCACTGTGT
1 GTGCTCTCTGTTTAGCAC-TCTGTGTGCTCTCTGTTATTAGCACTGTGT
* * ** *
7913593 GTGCTCTCTGATTAGCACTTTGTGTGCTCTCTG--ATTAGTGCTTTGT
1 GTGCTCTCTGTTTAGCACTCTGTGTGCTCTCTGTTATTAGCACTGTGT
* *
7913639 GTACTCTCTGTTTAGCACTGTGTGTGCTCTCTGTT
1 GTGCTCTCTGTTTAGCACTCTGTGTGCTCTCTGTT
7913674 CAGTACTTCG
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
46 40 0.58
47 2 0.03
48 27 0.39
ACGTcount: A:0.10, C:0.22, G:0.23, T:0.44
Consensus pattern (48 bp):
GTGCTCTCTGTTTAGCACTCTGTGTGCTCTCTGTTATTAGCACTGTGT
Found at i:7913647 original size:46 final size:46
Alignment explanation
Indices: 7913548--7913693 Score: 145
Period size: 46 Copynumber: 3.2 Consensus size: 46
7913538 CACTAGCGTG
* * * * * *
7913548 CTCTCTGTTTAGCAC-GTCTCGTGCTCTCTGTTATTAGCACTGTGTGTG
1 CTCTCTGATTAGCACTGTGT-GTGCTCTCTG-T-TCAGTACTTTGTGTA
* *
7913596 CTCTCTGATTAGCACTTTGTGTGCTCTCTGATT-AGTGCTTTGTGTA
1 CTCTCTGATTAGCACTGTGTGTGCTCTCTG-TTCAGTACTTTGTGTA
* *
7913642 CTCTCTGTTTAGCACTGTGTGTGCTCTCTGTTCAGTACTTCG-GTA
1 CTCTCTGATTAGCACTGTGTGTGCTCTCTGTTCAGTACTTTGTGTA
7913687 CTCTCTG
1 CTCTCTG
7913694 TTTGTTCTGT
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
45 12 0.14
46 44 0.52
47 1 0.01
48 25 0.30
49 2 0.02
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.43
Consensus pattern (46 bp):
CTCTCTGATTAGCACTGTGTGTGCTCTCTGTTCAGTACTTTGTGTA
Found at i:7914960 original size:52 final size:52
Alignment explanation
Indices: 7914868--7914996 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
7914858 GGGCAGTTGG
* * *
7914868 AGATAAATATAGAATATTAGAAGACGTAAGGCTTAGTCCTTTTGCGAAAGTG
1 AGATAAATATAGAATATTAGAAGACGAAAGGCTTAATCCTTTTGCGAAAGTC
* **
7914920 ATATAAATATAGAATATTAGAAGACGAAAGTTTTAATCCTTTTGCGAAAGTC
1 AGATAAATATAGAATATTAGAAGACGAAAGGCTTAATCCTTTTGCGAAAGTC
7914972 AGATAAATATAGAATATTAGAAGAC
1 AGATAAATATAGAATATTAGAAGAC
7914997 ATAAGTTCGA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.29
Consensus pattern (52 bp):
AGATAAATATAGAATATTAGAAGACGAAAGGCTTAATCCTTTTGCGAAAGTC
Found at i:7916005 original size:9 final size:9
Alignment explanation
Indices: 7915989--7916018 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
7915979 TTTAATTTTC
7915989 TAATTCGAA
1 TAATTCGAA
*
7915998 TTATTCGAA
1 TAATTCGAA
7916007 TAATTCGAA
1 TAATTCGAA
7916016 TAA
1 TAA
7916019 ACCGAATAAA
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:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (9 bp):
TAATTCGAA
Found at i:7916024 original size:18 final size:18
Alignment explanation
Indices: 7915989--7916027 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
7915979 TTTAATTTTC
* **
7915989 TAATTCGAATTATTCGAA
1 TAATTCGAATAAACCGAA
7916007 TAATTCGAATAAACCGAA
1 TAATTCGAATAAACCGAA
7916025 TAA
1 TAA
7916028 AATTATATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (18 bp):
TAATTCGAATAAACCGAA
Found at i:7916279 original size:61 final size:61
Alignment explanation
Indices: 7916165--7916279 Score: 178
Period size: 61 Copynumber: 1.9 Consensus size: 61
7916155 ATCCATCAAC
* * *
7916165 AAACTAAGCCTAAATATTTTTAAACCCAAATATAATTTCATTCTTCAAAAACACCACGTAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTCAAAAACACCACGTAT
*
7916226 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTTATTCCT-AAATAACAC
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTCAAA-AACAC
7916280 TCATAAACAA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
60 3 0.06
61 46 0.94
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (61 bp):
AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTCAAAAACACCACGTAT
Found at i:7918036 original size:63 final size:67
Alignment explanation
Indices: 7917922--7918080 Score: 211
Period size: 67 Copynumber: 2.4 Consensus size: 67
7917912 TTATTTATTT
* * *
7917922 ATAAT-AATAAATAAATAATAAAACAAAATTAATATTATTTTACATTAATTTATTTATATTCATA
1 ATAATAAATAAATAAATAATAAAATAAAATAAATATTATCTTA-ATTAATTTATTTATATTCATA
7917986 -AA
65 TAA
*
7917988 ATAATAAATAAATAAATAATAAAATAAAATAAATATTATCTT-A-T-ATTTATTTATGTTCATAT
1 ATAATAAATAAATAAATAATAAAATAAAATAAATATTATCTTAATTAATTTATTTATATTCATAT
7918050 AA
66 AA
*
7918052 ATAAATAAATAAATAAATAAAAATAATAA
1 AT-AATAAATAAATAAATAATAA-AATAA
7918081 GAAAAATGGA
Statistics
Matches: 84, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
63 16 0.19
64 5 0.06
65 20 0.24
66 10 0.12
67 33 0.39
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (67 bp):
ATAATAAATAAATAAATAATAAAATAAAATAAATATTATCTTAATTAATTTATTTATATTCATAT
AA
Found at i:7918055 original size:4 final size:4
Alignment explanation
Indices: 7918048--7918072 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
7918038 TTATGTTCAT
7918048 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
7918073 AATAATAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:7918420 original size:23 final size:21
Alignment explanation
Indices: 7918381--7918427 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
7918371 TATGAATTTT
7918381 TCTTTTTTTTTTCCTCTCAAC
1 TCTTTTTTTTTTCCTCTCAAC
* *
7918402 TCTTTGTTTCTTTTTCTCTCATC
1 TCTTT-TTT-TTTTCCTCTCAAC
7918425 TCT
1 TCT
7918428 GTCAATTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 3 0.14
23 14 0.64
ACGTcount: A:0.06, C:0.28, G:0.02, T:0.64
Consensus pattern (21 bp):
TCTTTTTTTTTTCCTCTCAAC
Found at i:7918632 original size:2 final size:2
Alignment explanation
Indices: 7918625--7918661 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7918615 TAAAAATTTA
7918625 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
7918662 CTAGGGTGAT
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:7922950 original size:22 final size:24
Alignment explanation
Indices: 7922920--7922963 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
7922910 GTTTTATTTT
*
7922920 TTCTCTTATTATT-TT-ACCATCA
1 TTCTATTATTATTATTCACCATCA
7922942 TTCTATTATTATTATTCACCAT
1 TTCTATTATTATTATTCACCAT
7922964 AGTTTTAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 2 0.11
24 5 0.26
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (24 bp):
TTCTATTATTATTATTCACCATCA
Found at i:7932675 original size:21 final size:20
Alignment explanation
Indices: 7932634--7932687 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
7932624 GAGTTTTTTA
7932634 GTATCGGTAGAAGTAAGACTT
1 GTATCGGTAGAAG-AAGACTT
7932655 GTATCGGTAGAAG-AGTCACTT
1 GTATCGGTAGAAGAAG--ACTT
*
7932676 GTATCGATAGAA
1 GTATCGGTAGAA
7932688 CTATCACATG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 2 0.07
21 28 0.93
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28
Consensus pattern (20 bp):
GTATCGGTAGAAGAAGACTT
Found at i:7941336 original size:21 final size:21
Alignment explanation
Indices: 7941294--7941343 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
7941284 TAGAAGTACG
* *
7941294 ACTTGTATTGGTGGAAGAGTC
1 ACTTGTATTGGTAGAACAGTC
*
7941315 ACTTGTATTGGTAGAACTGTC
1 ACTTGTATTGGTAGAACAGTC
*
7941336 ACATGTAT
1 ACTTGTAT
7941344 CAGTAGAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.36
Consensus pattern (21 bp):
ACTTGTATTGGTAGAACAGTC
Found at i:7944957 original size:9 final size:9
Alignment explanation
Indices: 7944943--7944976 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
7944933 AATTAAATAT
7944943 TTCGAGTTA
1 TTCGAGTTA
7944952 TTCGAGTTAA
1 TTCGAGTT-A
7944962 TT-GAGTTA
1 TTCGAGTTA
7944970 TTCGAGT
1 TTCGAGT
7944977 CTACTCGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 3 0.13
9 17 0.74
10 3 0.13
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.44
Consensus pattern (9 bp):
TTCGAGTTA
Found at i:7949778 original size:31 final size:31
Alignment explanation
Indices: 7949743--7949804 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
7949733 TGGTTAAACC
*
7949743 GTCTTAGCCTTCTTGATTAGTTGCCAAACTT
1 GTCTTAGCCTTCTAGATTAGTTGCCAAACTT
* *
7949774 GTCTTAGCCTTGTAGATTAGTTGTCAAACTT
1 GTCTTAGCCTTCTAGATTAGTTGCCAAACTT
7949805 ATACATTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (31 bp):
GTCTTAGCCTTCTAGATTAGTTGCCAAACTT
Found at i:7953483 original size:13 final size:13
Alignment explanation
Indices: 7953465--7953489 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7953455 TAAAATTTAA
7953465 AGTTTAGGGTTCG
1 AGTTTAGGGTTCG
7953478 AGTTTAGGGTTC
1 AGTTTAGGGTTC
7953490 AAGATAAAAT
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:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (13 bp):
AGTTTAGGGTTCG
Found at i:7954304 original size:21 final size:22
Alignment explanation
Indices: 7954262--7954304 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7954252 TCTCTTAAAA
*
7954262 TTAATATTTTAATTTAATTTTT
1 TTAATATTTTAATTTAAGTTTT
7954284 TTAATATTTTAA-TTAAGTTTT
1 TTAATATTTTAATTTAAGTTTT
7954305 AATTTACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TTAATATTTTAATTTAAGTTTT
Found at i:7955453 original size:2 final size:2
Alignment explanation
Indices: 7955446--7955479 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7955436 ACATTTGTTA
7955446 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
7955480 TTAATGTTAT
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:7956526 original size:24 final size:24
Alignment explanation
Indices: 7956498--7956554 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
7956488 TAGACTAATA
* *
7956498 AGAGTTTGACTCAAACAAATAAAT
1 AGAGTTTAACTCAAACAAATAAAC
* *
7956522 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAC
*
7956546 AGAGCTTAA
1 AGAGTTTAA
7956555 TTGAAAGATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTCAAACAAATAAAC
Found at i:7956555 original size:24 final size:24
Alignment explanation
Indices: 7956510--7956560 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
7956500 AGTTTGACTC
* *
7956510 AAACAAATAAATAGAGTTTAATTG
1 AAACAAATAAACAGAGCTTAATTG
7956534 AAACAAATAAACAGAGCTTAATTG
1 AAACAAATAAACAGAGCTTAATTG
7956558 AAA
1 AAA
7956561 GATTATTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.57, C:0.08, G:0.12, T:0.24
Consensus pattern (24 bp):
AAACAAATAAACAGAGCTTAATTG
Found at i:7958176 original size:24 final size:24
Alignment explanation
Indices: 7958144--7958214 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
7958134 AGGGATTAAT
*
7958144 AAATAAACAAAATTTAATTGAAAC
1 AAATAAACAAAGTTTAATTGAAAC
7958168 AAATAAACAAAGTTTAATTGAAAC
1 AAATAAACAAAGTTTAATTGAAAC
* * *
7958192 AATTAAACAGAGTTTAACTGAAA
1 AAATAAACAAAGTTTAATTGAAA
7958215 GATTATTTCT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.25
Consensus pattern (24 bp):
AAATAAACAAAGTTTAATTGAAAC
Found at i:7959851 original size:41 final size:41
Alignment explanation
Indices: 7959793--7959888 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
7959783 AAATTTTATT
* * *
7959793 TTAACAAGAATTTTAGTCGCCCAATTCTAATAATCTCCACC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
*
7959834 TTAACAAGAATTCTAGTCATCCAATTCTAACAATCTCCACC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
*
7959875 TTGACAAGAATTCT
1 TTAACAAGAATTCT
7959889 CTACGAAGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.31
Consensus pattern (41 bp):
TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
Found at i:7963815 original size:17 final size:17
Alignment explanation
Indices: 7963780--7963818 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
7963770 AGGTGGAGAA
* * *
7963780 CTTGTTCGTTGAGAGTT
1 CTTGTTCGTAGAAAATT
7963797 CTTGTTCGTAGAAAATT
1 CTTGTTCGTAGAAAATT
7963814 CTTGT
1 CTTGT
7963819 CAAGGTGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.13, G:0.23, T:0.46
Consensus pattern (17 bp):
CTTGTTCGTAGAAAATT
Found at i:7963865 original size:41 final size:41
Alignment explanation
Indices: 7963810--7963903 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
7963800 GTTCGTAGAA
*
7963810 AATTCTTGTCAAGGTGGAGATTGTTAGAATTGGGTGACTAG
1 AATTCTTGTTAAGGTGGAGATTGTTAGAATTGGGTGACTAG
7963851 AATTCTTGTTAAGGTGGAGATTGTTAGAATTGGGTGACTAG
1 AATTCTTGTTAAGGTGGAGATTGTTAGAATTGGGTGACTAG
7963892 AATTCTTGTTAA
1 AATTCTTGTTAA
7963904 AATAAAATTA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.28, C:0.06, G:0.29, T:0.37
Consensus pattern (41 bp):
AATTCTTGTTAAGGTGGAGATTGTTAGAATTGGGTGACTAG
Found at i:7965838 original size:30 final size:29
Alignment explanation
Indices: 7965782--7965838 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
7965772 ATTGAAAAAA
* *
7965782 CCCTCAAATTTAGTAAAATTACAATAAAG
1 CCCTCAAATTTAGAAAAACTACAATAAAG
*
7965811 CCCTCAAACTTTAGAAAAACTATAATAA
1 CCCTCAAA-TTTAGAAAAACTACAATAA
7965839 TACCCCAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.49, C:0.19, G:0.05, T:0.26
Consensus pattern (29 bp):
CCCTCAAATTTAGAAAAACTACAATAAAG
Found at i:7966868 original size:45 final size:45
Alignment explanation
Indices: 7966818--7966906 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
7966808 ACCAATGGTA
7966818 TGGTAAATATAATTTGATTGATTATGCTATACGATATGCATGATG
1 TGGTAAATATAATTTGATTGATTATGCTATACGATATGCATGATG
* *
7966863 TGGTAAATATTATTTGATTGATTATGCTATACGATATGTATGAT
1 TGGTAAATATAATTTGATTGATTATGCTATACGATATGCATGAT
7966907 ATAAGTTTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.43
Consensus pattern (45 bp):
TGGTAAATATAATTTGATTGATTATGCTATACGATATGCATGATG
Found at i:7969110 original size:37 final size:37
Alignment explanation
Indices: 7969060--7969241 Score: 215
Period size: 37 Copynumber: 4.9 Consensus size: 37
7969050 TTACACAATA
*
7969060 TTCAGGCTATGTGCTTAGTAGGCTTTGTGCCGGTATT
1 TTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTATT
** *
7969097 TTCAGGCTATGTGCCTAGTAGGCTTTGTGTTGGTGTT
1 TTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTATT
* * *
7969134 TTCAGGCTATATGCCTAGTAGGCTTCGTGCCGGTGTT
1 TTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTATT
* * * *
7969171 TTCTGGCTATGTGCCTAGTAGGCTTCGTACCAGTGTA-A
1 TTCAGGCTATGTGCCTAGTAGGCTTTGTGCC-G-GTATT
* *
7969209 TT-GGGCTATGTGCCTAGCAGGCTTTGTGCCGGT
1 TTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGT
7969242 GATCCAAGAA
Statistics
Matches: 126, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
35 2 0.02
36 1 0.01
37 118 0.94
38 3 0.02
39 2 0.02
ACGTcount: A:0.13, C:0.19, G:0.31, T:0.37
Consensus pattern (37 bp):
TTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTATT
Found at i:7969216 original size:74 final size:74
Alignment explanation
Indices: 7969058--7969242 Score: 237
Period size: 74 Copynumber: 2.5 Consensus size: 74
7969048 GCTTACACAA
* * *
7969058 TATTCAGGCTATGTGCTTAGTAGGCTTTGTGCCGGTATTTTCAGGCTATGTGCCTAGTAGGCTTT
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTGTTTTCAGGCTATGTGCCTAGTAGGCTTC
****
7969123 GTGTTGGTG
66 GTACCAGTG
* * * *
7969132 TTTTCAGGCTATATGCCTAGTAGGCTTCGTGCCGGTGTTTTCTGGCTATGTGCCTAGTAGGCTTC
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTGTTTTCAGGCTATGTGCCTAGTAGGCTTC
7969197 GTACCAGTG
66 GTACCAGTG
* *
7969206 TAATT-GGGCTATGTGCCTAGCAGGCTTTGTGCCGGTG
1 T-ATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
7969243 ATCCAAGAAC
Statistics
Matches: 94, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
74 92 0.98
75 2 0.02
ACGTcount: A:0.14, C:0.18, G:0.31, T:0.37
Consensus pattern (74 bp):
TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTGTTTTCAGGCTATGTGCCTAGTAGGCTTC
GTACCAGTG
Found at i:7970709 original size:26 final size:26
Alignment explanation
Indices: 7970680--7970816 Score: 202
Period size: 26 Copynumber: 5.3 Consensus size: 26
7970670 TAACTTCCAC
7970680 GTTTACGCTCGTCAGCATGAATATAT
1 GTTTACGCTCGTCAGCATGAATATAT
*
7970706 GTTTACGCTCGCCAGCATGAATATAT
1 GTTTACGCTCGTCAGCATGAATATAT
* * * *
7970732 GTTTACACTCGTTAACATGAATATAC
1 GTTTACGCTCGTCAGCATGAATATAT
*
7970758 GTTTACGCTCGCCAGCATGAATATAT
1 GTTTACGCTCGTCAGCATGAATATAT
* *
7970784 GTTTACGCTCGTCAACATGAATATAC
1 GTTTACGCTCGTCAGCATGAATATAT
7970810 GTTTACG
1 GTTTACG
7970817 TCACTAGAGT
Statistics
Matches: 97, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 97 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (26 bp):
GTTTACGCTCGTCAGCATGAATATAT
Found at i:7970743 original size:52 final size:52
Alignment explanation
Indices: 7970680--7970816 Score: 238
Period size: 52 Copynumber: 2.6 Consensus size: 52
7970670 TAACTTCCAC
* *
7970680 GTTTACGCTCGTCAGCATGAATATATGTTTACGCTCGCCAGCATGAATATAT
1 GTTTACGCTCGTCAACATGAATATACGTTTACGCTCGCCAGCATGAATATAT
* *
7970732 GTTTACACTCGTTAACATGAATATACGTTTACGCTCGCCAGCATGAATATAT
1 GTTTACGCTCGTCAACATGAATATACGTTTACGCTCGCCAGCATGAATATAT
7970784 GTTTACGCTCGTCAACATGAATATACGTTTACG
1 GTTTACGCTCGTCAACATGAATATACGTTTACG
7970817 TCACTAGAGT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 79 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (52 bp):
GTTTACGCTCGTCAACATGAATATACGTTTACGCTCGCCAGCATGAATATAT
Found at i:7972510 original size:3 final size:3
Alignment explanation
Indices: 7972502--7972550 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
7972492 CGTCAATGAT
7972502 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7972550 T
1 T
7972551 CGCTTTATTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7972731 original size:2 final size:2
Alignment explanation
Indices: 7972724--7972803 Score: 61
Period size: 2 Copynumber: 40.0 Consensus size: 2
7972714 GTGATTTTAA
* * * * * *
7972724 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT GT GT GT GT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
7972766 GT GT GT GT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7972804 TACGAACTCT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7975746 original size:39 final size:39
Alignment explanation
Indices: 7975679--7975779 Score: 139
Period size: 39 Copynumber: 2.6 Consensus size: 39
7975669 TGTTGCATTA
* *
7975679 GTTACAGTGCCACTGCCAGTTCAGTAATGTATTACAGTG
1 GTTACAGTGTCACTGCCAGTTCAGTAATGTATCACAGTG
* * * *
7975718 TTTATAGTGTCATTGCCAGTTCAGTAATGTATCGCAGTG
1 GTTACAGTGTCACTGCCAGTTCAGTAATGTATCACAGTG
*
7975757 GTTACAGTGTCACTGCCAATTCA
1 GTTACAGTGTCACTGCCAGTTCA
7975780 ATAACTCAAG
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (39 bp):
GTTACAGTGTCACTGCCAGTTCAGTAATGTATCACAGTG
Found at i:7979538 original size:10 final size:10
Alignment explanation
Indices: 7979517--7979562 Score: 67
Period size: 10 Copynumber: 4.5 Consensus size: 10
7979507 AATTTTAAAA
7979517 TTTTATATATT
1 TTTTATA-ATT
7979528 TTTTATAATT
1 TTTTATAATT
7979538 TTTTATAA-T
1 TTTTATAATT
7979547 TTTTATAATT
1 TTTTATAATT
7979557 TATTTA
1 T-TTTA
7979563 AAAAATATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.27
10 13 0.39
11 11 0.33
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTATAATT
Found at i:7979554 original size:9 final size:9
Alignment explanation
Indices: 7979509--7979557 Score: 62
Period size: 9 Copynumber: 5.2 Consensus size: 9
7979499 TGTTTTAAAA
*
7979509 TTTTAAAAT
1 TTTTATAAT
*
7979518 TTTATATATT
1 TTT-TATAAT
7979528 TTTTATAATT
1 TTTTATAA-T
7979538 TTTTATAAT
1 TTTTATAAT
7979547 TTTTATAAT
1 TTTTATAAT
7979556 TT
1 TT
7979558 ATTTAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 19 0.54
10 16 0.46
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTATAAT
Found at i:7979621 original size:10 final size:10
Alignment explanation
Indices: 7979606--7979634 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
7979596 TTGAACTTTA
7979606 AAAATTATTT
1 AAAATTATTT
7979616 AAAATT-TTT
1 AAAATTATTT
7979625 AAAATTATTT
1 AAAATTATTT
7979635 TGAATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
AAAATTATTT
Found at i:7979628 original size:19 final size:19
Alignment explanation
Indices: 7979502--7979634 Score: 71
Period size: 19 Copynumber: 7.2 Consensus size: 19
7979492 AAATTATTGT
7979502 TTTAAAA-TTTTAAAATT-
1 TTTAAAATTTTTAAAATTA
* * * *
7979519 TTATATATTTTTTATAATTT
1 TT-TAAAATTTTTAAAATTA
* *
7979539 TTTATAATTTTTATAATTTA
1 TTTAAAATTTTTA-AAATTA
** *
7979559 TTTAAAAAATAT-AAA-T-
1 TTTAAAATTTTTAAAATTA
*
7979575 TTTAAAATATTTATAAA-TA
1 TTTAAAATTTTTA-AAATTA
** * *
7979594 TTTTGAACTTTAAAAATTA
1 TTTAAAATTTTTAAAATTA
7979613 TTTAAAATTTTTAAAATTA
1 TTTAAAATTTTTAAAATTA
7979632 TTT
1 TTT
7979635 TGAATTTTTT
Statistics
Matches: 85, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
16 10 0.12
17 3 0.04
18 12 0.14
19 47 0.55
20 13 0.15
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.55
Consensus pattern (19 bp):
TTTAAAATTTTTAAAATTA
Found at i:7979640 original size:19 final size:19
Alignment explanation
Indices: 7979592--7979643 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
7979582 TATTTATAAA
* *
7979592 TATTTTGAACTTTAAAAAT
1 TATTTTGAATTTTTAAAAT
**
7979611 TATTTAAAATTTTTAAAAT
1 TATTTTGAATTTTTAAAAT
7979630 TATTTTGAATTTTT
1 TATTTTGAATTTTT
7979644 TTTGTAATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (19 bp):
TATTTTGAATTTTTAAAAT
Found at i:7980264 original size:29 final size:29
Alignment explanation
Indices: 7980232--7980336 Score: 107
Period size: 29 Copynumber: 3.8 Consensus size: 29
7980222 AAATTTTAAA
*
7980232 TTAATAATAATAAAATTATATTTTATTTT
1 TTAAAAATAATAAAATTATATTTTATTTT
*
7980261 TTAAAAATAATAAAATT-TAATTTAATTTT
1 TTAAAAATAATAAAATTAT-ATTTTATTTT
* * *
7980290 TTAAAAATTATAAAA-TATA----AATTA
1 TTAAAAATAATAAAATTATATTTTATTTT
7980314 TT-AAAATAATAAAATTATATTTT
1 TTAAAAATAATAAAATTATATTTT
7980337 TACTATCGAA
Statistics
Matches: 63, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
23 11 0.17
24 9 0.14
28 3 0.05
29 40 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
TTAAAAATAATAAAATTATATTTTATTTT
Found at i:7980363 original size:81 final size:80
Alignment explanation
Indices: 7980200--7980364 Score: 199
Period size: 81 Copynumber: 2.0 Consensus size: 80
7980190 AAAATTTTTT
* * * * * * **
7980200 ATTTAAATTTTTATAATTTATAAAATTTTAAATTAATAATAATAAAATTATATTTTATTTTTTAA
1 ATTTAAATTTTTAAAAATTATAAAATTATAAATTAAAAATAATAAAATTATATTTTACTATCGAA
7980265 AAATAATAAAATTTA
66 AAATAATAAAATTTA
*
7980280 ATTTAATTTTTTAAAAATTATAAAA-TATAAATTATTAAAATAATAAAATTATATTTTTACTATC
1 ATTTAAATTTTTAAAAATTATAAAATTATAAATTA--AAAATAATAAAATTATA-TTTTACTATC
*
7980344 GAAAAAT-ATATAATTTA
63 GAAAAATAATAAAATTTA
7980361 ATTT
1 ATTT
7980365 CACACTTATA
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
79 8 0.11
80 22 0.31
81 29 0.40
82 13 0.18
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (80 bp):
ATTTAAATTTTTAAAAATTATAAAATTATAAATTAAAAATAATAAAATTATATTTTACTATCGAA
AAATAATAAAATTTA
Found at i:8006732 original size:21 final size:21
Alignment explanation
Indices: 8006706--8006760 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
8006696 GGAGTTTTTA
8006706 GTATCGGTAGAAGAGACACTT
1 GTATCGGTAGAAGAGACACTT
** *
8006727 GTATCGGTAGAACTGTCACTT
1 GTATCGGTAGAAGAGACACTT
8006748 GTATCGGTAGAAG
1 GTATCGGTAGAAG
8006761 TCTGCATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (21 bp):
GTATCGGTAGAAGAGACACTT
Found at i:8008247 original size:98 final size:98
Alignment explanation
Indices: 8007894--8008593 Score: 541
Period size: 98 Copynumber: 7.3 Consensus size: 98
8007884 TTAATCAAAC
* * * *
8007894 CCACTGCAACTTC-AGGGTATAGGATTTTGTGTTATAACTTCACTCCATTCCATTGTAACCTCAA
1 CCACTGCAACTTCAAGGATATAGGATTTGGTGTTGT-ACTTCACTCCATTCCACTGTAACCTCAA
* * * *
8007958 AGACTTTGAGATCCATTACTTATTTTAATCCGAT
65 GGACATTGAGATCCGTTACTTATTTTAATCTGAT
* * * * * *
8007992 CCACTGAAACTTCAGGGATATAGGATTTGATGTTGAAGCTTCACTCTATTCCACTATAACCTCAA
1 CCACTGCAACTTCAAGGATATAGGATTTGGTGTTGTA-CTTCACTCCATTCCACTGTAACCTCAA
* * * *
8008057 GGACATTAAGATCTACTTTA-TTGTTTTAATCTGAC
65 GGACATTGAGATC--CGTTACTTATTTTAATCTGAT
** * * * * * *
8008092 CCACTATAACCTT-AGGGGTATAAGATTTGGTGTTGTAACTTTACTCTATTCTACTGTAACCTCA
1 CCACTGCAA-CTTCAAGGATATAGGATTTGGTGTTGT-ACTTCACTCCATTCCACTGTAACCTCA
* * *
8008156 GGGAGATTGAGATCCGTTATTTATTTTAATCTGAT
64 AGGACATTGAGATCCGTTACTTATTTTAATCTGAT
* * * *
8008191 CCACTGCAACTTCAAGGATATAGGATTTGATGTTGTACTTTACTCCATTCCGCTGTAACCTCAGG
1 CCACTGCAACTTCAAGGATATAGGATTTGGTGTTGTACTTCACTCCATTCCACTGTAACCTCAAG
* * * *
8008256 GAGATTAAGA-CTCGTTACTCATTTTAATCTTAT
66 GACATTGAGATC-CGTTACTTATTTTAATCTGAT
** * ** * *
8008289 CCACTATAACTTTAAGGATATAGGATTT-G-G-TG--CTTCACTTTATTTCACTGTAACCTCAAA
1 CCACTGCAACTTCAAGGATATAGGATTTGGTGTTGTACTTCACTCCATTCCACTGTAACCTCAAG
* * *
8008349 GACATTGAGAT-C--TGC-T-TTTTAATTTGAC
66 GACATTGAGATCCGTTACTTATTTTAATCTGAT
* * * *
8008377 CCACTACAACTTCAAGGGTATAGGATTTGGTGTTGTACTTCACTCCATTCCACTATTACCTCAAG
1 CCACTGCAACTTCAAGGATATAGGATTTGGTGTTGTACTTCACTCCATTCCACTGTAACCTCAAG
* * * *
8008442 GAGATTGAGATTCGTTACTCATTTTAATCTAAT
66 GACATTGAGATCCGTTACTTATTTTAATCTGAT
* * * *
8008475 CCACTGTAACTTC-AGAAATATAGGATTT-G-G-TG--CTTCACTCTATTCCACTGTAATCTCAA
1 CCACTGCAACTTCAAG-GATATAGGATTTGGTGTTGTACTTCACTCCATTCCACTGTAACCTCAA
* * * * * *
8008534 GAAGATTAAGAT-C-TGA--T-TTTTAATCTAAC
65 GGACATTGAGATCCGTTACTTATTTTAATCTGAT
* * *
8008563 CCACTACAACTTCAGGGGTATAGGATTTGGT
1 CCACTGCAACTTCAAGGATATAGGATTTGGT
8008594 TTACACGATC
Statistics
Matches: 482, Mismatches: 96, Indels: 56
0.76 0.15 0.09
Matches are distributed among these distances:
88 66 0.14
89 3 0.01
90 3 0.01
91 4 0.01
92 2 0.00
93 94 0.20
94 1 0.00
95 4 0.01
96 4 0.01
97 4 0.01
98 128 0.27
99 89 0.18
100 72 0.15
101 8 0.02
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (98 bp):
CCACTGCAACTTCAAGGATATAGGATTTGGTGTTGTACTTCACTCCATTCCACTGTAACCTCAAG
GACATTGAGATCCGTTACTTATTTTAATCTGAT
Found at i:8008463 original size:186 final size:185
Alignment explanation
Indices: 8007980--8008591 Score: 638
Period size: 186 Copynumber: 3.2 Consensus size: 185
8007970 CCATTACTTA
* * * *
8007980 TTTTAATCCGATCCACTGA-AACTTC-AGGGATATAGGATTTGATGTTGAAGCTTCACTCTATTC
1 TTTTAATCTGACCCACT-ACAACTTCAAGGG-TATAGGATTTGATGTTGTA-CTTCACTCCATTC
* * ** * * *
8008043 CACTATAACCTCAAGGACATTAAGATCTACTTTA-TTGTTTTAATCTGACCCACTATAACCTTAG
63 CACTATAACCTCAAGGAGATTAAGAT-T-CGTTACTCATTTTAATCTAATCCACTATAA-CTTAA
* * * * **
8008107 GGGTATAAGATTTGGTGTTGTAACTTTACTCTATTCTACTGTAACCTCAGGGAGATTGAGATCCG
125 GGATATAGGATTTGGTGCT-TCACTTTA---T-TTC-ACTGTAACCTCAAAGAGATTGAGAT-C-
*
8008172 TTATTT
182 TGA--T
* * * * *
8008178 ATTTTAATCTGATCCACTGCAACTTCAAGGATATAGGATTTGATGTTGTACTTTACTCCATTCCG
1 -TTTTAATCTGACCCACTACAACTTCAAGGGTATAGGATTTGATGTTGTACTTCACTCCATTCCA
* * * *
8008243 CTGTAACCTCAGGGAGATTAAGACTCGTTACTCATTTTAATCTTATCCACTATAACTTTAAGGAT
65 CTATAACCTCAAGGAGATTAAGATTCGTTACTCATTTTAATCTAATCCACTATAAC-TTAAGGAT
* *
8008308 ATAGGATTTGGTGCTTCACTTTATTTCACTGTAACCTCAAAGACATTGAGATCTGCT
129 ATAGGATTTGGTGCTTCACTTTATTTCACTGTAACCTCAAAGAGATTGAGATCTGAT
* *
8008365 TTTTAATTTGACCCACTACAACTTCAAGGGTATAGGATTTGGTGTTGTACTTCACTCCATTCCAC
1 TTTTAATCTGACCCACTACAACTTCAAGGGTATAGGATTTGATGTTGTACTTCACTCCATTCCAC
* * * * *
8008430 TATTACCTCAAGGAGATTGAGATTCGTTACTCATTTTAATCTAATCCACTGTAACTTCAGAAATA
66 TATAACCTCAAGGAGATTAAGATTCGTTACTCATTTTAATCTAATCCACTATAACTTAAG-GATA
* * * *
8008495 TAGGATTTGGTGCTTCACTCTATTCCACTGTAATCTC-AAGAAGATTAAGATCTGAT
130 TAGGATTTGGTGCTTCACTTTATTTCACTGTAACCTCAAAG-AGATTGAGATCTGAT
* *
8008551 TTTTAATCTAACCCACTACAACTTCAGGGGTATAGGATTTG
1 TTTTAATCTGACCCACTACAACTTCAAGGGTATAGGATTTG
8008592 GTTTACACGA
Statistics
Matches: 356, Mismatches: 51, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
185 7 0.02
186 193 0.54
187 1 0.00
189 1 0.00
190 1 0.00
191 22 0.06
192 3 0.01
193 1 0.00
196 12 0.03
197 40 0.11
198 32 0.09
199 40 0.11
200 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.36
Consensus pattern (185 bp):
TTTTAATCTGACCCACTACAACTTCAAGGGTATAGGATTTGATGTTGTACTTCACTCCATTCCAC
TATAACCTCAAGGAGATTAAGATTCGTTACTCATTTTAATCTAATCCACTATAACTTAAGGATAT
AGGATTTGGTGCTTCACTTTATTTCACTGTAACCTCAAAGAGATTGAGATCTGAT
Found at i:8009496 original size:16 final size:16
Alignment explanation
Indices: 8009477--8009511 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8009467 CTTTTTCCTC
*
8009477 TTTTTTCTTTTCTTTT
1 TTTTTTCTTTTATTTT
*
8009493 TTTTTTTTTTTATTTT
1 TTTTTTCTTTTATTTT
8009509 TTT
1 TTT
8009512 GGTGAAATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.06, G:0.00, T:0.91
Consensus pattern (16 bp):
TTTTTTCTTTTATTTT
Found at i:8013799 original size:15 final size:15
Alignment explanation
Indices: 8013779--8013807 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8013769 AATTTTAAAA
8013779 AATGACAAATAAATG
1 AATGACAAATAAATG
8013794 AATGACAAATAAAT
1 AATGACAAATAAAT
8013808 AAAAATAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.10, T:0.21
Consensus pattern (15 bp):
AATGACAAATAAATG
Found at i:8016545 original size:44 final size:44
Alignment explanation
Indices: 8016505--8016756 Score: 265
Period size: 44 Copynumber: 5.8 Consensus size: 44
8016495 ATTGCCATTG
** * *
8016505 GGCTGTGGATGTACAGCAAGATTCGCAGATAAAATCTGCCACTA
1 GGCTGTGGATACACAGCAAAATTCGCAGATAAAATCTACCACTA
* *
8016549 GGCTGTGGATACATAGCAAAATTCACAGATAAAATCTACCACTA
1 GGCTGTGGATACACAGCAAAATTCGCAGATAAAATCTACCACTA
* ** * * *
8016593 GGTTGTGGATACACAAAAAAATTCACAAATAAAATCTACCTCTA
1 GGCTGTGGATACACAGCAAAATTCGCAGATAAAATCTACCACTA
* * * *
8016637 GG-TATGGATACACATCAAAATTCGCAAATAAAATCTACCACTG
1 GGCTGTGGATACACAGCAAAATTCGCAGATAAAATCTACCACTA
* * *
8016680 GGCTGTGGATACACAGAAAAATTCGCAGATAAAATTTGCCA-TAA
1 GGCTGTGGATACACAGCAAAATTCGCAGATAAAATCTACCACT-A
* * * * *
8016724 GGCTATGGATACACAACAAGATTTGCAAATAAA
1 GGCTGTGGATACACAGCAAAATTCGCAGATAAA
8016757 CTTCTAATCT
Statistics
Matches: 175, Mismatches: 31, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
43 38 0.22
44 137 0.78
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (44 bp):
GGCTGTGGATACACAGCAAAATTCGCAGATAAAATCTACCACTA
Found at i:8016668 original size:87 final size:88
Alignment explanation
Indices: 8016533--8016756 Score: 272
Period size: 87 Copynumber: 2.6 Consensus size: 88
8016523 AGATTCGCAG
* * * * * * *
8016533 ATAAAATCTGCCACTAGGCTGTGGATACATAGCAAAATTCACAGATAAAATCTACCACTAGGTTG
1 ATAAAATCTGCCTCTAGGCTATGGATACACAACAAAATTCGCAAATAAAATCTACCACTAGGCTG
8016598 TGGATACACAAAAAAATTCACAA
66 TGGATACACAAAAAAATTCACAA
* * *
8016621 ATAAAATCTACCTCTAGG-TATGGATACACATCAAAATTCGCAAATAAAATCTACCACTGGGCTG
1 ATAAAATCTGCCTCTAGGCTATGGATACACAACAAAATTCGCAAATAAAATCTACCACTAGGCTG
* * *
8016685 TGGATACACAGAAAAATTCGCAG
66 TGGATACACAAAAAAATTCACAA
* * * *
8016708 ATAAAATTTGCCAT-AAGGCTATGGATACACAACAAGATTTGCAAATAAA
1 ATAAAATCTGCC-TCTAGGCTATGGATACACAACAAAATTCGCAAATAAA
8016757 CTTCTAATCT
Statistics
Matches: 116, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
87 72 0.62
88 44 0.38
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (88 bp):
ATAAAATCTGCCTCTAGGCTATGGATACACAACAAAATTCGCAAATAAAATCTACCACTAGGCTG
TGGATACACAAAAAAATTCACAA
Found at i:8016886 original size:38 final size:38
Alignment explanation
Indices: 8016825--8016925 Score: 139
Period size: 38 Copynumber: 2.7 Consensus size: 38
8016815 TCTAATAGAA
** *
8016825 CAATTCAACACTAGTAGTTGACATGTATAACATGTACT
1 CAATTCAACACTAACAGTAGACATGTATAACATGTACT
* *
8016863 CACTTCAACACTAACAGTAGACATGTTTAACATGTACT
1 CAATTCAACACTAACAGTAGACATGTATAACATGTACT
* *
8016901 CAATTCATCATTAACAGTAGACATG
1 CAATTCAACACTAACAGTAGACATG
8016926 ATTATCAAGT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 55 1.00
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.30
Consensus pattern (38 bp):
CAATTCAACACTAACAGTAGACATGTATAACATGTACT
Found at i:8021438 original size:18 final size:18
Alignment explanation
Indices: 8021417--8021451 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8021407 TGGAAATATG
*
8021417 AAAAATTAAAAAGATAAA
1 AAAAATGAAAAAGATAAA
*
8021435 AAAAATGAAAAATATAA
1 AAAAATGAAAAAGATAA
8021452 TTTTTGTGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (18 bp):
AAAAATGAAAAAGATAAA
Found at i:8022391 original size:19 final size:19
Alignment explanation
Indices: 8022339--8022383 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
8022329 AAATTTAGGT
* *
8022339 TTTTAAGAAATTTTTAGAA
1 TTTTATGAATTTTTTAGAA
8022358 TTTTATGAATTTTTTA-AA
1 TTTTATGAATTTTTTAGAA
8022376 GTTTTATG
1 -TTTTATG
8022384 GGTTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (19 bp):
TTTTATGAATTTTTTAGAA
Found at i:8022478 original size:20 final size:20
Alignment explanation
Indices: 8022447--8022486 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
8022437 AAAAATGCAA
8022447 AAACCCTAAAATTA-AAAAT
1 AAACCCTAAAATTATAAAAT
8022466 AAACCCATAAAATTATAAAAT
1 AAACCC-TAAAATTATAAAAT
8022487 TTTCTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 8 0.42
21 5 0.26
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (20 bp):
AAACCCTAAAATTATAAAAT
Found at i:8024371 original size:31 final size:31
Alignment explanation
Indices: 8024331--8024399 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
8024321 TTATAAAGTT
*
8024331 GTCAATAAATTATTCAA-AAGTT-TTCATTCAA
1 GTCACTAAATTATT-AAGAAGTTATT-ATTCAA
* *
8024362 GTCACTAAATTGTTAAGAAGTTATTATTTAA
1 GTCACTAAATTATTAAGAAGTTATTATTCAA
8024393 GTCACTA
1 GTCACTA
8024400 GGGTTTTAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 2 0.06
31 29 0.88
32 2 0.06
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (31 bp):
GTCACTAAATTATTAAGAAGTTATTATTCAA
Found at i:8026889 original size:41 final size:41
Alignment explanation
Indices: 8026844--8027014 Score: 247
Period size: 41 Copynumber: 4.2 Consensus size: 41
8026834 CACGAGTTGA
* *
8026844 CACATGGGCATGTGTCAAGGTGTGTGTATACTGTTCTAGG-G
1 CACATGGGCATGTGCCAGGGTGTGTGTATACTGTTCT-GGAG
* *
8026885 CACATAGGCTTGTGCCAGGGTGTGTGTATACTGTTCTGGAG
1 CACATGGGCATGTGCCAGGGTGTGTGTATACTGTTCTGGAG
*
8026926 CACATGGGCATGTGCCAGGGTATGTGTATACTGTTCTGGAG
1 CACATGGGCATGTGCCAGGGTGTGTGTATACTGTTCTGGAG
* *
8026967 CACATGGGCATGTGCCAGGGTGTGTGTATATTGTT-TTGAG
1 CACATGGGCATGTGCCAGGGTGTGTGTATACTGTTCTGGAG
8027007 ACACATGG
1 -CACATGG
8027015 TCTGTAATAA
Statistics
Matches: 118, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 6 0.05
41 112 0.95
ACGTcount: A:0.19, C:0.16, G:0.34, T:0.31
Consensus pattern (41 bp):
CACATGGGCATGTGCCAGGGTGTGTGTATACTGTTCTGGAG
Found at i:8029994 original size:18 final size:19
Alignment explanation
Indices: 8029961--8030006 Score: 76
Period size: 18 Copynumber: 2.5 Consensus size: 19
8029951 TACCAATATT
*
8029961 AATTGAAATAGGTTGTGAA
1 AATTAAAATAGGTTGTGAA
8029980 AATTAAAAT-GGTTGTGAA
1 AATTAAAATAGGTTGTGAA
8029998 AATTAAAAT
1 AATTAAAAT
8030007 TTCCTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 18 0.69
19 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.33
Consensus pattern (19 bp):
AATTAAAATAGGTTGTGAA
Done.