Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 96 of 328
Found at i:26805511 original size:23 final size:23
Alignment explanation
Indices: 26805481--26805567 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
26805471 GCTTTATCGA
* *
26805481 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
26805504 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
26805525 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
26805547 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
26805568 ACTGATCAAG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:26806119 original size:36 final size:36
Alignment explanation
Indices: 26806017--26806120 Score: 136
Period size: 36 Copynumber: 2.9 Consensus size: 36
26806007 TAAGGTATAA
* *
26806017 AATAACTGATTATTACTGAATAATTGACTGTTACTG
1 AATAACTGATTATTACTGAATAATTGATTGTTACCG
* *
26806053 AATAACTGGTTATTACTGAATATTTGATTGTTACCG
1 AATAACTGATTATTACTGAATAATTGATTGTTACCG
* * * *
26806089 AATAACTGACTGTTACTGAATAAATAATTGTT
1 AATAACTGATTATTACTGAATAATTGATTGTT
26806121 CTGAGAGTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 58 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (36 bp):
AATAACTGATTATTACTGAATAATTGATTGTTACCG
Found at i:26806120 original size:18 final size:18
Alignment explanation
Indices: 26806017--26806124 Score: 110
Period size: 18 Copynumber: 6.1 Consensus size: 18
26806007 TAAGGTATAA
*
26806017 AATAACTGATTATTACTG
1 AATAACTGATTGTTACTG
* *
26806035 AATAATTGACTGTTACTG
1 AATAACTGATTGTTACTG
* *
26806053 AATAACTGGTTATTACTG
1 AATAACTGATTGTTACTG
** *
26806071 AATATTTGATTGTTACCG
1 AATAACTGATTGTTACTG
*
26806089 AATAACTGACTGTTACTG
1 AATAACTGATTGTTACTG
* *
26806107 AATAAATAATTGTT-CTG
1 AATAACTGATTGTTACTG
26806124 A
1 A
26806125 GAGTTAATGA
Statistics
Matches: 71, Mismatches: 19, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
17 4 0.06
18 67 0.94
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (18 bp):
AATAACTGATTGTTACTG
Found at i:26809549 original size:23 final size:25
Alignment explanation
Indices: 26809510--26809559 Score: 77
Period size: 23 Copynumber: 2.1 Consensus size: 25
26809500 ATGATATTTC
*
26809510 TTAAAGATTCAGTTTGAAAAA-AAA
1 TTAAAGATTCAGGTTGAAAAAGAAA
26809534 TTAAAGA-TCAGGTTGAAAAAGAAA
1 TTAAAGATTCAGGTTGAAAAAGAAA
26809558 TT
1 TT
26809560 GAGTTCTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.52, C:0.04, G:0.16, T:0.28
Consensus pattern (25 bp):
TTAAAGATTCAGGTTGAAAAAGAAA
Found at i:26810247 original size:7 final size:7
Alignment explanation
Indices: 26810220--26810266 Score: 69
Period size: 7 Copynumber: 6.6 Consensus size: 7
26810210 TATATTATAT
26810220 TATATTA
1 TATATTA
26810227 TAT-TATA
1 TATAT-TA
26810234 TTATATTA
1 -TATATTA
26810242 TATATTA
1 TATATTA
26810249 TATATTA
1 TATATTA
26810256 TATATTA
1 TATATTA
26810263 TATA
1 TATA
26810267 AATAAGTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
6 1 0.03
7 30 0.81
8 5 0.14
9 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TATATTA
Found at i:26810265 original size:5 final size:5
Alignment explanation
Indices: 26810210--26810258 Score: 75
Period size: 5 Copynumber: 10.0 Consensus size: 5
26810200 TGTTAAAATA
26810210 TATAT TATAT TATAT TATAT TATAT TATAT TATA- TAT-T ATATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT -TATAT TATAT
26810259 ATTATATAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
4 3 0.07
5 37 0.90
6 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:26810630 original size:19 final size:15
Alignment explanation
Indices: 26810584--26810625 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
26810574 CGATGAATTT
26810584 ATTGAATTTATATTG
1 ATTGAATTTATATTG
26810599 ATTGAATTTATATTG
1 ATTGAATTTATATTG
26810614 ATTGAA-TTATAT
1 ATTGAATTTATAT
26810626 AATATATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 6 0.22
15 21 0.78
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:26810944 original size:23 final size:23
Alignment explanation
Indices: 26810914--26811000 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
26810904 GCTTTATCAA
* *
26810914 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
26810937 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
26810958 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* * *
26810980 T-AGGCACTTTATGTGTTGTAT
1 TCAGGCACCTCATGTGTCGTAT
26811001 ACTGATCAGG
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
21 34 0.63
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.39
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:26810961 original size:21 final size:21
Alignment explanation
Indices: 26810926--26810986 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 21
26810916 AGGCACTTTA
26810926 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
26810949 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* *
26810970 TGTGTCGTTTTAGGCAC
1 TGTGTCGTATCAGGCAC
26810987 TTTATGTGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 27 0.75
23 9 0.25
ACGTcount: A:0.13, C:0.25, G:0.28, T:0.34
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:26811499 original size:36 final size:36
Alignment explanation
Indices: 26811450--26811544 Score: 127
Period size: 36 Copynumber: 2.6 Consensus size: 36
26811440 TAAGGTATAA
*
26811450 AATAACTGATTATTACTGAATAATTGACTGTTACTG
1 AATAACTGATTATTACTGAATAATTGACTGTTACCG
* * * *
26811486 AATAACTGGTTATTACTGAATATTTGATTTTTACCG
1 AATAACTGATTATTACTGAATAATTGACTGTTACCG
* *
26811522 AATAACTGACTGTTACTGAATAA
1 AATAACTGATTATTACTGAATAA
26811545 ATAATTGTTC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.39
Consensus pattern (36 bp):
AATAACTGATTATTACTGAATAATTGACTGTTACCG
Found at i:26811553 original size:18 final size:18
Alignment explanation
Indices: 26811450--26811557 Score: 101
Period size: 18 Copynumber: 6.1 Consensus size: 18
26811440 TAAGGTATAA
*
26811450 AATAACTGATTATTACTG
1 AATAACTGATTGTTACTG
* *
26811468 AATAATTGACTGTTACTG
1 AATAACTGATTGTTACTG
* *
26811486 AATAACTGGTTATTACTG
1 AATAACTGATTGTTACTG
** * *
26811504 AATATTTGATTTTTACCG
1 AATAACTGATTGTTACTG
*
26811522 AATAACTGACTGTTACTG
1 AATAACTGATTGTTACTG
* *
26811540 AATAAATAATTGTT-CTG
1 AATAACTGATTGTTACTG
26811557 A
1 A
26811558 GAGTTAATGA
Statistics
Matches: 70, Mismatches: 20, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
17 4 0.06
18 66 0.94
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (18 bp):
AATAACTGATTGTTACTG
Found at i:26818463 original size:24 final size:23
Alignment explanation
Indices: 26818436--26818494 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
26818426 TCTACTACAA
* *
26818436 GTAGGAGGAGTTGTGTTACTCTTT
1 GTAGGAGCA-TTGTCTTACTCTTT
*
26818460 GTAGGGAGCATTGTCTTACTGTTT
1 GTA-GGAGCATTGTCTTACTCTTT
26818484 GTAGAGAGCAT
1 GTAG-GAGCAT
26818495 CAAAAATCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 1 0.03
24 24 0.80
25 5 0.17
ACGTcount: A:0.20, C:0.10, G:0.32, T:0.37
Consensus pattern (23 bp):
GTAGGAGCATTGTCTTACTCTTT
Found at i:26832208 original size:10 final size:10
Alignment explanation
Indices: 26832189--26832230 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
26832179 CCAAACGACT
*
26832189 AAGAAAGAAA
1 AAGAAGGAAA
26832199 AAGAAGGAAA
1 AAGAAGGAAA
26832209 AA-AAGAGAAA
1 AAGAAG-GAAA
26832219 AAGAA-GAAA
1 AAGAAGGAAA
26832228 AAG
1 AAG
26832231 GAAAGAAGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 10 0.34
10 17 0.59
11 2 0.07
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (10 bp):
AAGAAGGAAA
Found at i:26832237 original size:20 final size:20
Alignment explanation
Indices: 26832189--26832237 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
26832179 CCAAACGACT
26832189 AAGAAAGAAAAAGAAGGAAA
1 AAGAAAGAAAAAGAAGGAAA
26832209 AA-AAGAGAAAAAGAA-GAAA
1 AAGAA-AGAAAAAGAAGGAAA
26832228 AAGGAAAGAA
1 AA-GAAAGAA
26832238 GGGCCCAACG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 8 0.31
20 16 0.62
21 2 0.08
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (20 bp):
AAGAAAGAAAAAGAAGGAAA
Found at i:26837811 original size:29 final size:29
Alignment explanation
Indices: 26837759--26837815 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
26837749 CATAATTTCA
26837759 AATATTATAAAATAAATTTAAAAATATTT
1 AATATTATAAAATAAATTTAAAAATATTT
26837788 AATATT-TAAAATAAACATTT-AAAATATT
1 AATATTATAAAAT-AA-ATTTAAAAATATT
26837816 ATAAAACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 6 0.23
29 16 0.62
30 4 0.15
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (29 bp):
AATATTATAAAATAAATTTAAAAATATTT
Found at i:26837879 original size:17 final size:20
Alignment explanation
Indices: 26837844--26837921 Score: 67
Period size: 18 Copynumber: 4.0 Consensus size: 20
26837834 TTGAAAGATC
* *
26837844 ATATATTTAA-AATATTTAA
1 ATATATTTAATATTATTAAA
26837863 ATAT-TTT-ATATTATTAAA
1 ATATATTTAATATTATTAAA
*
26837881 ATATATTTAATATT-TAAAAA
1 ATATATTTAATATTAT-TAAA
*
26837901 ATAATATTTAAAATT-TTAAA
1 AT-ATATTTAATATTATTAAA
26837921 A
1 A
26837922 AATAATTTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
17 1 0.02
18 14 0.29
19 8 0.16
20 14 0.29
21 12 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATATTTAATATTATTAAA
Found at i:26837921 original size:21 final size:22
Alignment explanation
Indices: 26837878--26837927 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
26837868 TTATATTATT
*
26837878 AAAAT-ATATTTAATATTT-AA
1 AAAATAATATTTAAAATTTAAA
*
26837898 AAAATAATATTTAAAATTTTAA
1 AAAATAATATTTAAAATTTAAA
26837920 AAAATAAT
1 AAAATAAT
26837928 TTCAAATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 5 0.19
21 12 0.44
22 10 0.37
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATAATATTTAAAATTTAAA
Found at i:26839238 original size:27 final size:27
Alignment explanation
Indices: 26839187--26839240 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
26839177 TTAAAATATA
26839187 AATTTTAAAATTTTTATGAATATTTTG
1 AATTTTAAAATTTTTATGAATATTTTG
26839214 AATTTTAAAAATTATTT-TGAA-ATTTTG
1 AATTTT-AAAATT-TTTATGAATATTTTG
26839241 GAAATTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 12 0.48
28 10 0.40
29 3 0.12
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (27 bp):
AATTTTAAAATTTTTATGAATATTTTG
Found at i:26839239 original size:20 final size:20
Alignment explanation
Indices: 26839207--26839256 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
26839197 TTTTTATGAA
26839207 TATTTTG-AATTTTAAAAAT
1 TATTTTGAAATTTTAAAAAT
**
26839226 TATTTTGAAATTTTGGAAAT
1 TATTTTGAAATTTTAAAAAT
26839246 TATTTT-AAATT
1 TATTTTGAAATT
26839257 ATTTTTGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (20 bp):
TATTTTGAAATTTTAAAAAT
Found at i:26840310 original size:9 final size:9
Alignment explanation
Indices: 26840293--26840329 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
26840283 TATAGTTTGA
*
26840293 TATTTGAAT
1 TATTCGAAT
26840302 TATTCGAAT
1 TATTCGAAT
*
26840311 TATTCGAGT
1 TATTCGAAT
26840320 TATTCGAAT
1 TATTCGAAT
26840329 T
1 T
26840330 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:26843312 original size:24 final size:23
Alignment explanation
Indices: 26843284--26843331 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
26843274 TCCACGATAG
26843284 ATTTTTTCCCTTTTTAATAAACT
1 ATTTTTTCCCTTTTTAATAAACT
*
26843307 ATTTTTTCCCTTTTTGATAAACT
1 ATTTTTTCCCTTTTTAATAAACT
26843330 AT
1 AT
26843332 CCCTTATCGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.02, T:0.56
Consensus pattern (23 bp):
ATTTTTTCCCTTTTTAATAAACT
Found at i:26845575 original size:13 final size:13
Alignment explanation
Indices: 26845557--26845583 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
26845547 CCTTTCAAAT
26845557 TTATACCTAAGAC
1 TTATACCTAAGAC
26845570 TTATACCTAAGAC
1 TTATACCTAAGAC
26845583 T
1 T
26845584 AGGTTAACTT
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:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (13 bp):
TTATACCTAAGAC
Found at i:26846924 original size:2 final size:2
Alignment explanation
Indices: 26846917--26846944 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
26846907 GTTAATCAAA
26846917 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
26846945 CAGACAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:26847185 original size:29 final size:30
Alignment explanation
Indices: 26847117--26847186 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
26847107 GGTTTTTGAG
* *
26847117 TTTGAGGATTTAGGGTTTTAGGTTGTCGAA
1 TTTGAGGATTTAGGATTTAAGGTTGTCGAA
*
26847147 TTTG-GAGATTT-TGATTTAAGGTTGTCGAA
1 TTTGAG-GATTTAGGATTTAAGGTTGTCGAA
26847176 TTTGAGGATTT
1 TTTGAGGATTT
26847187 GGGTTAGGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 25 0.71
30 10 0.29
ACGTcount: A:0.21, C:0.03, G:0.30, T:0.46
Consensus pattern (30 bp):
TTTGAGGATTTAGGATTTAAGGTTGTCGAA
Found at i:26847235 original size:29 final size:28
Alignment explanation
Indices: 26847147--26847278 Score: 88
Period size: 29 Copynumber: 4.6 Consensus size: 28
26847137 GGTTGTCGAA
* *
26847147 TTTGGAGATTTTGATTTAAGGTTGTCGAA-
1 TTTGG-GATTTTG-TTTAAGGTTTTTGAAT
* * * * *
26847176 TTTGAGGATTTGGGTTAGGGGTTCT-AAT
1 TTTG-GGATTTTGTTTAAGGTTTTTGAAT
* **
26847204 TTTAGGGATTTTGTTTAGGGTTTTTTTAT
1 TTT-GGGATTTTGTTTAAGGTTTTTGAAT
* *
26847233 TTTCGAATTTTCGTTTAAGGTTTTTGAAT
1 TTTGGGATTTT-GTTTAAGGTTTTTGAAT
26847262 TTTGGGATTTCTGTTTA
1 TTTGGGATTT-TGTTTA
26847279 TTATTTTCAA
Statistics
Matches: 78, Mismatches: 19, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
27 2 0.03
28 31 0.40
29 43 0.55
30 2 0.03
ACGTcount: A:0.18, C:0.04, G:0.26, T:0.52
Consensus pattern (28 bp):
TTTGGGATTTTGTTTAAGGTTTTTGAAT
Found at i:26848208 original size:23 final size:23
Alignment explanation
Indices: 26848165--26848208 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
26848155 CCAATTCAAC
*
26848165 ATATTTTCAAGATAAATTCATGT
1 ATATTTTCAAGATAAAGTCATGT
*
26848188 ATATTTAT-AAGATAACGTCAT
1 ATATTT-TCAAGATAAAGTCAT
26848209 CACATACCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (23 bp):
ATATTTTCAAGATAAAGTCATGT
Found at i:26851757 original size:24 final size:24
Alignment explanation
Indices: 26851725--26851773 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
26851715 ACTAAGGGAG
26851725 ACACAAAGAAAGCTAGCTTCAGAA
1 ACACAAAGAAAGCTAGCTTCAGAA
26851749 ACACAAAGAAAGCTAGCTTCAGAA
1 ACACAAAGAAAGCTAGCTTCAGAA
26851773 A
1 A
26851774 TGCATGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.20, G:0.16, T:0.12
Consensus pattern (24 bp):
ACACAAAGAAAGCTAGCTTCAGAA
Found at i:26858673 original size:158 final size:158
Alignment explanation
Indices: 26858359--26858672 Score: 380
Period size: 158 Copynumber: 2.0 Consensus size: 158
26858349 GGTGAGAGTC
* * * *
26858359 ACAATAGAAGATCATGCATTCAACCTAACAGAAATAGATCATAGATATATCATTAACACTTTTTC
1 ACAACAGAAGATCATGCAATCAACCTAACACAAATAGATCATAGATATATCATAAACACTTTTTC
* ** * **
26858424 ACTATCAAGTTCTTAAATATTTAAGTCTAATTTGGGGTTTTACATTTTTTTCTTAATCTAGTGCC
66 ACTATCAAGTTCTTAAATATTTAAATCTAATAGGGGGTTTGACATTTTTTTCTTAATCTAGAACC
*
26858489 ATTACAAGAACTAAAAGCCAAAAAAAGA
131 AATACAAGAACTAAAAGCCAAAAAAAGA
* * * * * *
26858517 ACAACAGAAGATCATGCAATCAACCTACCACAACTGGATCATAGGTATATCGTAAACACTTTTTT
1 ACAACAGAAGATCATGCAATCAACCTAACACAAATAGATCATAGATATATCATAAACACTTTTTC
* * * *
26858582 ACTGTTAAGTT-TTAAAATATTTAAATCTAATAGGGGGTTGTGA-TTTTTTTGTCTTAGTCTAGA
66 ACTATCAAGTTCTT-AAATATTTAAATCTAATAGGGGGTT-TGACATTTTTT-TCTTAATCTAGA
* *
26858645 ACGAATACAAGAACTAGAAGCCAAAAAA
128 ACCAATACAAGAACTAAAAGCCAAAAAA
26858673 GGATGGTATA
Statistics
Matches: 130, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
157 2 0.02
158 92 0.71
159 36 0.28
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (158 bp):
ACAACAGAAGATCATGCAATCAACCTAACACAAATAGATCATAGATATATCATAAACACTTTTTC
ACTATCAAGTTCTTAAATATTTAAATCTAATAGGGGGTTTGACATTTTTTTCTTAATCTAGAACC
AATACAAGAACTAAAAGCCAAAAAAAGA
Found at i:26872179 original size:31 final size:31
Alignment explanation
Indices: 26872144--26872202 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
26872134 ATGTGTATGA
*
26872144 TTAAATCAAAATTAAAGTTTCAAGTATACAT
1 TTAAACCAAAATTAAAGTTTCAAGTATACAT
* * *
26872175 TTAAACCACAATTAGAGTTTCACGTATA
1 TTAAACCAAAATTAAAGTTTCAAGTATA
26872203 TAATTGTACC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (31 bp):
TTAAACCAAAATTAAAGTTTCAAGTATACAT
Found at i:26879419 original size:35 final size:36
Alignment explanation
Indices: 26879379--26879454 Score: 118
Period size: 35 Copynumber: 2.1 Consensus size: 36
26879369 ACACATTTAT
*
26879379 ATTACACCATACAACCGAATTCAAGCCTTAATCAAG
1 ATTACACCATACAACCAAATTCAAGCCTTAATCAAG
* *
26879415 -TTACACCATACAACCAAATTCGAGCCTTAATGAAG
1 ATTACACCATACAACCAAATTCAAGCCTTAATCAAG
26879450 ATTAC
1 ATTAC
26879455 GAAAGCTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 32 0.89
36 4 0.11
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.24
Consensus pattern (36 bp):
ATTACACCATACAACCAAATTCAAGCCTTAATCAAG
Found at i:26890053 original size:26 final size:26
Alignment explanation
Indices: 26890016--26890081 Score: 107
Period size: 26 Copynumber: 2.6 Consensus size: 26
26890006 TTTGGGCTGA
* *
26890016 ATTG-AATAGATTGTATACTAAATGG
1 ATTGAAATTGATTATATACTAAATGG
26890041 ATTGAAATTGATTATATACTAAATGG
1 ATTGAAATTGATTATATACTAAATGG
26890067 ATTGAAATTGATTAT
1 ATTGAAATTGATTAT
26890082 TTAGACCAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 4 0.11
26 34 0.89
ACGTcount: A:0.41, C:0.03, G:0.17, T:0.39
Consensus pattern (26 bp):
ATTGAAATTGATTATATACTAAATGG
Found at i:26895800 original size:20 final size:20
Alignment explanation
Indices: 26895762--26895804 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
26895752 TAAATTCTAA
* **
26895762 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
26895782 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
26895802 AAA
1 AAA
26895805 ATTAAATCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:26895853 original size:15 final size:15
Alignment explanation
Indices: 26895833--26895862 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
26895823 ATAATCATAA
26895833 TAATTATCTTAATAT
1 TAATTATCTTAATAT
26895848 TAATTATCTTAATAT
1 TAATTATCTTAATAT
26895863 AAATAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (15 bp):
TAATTATCTTAATAT
Found at i:26896625 original size:96 final size:96
Alignment explanation
Indices: 26896507--26896754 Score: 399
Period size: 96 Copynumber: 2.6 Consensus size: 96
26896497 AAAAATATTA
*
26896507 AACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTACTCAGCCCAACACATT
1 AACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTACTCAGCCCAAAACATT
26896572 CCTAATTTTTATTTTTCCTAAGAACATATCG
66 CCTAATTTTTATTTTTCCTAAGAACATATCG
* * *
26896603 AATCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCTCACCCTGGTTACTCAGCCCAAAACATT
1 AACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTACTCAGCCCAAAACATT
26896668 CCTAATTTTTATTTTTCCTAAGAACATATCG
66 CCTAATTTTTATTTTTCCTAAGAACATATCG
* * * *
26896699 AACCTTTTGACGTGAA-ATAGGATGACAACCCAAGCACCCTACCCCGGTTACTCAGC
1 AACCTTTTGACGCGAAGAGA-GATGAC-AGCCAAGCACCCCACCCCGGTTACTCAGC
26896755 TAGTCACGTC
Statistics
Matches: 139, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
95 2 0.01
96 112 0.81
97 25 0.18
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (96 bp):
AACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTACTCAGCCCAAAACATT
CCTAATTTTTATTTTTCCTAAGAACATATCG
Found at i:26897699 original size:26 final size:26
Alignment explanation
Indices: 26897660--26897793 Score: 196
Period size: 26 Copynumber: 5.2 Consensus size: 26
26897650 TGGTACAAAT
*
26897660 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
26897686 TTATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
26897712 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* **
26897738 TGATAATGGGTTAGGTAAATGTTTTA
1 TGATAATGGATTAGGTAAATGTTCCA
*
26897764 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
26897790 TGAT
1 TGAT
26897794 GGGCATTTCA
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 97 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:26899036 original size:5 final size:5
Alignment explanation
Indices: 26899026--26899081 Score: 64
Period size: 5 Copynumber: 11.4 Consensus size: 5
26899016 TTAATATCTG
*
26899026 AATAA AATAA AAT-- AATAA GATAA AAT-A AATAAA AATAA AATAA AATAAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AAT-AA AATAA AATAA AAT-AA
26899075 AATAA AA
1 AATAA AA
26899082 ATTGGGTTGC
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
3 3 0.07
4 4 0.09
5 28 0.64
6 9 0.20
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:26899063 original size:6 final size:6
Alignment explanation
Indices: 26899052--26899083 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
26899042 AAGATAAAAT
26899052 AAATAA AAAT-A AAAT-A AAATAA AAATAA AAAT
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAAT
26899084 TGGGTTGCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:26899077 original size:22 final size:21
Alignment explanation
Indices: 26899026--26899083 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
26899016 TTAATATCTG
*
26899026 AATAAAATAAAATAATAAGATAA
1 AATAAAAT-AAA-AATAAAATAA
26899049 AAT-AAATAAAAATAAAATAA
1 AATAAAATAAAAATAAAATAA
26899069 AATAAAAATAAAAAT
1 AAT-AAAATAAAAAT
26899084 TGGGTTGCCT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
20 12 0.38
21 3 0.09
22 14 0.44
23 3 0.09
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.21
Consensus pattern (21 bp):
AATAAAATAAAAATAAAATAA
Found at i:26905443 original size:20 final size:20
Alignment explanation
Indices: 26905405--26905447 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
26905395 TAAATTCTAA
* **
26905405 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
26905425 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
26905445 AAA
1 AAA
26905448 ATTAAATCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:26905496 original size:15 final size:15
Alignment explanation
Indices: 26905476--26905505 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
26905466 ATAATCATAA
26905476 TAATTATCTTAATAT
1 TAATTATCTTAATAT
26905491 TAATTATCTTAATAT
1 TAATTATCTTAATAT
26905506 AAATAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (15 bp):
TAATTATCTTAATAT
Found at i:26916893 original size:39 final size:42
Alignment explanation
Indices: 26916850--26916934 Score: 95
Period size: 42 Copynumber: 2.1 Consensus size: 42
26916840 ATAAGATTAA
26916850 CTTTG-TAACACTG-AT-ATATCAAGCATATTGCCTAGCAGG
1 CTTTGATAACACTGTATGATATCAAGCATATTGCCTAGCAGG
** ** * *
26916889 CTTTGATGCCGGTGTATGATATCAGGCTTATTGCCTAGCAGG
1 CTTTGATAACACTGTATGATATCAAGCATATTGCCTAGCAGG
26916931 CTTT
1 CTTT
26916935 ATGCCAGTGT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
39 5 0.14
40 4 0.11
41 2 0.05
42 26 0.70
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (42 bp):
CTTTGATAACACTGTATGATATCAAGCATATTGCCTAGCAGG
Found at i:26916954 original size:41 final size:42
Alignment explanation
Indices: 26916865--26916970 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 42
26916855 TAACACTGAT
* * *
26916865 ATATCAAGCATATTGCCTAGCAGGCTTTGATGCCGGTGTATG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCAGTGTATG
26916907 ATATCAGGCTTATTGCCTAGCAGGCTTT-ATGCCAGTGTATTG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCAGTGTA-TG
* * *
26916949 A-ATCAGGTTTATTACCTGGCAG
1 ATATCAGGCTTATTGCCTAGCAG
26916971 ACTCTGTGTC
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
41 28 0.49
42 29 0.51
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (42 bp):
ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCAGTGTATG
Found at i:26917950 original size:2 final size:2
Alignment explanation
Indices: 26917943--26917968 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
26917933 AGCTATTTTA
26917943 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
26917969 TATGATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26929388 original size:44 final size:44
Alignment explanation
Indices: 26929243--26929536 Score: 185
Period size: 44 Copynumber: 6.6 Consensus size: 44
26929233 TATTGAAGGC
* * *
26929243 CTTATCTCCCTAAAGTTGCAGTGGAAC-AGACTGAAGATGAC-AGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAG-TTGAAGAT-ACAAG-T
* * ** *
26929288 CTTATCTCCCTAAAGTTGCAGTGGAG-TAGATCAAAGCCATA-AA-C
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAG-TTGAAG--ATACAAGT
* *
26929332 CTTGTC-CTCCTGAAGTTGCAGTGG-GACAAGTTGAAGTTACAAGT
1 CTTATCTC-CCTGAAGTTGCAGTGGAG-CAAGTTGAAGATACAAGT
* * *
26929376 CTTATCTCCCTGAAGTTGTAGTGGAGC-AGACTAAAGATACCAA-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAG-TTGAAGATA-CAAGT
* * * *
26929420 CTTATCTCCCTGAAATTGCAGTGGAGCAGGTTGAAGCTACGAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATACAAGT
* * * * *
26929464 CTTATCTCCCTAAAGTTGCAGTAGAG-TAGACTGAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAG-TTGAAGATA-CAAGT
** *
26929509 CTTATCTCTTTGAAGTTGCAGTAGAGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA
26929537 GATCAAAGCA
Statistics
Matches: 194, Mismatches: 37, Indels: 35
0.73 0.14 0.13
Matches are distributed among these distances:
42 2 0.01
43 9 0.05
44 114 0.59
45 65 0.34
46 2 0.01
47 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATACAAGT
Found at i:26929432 original size:88 final size:86
Alignment explanation
Indices: 26929243--26929530 Score: 280
Period size: 88 Copynumber: 3.3 Consensus size: 86
26929233 TATTGAAGGC
* * * *
26929243 CTTATCTCCCTAAAGTTGCAGTGGAAC-AGACTGAAGATGACAGATCTTATCTCCCTAAAGTTGC
1 CTTATCTCCCTGAAGTTGCAGTGGGACAAG-TTGAAG-TTACAG-TCTTATCTCCCTAAAGTTGC
*
26929307 AGTGGAGTAGA-TCAAAGCCATA-AAC
63 AGTGGAGTAGACT-AAAG--ATACAAT
* * *
26929332 CTTGTC-CTCCTGAAGTTGCAGTGGGACAAGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGTA
1 CTTATCTC-CCTGAAGTTGCAGTGGGACAAGTTGAAGTTAC-AGTCTTATCTCCCTAAAGTTGCA
*
26929396 GTGGAGCAGACTAAAGATACCAAT
64 GTGGAGTAGACTAAAGATA-CAAT
* * *
26929420 CTTATCTCCCTGAAATTGCAGT-GGAGCAGGTTGAAGCTACGAGTCTTATCTCCCTAAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGGA-CAAGTTGAAGTTAC-AGTCTTATCTCCCTAAAGTTGCA
* *
26929484 GTAGAGTAGACTGAAGATAGCAAAT
64 GTGGAGTAGACTAAAGATA-C-AAT
**
26929509 CTTATCTCTTTGAAGTTGCAGT
1 CTTATCTCCCTGAAGTTGCAGT
26929531 AGAGCAGATC
Statistics
Matches: 167, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
86 3 0.02
87 3 0.02
88 106 0.63
89 53 0.32
90 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (86 bp):
CTTATCTCCCTGAAGTTGCAGTGGGACAAGTTGAAGTTACAGTCTTATCTCCCTAAAGTTGCAGT
GGAGTAGACTAAAGATACAAT
Found at i:26929725 original size:44 final size:44
Alignment explanation
Indices: 26929622--26929726 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 44
26929612 CTAAAGTTAT
*
26929622 AGTGGAGTAGATTGAAGTCACAAACCTTATCCCCTTGAAGTTGC
1 AGTGGAGCAGATTGAAGTCACAAACCTTATCCCCTTGAAGTTGC
* ** *
26929666 AGTAGG-GCAGGTTGAAGTTGCAAACCTTA-CCTCTCTGAAGTTGC
1 AGT-GGAGCAGATTGAAGTCACAAACCTTATCCCCT-TGAAGTTGC
*
26929710 AGTGGAGCACATTGAAG
1 AGTGGAGCAGATTGAAG
26929727 ATACTTGAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
43 6 0.12
44 43 0.84
45 2 0.04
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (44 bp):
AGTGGAGCAGATTGAAGTCACAAACCTTATCCCCTTGAAGTTGC
Found at i:26933481 original size:15 final size:15
Alignment explanation
Indices: 26933461--26933492 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
26933451 CATTTCACTA
26933461 TTATGTCTTCTATAT
1 TTATGTCTTCTATAT
*
26933476 TTATGTCTTTTATAT
1 TTATGTCTTCTATAT
26933491 TT
1 TT
26933493 TGCATGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.09, G:0.06, T:0.66
Consensus pattern (15 bp):
TTATGTCTTCTATAT
Found at i:26935083 original size:68 final size:69
Alignment explanation
Indices: 26934998--26935132 Score: 200
Period size: 69 Copynumber: 2.0 Consensus size: 69
26934988 TTTTAATAGT
* * *
26934998 TTAATATGAAATTTAATTTAATACTTATCTTAAT-ATTATTTTATTAATTTAATATTAAAGTGAT
1 TTAATATGAAATATAATTTAATACTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAT
26935062 TATC
66 TATC
* ** *
26935066 TTAATATTAAATATAATTTAATGTTTATCTTGATAAATATTATATTAATTTAATATTAAAGTGAT
1 TTAATATGAAATATAATTTAATACTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAT
26935131 TA
66 TA
26935133 AGTTCAATCA
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
68 29 0.49
69 30 0.51
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.50
Consensus pattern (69 bp):
TTAATATGAAATATAATTTAATACTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGAT
TATC
Found at i:26935279 original size:25 final size:26
Alignment explanation
Indices: 26935229--26935279 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
26935219 AATTGTAGAG
*
26935229 AGAAAATTCTCTGAAGAGATTATTCT
1 AGAAAATTCTCTAAAGAGATTATTCT
* *
26935255 AGAAAATT-TCTAAAGATATTTTTCT
1 AGAAAATTCTCTAAAGAGATTATTCT
26935280 GATTTACAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (26 bp):
AGAAAATTCTCTAAAGAGATTATTCT
Found at i:26935760 original size:15 final size:15
Alignment explanation
Indices: 26935740--26935769 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
26935730 TTCACTGTTA
26935740 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
26935755 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
26935770 ACATGCATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (15 bp):
TGTCTTTTATATTTT
Found at i:26938740 original size:37 final size:35
Alignment explanation
Indices: 26938689--26938796 Score: 100
Period size: 37 Copynumber: 3.1 Consensus size: 35
26938679 ATTTTAAAAA
*
26938689 TAATATTATTTTAATAGTTTAATATTAAATTTAATT
1 TAATATTATATTAATA-TTTAATATTAAATTTAATT
*
26938725 TAATACTTATATTAATA-TT-AT-TT-TA-TTAATT
1 TAATA-TTATATTAATATTTAATATTAAATTTAATT
* * *
26938756 TAATATTAAAGTGATTATCTTAATATTAAATTTAATT
1 TAATATTATA-TTAATAT-TTAATATTAAATTTAATT
26938793 TAAT
1 TAAT
26938797 GTTTATCTTG
Statistics
Matches: 58, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
30 4 0.07
31 15 0.26
32 1 0.02
33 4 0.07
34 4 0.07
35 4 0.07
36 6 0.10
37 20 0.34
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.54
Consensus pattern (35 bp):
TAATATTATATTAATATTTAATATTAAATTTAATT
Found at i:26939393 original size:2 final size:2
Alignment explanation
Indices: 26939386--26939410 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
26939376 AAACCTATGC
26939386 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
26939411 CACAAAGATT
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:26940007 original size:24 final size:23
Alignment explanation
Indices: 26939974--26940032 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
26939964 ACTTTTGGTA
* *
26939974 TTTTATGGTTTATAG-TTTTAGGAT
1 TTTTAAGGTTTAT-GTTTTTAAG-T
26939998 TTTTAAGGTTTATGTTTTTAAGT
1 TTTTAAGGTTTATGTTTTTAAGT
*
26940021 TTTTAGGGTTTA
1 TTTTAAGGTTTA
26940033 AGAATTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 13 0.42
24 18 0.58
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.59
Consensus pattern (23 bp):
TTTTAAGGTTTATGTTTTTAAGT
Found at i:26947837 original size:25 final size:25
Alignment explanation
Indices: 26947780--26947913 Score: 223
Period size: 26 Copynumber: 5.2 Consensus size: 25
26947770 ACATGAATTC
26947780 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCA
26947806 TTATCATGAAACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCA
*
26947831 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
26947857 TTATCATGAAACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCA
*
26947882 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
26947908 TTATCA
1 TTATCA
26947914 ATTTGTATCA
Statistics
Matches: 103, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
25 50 0.49
26 53 0.51
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (25 bp):
TTATCATGAAACATTTACCTAACCA
Found at i:26947860 original size:51 final size:51
Alignment explanation
Indices: 26947780--26947913 Score: 250
Period size: 51 Copynumber: 2.6 Consensus size: 51
26947770 ACATGAATTC
* *
26947780 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCA
26947831 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCA
26947882 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
26947914 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 81 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (51 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCA
Found at i:26953600 original size:25 final size:25
Alignment explanation
Indices: 26953557--26953689 Score: 230
Period size: 25 Copynumber: 5.2 Consensus size: 25
26953547 CATGAAATTC
26953557 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCCA
26953583 TTATCATGAACATTTACCTAACCCA
1 TTATCATGAACATTTACCTAACCCA
*
26953608 TTATCATGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCCA
26953634 TTATCATGAACATTTACCTAACCCA
1 TTATCATGAACATTTACCTAACCCA
*
26953659 TTATCATGAACATTTACCTAACCTA
1 TTATCATGAACATTTACCTAACCCA
26953684 TTATCA
1 TTATCA
26953690 ATTGTATCAA
Statistics
Matches: 103, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
25 71 0.69
26 32 0.31
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.34
Consensus pattern (25 bp):
TTATCATGAACATTTACCTAACCCA
Found at i:26953637 original size:51 final size:51
Alignment explanation
Indices: 26953557--26953689 Score: 241
Period size: 51 Copynumber: 2.6 Consensus size: 51
26953547 CATGAAATTC
* *
26953557 TTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCCA
26953608 TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCCA
26953659 TTATCAT-GAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
26953690 ATTGTATCAA
Statistics
Matches: 80, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
50 24 0.30
51 56 0.70
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.34
Consensus pattern (51 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCCA
Found at i:26958559 original size:17 final size:17
Alignment explanation
Indices: 26958525--26958650 Score: 65
Period size: 18 Copynumber: 6.8 Consensus size: 17
26958515 ATACTTAATT
* *
26958525 TTTTTAATATGTTCAAA
1 TTTTTAATATATTTAAA
26958542 TTTTTAATATATTTAAA
1 TTTTTAATATATTTAAA
* *
26958559 TATATTAAATATATTAAAA
1 T-T-TTTAATATATTTAAA
* *
26958578 TTTTAAATTTGGTTATACTTAATA
1 TTTTTAA------TATATTTAA-A
26958602 TTTTTAATATATTTAAA
1 TTTTTAATATATTTAAA
*
26958619 TTTTTTAA-ATTTTTTAAAA
1 -TTTTTAATA-TATTT-AAA
*
26958638 TTTTAAATATATT
1 TTTTTAATATATT
26958651 AAGAAAATAT
Statistics
Matches: 85, Mismatches: 11, Indels: 25
0.70 0.09 0.21
Matches are distributed among these distances:
17 23 0.27
18 30 0.35
19 18 0.21
23 7 0.08
24 7 0.08
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
TTTTTAATATATTTAAA
Found at i:26958576 original size:77 final size:78
Alignment explanation
Indices: 26958482--26958652 Score: 258
Period size: 77 Copynumber: 2.2 Consensus size: 78
26958472 ATTTAAAAAT
* *
26958482 TATATTAAATATATTAAAATTTTAAAATTGGTTATACTTAATTTTTTTAATATGTTCAAA-TTTT
1 TATATTAAATATATTAAAATTTTAAAATTGGTTATACTTAATATTTTTAATATATTCAAATTTTT
26958546 T-AATATATTTAAA
66 TAAAT-TATTTAAA
* *
26958559 TATATTAAATATATTAAAATTTTAAATTTGGTTATACTTAATATTTTTAATATATTTAAATTTTT
1 TATATTAAATATATTAAAATTTTAAAATTGGTTATACTTAATATTTTTAATATATTCAAATTTTT
*
26958624 TAAATTTTTTAAA
66 TAAATTATTTAAA
*
26958637 -ATTTTAAATATATTAA
1 TATATTAAATATATTAA
26958653 GAAAATATTT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
77 71 0.83
78 12 0.14
79 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (78 bp):
TATATTAAATATATTAAAATTTTAAAATTGGTTATACTTAATATTTTTAATATATTCAAATTTTT
TAAATTATTTAAA
Found at i:26958652 original size:9 final size:9
Alignment explanation
Indices: 26958541--26958652 Score: 67
Period size: 9 Copynumber: 12.8 Consensus size: 9
26958531 ATATGTTCAA
*
26958541 ATTTTTAAT
1 ATTTTAAAT
26958550 ATATTTAAAT
1 AT-TTTAAAT
*
26958560 ATATTAAAT
1 ATTTTAAAT
*
26958569 ATATTAAA-
1 ATTTTAAAT
26958577 ATTTTAAAT
1 ATTTTAAAT
26958586 -TTGGTT--AT
1 ATT--TTAAAT
*
26958594 A-CTT-AAT
1 ATTTTAAAT
*
26958601 ATTTTTAAT
1 ATTTTAAAT
26958610 ATATTTAAAT
1 AT-TTTAAAT
*
26958620 TTTTTAAAT
1 ATTTTAAAT
*
26958629 TTTTTAAA-
1 ATTTTAAAT
26958637 ATTTTAAAT
1 ATTTTAAAT
*
26958646 ATATTAA
1 ATTTTAA
26958653 GAAAATATTT
Statistics
Matches: 84, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
6 2 0.02
7 3 0.04
8 20 0.24
9 42 0.50
10 17 0.20
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (9 bp):
ATTTTAAAT
Found at i:26958652 original size:17 final size:17
Alignment explanation
Indices: 26958525--26958652 Score: 67
Period size: 17 Copynumber: 6.9 Consensus size: 17
26958515 ATACTTAATT
* * *
26958525 TTTTTAATATGTTCAAA
1 TTTTAAATATATTAAAA
*
26958542 TTTTTAATATATTTAAATA
1 TTTTAAATATA-TTAAA-A
*
26958561 TATTAAATATATTAAAA
1 TTTTAAATATATTAAAA
*
26958578 TTTTAAATTTGGTTATACTTAATA
1 TTTTAAA------TATA-TTAAAA
* *
26958602 TTTTTAATATATTTAAATT
1 TTTTAAATATA-TTAAA-A
* *
26958621 TTTTAAATTTTTTAAAA
1 TTTTAAATATATTAAAA
26958638 TTTTAAATATATTAA
1 TTTTAAATATATTAA
26958653 GAAAATATTT
Statistics
Matches: 85, Mismatches: 16, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
17 30 0.35
18 22 0.26
19 18 0.21
23 4 0.05
24 11 0.13
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
TTTTAAATATATTAAAA
Found at i:26958716 original size:10 final size:10
Alignment explanation
Indices: 26958701--26958725 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
26958691 TAAGTATATT
26958701 AAAATTTTAA
1 AAAATTTTAA
26958711 AAAATTTTAA
1 AAAATTTTAA
26958721 AAAAT
1 AAAAT
26958726 CACATTGCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:26959471 original size:15 final size:14
Alignment explanation
Indices: 26959451--26959508 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 14
26959441 AATTTTATAG
26959451 TAATATATAATATTA
1 TAATATA-AATATTA
26959466 TAATATAAATATTAAA
1 TAATATAAATATT--A
*
26959482 AAATATTAAATTATTA
1 TAATA-TAAA-TATTA
26959498 -AATATAAATAT
1 TAATATAAATAT
26959509 AGTAGGAGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
13 3 0.08
14 10 0.26
15 11 0.29
16 6 0.16
17 4 0.11
18 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATATAAATATTA
Found at i:26959473 original size:38 final size:38
Alignment explanation
Indices: 26959404--26959480 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 38
26959394 ATTTTATTTT
* *
26959404 ATTTTATATATTATATAATTTATGATGTATAAAAATTA
1 ATTTTATATAATATATAATTTATGATATATAAAAATTA
*
26959442 ATTTTATAGTAATATATAATATTAT-A-ATATAAATATTA
1 ATTTTATA-TAATATATAAT-TTATGATATATAAAAATTA
26959480 A
1 A
26959481 AAAATATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 19 0.56
39 11 0.32
40 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (38 bp):
ATTTTATATAATATATAATTTATGATATATAAAAATTA
Found at i:26963330 original size:18 final size:20
Alignment explanation
Indices: 26963307--26963346 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
26963297 TAGGTTTTGC
*
26963307 TTCTTT-TTT-TTTTTCTTT
1 TTCTTTCTTTATTTCTCTTT
26963325 TTCTTTCTTTATTTCTCTTT
1 TTCTTTCTTTATTTCTCTTT
26963345 TT
1 TT
26963347 TACTTCTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 3 0.16
20 10 0.53
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (20 bp):
TTCTTTCTTTATTTCTCTTT
Found at i:26964853 original size:54 final size:54
Alignment explanation
Indices: 26964771--26964881 Score: 222
Period size: 54 Copynumber: 2.1 Consensus size: 54
26964761 TTATGGTCGG
26964771 ATCCGGCATGCCACATCAAAAAAGTAAAAAAAATTTCCATTCTAAGTCCAGAAA
1 ATCCGGCATGCCACATCAAAAAAGTAAAAAAAATTTCCATTCTAAGTCCAGAAA
26964825 ATCCGGCATGCCACATCAAAAAAGTAAAAAAAATTTCCATTCTAAGTCCAGAAA
1 ATCCGGCATGCCACATCAAAAAAGTAAAAAAAATTTCCATTCTAAGTCCAGAAA
26964879 ATC
1 ATC
26964882 GTACTTGATG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.46, C:0.23, G:0.11, T:0.21
Consensus pattern (54 bp):
ATCCGGCATGCCACATCAAAAAAGTAAAAAAAATTTCCATTCTAAGTCCAGAAA
Found at i:26965925 original size:25 final size:27
Alignment explanation
Indices: 26965888--26965940 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
26965878 TCAAACATGC
26965888 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
26965914 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
26965940 A
1 A
26965941 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:26967458 original size:26 final size:26
Alignment explanation
Indices: 26967422--26967583 Score: 238
Period size: 26 Copynumber: 6.2 Consensus size: 26
26967412 CATGAAATTC
26967422 TTATCATGAAACATTTACCTAA-CTCA
1 TTATCATGAAACATTTACCTAACCT-A
*
26967448 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
26967474 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
26967500 TTATCAT-AAAGCATTTATCTAACCCA
1 TTATCATGAAA-CATTTACCTAACCTA
*
26967526 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
26967552 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
26967578 TTATCA
1 TTATCA
26967584 ATTTGTATCA
Statistics
Matches: 124, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
25 2 0.02
26 119 0.96
27 3 0.02
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:26967555 original size:78 final size:78
Alignment explanation
Indices: 26967422--26967583 Score: 272
Period size: 78 Copynumber: 2.1 Consensus size: 78
26967412 CATGAAATTC
*
26967422 TTATCATGAAACATTTACCTAACTCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
26967487 TTTACCTAACCTA
66 TTTACCTAACCTA
* * *
26967500 TTATCAT-AAAGCATTTATCTAACCCATTATCATGGAACATTTACCTAACCTATTATCATGGAAC
1 TTATCATGAAA-CATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAAC
26967564 ATTTACCTAACCTA
65 ATTTACCTAACCTA
26967578 TTATCA
1 TTATCA
26967584 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
77 3 0.04
78 76 0.96
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (78 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
TTTACCTAACCTA
Found at i:26975139 original size:22 final size:21
Alignment explanation
Indices: 26975110--26975155 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 21
26975100 CATAACAGTG
*
26975110 AAAAAAAATAATAAGAAAATAAC
1 AAAAAAAGTAAT-AGAAAA-AAC
26975133 AAAAAAAGTAATAGAAAAAAC
1 AAAAAAAGTAATAGAAAAAAC
26975154 AA
1 AA
26975156 CAAGAACAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.23
22 6 0.27
23 11 0.50
ACGTcount: A:0.78, C:0.04, G:0.07, T:0.11
Consensus pattern (21 bp):
AAAAAAAGTAATAGAAAAAAC
Found at i:26975157 original size:24 final size:23
Alignment explanation
Indices: 26975110--26975167 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 23
26975100 CATAACAGTG
* *
26975110 AAAAAAAATAATAAGAAAATAAC
1 AAAAAAAATAATAAAAAAACAAC
*
26975133 AAAAAAAGTAATAGAAAAAACAAC
1 AAAAAAAATAATA-AAAAAACAAC
* *
26975157 AAGAACAATAA
1 AAAAAAAATAA
26975168 AAATAGTAGC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 12 0.43
24 16 0.57
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.10
Consensus pattern (23 bp):
AAAAAAAATAATAAAAAAACAAC
Found at i:26975622 original size:22 final size:21
Alignment explanation
Indices: 26975570--26975626 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
26975560 AAAAACCCGT
*
26975570 ATACAGGTCAAAATGGGATAA
1 ATACGGGTCAAAATGGGATAA
* *
26975591 ATACGAGTCAAAATGGGTTAAA
1 ATACGGGTCAAAATGGGAT-AA
*
26975613 ATAGGGGTCAAAAT
1 ATACGGGTCAAAAT
26975627 ACGAAAATGG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.46, C:0.09, G:0.25, T:0.21
Consensus pattern (21 bp):
ATACGGGTCAAAATGGGATAA
Found at i:26976214 original size:17 final size:17
Alignment explanation
Indices: 26976189--26976225 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
26976179 ATTTGTTTAG
*
26976189 TTTATTGTTTATTGTGA
1 TTTAGTGTTTATTGTGA
26976206 TTTAGTGTTTATTGTGA
1 TTTAGTGTTTATTGTGA
26976223 TTT
1 TTT
26976226 GTTCAACATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.19, T:0.65
Consensus pattern (17 bp):
TTTAGTGTTTATTGTGA
Found at i:26976532 original size:11 final size:11
Alignment explanation
Indices: 26976516--26976540 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
26976506 TCCCTATTAC
26976516 TACTTGGAACA
1 TACTTGGAACA
26976527 TACTTGGAACA
1 TACTTGGAACA
26976538 TAC
1 TAC
26976541 AATAATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (11 bp):
TACTTGGAACA
Found at i:26978492 original size:22 final size:24
Alignment explanation
Indices: 26978468--26978521 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 24
26978458 TCATTATATT
26978468 AATATAATATAAT-TTTTAAT-AT
1 AATATAATATAATATTTTAATGAT
26978490 AATAT-A-ATAATATTTTAATGAT
1 AATATAATATAATATTTTAATGAT
*
26978512 AAAATAATAT
1 AATATAATAT
26978522 TTATTTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 5 0.19
21 8 0.30
22 11 0.41
23 1 0.04
24 2 0.07
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
AATATAATATAATATTTTAATGAT
Found at i:26979093 original size:14 final size:13
Alignment explanation
Indices: 26979071--26979127 Score: 53
Period size: 14 Copynumber: 4.3 Consensus size: 13
26979061 AACTGTTTAG
*
26979071 TATTTTTGTAATGA
1 TATTATTGTAAT-A
*
26979085 TATTATTGTATTA
1 TATTATTGTAATA
*
26979098 CATTTATTGTAATA
1 TA-TTATTGTAATA
*
26979112 T-TTATTGTATTA
1 TATTATTGTAATA
26979124 TATT
1 TATT
26979128 TATGTGTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
12 11 0.31
13 4 0.11
14 20 0.57
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.60
Consensus pattern (13 bp):
TATTATTGTAATA
Found at i:26979119 original size:26 final size:28
Alignment explanation
Indices: 26979072--26979130 Score: 88
Period size: 26 Copynumber: 2.2 Consensus size: 28
26979062 ACTGTTTAGT
26979072 ATTT-TTGTAATGATATTATTGTATTAC
1 ATTTATTGTAATGATATTATTGTATTAC
*
26979099 ATTTATTGTAAT-AT-TTATTGTATTAT
1 ATTTATTGTAATGATATTATTGTATTAC
26979125 ATTTAT
1 ATTTAT
26979131 GTGTTTTGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 17 0.57
27 6 0.20
28 7 0.23
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (28 bp):
ATTTATTGTAATGATATTATTGTATTAC
Found at i:26979128 original size:14 final size:14
Alignment explanation
Indices: 26979087--26979130 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
26979077 TGTAATGATA
*
26979087 TTATTGTATTACAT
1 TTATTGTATTATAT
26979101 TTATTGTA--ATAT
1 TTATTGTATTATAT
26979113 TTATTGTATTATAT
1 TTATTGTATTATAT
26979127 TTAT
1 TTAT
26979131 GTGTTTTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 11 0.41
14 16 0.59
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (14 bp):
TTATTGTATTATAT
Found at i:26981482 original size:44 final size:44
Alignment explanation
Indices: 26981429--26981540 Score: 136
Period size: 44 Copynumber: 2.5 Consensus size: 44
26981419 ATCCATGCAA
* * *
26981429 AAATTAGATGTATTGGAAAAAATTTGGAACAAACTTTATAATTT
1 AAATTAGATGCATTGCAAAAAACTTGGAACAAACTTTATAATTT
* ** *
26981473 AAATGAGATGCATTGCACCAAACTTGGAACAAACTTTGTAATTT
1 AAATTAGATGCATTGCAAAAAACTTGGAACAAACTTTATAATTT
*
26981517 AAATTAGATACATTG-AAACAAACT
1 AAATTAGATGCATTGCAAA-AAACT
26981541 CTATAAAATA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 1 0.02
44 55 0.98
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (44 bp):
AAATTAGATGCATTGCAAAAAACTTGGAACAAACTTTATAATTT
Found at i:26982267 original size:429 final size:429
Alignment explanation
Indices: 26981467--26982320 Score: 1284
Period size: 429 Copynumber: 2.0 Consensus size: 429
26981457 ACAAACTTTA
26981467 TAATTTAAATGAGATGCATTGCACCAAACTTGGAACAAACTTTGTAATTTAAATTAGATACATTG
1 TAATTTAAATGAGATGCATTGCACCAAACTTGGAACAAACTTTGTAATTTAAATTAGATACATTG
* *
26981532 AAACAAACTCTATAAAATACATATCCATATTTAACATGGAGTAAATTAGCACAATTCCCACCCGA
66 AAACAAACTCTATAAAATACATATCCAAATTCAACATGGAGTAAATTAGCACAATTCCCACCCGA
*
26981597 TCACGACAATTGTCCAATATGGTAGGTTCGTTGCGGGCATTTACTCTGATTATGCCCAGCTAATC
131 TCACGACAATTGTCCAATATGGTAGGTTCGTTGCGGGCATTTACTCCGATTATGCCCAGCTAATC
* * ** * * * *
26981662 TGCACACGCTACAAAGCTTTTCGTCGGTTTTCTCCCTAATGTCTATTTCATTATGGATTTTGGCC
196 TGCACAAGCCACAAAGCTTCCCGTCGGTTTTCTCCCTAATATCCATTTCATTATGGATTCTAGCC
* * **
26981727 ACTTGCGAATGACCTTTCGGATTCCTCAGTAACCCTTTTTCCAAGACAAGTTCGAAAGTCATCGG
261 ACTTGCGAATGACCTTTCAGATTCCTCAGTAACCCTTTGTCCAAGACAAACTCGAAAGTCATCGG
* * * * *
26981792 AGACACCTCCCATGTAGATAAATCACGCAGGACGGGGAACTCATTTTCCCAGACACTCAATGTGC
326 AGACACATCCAATGTAGACAAATCACGCAGGACAGGGAACTCATTTTCCCAGACACACAATGTGC
* * *
26981857 GCTTGAGAGTGTACACTTAAGCGATAAACTATTCAACTG
391 ACTTGAAAGTGTACACTTAAGCAATAAACTATTCAACTG
* * *
26981896 TAATTTAAATGAGATGCATTGCACTAAACTTGGAACAAATTTTGTAATTTAAATTAGATGCATT-
1 TAATTTAAATGAGATGCATTGCACCAAACTTGGAACAAACTTTGTAATTTAAATTAGATACATTG
* * * *
26981960 AGAACAAACTCTGTAAAATACATATCCAAATTCCACATGGAGTACATTAGCACAATTCTCACCCG
66 A-AACAAACTCTATAAAATACATATCCAAATTCAACATGGAGTAAATTAGCACAATTCCCACCCG
*
26982025 ATCACGACAATTGTCCAATATGGTAGGTTCGTTGCGGGCATTTACTCCGATTATGCCTAGCTAAT
130 ATCACGACAATTGTCCAATATGGTAGGTTCGTTGCGGGCATTTACTCCGATTATGCCCAGCTAAT
* *
26982090 CTGCACAAGCCACAAAGCTTCCCGTTGGTTTTCTCCCTAATATCCATTTCATTATGGATTCTAGT
195 CTGCACAAGCCACAAAGCTTCCCGTCGGTTTTCTCCCTAATATCCATTTCATTATGGATTCTAGC
* * *
26982155 TACTTGCGGATGACCTTTCAGATTCCTACA-TAA-CCTTTAGTCCAGGACAAACTCGAAAGTCAT
260 CACTTGCGAATGACCTTTCAGATTCCT-CAGTAACCCTTT-GTCCAAGACAAACTCGAAAGTCAT
* * * *
26982218 CGGAGACACATCTAATGTA-AGCAGATCACGCAGGACAGGGAATTCATTTTTCCAGACACACAAT
323 CGGAGACACATCCAATGTAGA-CAAATCACGCAGGACAGGGAACTCATTTTCCCAGACACACAAT
26982282 GTGCACTTGAAAGTGTACACTTAAGCAATAAACTATTCA
387 GTGCACTTGAAAGTGTACACTTAAGCAATAAACTATTCA
26982321 GCATTGATCG
Statistics
Matches: 381, Mismatches: 40, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
428 7 0.02
429 372 0.98
430 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (429 bp):
TAATTTAAATGAGATGCATTGCACCAAACTTGGAACAAACTTTGTAATTTAAATTAGATACATTG
AAACAAACTCTATAAAATACATATCCAAATTCAACATGGAGTAAATTAGCACAATTCCCACCCGA
TCACGACAATTGTCCAATATGGTAGGTTCGTTGCGGGCATTTACTCCGATTATGCCCAGCTAATC
TGCACAAGCCACAAAGCTTCCCGTCGGTTTTCTCCCTAATATCCATTTCATTATGGATTCTAGCC
ACTTGCGAATGACCTTTCAGATTCCTCAGTAACCCTTTGTCCAAGACAAACTCGAAAGTCATCGG
AGACACATCCAATGTAGACAAATCACGCAGGACAGGGAACTCATTTTCCCAGACACACAATGTGC
ACTTGAAAGTGTACACTTAAGCAATAAACTATTCAACTG
Found at i:26985272 original size:9 final size:9
Alignment explanation
Indices: 26985260--26985302 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
26985250 TTCAAATCTC
26985260 TCAAAACCT
1 TCAAAACCT
26985269 TCAAAACCT
1 TCAAAACCT
*
26985278 TCAAAATCT
1 TCAAAACCT
*
26985287 CCCAAAACCT
1 -TCAAAACCT
26985297 TCAAAA
1 TCAAAA
26985303 GTATCATAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 22 0.76
10 7 0.24
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.21
Consensus pattern (9 bp):
TCAAAACCT
Found at i:26986959 original size:19 final size:19
Alignment explanation
Indices: 26986914--26986958 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
26986904 CAGTATAAAA
26986914 ATATGTTTAATATTATTAAT
1 ATAT-TTTAATATTATTAAT
26986934 ATATTTTAAT-TTATT-AT
1 ATATTTTAATATTATTAAT
26986951 ATAATTTT
1 AT-ATTTT
26986959 TTTTCTTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.17
18 10 0.42
19 6 0.25
20 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
ATATTTTAATATTATTAAT
Found at i:26989429 original size:37 final size:37
Alignment explanation
Indices: 26989366--26989487 Score: 176
Period size: 37 Copynumber: 3.3 Consensus size: 37
26989356 CTTACATTTC
26989366 AATTATGT-GTTAATTTC-AAGACTTATGTAATGTTTTT
1 AATTATGTAG-TAA-TTCAAAGACTTATGTAATGTTTTT
* * *
26989403 AATTGTTTAGTGATTCAAAGACTTATGTAATGTTTTT
1 AATTATGTAGTAATTCAAAGACTTATGTAATGTTTTT
*
26989440 AATTATGTAGTAATTCAAAGACTTATGTAATATTTTT
1 AATTATGTAGTAATTCAAAGACTTATGTAATGTTTTT
26989477 AATTATGTAGT
1 AATTATGTAGT
26989488 GTAGTGATTC
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
36 3 0.04
37 72 0.95
38 1 0.01
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (37 bp):
AATTATGTAGTAATTCAAAGACTTATGTAATGTTTTT
Found at i:26989482 original size:17 final size:17
Alignment explanation
Indices: 26989425--26989485 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
26989415 ATTCAAAGAC
*
26989425 TTATGTAATGTTTTTAA
1 TTATGTAATATTTTTAA
* ***
26989442 TTATGTAGTAATTCAAAGA
1 TTATGTAAT-ATTTTTA-A
26989461 CTTATGTAATATTTTTAA
1 -TTATGTAATATTTTTAA
26989479 TTATGTA
1 TTATGTA
26989486 GTGTAGTGAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 15 0.47
18 4 0.12
19 5 0.16
20 8 0.25
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.51
Consensus pattern (17 bp):
TTATGTAATATTTTTAA
Found at i:26989510 original size:9 final size:9
Alignment explanation
Indices: 26989498--26989582 Score: 118
Period size: 9 Copynumber: 9.4 Consensus size: 9
26989488 GTAGTGATTC
*
26989498 AATTCGGTC
1 AATTCGGTT
26989507 AATTCGGTT
1 AATTCGGTT
*
26989516 AATTCGGTC
1 AATTCGGTT
*
26989525 AATTCGGTC
1 AATTCGGTT
26989534 AATTCGGTT
1 AATTCGGTT
26989543 AATTCGGTT
1 AATTCGGTT
26989552 AATTCGGTT
1 AATTCGGTT
*
26989561 AA-TCTGGGT
1 AATTC-GGTT
26989570 AATTCGGTT
1 AATTCGGTT
26989579 AATT
1 AATT
26989583 TTTAACCAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
8 2 0.03
9 65 0.94
10 2 0.03
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.40
Consensus pattern (9 bp):
AATTCGGTT
Found at i:26993787 original size:17 final size:18
Alignment explanation
Indices: 26993765--26993798 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
26993755 TTGATTTAGG
26993765 TGTTAAA-TTTTAAAAAC
1 TGTTAAATTTTTAAAAAC
26993782 TGTTAAATTTTTAAAAA
1 TGTTAAATTTTTAAAAA
26993799 AATATTCGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (18 bp):
TGTTAAATTTTTAAAAAC
Found at i:26995661 original size:2 final size:2
Alignment explanation
Indices: 26995656--26995683 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
26995646 CAACAGGTTA
26995656 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
26995684 TTTCCCCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:26997183 original size:17 final size:16
Alignment explanation
Indices: 26997154--26997187 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
26997144 GGTGAATTTA
26997154 AATACTCAAAAAAACT
1 AATACTCAAAAAAACT
26997170 AATACTCAAAAAAACT
1 AATACTCAAAAAAACT
26997186 AA
1 AA
26997188 ATCCAACAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.65, C:0.18, G:0.00, T:0.18
Consensus pattern (16 bp):
AATACTCAAAAAAACT
Found at i:26997563 original size:73 final size:73
Alignment explanation
Indices: 26997444--26997589 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
26997434 TAGAGATATT
26997444 TATCAATTAGGGTTTTGCAGAATATGAACATTGAAGATCTTATCAATGAAAATTTGATGCATTTA
1 TATCAATTAGGGTTTTGCAGAATATGAACATTGAAGATCTTATCAATGAAAATTTGATGCATTTA
26997509 TTTCCAAC
66 TTTCCAAC
26997517 TATCAATTAGGGTTTTGCAGAATATGAACATTGAAGATCTTATCAATGAAAATTTGATGCATTTA
1 TATCAATTAGGGTTTTGCAGAATATGAACATTGAAGATCTTATCAATGAAAATTTGATGCATTTA
26997582 TTTCCAAC
66 TTTCCAAC
26997590 CCCACAAAAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (73 bp):
TATCAATTAGGGTTTTGCAGAATATGAACATTGAAGATCTTATCAATGAAAATTTGATGCATTTA
TTTCCAAC
Found at i:26997645 original size:3 final size:3
Alignment explanation
Indices: 26997637--26997675 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
26997627 CTTATGCAAA
26997637 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
26997676 GTGATAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:27007431 original size:16 final size:16
Alignment explanation
Indices: 27007410--27007441 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27007400 CAATGTAACT
27007410 ATAAACTGACGTGGCA
1 ATAAACTGACGTGGCA
27007426 ATAAACTGACGTGGCA
1 ATAAACTGACGTGGCA
27007442 CTTTAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.19
Consensus pattern (16 bp):
ATAAACTGACGTGGCA
Found at i:27009089 original size:12 final size:13
Alignment explanation
Indices: 27009048--27009094 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
27009038 AAGTGTGGTG
*
27009048 GAAAAGTATTTTT
1 GAAAAGTATTCTT
*
27009061 GAGAAGTATTCTT
1 GAAAAGTATTCTT
*
27009074 GAAAAGT-TTGTT
1 GAAAAGTATTCTT
27009086 GAAAA-TATT
1 GAAAAGTATT
27009095 TGAGTATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 1 0.03
12 11 0.38
13 17 0.59
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.40
Consensus pattern (13 bp):
GAAAAGTATTCTT
Found at i:27012702 original size:13 final size:13
Alignment explanation
Indices: 27012680--27012713 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
27012670 ATCAAATTTT
27012680 AAAA-AATTCTTA
1 AAAATAATTCTTA
27012692 AAAATAATTCTTA
1 AAAATAATTCTTA
*
27012705 AAAGTAATT
1 AAAATAATT
27012714 TTTACAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (13 bp):
AAAATAATTCTTA
Found at i:27015308 original size:31 final size:29
Alignment explanation
Indices: 27015266--27015323 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 29
27015256 TAAAATAATA
*
27015266 AAATAATAATAAATATCTTATTATAATATT
1 AAATAATAATAAATATCTAATTA-AATATT
*
27015296 AAATAAATAATAATTATCTAATTAAATA
1 AAAT-AATAATAAATATCTAATTAAATA
27015324 ACTATAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (29 bp):
AAATAATAATAAATATCTAATTAAATATT
Found at i:27020614 original size:22 final size:22
Alignment explanation
Indices: 27020586--27020632 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
27020576 AAATTAGTGG
27020586 TGTCCCCCCCCCCCCAATATGA
1 TGTCCCCCCCCCCCCAATATGA
27020608 TGTCCCCCCCCCCCCAATATGA
1 TGTCCCCCCCCCCCCAATATGA
27020630 TGT
1 TGT
27020633 TGTATAACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.17, C:0.51, G:0.11, T:0.21
Consensus pattern (22 bp):
TGTCCCCCCCCCCCCAATATGA
Found at i:27027429 original size:44 final size:44
Alignment explanation
Indices: 27027379--27027601 Score: 227
Period size: 44 Copynumber: 5.0 Consensus size: 44
27027369 TTTTTTTTCC
* *
27027379 TTCTAATTTAGATCTAAGGATTCAAATAGGTTGGAATTTTATTT
1 TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTTATTT
* * * *
27027423 TTCTAATTTA-ATTTTAGGATTCAAAAAAGATAGAATTTTATTTTATTT
1 TTCTAATTTAGATCTTAGGATTCAAATAGGTTAG-A----ATTTTATTT
* * *
27027471 TTCTAATTTAGATCTTAGGATTTAGATAGGTTAGAATTTTAATT
1 TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTTATTT
* * * * *
27027515 TTGTCATTTAGAACTTAGGATTCAATTAGGTTA-AAATTTA-TT
1 TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTTATTT
** *
27027557 TTCTAATTTAGATCTTAACATTCAAATAGGCTAGAATTTTATTT
1 TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTTATTT
27027601 T
1 T
27027602 ATTTTAATAA
Statistics
Matches: 143, Mismatches: 28, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
42 28 0.20
43 29 0.20
44 49 0.34
48 20 0.14
49 17 0.12
ACGTcount: A:0.34, C:0.07, G:0.13, T:0.47
Consensus pattern (44 bp):
TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTTATTT
Found at i:27027491 original size:92 final size:86
Alignment explanation
Indices: 27027379--27027601 Score: 232
Period size: 92 Copynumber: 2.5 Consensus size: 86
27027369 TTTTTTTTCC
* * **
27027379 TTCTAATTTAGATCTAAGGATTCAAATAGGTTGGAATTTTATTTTTCTAATTTA-ATTTTAGGAT
1 TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTTATTTTTCTAATTTAGAACTTAGGAT
27027443 TCAAAAAAGATAGAATTTTATTTTATTT
66 TCAAAAAAGATA-AA----A-TTTA-TT
* * * * *
27027471 TTCTAATTTAGATCTTAGGATTTAGATAGGTTAGAATTTTAATTTTGTCATTTAGAACTTAGGAT
1 TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTTATTTTTCTAATTTAGAACTTAGGAT
** * *
27027536 TCAATTAGGTTAAAATTTATT
66 TCAAAAAAGATAAAATTTATT
** *
27027557 TTCTAATTTAGATCTTAACATTCAAATAGGCTAGAATTTTATTTT
1 TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTTATTTT
27027602 ATTTTAATAA
Statistics
Matches: 111, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
86 41 0.37
87 4 0.04
88 1 0.01
92 49 0.44
93 16 0.14
ACGTcount: A:0.34, C:0.07, G:0.13, T:0.47
Consensus pattern (86 bp):
TTCTAATTTAGATCTTAGGATTCAAATAGGTTAGAATTTTATTTTTCTAATTTAGAACTTAGGAT
TCAAAAAAGATAAAATTTATT
Found at i:27030684 original size:5 final size:5
Alignment explanation
Indices: 27030676--27030718 Score: 79
Period size: 5 Copynumber: 8.8 Consensus size: 5
27030666 TTAATTTTTT
27030676 TATAA TATAA TATAA TATAA TA-AA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
27030719 TTTAATTATC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.11
5 33 0.89
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:27030703 original size:19 final size:19
Alignment explanation
Indices: 27030679--27030716 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
27030669 ATTTTTTTAT
27030679 AATATAATATAATATAATA
1 AATATAATATAATATAATA
27030698 AATATAATATAATATAATA
1 AATATAATATAATATAATA
27030717 TATTTAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AATATAATATAATATAATA
Found at i:27030724 original size:19 final size:19
Alignment explanation
Indices: 27030680--27030738 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
27030670 TTTTTTTATA
*
27030680 ATATAATATAATATAATAA
1 ATATAATATAATATAATAT
27030699 ATATAATATAATATAATAT
1 ATATAATATAATATAATAT
* * *
27030718 ATTTAATTATCATATGATAT
1 ATATAA-TATAATATAATAT
27030738 A
1 A
27030739 AATTACATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
19 23 0.66
20 12 0.34
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
ATATAATATAATATAATAT
Found at i:27038118 original size:18 final size:19
Alignment explanation
Indices: 27038080--27038118 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
27038070 TGGTTCAAGC
*
27038080 TTTCAATCTCATATCTCAA
1 TTTCAATCTCACATCTCAA
*
27038099 TTTCAAT-TCACATTTCAA
1 TTTCAATCTCACATCTCAA
27038117 TT
1 TT
27038119 CATAATTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCACATCTCAA
Found at i:27038353 original size:23 final size:22
Alignment explanation
Indices: 27038292--27038358 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
27038282 ACTTAATCAG
27038292 TATACGACACATAAGTGCCTGA
1 TATACGACACATAAGTGCCTGA
* *
27038314 -A-ACGACACACGAGGTGCCTGA
1 TATACGACACA-TAAGTGCCTGA
*
27038335 TATATGACACATAAAGTGCCTGA
1 TATACGACACAT-AAGTGCCTGA
27038358 T
1 T
27038359 TGGCAAAGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
20 8 0.22
21 10 0.28
22 1 0.03
23 17 0.47
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (22 bp):
TATACGACACATAAGTGCCTGA
Found at i:27040101 original size:25 final size:25
Alignment explanation
Indices: 27040053--27040102 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
27040043 TTTAGTTTGA
**
27040053 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
27040078 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
27040103 TAAATTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:27043806 original size:40 final size:40
Alignment explanation
Indices: 27043711--27043817 Score: 153
Period size: 41 Copynumber: 2.6 Consensus size: 40
27043701 CAATATCACA
*
27043711 CACACTAAGTGCCTTAAATAGCCGAAGCTATCTCAATCTTG
1 CACACTAAGTGCCATAAATAGCCGAAGCTATCTCAATC-TG
* *
27043752 CACACTAAGTGCCATATATAGCCGAAGCTATCTTGAATC-G
1 CACACTAAGTGCCATAAATAGCCGAAGCTATC-TCAATCTG
*
27043792 CACACTAAGTGCCATACATAGCCGAA
1 CACACTAAGTGCCATAAATAGCCGAA
27043818 TTGTTGTCAA
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
40 26 0.43
41 30 0.49
42 5 0.08
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (40 bp):
CACACTAAGTGCCATAAATAGCCGAAGCTATCTCAATCTG
Found at i:27048010 original size:291 final size:291
Alignment explanation
Indices: 27047450--27048027 Score: 879
Period size: 291 Copynumber: 2.0 Consensus size: 291
27047440 AAGTCTAATT
* * * * * * *
27047450 GAGGAGATAATTTTTCTTGATTATCGAAGCGGATGACTCCCAGAAGATAGACATAGATGTGGCTG
1 GAGGAAATAATTTGTCTTGAGTATCAAAGCGAATGACTCCCAGAAGATAGAAATAGATGTGACTG
* * * *
27047515 ACTTGACCGATAGTACATCGAACAAGACCCAAGTAGAATATATCCTGAATGTGCTTATGGATTTA
66 ACTTGACCGACAGTACATCGAACAAAACCCAAGTAGAATAGATCCTGAATGCGCTTATGGATTTA
* * *
27047580 TTTACTTGCGACGTTCATAGTGTGACATACTTCAATCCTGAGTAGATGATGAATTATGAATGTGT
131 TTCACTTGCGACGTTCATAGTGTGACATACTTCAATCCTGAGTAAATGATGAACTATGAATGTGT
* * * *
27047645 GACTCGTATACTTTGATATAAGTAAAAGCTTGAGTTTAAATAAATATAGAACTAAAAGTTGGTGC
196 GACTCATATACTTTGATACAAGTAAAAGCTTGAGTTCAAATAAATATAGAACCAAAAGTTGGTGC
*
27047710 GTTGGGTATACGACTTCTGCAATATGTGACA
261 GTCGGGTATACGACTTCTGCAATATGTGACA
* *
27047741 GAGGAAATGATTTGTCTTGAGTATCAAAGTGAATGACTCCCAGAAGATAGAAATAGATGTGACTG
1 GAGGAAATAATTTGTCTTGAGTATCAAAGCGAATGACTCCCAGAAGATAGAAATAGATGTGACTG
* *
27047806 ACTTGACTGGCAGTACATCGAACAAAACCCAAGTAGAATAGATCCTGAATGCGCTTATGGATTTA
66 ACTTGACCGACAGTACATCGAACAAAACCCAAGTAGAATAGATCCTGAATGCGCTTATGGATTTA
* * *
27047871 TTCACTTGTGACGTTCATAGTGTGACATACTTCAATCCTGAGTAAATGATGGACTATGTATGTGT
131 TTCACTTGCGACGTTCATAGTGTGACATACTTCAATCCTGAGTAAATGATGAACTATGAATGTGT
* *
27047936 GACTCATATACTTTGATACAAGTAAAAGCTTGAGTTCAAATAGATA-AGGAACCGAAAGTTGGTG
196 GACTCATATACTTTGATACAAGTAAAAGCTTGAGTTCAAATAAATATA-GAACCAAAAGTTGGTG
*
27048000 CGTCGGGTATACGACTTCTGTAATATGT
260 CGTCGGGTATACGACTTCTGCAATATGT
27048028 AGCATCATTC
Statistics
Matches: 257, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
290 1 0.00
291 256 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (291 bp):
GAGGAAATAATTTGTCTTGAGTATCAAAGCGAATGACTCCCAGAAGATAGAAATAGATGTGACTG
ACTTGACCGACAGTACATCGAACAAAACCCAAGTAGAATAGATCCTGAATGCGCTTATGGATTTA
TTCACTTGCGACGTTCATAGTGTGACATACTTCAATCCTGAGTAAATGATGAACTATGAATGTGT
GACTCATATACTTTGATACAAGTAAAAGCTTGAGTTCAAATAAATATAGAACCAAAAGTTGGTGC
GTCGGGTATACGACTTCTGCAATATGTGACA
Found at i:27052560 original size:25 final size:25
Alignment explanation
Indices: 27052528--27052575 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
27052518 CTATAACATG
* * *
27052528 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
27052553 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
27052576 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:27052659 original size:11 final size:11
Alignment explanation
Indices: 27052623--27052678 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
27052613 CATGGTATGT
27052623 ATGATATGCAC
1 ATGATATGCAC
* *
27052634 ATGACATG--T
1 ATGATATGCAC
27052643 ATGATATGCAC
1 ATGATATGCAC
*
27052654 ATGATATG--T
1 ATGATATGCAC
27052663 ATGATATGCAC
1 ATGATATGCAC
27052674 ATGAT
1 ATGAT
27052679 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:27052678 original size:20 final size:20
Alignment explanation
Indices: 27052612--27052678 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
27052602 ATTTTGATAA
*
27052612 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
27052632 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
27052652 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
27052672 ACATGAT
1 ACATGAT
27052679 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:27052791 original size:44 final size:45
Alignment explanation
Indices: 27052728--27052922 Score: 229
Period size: 44 Copynumber: 4.6 Consensus size: 45
27052718 AGGAAGTGAA
27052728 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCAGTT-TT
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCAGTTATT
*
27052772 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATG-CCCAGTTATT
*
27052819 AAAGGGCTTATGCCCC---------AGGG-TTTTGCCCAGTTA-T
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCAGTTATT
*
27052853 AAAGGGCTTATGCCCCA-TTATTAAAGGGCTTATTCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTA-TGCCCAGTTATT
*
27052898 -AAGGGCTTTTGCCCCAGTTATTAAA
1 AAAGGGCTTATGCCCCAGTTATTAAA
27052923 AGAGGCTAGG
Statistics
Matches: 131, Mismatches: 5, Indels: 29
0.79 0.03 0.18
Matches are distributed among these distances:
34 17 0.13
35 8 0.06
36 4 0.03
37 4 0.03
42 4 0.03
43 2 0.02
44 46 0.35
45 21 0.16
46 7 0.05
47 18 0.14
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (45 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCAGTTATT
Found at i:27052804 original size:24 final size:23
Alignment explanation
Indices: 27052728--27052836 Score: 186
Period size: 23 Copynumber: 4.8 Consensus size: 23
27052718 AGGAAGTGAA
27052728 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
27052751 AAAGGGCTTATG-CCCAGTT-TT
1 AAAGGGCTTATGCCCCAGTTATT
*
27052772 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
27052796 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
27052819 AAAGGGCTTATGCCCCAG
1 AAAGGGCTTATGCCCCAG
27052837 GGTTTTGCCC
Statistics
Matches: 81, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
21 14 0.17
22 14 0.17
23 31 0.38
24 22 0.27
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:27052877 original size:22 final size:23
Alignment explanation
Indices: 27052844--27052922 Score: 119
Period size: 22 Copynumber: 3.6 Consensus size: 23
27052834 CAGGGTTTTG
27052844 CCCAGTTA-TAAAGGGCTTATGC
1 CCCAGTTATTAAAGGGCTTATGC
*
27052866 CCCA-TTATTAAAGGGCTTATTC
1 CCCAGTTATTAAAGGGCTTATGC
*
27052888 CCCAGTTATT-AAGGGCTTTTGC
1 CCCAGTTATTAAAGGGCTTATGC
27052910 CCCAGTTATTAAA
1 CCCAGTTATTAAA
27052923 AGAGGCTAGG
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
21 3 0.06
22 41 0.80
23 7 0.14
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.33
Consensus pattern (23 bp):
CCCAGTTATTAAAGGGCTTATGC
Found at i:27053170 original size:30 final size:30
Alignment explanation
Indices: 27053136--27053198 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
27053126 CGTTTACAGT
27053136 AAAGGCTTCGGCCCAGTAATATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
**
27053166 AAAGGCTTCGGCCCAGTGTTATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
27053196 AAA
1 AAA
27053199 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATG
Found at i:27060720 original size:25 final size:25
Alignment explanation
Indices: 27060691--27060738 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
27060681 CTTTATAATG
* * *
27060691 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
27060716 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
27060739 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:27060822 original size:11 final size:11
Alignment explanation
Indices: 27060786--27060841 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
27060776 CATGGTATGT
27060786 ATGATATGCAC
1 ATGATATGCAC
* *
27060797 ATGACATG--T
1 ATGATATGCAC
27060806 ATGATATGCAC
1 ATGATATGCAC
*
27060817 ATGATATG--T
1 ATGATATGCAC
27060826 ATGATATGCAC
1 ATGATATGCAC
27060837 ATGAT
1 ATGAT
27060842 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:27060841 original size:20 final size:20
Alignment explanation
Indices: 27060775--27060841 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
27060765 ATTTTGATAA
*
27060775 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
27060795 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
27060815 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
27060835 ACATGAT
1 ACATGAT
27060842 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:27060921 original size:23 final size:23
Alignment explanation
Indices: 27060891--27061151 Score: 441
Period size: 23 Copynumber: 11.1 Consensus size: 23
27060881 AGGAAGTGAA
27060891 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
27060914 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
27060937 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
27060961 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
27060984 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
27061008 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
27061032 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
27061055 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
27061078 AAAAGGGCTTATGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
27061102 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
27061125 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
27061149 AAA
1 AAA
27061152 AGAGGCTAGG
Statistics
Matches: 228, Mismatches: 6, Indels: 8
0.94 0.02 0.03
Matches are distributed among these distances:
23 116 0.51
24 112 0.49
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:27060969 original size:24 final size:23
Alignment explanation
Indices: 27060890--27061158 Score: 421
Period size: 24 Copynumber: 11.4 Consensus size: 23
27060880 GAGGAAGTGA
27060890 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
27060913 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
27060936 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
27060959 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
27060983 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
27061006 AAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
27061030 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
27061054 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
27061078 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
27061101 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
27061125 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
27061149 AAAAGAGGCT
1 AAAAG-GGCT
27061159 AGGCCTCCAG
Statistics
Matches: 231, Mismatches: 10, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
23 110 0.48
24 117 0.51
25 4 0.02
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:27060982 original size:47 final size:46
Alignment explanation
Indices: 27060891--27061158 Score: 428
Period size: 47 Copynumber: 5.7 Consensus size: 46
27060881 AGGAAGTGAA
*
27060891 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
27060937 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
*
27060984 AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTAT-T
*
27061032 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
*
27061078 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
*
27061125 AAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCT
1 -AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCT
27061159 AGGCCTCCAG
Statistics
Matches: 210, Mismatches: 7, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
46 22 0.10
47 157 0.75
48 27 0.13
49 4 0.02
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
Found at i:27061400 original size:31 final size:31
Alignment explanation
Indices: 27061365--27061425 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
27061355 CGTTTACAGT
27061365 AAAGGCTTCGGCCCAGTAATATGAAATATGG
1 AAAGGCTTCGGCCCAGTAATATGAAATATGG
**
27061396 AAAGGCTTCGGCCCAGTGTTATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
27061426 AAATATGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGG
Found at i:27063825 original size:28 final size:28
Alignment explanation
Indices: 27063793--27063849 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
27063783 AGCCTTTCCC
*
27063793 TACAAGTCTAACTTTATGTGTTTTCACT
1 TACAAGTCTAACTTTATGTATTTTCACT
27063821 TACAAGTCTAACTTTATGTATTTTCACT
1 TACAAGTCTAACTTTATGTATTTTCACT
27063849 T
1 T
27063850 TCCCTTTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.47
Consensus pattern (28 bp):
TACAAGTCTAACTTTATGTATTTTCACT
Done.