Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014934.1 Kokia drynarioides strain JFW-HI SEQ_129977, whole genome shotgun sequence
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: 224475
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Found at i:5188 original size:10 final size:10
Alignment explanation
Indices: 5169--5241 Score: 85
Period size: 10 Copynumber: 7.4 Consensus size: 10
5159 CCAACTATTG
5169 TTGATGCTGC
1 TTGATGCTGC
*
5179 TTGATACTGC
1 TTGATGCTGC
*
5189 CTGATGCTGC
1 TTGATGCTGC
*
5199 TTGATGCTAC
1 TTGATGCTGC
*
5209 CTGATGCTGC
1 TTGATGCTGC
*
5219 TCGATGCTGC
1 TTGATGCTGC
*
5229 CTGATGCTG-
1 TTGATGCTGC
5238 TTGA
1 TTGA
5242 CACACTTCAT
Statistics
Matches: 51, Mismatches: 12, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
9 3 0.06
10 48 0.94
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (10 bp):
TTGATGCTGC
Found at i:5195 original size:20 final size:20
Alignment explanation
Indices: 5170--5241 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
5160 CAACTATTGT
*
5170 TGATGCTGCTTGATACTGCC
1 TGATGCTGCTTGATGCTGCC
*
5190 TGATGCTGCTTGATGCTACC
1 TGATGCTGCTTGATGCTGCC
*
5210 TGATGCTGCTCGATGCTGCC
1 TGATGCTGCTTGATGCTGCC
5230 TGATGCTG-TTGA
1 TGATGCTGCTTGA
5242 CACACTTCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 3 0.06
20 44 0.94
ACGTcount: A:0.14, C:0.24, G:0.28, T:0.35
Consensus pattern (20 bp):
TGATGCTGCTTGATGCTGCC
Found at i:12984 original size:19 final size:19
Alignment explanation
Indices: 12959--13001 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
12949 TAAGCAACTG
12959 TTTTTTT-CTTCTTTTTCTTC
1 TTTTTTTCCTT-TTTTT-TTC
12979 TTTTTTTCCTTTTTTTTTC
1 TTTTTTTCCTTTTTTTTTC
12998 TTTT
1 TTTT
13002 CGAACCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.32
20 12 0.55
21 3 0.14
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTTTCCTTTTTTTTTC
Found at i:13957 original size:32 final size:32
Alignment explanation
Indices: 13904--13992 Score: 81
Period size: 32 Copynumber: 2.8 Consensus size: 32
13894 GTCTGAAATA
**
13904 AAAATAAAAATAATATTAATAAATAAAAATTT
1 AAAATAAAAATAATAAAAATAAATAAAAATTT
* *
13936 AAAATACAAAA-AATAAAAATAAATAGAAATAAT
1 AAAATA-AAAATAATAAAAATAAATAAAAAT-TT
* * * *
13969 ATAATATAAATAACATAAATAAAT
1 AAAATAAAAATAATAAAAATAAAT
13993 TAATAACGAA
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
32 25 0.54
33 21 0.46
ACGTcount: A:0.71, C:0.02, G:0.01, T:0.26
Consensus pattern (32 bp):
AAAATAAAAATAATAAAAATAAATAAAAATTT
Found at i:13969 original size:19 final size:19
Alignment explanation
Indices: 13906--13980 Score: 53
Period size: 19 Copynumber: 3.7 Consensus size: 19
13896 CTGAAATAAA
**
13906 AATAAAAAT-AATATTAAT
1 AATAAAAATAAATACAAAT
*
13924 AAATAAAAATTTAAAATACAAAA
1 -AATAAAAA--T-AAATACAAAT
*
13947 AATAAAAATAAATAGAAAT
1 AATAAAAATAAATACAAAT
*
13966 AATATAATATAAATA
1 AATA-AAAATAAATA
13981 ACATAAATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
19 20 0.44
20 10 0.22
21 1 0.02
22 8 0.18
23 6 0.13
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.27
Consensus pattern (19 bp):
AATAAAAATAAATACAAAT
Found at i:13979 original size:14 final size:14
Alignment explanation
Indices: 13948--13997 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
13938 AATACAAAAA
13948 ATAAA-AATA-AAT
1 ATAAATAATATAAT
*
13960 AGAAATAATATAAT
1 ATAAATAATATAAT
*
13974 ATAAATAACATAA-
1 ATAAATAATATAAT
13987 ATAAATTAATA
1 ATAAA-TAATA
13998 ACGAAGTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
12 4 0.13
13 9 0.29
14 18 0.58
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (14 bp):
ATAAATAATATAAT
Found at i:18484 original size:23 final size:23
Alignment explanation
Indices: 18458--18503 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
18448 CTAACTAGAC
*
18458 CTTCTAGAAGCTGCTGACTGGAT
1 CTTCTAAAAGCTGCTGACTGGAT
18481 CTTCTAAAAGCTGCTGACTGGAT
1 CTTCTAAAAGCTGCTGACTGGAT
18504 GCCACGTCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (23 bp):
CTTCTAAAAGCTGCTGACTGGAT
Found at i:19683 original size:27 final size:27
Alignment explanation
Indices: 19630--19699 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
19620 AGTTCTCCAG
* *
19630 ACCAACTGGCGAACCCCAGCATACCAA
1 ACCAACTAGAGAACCCCAGCATACCAA
* * *
19657 ATCAACTAGTGAACCCCAG-ATCGCCAA
1 ACCAACTAGAGAACCCCAGCAT-ACCAA
*
19684 ACCAACTTGAGAACCC
1 ACCAACTAGAGAACCC
19700 TAGTTCAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
26 2 0.06
27 33 0.94
ACGTcount: A:0.37, C:0.37, G:0.14, T:0.11
Consensus pattern (27 bp):
ACCAACTAGAGAACCCCAGCATACCAA
Found at i:27835 original size:33 final size:31
Alignment explanation
Indices: 27790--27874 Score: 91
Period size: 33 Copynumber: 2.6 Consensus size: 31
27780 TATGTCACAT
*
27790 AAATAAATAATTTAAAAATTATAAAATATATAA
1 AAATAAAAAATTTAAAAATTA-AAAATATAT-A
*
27823 AAATAAAAAATTT-AAATTTAAAAATATATA
1 AAATAAAAAATTTAAAAATTAAAAATATATA
* *
27853 TAATAAAAGATTCATAAAAATT
1 AAATAAAAAATT--TAAAAATT
27875 TTTAGAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
30 11 0.25
31 9 0.20
32 7 0.16
33 17 0.39
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (31 bp):
AAATAAAAAATTTAAAAATTAAAAATATATA
Found at i:35238 original size:91 final size:92
Alignment explanation
Indices: 34957--35235 Score: 499
Period size: 92 Copynumber: 3.0 Consensus size: 92
34947 TCATTTCCAC
34957 AAATATTTAGTCGTTTTGTGTGGAAAATTCAGCCATGGAATTTGTGACCCTATCATATAATTTAA
1 AAATATTTAGTCGTTTTGTGTGGAAAATTCAGCCATGGAATTTGTGACCCTATCATATAATTTAA
35022 TTGTATACATCAATTATCAAGCATTGA
66 TTGTATACATCAATTATCAAGCATTGA
35049 AAATATTTAGTCGTTTTGTGTGGAAAATTCAGCCATGGAATTTGTGACCCTATCATATAATTTAA
1 AAATATTTAGTCGTTTTGTGTGGAAAATTCAGCCATGGAATTTGTGACCCTATCATATAATTTAA
*
35114 TTGCATACATCAATTATCAAGCATTGA
66 TTGTATACATCAATTATCAAGCATTGA
*
35141 AAATTTTTAGTC-TTTTGTGTGGAAAATTCAGCCGA-GGAATTTGTGACCCTATCATATAATTTA
1 AAATATTTAGTCGTTTTGTGTGGAAAATTCAGCC-ATGGAATTTGTGACCCTATCATATAATTTA
**
35204 ATTGTATATGTCAATTATCAAGCATTGA
65 ATTGTATACATCAATTATCAAGCATTGA
35232 AAAT
1 AAAT
35236 TTTGCTATAT
Statistics
Matches: 181, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
91 78 0.43
92 103 0.57
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (92 bp):
AAATATTTAGTCGTTTTGTGTGGAAAATTCAGCCATGGAATTTGTGACCCTATCATATAATTTAA
TTGTATACATCAATTATCAAGCATTGA
Found at i:43816 original size:7 final size:8
Alignment explanation
Indices: 43800--43825 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
43790 TGAAACTTGC
43800 TTCGATTT
1 TTCGATTT
43808 TTCGATTT
1 TTCGATTT
43816 TTCGATTT
1 TTCGATTT
43824 TT
1 TT
43826 GCTCCCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.65
Consensus pattern (8 bp):
TTCGATTT
Found at i:45693 original size:13 final size:14
Alignment explanation
Indices: 45675--45707 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
45665 TCTGGTTATC
*
45675 AAACAAT-TCACCA
1 AAACAATGTCAACA
45688 AAACAATGTCAACA
1 AAACAATGTCAACA
45702 AAACAA
1 AAACAA
45708 GTGACAGTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.61, C:0.24, G:0.03, T:0.12
Consensus pattern (14 bp):
AAACAATGTCAACA
Found at i:47094 original size:25 final size:24
Alignment explanation
Indices: 47049--47095 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
47039 CCACTAAAAT
* **
47049 TTTTAACAAATCAAAGGAAAATGG
1 TTTTAACAAATAAAAAAAAAATGG
47073 TTTTAACAAATGAAAAAAAAAAT
1 TTTTAACAAAT-AAAAAAAAAAT
47096 TAATATTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.57, C:0.06, G:0.11, T:0.26
Consensus pattern (24 bp):
TTTTAACAAATAAAAAAAAAATGG
Found at i:49095 original size:19 final size:19
Alignment explanation
Indices: 49045--49096 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
49035 ATTGTAACAT
*
49045 TATTTATATTTTTAAATATT
1 TATTTA-ATTTTTAAATATG
*
49065 TATTTCAA-TTTTAATTATG
1 TATTT-AATTTTTAAATATG
49084 TATTTAATTTTTA
1 TATTTAATTTTTA
49097 GTATAAACAC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 2 0.07
19 19 0.68
20 6 0.21
21 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
TATTTAATTTTTAAATATG
Found at i:65553 original size:21 final size:21
Alignment explanation
Indices: 65513--65554 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
65503 GATCTGATTT
* **
65513 AATTAAATTTTATCGTAAATG
1 AATTAAATTTTACCACAAATG
65534 AATTAAATTTTACCACAAATG
1 AATTAAATTTTACCACAAATG
65555 TGATCATCCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (21 bp):
AATTAAATTTTACCACAAATG
Found at i:66173 original size:55 final size:56
Alignment explanation
Indices: 66106--66217 Score: 154
Period size: 57 Copynumber: 2.0 Consensus size: 56
66096 AAATATTATG
* * *
66106 TAACAATTGATTTAAACATAT-AAATAATCAATTCAAAAGAAATAGTATTCCAACA
1 TAACAATCGATTTAAACATATAAAAAAATCAATTCAAAAGAAACAGTATTCCAACA
* * *
66161 TAACAATCGATTTAAACATATAAAAAAAATCTATTCAAAAGAAGCATTATTCCAACA
1 TAACAATCGATTTAAACATAT-AAAAAAATCAATTCAAAAGAAACAGTATTCCAACA
66218 ATTAAGACGA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
55 20 0.41
57 29 0.59
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.28
Consensus pattern (56 bp):
TAACAATCGATTTAAACATATAAAAAAATCAATTCAAAAGAAACAGTATTCCAACA
Found at i:66270 original size:12 final size:12
Alignment explanation
Indices: 66253--66277 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66243 CTTAAAAGTA
66253 TGCACGACATTC
1 TGCACGACATTC
66265 TGCACGACATTC
1 TGCACGACATTC
66277 T
1 T
66278 TTCAAAGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (12 bp):
TGCACGACATTC
Found at i:68276 original size:21 final size:22
Alignment explanation
Indices: 68223--68266 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
68213 ATAATATTAA
68223 ATGTTAAAATATTAAAAAATAC
1 ATGTTAAAATATTAAAAAATAC
68245 ATGTTAAAATATTAAAAAATAC
1 ATGTTAAAATATTAAAAAATAC
68267 GTTTTTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (22 bp):
ATGTTAAAATATTAAAAAATAC
Found at i:68583 original size:2 final size:2
Alignment explanation
Indices: 68576--68600 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
68566 TTTTCACACG
68576 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
68601 TTCATTATCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:69248 original size:14 final size:14
Alignment explanation
Indices: 69229--69261 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
69219 GCAAGCACAT
*
69229 GTTTAAGGTTTAGG
1 GTTTAAAGTTTAGG
69243 GTTTAAAGTTTAGG
1 GTTTAAAGTTTAGG
69257 GTTTA
1 GTTTA
69262 GGATTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.45
Consensus pattern (14 bp):
GTTTAAAGTTTAGG
Found at i:69301 original size:19 final size:19
Alignment explanation
Indices: 69257--69316 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
69247 AAAGTTTAGG
* *
69257 GTTTAGGATTTTAATTTCAAA
1 GTTTAGGATTTTGATTT--TA
69278 GTTTATGG-TTTTGATTTTA
1 GTTTA-GGATTTTGATTTTA
*
69297 GTTTAGGATTTTTATTTTA
1 GTTTAGGATTTTGATTTTA
69316 G
1 G
69317 GGTTTTAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 2 0.06
19 17 0.50
21 13 0.38
22 2 0.06
ACGTcount: A:0.23, C:0.02, G:0.18, T:0.57
Consensus pattern (19 bp):
GTTTAGGATTTTGATTTTA
Found at i:69309 original size:14 final size:13
Alignment explanation
Indices: 69292--69334 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
69282 ATGGTTTTGA
*
69292 TTTTAGTTTAGGAT
1 TTTTAGTTTAGG-G
*
69306 TTTTATTTTAGGG
1 TTTTAGTTTAGGG
69319 TTTTAGTTTTAGGG
1 TTTTAG-TTTAGGG
69333 TT
1 TT
69335 ATGTCTTTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 5 0.20
14 20 0.80
ACGTcount: A:0.16, C:0.00, G:0.23, T:0.60
Consensus pattern (13 bp):
TTTTAGTTTAGGG
Found at i:69346 original size:27 final size:26
Alignment explanation
Indices: 69311--69376 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
69301 AGGATTTTTA
*
69311 TTTTAGGGTTTTAGTTTTAGGGTTATG
1 TTTT-GGGTTTTAGTTTTAGAGTTATG
*
69338 TCTTTGGGTTTTGGTTTTAGAGTTATG
1 T-TTTGGGTTTTAGTTTTAGAGTTATG
69365 TTTT-GGTTTTAG
1 TTTTGGGTTTTAG
69377 GGTTACGTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.20
26 3 0.09
27 22 0.63
28 3 0.09
ACGTcount: A:0.12, C:0.02, G:0.29, T:0.58
Consensus pattern (26 bp):
TTTTGGGTTTTAGTTTTAGAGTTATG
Found at i:69396 original size:19 final size:19
Alignment explanation
Indices: 69345--69399 Score: 83
Period size: 19 Copynumber: 2.9 Consensus size: 19
69335 ATGTCTTTGG
* *
69345 GTTTTGGTTTTAGAGTTAT
1 GTTTTGGTTTTAGGGTTAC
69364 GTTTTGGTTTTAGGGTTAC
1 GTTTTGGTTTTAGGGTTAC
*
69383 GTTTTAGTTTTAGGGTT
1 GTTTTGGTTTTAGGGTT
69400 TTTGTTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.13, C:0.02, G:0.29, T:0.56
Consensus pattern (19 bp):
GTTTTGGTTTTAGGGTTAC
Found at i:69406 original size:14 final size:14
Alignment explanation
Indices: 69298--69407 Score: 61
Period size: 14 Copynumber: 8.2 Consensus size: 14
69288 TTGATTTTAG
* *
69298 TTTAGGATTTTTAT
1 TTTAGGGTTTTTGT
*
69312 TTTAGGGTTTTAGT
1 TTTAGGGTTTTTGT
*
69326 TTTAGGG-TTATGT
1 TTTAGGGTTTTTGT
*
69339 CTTT-GGGTTTTGGT
1 -TTTAGGGTTTTTGT
* *
69353 TTTAGAG-TTATGT
1 TTTAGGGTTTTTGT
* *
69366 TTT--GGTTTTAGG
1 TTTAGGGTTTTTGT
* * *
69378 GTTA-CGTTTTAGT
1 TTTAGGGTTTTTGT
69391 TTTAGGGTTTTTGT
1 TTTAGGGTTTTTGT
69405 TTT
1 TTT
69408 TATGTTATGT
Statistics
Matches: 70, Mismatches: 20, Indels: 12
0.69 0.20 0.12
Matches are distributed among these distances:
11 1 0.01
12 5 0.07
13 27 0.39
14 37 0.53
ACGTcount: A:0.13, C:0.02, G:0.26, T:0.59
Consensus pattern (14 bp):
TTTAGGGTTTTTGT
Found at i:69427 original size:13 final size:13
Alignment explanation
Indices: 69405--69466 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
69395 GGGTTTTTGT
69405 TTTTAT-GTTATG
1 TTTTATGGTTATG
* *
69417 TTTTAAGGTTATA
1 TTTTATGGTTATG
* *
69430 TTTCATGGTTTTGG
1 TTTTATGGTTAT-G
*
69444 ATTTATGGTTATG
1 TTTTATGGTTATG
*
69457 TTTTAGGGTT
1 TTTTATGGTT
69467 TTGGATTTGA
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
12 5 0.14
13 23 0.62
14 9 0.24
ACGTcount: A:0.18, C:0.02, G:0.23, T:0.58
Consensus pattern (13 bp):
TTTTATGGTTATG
Found at i:69448 original size:27 final size:27
Alignment explanation
Indices: 69418--69474 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
69408 TATGTTATGT
*
69418 TTTAAGGTTATATTTCATGGTTTTGGA
1 TTTAAGGTTATATTTCAGGGTTTTGGA
* * *
69445 TTTATGGTTATGTTTTAGGGTTTTGGA
1 TTTAAGGTTATATTTCAGGGTTTTGGA
69472 TTT
1 TTT
69475 GATGTTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.18, C:0.02, G:0.25, T:0.56
Consensus pattern (27 bp):
TTTAAGGTTATATTTCAGGGTTTTGGA
Found at i:69510 original size:21 final size:22
Alignment explanation
Indices: 69452--69511 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 22
69442 GGATTTATGG
*
69452 TTATGTTTTAGGGTT-TTGGAT
1 TTATGTTTTAGGGTTCTAGGAT
**
69473 TTGATGTTTTA--AATCTAGGA-
1 TT-ATGTTTTAGGGTTCTAGGAT
69493 TTATGTTTTAGGGTTCTAG
1 TTATGTTTTAGGGTTCTAG
69512 TTTTTGAGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
19 8 0.27
20 3 0.10
21 11 0.37
22 8 0.27
ACGTcount: A:0.20, C:0.03, G:0.25, T:0.52
Consensus pattern (22 bp):
TTATGTTTTAGGGTTCTAGGAT
Found at i:69678 original size:21 final size:21
Alignment explanation
Indices: 69654--69693 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
69644 AGCGTTACAC
69654 TTTAGAG-TTTACTGTTTAGCT
1 TTTAGAGTTTTACT-TTTAGCT
*
69675 TTTAGGGTTTTACTTTTAG
1 TTTAGAGTTTTACTTTTAG
69694 AGCTTTAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.17, C:0.07, G:0.20, T:0.55
Consensus pattern (21 bp):
TTTAGAGTTTTACTTTTAGCT
Found at i:69733 original size:14 final size:14
Alignment explanation
Indices: 69668--69832 Score: 59
Period size: 14 Copynumber: 11.6 Consensus size: 14
69658 GAGTTTACTG
69668 TTTAGCTTTTAGGGT
1 TTTAG-TTTTAGGGT
* * *
69683 TTTACTTTTAGAGC
1 TTTAGTTTTAGGGT
** *
69697 TTTAGTTTTAATGC
1 TTTAGTTTTAGGGT
* *
69711 TTCAATTTTAGGGT
1 TTTAGTTTTAGGGT
**
69725 TTTAGTTTTA-TTT
1 TTTAGTTTTAGGGT
* *
69738 TAGAGTTATTTTTTGGTGT
1 T----TTAGTTTTAGG-GT
69757 TTTAG-TTTAGGGT
1 TTTAGTTTTAGGGT
**
69770 TTTAGTTTTTTGGT
1 TTTAGTTTTAGGGT
* *
69784 TAT-GTTTTAAGGT
1 TTTAGTTTTAGGGT
* *
69797 TTGA-TTTTAGCGT
1 TTTAGTTTTAGGGT
**
69810 TTTAAATTTAGGGT
1 TTTAGTTTTAGGGT
*
69824 TTTTGTTTT
1 TTTAGTTTT
69833 TAAAGTTTTT
Statistics
Matches: 105, Mismatches: 36, Indels: 19
0.66 0.22 0.12
Matches are distributed among these distances:
13 28 0.27
14 61 0.58
15 7 0.07
17 7 0.07
19 2 0.02
ACGTcount: A:0.17, C:0.04, G:0.21, T:0.59
Consensus pattern (14 bp):
TTTAGTTTTAGGGT
Found at i:69868 original size:27 final size:28
Alignment explanation
Indices: 69837--69893 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
69827 TGTTTTTAAA
69837 GTTTTTGG-TTTAGTG-TTACATTTTAGG
1 GTTTTTGGATTTA-TGATTACATTTTAGG
*
69864 G-TTTTGGATTTATGATTACGTTTTAGG
1 GTTTTTGGATTTATGATTACATTTTAGG
69891 GTT
1 GTT
69894 ATATTTCATG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 8 0.31
27 17 0.65
28 1 0.04
ACGTcount: A:0.16, C:0.04, G:0.26, T:0.54
Consensus pattern (28 bp):
GTTTTTGGATTTATGATTACATTTTAGG
Found at i:69907 original size:40 final size:40
Alignment explanation
Indices: 69845--69945 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 40
69835 AAGTTTTTGG
* * * *
69845 TTTAGTGTTACATTTTAGGGTTTTGGATTTATGATTACGT
1 TTTAGGGTTATATTTCAGGGTTTTGGATTTATGATTACAT
* *
69885 TTTAGGGTTATATTTCATGGTTTTGGTTTTATGATTACAT
1 TTTAGGGTTATATTTCAGGGTTTTGGATTTATGATTACAT
* * *
69925 TTTAGGCTTATGTTTTAGGGT
1 TTTAGGGTTATATTTCAGGGT
69946 CATGCTTTAG
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.19, C:0.05, G:0.23, T:0.53
Consensus pattern (40 bp):
TTTAGGGTTATATTTCAGGGTTTTGGATTTATGATTACAT
Found at i:69940 original size:13 final size:13
Alignment explanation
Indices: 69924--69986 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
69914 TATGATTACA
*
69924 TTTTAGGCTTATG
1 TTTTAGGGTTATG
*
69937 TTTTAGGGTCATG
1 TTTTAGGGTTATG
* *
69950 CTTTA-GGTTTTCG
1 TTTTAGGGTTAT-G
69963 ATTTTAGGGTTATG
1 -TTTTAGGGTTATG
*
69977 CTTTAGGGTT
1 TTTTAGGGTT
69987 TAGAATAATG
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
12 4 0.10
13 25 0.64
14 5 0.13
15 5 0.13
ACGTcount: A:0.14, C:0.08, G:0.27, T:0.51
Consensus pattern (13 bp):
TTTTAGGGTTATG
Found at i:70039 original size:31 final size:31
Alignment explanation
Indices: 70004--70065 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
69994 ATGTAAAATG
* * * *
70004 TAGGGTTTAATGTTTGGAATAATATTTTGTT
1 TAGGGTTTAACGTTTAGAATAACATTGTGTT
70035 TAGGGTTTAACGTTTAGAATAACATTGTGTT
1 TAGGGTTTAACGTTTAGAATAACATTGTGTT
70066 CAGGTCTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.27, C:0.03, G:0.23, T:0.47
Consensus pattern (31 bp):
TAGGGTTTAACGTTTAGAATAACATTGTGTT
Found at i:70544 original size:2 final size:2
Alignment explanation
Indices: 70533--70575 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
70523 TTAAGAGGGT
70533 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
70574 TA
1 TA
70576 CAAGAAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:74170 original size:102 final size:102
Alignment explanation
Indices: 74056--74261 Score: 403
Period size: 102 Copynumber: 2.0 Consensus size: 102
74046 ACCCAACAAC
74056 CCTAAACTCTAAATGTTGAAAATATATAAATTACAAATTAAAAGTGATGATTTAATTGAAAAATG
1 CCTAAACTCTAAATGTTGAAAATATATAAATTACAAATTAAAAGTGATGATTTAATTGAAAAATG
74121 ATAACTTACCATCCGATTGACATGGAACAAGTCTCTT
66 ATAACTTACCATCCGATTGACATGGAACAAGTCTCTT
74158 CCTAAACTCTAAATGTTGAAAATATATAAATTACAAATTAAAAGTGATGATTTAATTGAAAAATG
1 CCTAAACTCTAAATGTTGAAAATATATAAATTACAAATTAAAAGTGATGATTTAATTGAAAAATG
*
74223 ATAACTTATCATCCGATTGACATGGAACAAGTCTCTT
66 ATAACTTACCATCCGATTGACATGGAACAAGTCTCTT
74260 CC
1 CC
74262 AAAAGGTGTT
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 103 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.32
Consensus pattern (102 bp):
CCTAAACTCTAAATGTTGAAAATATATAAATTACAAATTAAAAGTGATGATTTAATTGAAAAATG
ATAACTTACCATCCGATTGACATGGAACAAGTCTCTT
Found at i:74305 original size:40 final size:40
Alignment explanation
Indices: 74255--74349 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
74245 TGGAACAAGT
* *
74255 CTCTTCCAAAAGGTGTTCATCCATTATGAAAAAGGTTGTGA
1 CTCTTTCAAAAGGTGTTCATCCAATATG-AAAAGGTTGTGA
**
74296 CT-TTTCAAAATATGTTCATCCAATATGAAAAGGTTGTGA
1 CTCTTTCAAAAGGTGTTCATCCAATATGAAAAGGTTGTGA
74335 CTCTTT-AAAAGGTGT
1 CTCTTTCAAAAGGTGT
74350 CCATTAAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
39 21 0.45
40 24 0.51
41 2 0.04
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (40 bp):
CTCTTTCAAAAGGTGTTCATCCAATATGAAAAGGTTGTGA
Found at i:76947 original size:12 final size:12
Alignment explanation
Indices: 76909--76948 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 12
76899 CTTCATCAAA
76909 ATCCTTATCTTC
1 ATCCTTATCTTC
76921 ATCCATATGATCTTC
1 ATCC-T-T-ATCTTC
76936 ATCCTTATCTTC
1 ATCCTTATCTTC
76948 A
1 A
76949 CACTGTTAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 11 0.44
13 2 0.08
14 2 0.08
15 10 0.40
ACGTcount: A:0.23, C:0.30, G:0.03, T:0.45
Consensus pattern (12 bp):
ATCCTTATCTTC
Found at i:83789 original size:31 final size:29
Alignment explanation
Indices: 83715--83790 Score: 71
Period size: 30 Copynumber: 2.5 Consensus size: 29
83705 AAAAAATTTT
83715 GATTTTAAAAAAAAATTATCAGATTAGAC
1 GATTTTAAAAAAAAATTATCAGATTAGAC
* *** **
83744 TATTTTTTTCAAAAAATTATGGGATTAGATC
1 GA-TTTTAAAAAAAAATTATCAGATTAGA-C
83775 GATTTTACAAAAAAAA
1 GATTTTA-AAAAAAAA
83791 ATCAGTTGAT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
29 1 0.03
30 25 0.74
31 8 0.24
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.36
Consensus pattern (29 bp):
GATTTTAAAAAAAAATTATCAGATTAGAC
Found at i:88632 original size:66 final size:66
Alignment explanation
Indices: 88557--88689 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
88547 AACAACAACT
*
88557 TGCTATGCTAGCACAACAACAGTCCCTTCTCATGGCTGCTGCAGCTAAATCTACTCCTGGAAATG
1 TGCTATGCTAGAACAACAACAGTCCCTTCTCATGGCTGCTGCAGCTAAATCTACTCCTGGAAATG
88622 C
66 C
*
88623 TGCTATGCTAGAACAACAACAGTCCCTTCTCATGGCTGCTGCAGCTAAATCTGCTCCTGGAAATG
1 TGCTATGCTAGAACAACAACAGTCCCTTCTCATGGCTGCTGCAGCTAAATCTACTCCTGGAAATG
88688 C
66 C
88689 T
1 T
88690 CAACAGCCTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (66 bp):
TGCTATGCTAGAACAACAACAGTCCCTTCTCATGGCTGCTGCAGCTAAATCTACTCCTGGAAATG
C
Found at i:92782 original size:27 final size:27
Alignment explanation
Indices: 92744--92796 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
92734 AAGCGATTTG
*
92744 ACAATGGCGAG-ATGAGAATACAATTAC
1 ACAATGACGAGAAT-AGAATACAATTAC
*
92771 ACAATGACGAGAATAGAATATAATTA
1 ACAATGACGAGAATAGAATACAATTA
92797 TTAAGGGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (27 bp):
ACAATGACGAGAATAGAATACAATTAC
Found at i:101911 original size:16 final size:17
Alignment explanation
Indices: 101892--101924 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
101882 AAATTTATTT
*
101892 TTATATAAAAA-TAATA
1 TTATAAAAAAATTAATA
101908 TTATAAAAAAATTAATA
1 TTATAAAAAAATTAATA
101925 CTAACGGACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TTATAAAAAAATTAATA
Found at i:102480 original size:11 final size:11
Alignment explanation
Indices: 102464--102500 Score: 53
Period size: 9 Copynumber: 3.6 Consensus size: 11
102454 AAAAAAATTT
102464 TAAATATTATA
1 TAAATATTATA
102475 TAAATA-TAT-
1 TAAATATTATA
102484 TAAAT-TTATA
1 TAAATATTATA
102494 TAAATAT
1 TAAATAT
102501 AAAATATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 8 0.35
10 8 0.35
11 7 0.30
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TAAATATTATA
Found at i:102494 original size:19 final size:20
Alignment explanation
Indices: 102463--102501 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
102453 AAAAAAAATT
102463 TTAAATATTATATAAATATA
1 TTAAATATTATATAAATATA
102483 TTAAAT-TTATATAAATATA
1 TTAAATATTATATAAATATA
102502 AAATATATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAAATATTATATAAATATA
Found at i:122392 original size:212 final size:214
Alignment explanation
Indices: 121777--122713 Score: 1496
Period size: 210 Copynumber: 4.4 Consensus size: 214
121767 TATTTGAGAA
*
121777 TGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTTTCCCAACTGAGCT
1 TGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAACTGAGCT
* * *
121842 ATCCCCGCAATTACATTTTACTTTTAGTAAATGGCCAATATTTAATGTGAAATTTCGAAAAAAGA
66 ATCCCCGCAATTACATTTTACTTTTAG----T---CAACATTTAATATGAAATTTTGAAAAAAGA
*
121907 ACAAACAAGTGAGCTATCCCCGCTATTACTTTTTACCTTCAATAAACAGTTAATATTTAATTTGA
124 ACAAACAACTGAGCTATCCCCGCTATTACTTTTTACCTTCAATAAACAGTTAATATTTAATTTGA
*
121972 AATTTCAGAAAAGAAAAAAATTAAAT
189 AATTTCGGAAAAGAAAAAAATTAAAT
121998 TGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACG--CTCCCAACTGAGCT
1 TGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAACTGAGCT
*
122061 ATCCCCGCAATTACATTTTACTTTTAGT-AA-ATTTAATATGAAATTTGGAAAAAAGAACAAACA
66 ATCCCCGCAATTACATTTTACTTTTAGTCAACATTTAATATGAAATTTTGAAAAAAGAACAAACA
122124 ACTGAGCTATCCCCGCTATTACTTTTTACCTTCAATAAACAGTTAATATTTAATTTGAAATTTCG
131 ACTGAGCTATCCCCGCTATTACTTTTTACCTTCAATAAACAGTTAATATTTAATTTGAAATTTCG
122189 GAAAAGAAAAAAATTAAAT
196 GAAAAGAAAAAAATTAAAT
122208 TGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAACTGAGCT
1 TGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAACTGAGCT
122273 ATCCCCGCAATTACATTTTACTTTTAGT-AA-ATTTAATATGAAATTTTGAAAAAAGAACAAACA
66 ATCCCCGCAATTACATTTTACTTTTAGTCAACATTTAATATGAAATTTTGAAAAAAGAACAAACA
122336 ACTGAGCTATCCCCGCTATTACTTTTTACCTTCAATAAACAGTTAATATTTAATTTGAAATTTCG
131 ACTGAGCTATCCCCGCTATTACTTTTTACCTTCAATAAACAGTTAATATTTAATTTGAAATTTCG
122401 GAAAAG-AAAAAATTAAAT
196 GAAAAGAAAAAAATTAAAT
122419 TGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAACTGAGCT
1 TGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAACTGAGCT
* * * * * ** * *
122484 ATCCCCGCAATTACATTCTGCTTTTAGTAAACAGTAAATATTTAA-TGTGAAATATCGAAAGAAA
66 ATCCCCGCAATTACATTTTACTTTTAGTCAACATTTAATATGAAATTTTG-AA-A---AAAGAAC
* * * *
122548 AAACAACTCAGCTATCCCCGCAATTACTTTTTACCTTTAGTAAACAGTTAATATTTAATTT-AAG
126 AAACAACTGAGCTATCCCCGCTATTACTTTTTACCTTCAATAAACAGTTAATATTTAATTTGAA-
* *
122612 ATTTCGGAAAAGAAAAAAAATAAAA
190 ATTTCGGAAAAGAAAAAAATTAAAT
122637 TGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAACTGAGCT
1 TGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAACTGAGCT
122702 ATCCCCGCAATT
66 ATCCCCGCAATT
122714 GCTTTCTTGT
Statistics
Matches: 685, Mismatches: 20, Indels: 25
0.94 0.03 0.03
Matches are distributed among these distances:
210 162 0.24
211 105 0.15
212 152 0.22
213 11 0.02
214 1 0.00
215 1 0.00
216 2 0.00
217 75 0.11
218 87 0.13
219 40 0.06
221 49 0.07
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.29
Consensus pattern (214 bp):
TGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAACTGAGCT
ATCCCCGCAATTACATTTTACTTTTAGTCAACATTTAATATGAAATTTTGAAAAAAGAACAAACA
ACTGAGCTATCCCCGCTATTACTTTTTACCTTCAATAAACAGTTAATATTTAATTTGAAATTTCG
GAAAAGAAAAAAATTAAAT
Found at i:122667 original size:429 final size:425
Alignment explanation
Indices: 121775--122713 Score: 1528
Period size: 429 Copynumber: 2.2 Consensus size: 425
121765 AATATTTGAG
*
121775 AATGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTTTCCCAACTGAG
1 AATGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAACTGAG
*
121840 CTATCCCCGCAATTACATTTTACTTTTAGTAAATGGCCAATATTTAATGTGAAATTTCGAAAAAA
66 CTATCCCCGCAATTACATTTTACTTTTAG---AT---CAATATTTAATATGAAATTTCGAAAAAA
*
121905 GAACAAACAAGTGAGCTATCCCCGCTATTACTTTTTACCTTCAATAAACAGTTAATATTTAATTT
125 GAACAAACAACTGAGCTATCCCCGCTATTACTTTTTACCTTCAATAAACAGTTAATATTTAATTT
121970 GAAATTTCAGAAAAGAAAAAAATTAAATTGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATC
190 GAAATTTCAGAAAAGAAAAAAATTAAATTGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATC
* * *
122035 TTCAGTCTGACGCTCCCAACTGAGCTATCCCCGCAATTACATTTTACTTTTAGTAAATTTAATAT
255 TTCAGTCTGACGCTCCCAACTGAGCTATCCCCGCAATTACATTCTACTTTTAGTAAAGTAAATAT
* * * * *
122100 GAAATTTGGAAAAAAGAACAAACAACTGAGCTATCCCCGCTATTACTTTTTACCTTCAATAAACA
320 GAAATGTGAAAAAAAGAAAAAACAACTCAGCTATCCCCGCAATTACTTTTTACCTTCAATAAACA
*
122165 GTTAATATTTAATTTGAAATTTCGGAAAAGAAAAAAATTAA
385 GTTAATATTTAATTTGAAATTTCGGAAAAGAAAAAAAATAA
*
122206 ATTGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAACTGAG
1 AATGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAACTGAG
*
122271 CTATCCCCGCAATTACATTTTACTTTTAG-T-AA-ATTTAATATGAAATTTTGAAAAAAGAACAA
66 CTATCCCCGCAATTACATTTTACTTTTAGATCAATATTTAATATGAAATTTCGAAAAAAGAACAA
122333 ACAACTGAGCTATCCCCGCTATTACTTTTTACCTTCAATAAACAGTTAATATTTAATTTGAAATT
131 ACAACTGAGCTATCCCCGCTATTACTTTTTACCTTCAATAAACAGTTAATATTTAATTTGAAATT
*
122398 TCGGAAAAG-AAAAAATTAAATTGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGT
196 TCAGAAAAGAAAAAAATTAAATTGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGT
* **
122462 CTGACGCTCTCCCAACTGAGCTATCCCCGCAATTACATTCTGCTTTTAGTAAACAGTAAATATTT
261 CTGACG--CTCCCAACTGAGCTATCCCCGCAATTACATTCTACTTTTAGT-AA-AGTAAATATGA
* *
122527 AATGTGAAATATCGAAAGAAAAAACAACTCAGCTATCCCCGCAATTACTTTTTACCTTTAGTAAA
322 AATGTGAAA-A---AAAGAAAAAACAACTCAGCTATCCCCGCAATTACTTTTTACCTTCAATAAA
122592 CAGTTAATATTTAATTT-AAGATTTCGGAAAAGAAAAAAAATAA
383 CAGTTAATATTTAATTTGAA-ATTTCGGAAAAGAAAAAAAATAA
122635 AATGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAACTGAG
1 AATGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAACTGAG
122700 CTATCCCCGCAATT
66 CTATCCCCGCAATT
122714 GCTTTCTTGT
Statistics
Matches: 478, Mismatches: 21, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
421 61 0.13
422 100 0.21
423 42 0.09
424 2 0.00
425 14 0.03
426 1 0.00
427 1 0.00
428 2 0.00
429 163 0.34
431 92 0.19
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (425 bp):
AATGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGTCTGACGCTCTCCCAACTGAG
CTATCCCCGCAATTACATTTTACTTTTAGATCAATATTTAATATGAAATTTCGAAAAAAGAACAA
ACAACTGAGCTATCCCCGCTATTACTTTTTACCTTCAATAAACAGTTAATATTTAATTTGAAATT
TCAGAAAAGAAAAAAATTAAATTGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATCTTCAGT
CTGACGCTCCCAACTGAGCTATCCCCGCAATTACATTCTACTTTTAGTAAAGTAAATATGAAATG
TGAAAAAAAGAAAAAACAACTCAGCTATCCCCGCAATTACTTTTTACCTTCAATAAACAGTTAAT
ATTTAATTTGAAATTTCGGAAAAGAAAAAAAATAA
Found at i:136653 original size:15 final size:14
Alignment explanation
Indices: 136609--136658 Score: 52
Period size: 13 Copynumber: 3.6 Consensus size: 14
136599 AAAGTCAAGT
136609 AAATATTTAAACAT-
1 AAATATTTAAA-ATA
136623 AAAT-TTTCAAAA-A
1 AAATATTT-AAAATA
136636 AAATATTTAAATATA
1 AAATATTTAAA-ATA
136651 AAATATTT
1 AAATATTT
136659 TATTTACATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
13 11 0.35
14 11 0.35
15 9 0.29
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATATTTAAAATA
Found at i:136827 original size:2 final size:2
Alignment explanation
Indices: 136822--136847 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
136812 AACTTTTTTC
136822 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
136848 GATCATTTGA
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:139335 original size:26 final size:26
Alignment explanation
Indices: 139306--139369 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
139296 GGCTTTTTTA
*
139306 ATAGAATTCGCCAC-AAGGGCCTTATC
1 ATAGTATT-GCCACAAAGGGCCTTATC
* *
139332 ATAGTATTGCCGCAAAGGGTCTTATC
1 ATAGTATTGCCACAAAGGGCCTTATC
139358 ATAGTATTGCCA
1 ATAGTATTGCCA
139370 AAATGACACG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 4 0.12
26 29 0.88
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (26 bp):
ATAGTATTGCCACAAAGGGCCTTATC
Found at i:156309 original size:39 final size:39
Alignment explanation
Indices: 156252--156326 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
156242 TTTCGGCATA
156252 ATATGATCTATGTAGATAACCACATATTTGTGACTTCGT
1 ATATGATCTATGTAGATAACCACATATTTGTGACTTCGT
*
156291 ATATGATCTATGTGGATAACCACATATTTGTGACTT
1 ATATGATCTATGTAGATAACCACATATTTGTGACTT
156327 TGTGTTGGCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.39
Consensus pattern (39 bp):
ATATGATCTATGTAGATAACCACATATTTGTGACTTCGT
Found at i:162057 original size:21 final size:20
Alignment explanation
Indices: 162028--162069 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
162018 CCCTTTTCTT
*
162028 TTTTATTTCTTTATTTTCCC
1 TTTTATTTCTCTATTTTCCC
*
162048 TTTTATTTTCTCTCTTTTCCC
1 TTTTA-TTTCTCTATTTTCCC
162069 T
1 T
162070 ATTTTCTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.07, C:0.24, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTATTTCTCTATTTTCCC
Found at i:165653 original size:21 final size:20
Alignment explanation
Indices: 165618--165668 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
165608 TAATTTTTTT
165618 ACCTAAAACTATGAACACTGAA
1 ACCT-AAACTATGAAC-CTGAA
* *
165640 ACCTAAACTTTGAACCTTAA
1 ACCTAAACTATGAACCTGAA
165660 ACCTTAAAC
1 ACC-TAAAC
165669 CCGAACCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 15 0.58
22 4 0.15
ACGTcount: A:0.45, C:0.25, G:0.06, T:0.24
Consensus pattern (20 bp):
ACCTAAACTATGAACCTGAA
Found at i:165766 original size:26 final size:28
Alignment explanation
Indices: 165716--165767 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
165706 AACTCAACTT
*
165716 TAAACCTCAAATCTCAAACATTGAATCC
1 TAAACCTCAAATCTCAAACACTGAATCC
*
165744 TAAACC-CAAA-CTCAAACCCTGAAT
1 TAAACCTCAAATCTCAAACACTGAAT
165768 TCAAAATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 4 0.18
28 6 0.27
ACGTcount: A:0.44, C:0.31, G:0.04, T:0.21
Consensus pattern (28 bp):
TAAACCTCAAATCTCAAACACTGAATCC
Found at i:165809 original size:35 final size:35
Alignment explanation
Indices: 165770--165847 Score: 113
Period size: 35 Copynumber: 2.2 Consensus size: 35
165760 CCCTGAATTC
*
165770 AAAATTACCAAAATTATGTATCAATGACAT-GATAA
1 AAAATTACCAAAATTATATATCAATGACATAGA-AA
* *
165805 AAAATTAGCAAAGTTATATATCAATGACATAGAAA
1 AAAATTACCAAAATTATATATCAATGACATAGAAA
165840 AAAATTAC
1 AAAATTAC
165848 TGAAATATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
35 36 0.95
36 2 0.05
ACGTcount: A:0.54, C:0.10, G:0.09, T:0.27
Consensus pattern (35 bp):
AAAATTACCAAAATTATATATCAATGACATAGAAA
Found at i:166627 original size:126 final size:126
Alignment explanation
Indices: 166400--166652 Score: 434
Period size: 126 Copynumber: 2.0 Consensus size: 126
166390 AATCTTCTTC
* *
166400 CTTCTCTCCCAAGTCACTCTTCTACTCTTCCTTTATCCTCTTCCTCTTAATCATCGACTCTCCGC
1 CTTCTCTCCCAAGTCACTCCTCTACTCTTCCTTTATCCTCTTCCTCTTAATCATCGACTATCCGC
*
166465 TCTACACGAACGAACTAAACACCACATTCCTTTCCTTCTCCTCTTTGTTAACACTAGGTGT
66 TCTACACGAACGAACTAAACACCACATTCCTCTCCTTCTCCTCTTTGTTAACACTAGGTGT
166526 CTTCTCTCCCAAGTCACTCCTCTACTCTTCCTTTATCCTCTTCCTCTTAATCATCGACTATCCGC
1 CTTCTCTCCCAAGTCACTCCTCTACTCTTCCTTTATCCTCTTCCTCTTAATCATCGACTATCCGC
* * ** *
166591 TCTATATGAGTGAACTAAACACCATATTCCTCTCCTTCTCCTCTTTGTTAACACTAGGTGT
66 TCTACACGAACGAACTAAACACCACATTCCTCTCCTTCTCCTCTTTGTTAACACTAGGTGT
166652 C
1 C
166653 AACCATCATA
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 119 1.00
ACGTcount: A:0.20, C:0.36, G:0.08, T:0.37
Consensus pattern (126 bp):
CTTCTCTCCCAAGTCACTCCTCTACTCTTCCTTTATCCTCTTCCTCTTAATCATCGACTATCCGC
TCTACACGAACGAACTAAACACCACATTCCTCTCCTTCTCCTCTTTGTTAACACTAGGTGT
Found at i:167950 original size:29 final size:31
Alignment explanation
Indices: 167876--167944 Score: 106
Period size: 29 Copynumber: 2.3 Consensus size: 31
167866 ACTTTCGAGG
* *
167876 AATTTGAGGATTAAAATTGAAATTTTTGGAA
1 AATTTGAGGATTAAAATCGAAACTTTTGGAA
167907 AATTTG-GGATTAAAATCG-AACTTTTGGAA
1 AATTTGAGGATTAAAATCGAAACTTTTGGAA
167936 AATTTGAGG
1 AATTTGAGG
167945 TAAAAAATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
29 16 0.46
30 13 0.37
31 6 0.17
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (31 bp):
AATTTGAGGATTAAAATCGAAACTTTTGGAA
Found at i:168128 original size:89 final size:85
Alignment explanation
Indices: 167956--168165 Score: 203
Period size: 89 Copynumber: 2.4 Consensus size: 85
167946 AAAAAATGTG
** * * *
167956 ATTTTTGGATGTTCAAGGGCAAAATGGTAATTTTTAGATGTTCGGGGGTAAAATGGTAATTTTGG
1 ATTTTTGGACATTCGAGGACAAAAT-GTAATTTTTAGATGTTCAGGGGTAAAATGGTAATTTTGG
*
168021 AAAAGTTTCGGGTCAAAATGATA
65 -AAAGTTTCGGGGCAAAAT-ATA
168044 ATCTTTTTGGACATTCGA-GACAAAATAGTAATTTTT-GAATGTTCAGGGGTAAAATGGTAATTT
1 A--TTTTTGGACATTCGAGGACAAAAT-GTAATTTTTAG-ATGTTCAGGGGTAAAATGGTAA-TT
* *
168107 TTGG-ATG-TTCGGGGGCAAAAATTTA
61 TTGGAAAGTTTC-GGGGC-AAAATATA
**
168132 ATTTTTGGATGTTCGAGGACAAAATGATAATTTT
1 ATTTTTGGACATTCGAGGACAAAATG-TAATTTT
168166 GGAAAAGTTT
Statistics
Matches: 103, Mismatches: 11, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
86 14 0.14
87 18 0.17
88 11 0.11
89 42 0.41
90 18 0.17
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.37
Consensus pattern (85 bp):
ATTTTTGGACATTCGAGGACAAAATGTAATTTTTAGATGTTCAGGGGTAAAATGGTAATTTTGGA
AAGTTTCGGGGCAAAATATA
Found at i:168214 original size:30 final size:30
Alignment explanation
Indices: 167948--168314 Score: 173
Period size: 29 Copynumber: 12.5 Consensus size: 30
167938 TTTGAGGTAA
* * *
167948 AAAATGTGATTTTTG-GATGTTCAAGGG-C
1 AAAATGTAATTTTTGCGAAGTTCGAGGGTC
* * *
167976 AAAATGGTAATTTTT-AGATGTTCGGGGGT-
1 AAAAT-GTAATTTTTGCGAAGTTCGAGGGTC
* **
168005 AAAATGGTAATTTTGGAAAAGTTTC--GGGTC
1 AAAAT-GTAATTTTTGCGAAG-TTCGAGGGTC
*
168035 AAAATGATAATCTTTTTG-GACA-TTCGA--GAC
1 AAAATG-TAA--TTTTTGCGA-AGTTCGAGGGTC
168065 AAAATAGTAATTTTT--GAATGTTC-AGGGGT-
1 AAAAT-GTAATTTTTGCGAA-GTTCGA-GGGTC
* *
168094 AAAATGGTAATTTTTG-GATGTTCG-GGGGC
1 AAAAT-GTAATTTTTGCGAAGTTCGAGGGTC
* * *
168123 AAAAATTTAATTTTTG-GATGTTCGA-GGAC
1 -AAAATGTAATTTTTGCGAAGTTCGAGGGTC
* ** * *
168152 AAAATGATAATTTTGGAAAAGTTTG-GGCTC
1 AAAATG-TAATTTTTGCGAAGTTCGAGGGTC
* *
168182 AAAATGTAATTTTTGCGAATTTCAAGGGTC
1 AAAATGTAATTTTTGCGAAGTTCGAGGGTC
* *
168212 AAAATGTAATTTTTTCCAAGTTCGA-GGTC
1 AAAATGTAATTTTTGCGAAGTTCGAGGGTC
* ** *
168241 AAAATGTGATTTTTATGAAGTTCGAGTGTC
1 AAAATGTAATTTTTGCGAAGTTCGAGGGTC
* * *
168271 AAAATGTAATTTTAGAGAAGTT-TAGGGATC
1 AAAATGTAATTTTTGCGAAGTTCGAGGG-TC
*
168301 AAAATATAATTTTT
1 AAAATGTAATTTTT
168315 AGAAAGTTCA
Statistics
Matches: 264, Mismatches: 46, Indels: 56
0.72 0.13 0.15
Matches are distributed among these distances:
26 1 0.00
27 3 0.01
28 21 0.08
29 123 0.47
30 105 0.40
31 5 0.02
32 6 0.02
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (30 bp):
AAAATGTAATTTTTGCGAAGTTCGAGGGTC
Found at i:168264 original size:147 final size:145
Alignment explanation
Indices: 167948--168283 Score: 348
Period size: 147 Copynumber: 2.3 Consensus size: 145
167938 TTTGAGGTAA
* * ** *
167948 AAAATGTGATTTTTGGATGTTCAAGGGCAAAATGGTAATTTTTAGATGTTCGGGGGTAAAATGGT
1 AAAATGTGATTTTTGGATGTTCGAGGGCAAAATGGTAATTTTTAGATGTTCGAGGACAAAATGAT
168013 AATTTTGGAAAAGTTTCGGGTCAAAATGATAATCTTTTTGGACATTCGAGACAAAATAGTAATTT
66 AATTTTGGAAAAGTTTCGGGTCAAAATGATAA-CTTTTTGGACATTCGAGACAAAATAGTAATTT
* *
168078 TTGAATGTTCAGGGGT
130 TTCAATGTTCAGAGGT
* * * *
168094 AAAATGGTAATTTTTGGATGTTCGGGGGCAAAAAT-TTAATTTTTGGATGTTCGAGGACAAAATG
1 AAAAT-GTGATTTTTGGATGTTCGAGGGC-AAAATGGTAATTTTTAGATGTTCGAGGACAAAATG
* *
168158 ATAATTTTGGAAAAGTTT-GGGCTCAAAATG-TAA-TTTTTGCGA-ATTTCAAGGGTCAAAAT-G
64 ATAATTTTGGAAAAGTTTCGGG-TCAAAATGATAACTTTTTG-GACA-TTC--GAGACAAAATAG
168218 TAATTTTTTCCAA-GTTC-GAGGT
124 TAA-TTTTT-CAATGTTCAGAGGT
* * *
168240 CAAAATGTGATTTTTATGAAGTTCGAGTGTCAAAAT-GTAATTTT
1 -AAAATGTGATTTTT-GGATGTTCGAG-GGCAAAATGGTAATTTT
168284 AGAGAAGTTT
Statistics
Matches: 159, Mismatches: 19, Indels: 23
0.79 0.09 0.11
Matches are distributed among these distances:
144 7 0.04
145 5 0.03
146 27 0.17
147 111 0.70
148 9 0.06
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (145 bp):
AAAATGTGATTTTTGGATGTTCGAGGGCAAAATGGTAATTTTTAGATGTTCGAGGACAAAATGAT
AATTTTGGAAAAGTTTCGGGTCAAAATGATAACTTTTTGGACATTCGAGACAAAATAGTAATTTT
TCAATGTTCAGAGGT
Found at i:168292 original size:59 final size:58
Alignment explanation
Indices: 168124--168323 Score: 154
Period size: 59 Copynumber: 3.4 Consensus size: 58
168114 TTCGGGGGCA
* * * * * *
168124 AAAATTTAATTTTT-GGATGTTCGAGGACAAAATGATAATTTTGGAAAAGTTTGGGCTC
1 AAAATGTAATTTTTACGAAGTTCGAGGTCAAAATG-TAATTTTAGAAAAGTTCGGGCTC
* * * ****
168182 AAAATGTAATTTTTGCGAATTTCAAGGGTCAAAATGTAATTTTTTCCAAGTTCGAGG-TC
1 AAAATGTAATTTTTACGAAGTTCGA-GGTCAAAATGTAATTTTAGAAAAGTTCG-GGCTC
* * * * *
168241 AAAATGTGATTTTTATGAAGTTCGAGTGTCAAAATGTAATTTTAGAGAAGTTTAGGGATC
1 AAAATGTAATTTTTACGAAGTTCGAG-GTCAAAATGTAATTTTAGAAAAG-TTCGGGCTC
*
168301 AAAATATAATTTTTA-GAAAGTTC
1 AAAATGTAATTTTTACG-AAGTTC
168324 AGGAATCTTC
Statistics
Matches: 112, Mismatches: 23, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
58 14 0.12
59 63 0.56
60 35 0.31
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.37
Consensus pattern (58 bp):
AAAATGTAATTTTTACGAAGTTCGAGGTCAAAATGTAATTTTAGAAAAGTTCGGGCTC
Found at i:169960 original size:14 final size:14
Alignment explanation
Indices: 169926--169963 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
169916 AATTGGGCCC
169926 AATTGGGTTTGTAA
1 AATTGGGTTTGTAA
*
169940 AAATGGGTCTTGT-A
1 AATTGGGT-TTGTAA
169954 AATTGGGTTT
1 AATTGGGTTT
169964 AAAATTTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 2 0.10
14 15 0.71
15 4 0.19
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.42
Consensus pattern (14 bp):
AATTGGGTTTGTAA
Found at i:170923 original size:194 final size:191
Alignment explanation
Indices: 170563--171125 Score: 478
Period size: 194 Copynumber: 2.9 Consensus size: 191
170553 ATCGAATGGT
* *
170563 TGCAATCTGCCCTAAGCCCGA-TGTAAGAGATTGACTGATGATGATCTGCCCCAGGCTCGGGGTA
1 TGCAATCTGCCC-AAGCTCGAGT-TAAGAGATTGGCTGATGATGATCTGCCCCAGGCTCGGGGTA
*** * * * * * * *
170627 AAAGATCGAATGACTATGATCTACCCCAAGCTCGGGGTAAAAGATCGGATGGCTGTAATCTTCCC
64 AAAGATCGAATGACTGCAATCTGCCCCAAGCTCGAGGTAAAAGATTGG-TTGATGTGATC-TACC
* * * * *
170692 TAAGA-TCAGAGTAAGAGATTGATTGATGGTG--ATCTGCCCTAAACTCA-AGGTAAAAAATCGG
127 TCAGACTCGGGGTAAAAGATCG---GATGGTGCAATCTGCCCTAAACTCAGA-GTAAAAAAT-GG
170753 A-TGA
187 ACTGA
* * *
170757 CTGCAATCTGCCCAGGCTCGAGTTAAGAGATTGGCTGATGATGATCCGCCCCAGGCTCGAGGTAA
1 -TGCAATCTGCCCAAGCTCGAGTTAAGAGATTGGCTGATGATGATCTGCCCCAGGCTCGGGGTAA
* * *
170822 AAGATCGAATGACTGCAATTTGCCCCAGGCTCAAGGTAAAAGATTGGTTGATGGTGATCTACCTC
65 AAGATCGAATGACTGCAATCTGCCCCAAGCTCGAGGTAAAAGATTGGTTGAT-GTGATCTACCTC
** * * * *
170887 AGACTCGGGGTAAAAGATCGGATGGCTGCAATCTG-CCTCAGGCTCGGAGTAAGAGATTGACTGA
129 AGACTCGGGGTAAAAGATCGGATGG-TGCAATCTGCCCT-AAACTCAGAGTAAAAAATGGACTGA
** * * * * * * *
170951 TGGTATTTGCCTCAAGCTCGGGGTAAGAGATCGGATGATTG-TAATCTGCCCTAGGCTCGGGGTA
1 TGCAATCTGCC-CAAGCTCGAGTTAAGAGATTGGCTGA-TGATGATCTGCCCCAGGCTCGGGGTA
* * * ** * *
171015 ATAGATCGGATGACTGCAATCTGCCCCAAACTCGAGGTAAGGGATTGGCTGACTGTGATCTGCC-
64 AAAGATCGAATGACTGCAATCTGCCCCAAGCTCGAGGTAAAAGATTGGTTGA-TGTGATCTACCT
* *
171079 CTAAACTCGGGGTAAAAGATCGGATGGTTGCAATCTGCCCCAAACTC
128 C-AGACTCGGGGTAAAAGATCGGATGG-TGCAATCTGCCCTAAACTC
171126 GGGGTAAGAG
Statistics
Matches: 298, Mismatches: 56, Indels: 29
0.78 0.15 0.08
Matches are distributed among these distances:
191 5 0.02
192 2 0.01
193 24 0.08
194 248 0.83
195 19 0.06
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (191 bp):
TGCAATCTGCCCAAGCTCGAGTTAAGAGATTGGCTGATGATGATCTGCCCCAGGCTCGGGGTAAA
AGATCGAATGACTGCAATCTGCCCCAAGCTCGAGGTAAAAGATTGGTTGATGTGATCTACCTCAG
ACTCGGGGTAAAAGATCGGATGGTGCAATCTGCCCTAAACTCAGAGTAAAAAATGGACTGA
Found at i:171015 original size:155 final size:155
Alignment explanation
Indices: 170606--171020 Score: 433
Period size: 155 Copynumber: 2.7 Consensus size: 155
170596 ACTGATGATG
* * * * * **
170606 ATCTGCCCCAGGCTCGGGGTAAAAGATCGAATGACT-ATGATCTACCCCAAGCTCGGGGTAAAAG
1 ATCTG-CCCAGGCTCGAGTTAAGAGATTGACTGA-TGATGATCCGCCCCAAGCTCGGGGTAAAAG
* * * * * * *
170670 ATCGGATGGCTGTAATCTTCCCTAAGATCAGAGTAAGAGATTGATTGATGGTGATCTGCCCTAAA
64 ATCGGATGACTGTAATCTGCCCTAGGCTCAGGGTAAAAGATTGATTGATGGTGATCTACCCTAAA
170735 CTCAAGGTAAAAAATCGGATGACTGCA
129 CTCAAGGTAAAAAATCGGATGACTGCA
* * *
170762 ATCTGCCCAGGCTCGAGTTAAGAGATTGGCTGATGATGATCCGCCCCAGGCTCGAGGTAAAAGAT
1 ATCTGCCCAGGCTCGAGTTAAGAGATTGACTGATGATGATCCGCCCCAAGCTCGGGGTAAAAGAT
* * * * * * *
170827 CGAATGACTGCAATTTGCCCCAGGCTCAAGGTAAAAGATTGGTTGATGGTGATCTA-CCTCAGAC
66 CGGATGACTGTAATCTGCCCTAGGCTCAGGGTAAAAGATTGATTGATGGTGATCTACCCT-AAAC
** * *
170891 TCGGGGTAAAAGATCGGATGGCTGCA
130 TCAAGGTAAAAAATCGGATGACTGCA
* ** * *
170917 ATCTGCCTCAGGCTCGGAG-TAAGAGATTGACTGATGGT-ATTTGCCTCAAGCTCGGGGTAAGAG
1 ATCTGCC-CAGGCTC-GAGTTAAGAGATTGACTGATGATGATCCGCCCCAAGCTCGGGGTAAAAG
* * *
170980 ATCGGATGATTGTAATCTGCCCTAGGCTCGGGGTAATAGAT
64 ATCGGATGACTGTAATCTGCCCTAGGCTCAGGGTAAAAGAT
171021 CGGATGACTG
Statistics
Matches: 211, Mismatches: 44, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
154 4 0.02
155 175 0.83
156 29 0.14
157 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (155 bp):
ATCTGCCCAGGCTCGAGTTAAGAGATTGACTGATGATGATCCGCCCCAAGCTCGGGGTAAAAGAT
CGGATGACTGTAATCTGCCCTAGGCTCAGGGTAAAAGATTGATTGATGGTGATCTACCCTAAACT
CAAGGTAAAAAATCGGATGACTGCA
Found at i:171153 original size:39 final size:39
Alignment explanation
Indices: 170531--171176 Score: 337
Period size: 39 Copynumber: 16.7 Consensus size: 39
170521 GATAGTGATT
* * * ** *
170531 TGCCCCAAGCTCGAGATAAAAGATCGAATGGTTGCAATC
1 TGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGTAATC
* * ** * * *
170570 TGCCCTAAGCCCGATGTAAGAGAT-TGACTGA-TGATGATC
1 TGCCCCAAGCTCGGGGTAAAAGATCGGA-TGACTG-TAATC
* * * *
170609 TGCCCCAGGCTCGGGGTAAAAGATCGAATGACTATGATC
1 TGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGTAATC
* *
170648 TACCCCAAGCTCGGGGTAAAAGATCGGATGGCTGTAATC
1 TGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGTAATC
* * * * * * * *
170687 TTCCCTAAGATCAGAGTAAGAGAT-TGATTGA-TGGTGATC
1 TGCCCCAAGCTCGGGGTAAAAGATCGGA-TGACT-GTAATC
* * ** * *
170726 TGCCCTAAACTCAAGGTAAAAAATCGGATGACTGCAATC
1 TGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGTAATC
* * * * * * *
170765 TG-CCCAGGCTCGAGTTAAGAGATTGGCTGA-TGATGATC
1 TGCCCCAAGCTCGGGGTAAAAGATCGGATGACTG-TAATC
* * * * * *
170803 CGCCCCAGGCTCGAGGTAAAAGATCGAATGACTGCAATT
1 TGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGTAATC
* ** * * *
170842 TGCCCCAGGCTCAAGGTAAAAGATTGGTTGA-TGGTGATC
1 TGCCCCAAGCTCGGGGTAAAAGATCGGATGACT-GTAATC
* * * *
170881 TACCTC-AGACTCGGGGTAAAAGATCGGATGGCTGCAATC
1 TGCCCCAAG-CTCGGGGTAAAAGATCGGATGACTGTAATC
* * * * * *
170920 TGCCTCAGGCTCGGAGTAAGAGAT-TGACTGA-TGGT-ATT
1 TGCCCCAAGCTCGGGGTAAAAGATCGGA-TGACT-GTAATC
* * *
170958 TGCCTCAAGCTCGGGGTAAGAGATCGGATGATTGTAATC
1 TGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGTAATC
* * * *
170997 TGCCCTAGGCTCGGGGTAATAGATCGGATGACTGCAATC
1 TGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGTAATC
* * ** * * *
171036 TGCCCCAAACTCGAGGTAAGGGATTGGCTGACTGTGATC
1 TGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGTAATC
* * ** *
171075 TGCCCTAAACTCGGGGTAAAAGATCGGATGGTTGCAATC
1 TGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGTAATC
* * * *
171114 TGCCCCAAACTCGGGGTAAGAGATTGGTTGACTGTAATC
1 TGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGTAATC
* *
171153 TACCTCAA-CTCGGGGT-AAAGATCG
1 TGCCCCAAGCTCGGGGTAAAAGATCG
171177 AAATCTTCAT
Statistics
Matches: 456, Mismatches: 131, Indels: 42
0.72 0.21 0.07
Matches are distributed among these distances:
37 8 0.02
38 71 0.16
39 368 0.81
40 9 0.02
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (39 bp):
TGCCCCAAGCTCGGGGTAAAAGATCGGATGACTGTAATC
Found at i:171167 original size:194 final size:193
Alignment explanation
Indices: 170804--171176 Score: 475
Period size: 194 Copynumber: 1.9 Consensus size: 193
170794 ATGATGATCC
* **
170804 GCCCCAGGCTCGAGGTAAAAGATCGAATGACTGCAATTTGCCCCAGGCTCAAGGTAAAAGATTGG
1 GCCCCAGGCTCGAGGTAAAAGATCGAATGACTGCAATCTGCCCCAAACTCAAGGTAAAAGATTGG
* * * **
170869 TTGATGGTGATCTACCTCAGACTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCTCAGGCTCGG
66 CTGATGGTGATCTACCTCAAACTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCCCAAACTCGG
* *
170934 AGTAAGAGATTGACTGATGGTATTTGCCTCAAGCTCGGGGTAAGAGATCGGATGATTGTAATCT
131 AGTAAGAGATTGACTGATGGTATCTACCTCAAGCTCGGGGTAA-AGATCGGATGATTGTAATCT
* * * * * **
170998 GCCCTAGGCTCGGGGTAATAGATCGGATGACTGCAATCTGCCCCAAACTCGAGGTAAGGGATTGG
1 GCCCCAGGCTCGAGGTAAAAGATCGAATGACTGCAATCTGCCCCAAACTCAAGGTAAAAGATTGG
* *
171063 CTGACT-GTGATCTGCC-CTAAACTCGGGGTAAAAGATCGGATGGTTGCAATCTGCCCCAAACTC
66 CTGA-TGGTGATCTACCTC-AAACTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCCCAAACTC
* **
171126 GGGGTAAGAGATTGGTTGACT-GTAATCTACCTCAA-CTCGGGGTAAAGATCG
129 GGAGTAAGAGATTGACTGA-TGGT-ATCTACCTCAAGCTCGGGGTAAAGATCG
171177 AAATCTTCAT
Statistics
Matches: 153, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
193 7 0.05
194 135 0.88
195 11 0.07
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (193 bp):
GCCCCAGGCTCGAGGTAAAAGATCGAATGACTGCAATCTGCCCCAAACTCAAGGTAAAAGATTGG
CTGATGGTGATCTACCTCAAACTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCCCAAACTCGG
AGTAAGAGATTGACTGATGGTATCTACCTCAAGCTCGGGGTAAAGATCGGATGATTGTAATCT
Found at i:171509 original size:50 final size:49
Alignment explanation
Indices: 171455--172061 Score: 218
Period size: 50 Copynumber: 12.4 Consensus size: 49
171445 TATTGTTTTC
* *
171455 TAAGGTATCGGGTTCGCCGCTGCGGCCTCAACCTTTCCTTTCATATCTTT
1 TAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCTTTCAAATC-TT
* ** * * * *
171505 TAAGGTACCAAGTTTGCTGTTGCGACCTCAACCTTTCC-TTAAAATCTT
1 TAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCTTTCAAATCTT
* * * * * * * *
171553 CATGGTATCTGGTTCGCCATTACGGCCTTAACCTTT-CTCATCACATCTT
1 TAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCT-TTCAAATCTT
* *
171602 CTTAGGTATCGGATTCAG-CGTTGCGGCCTCAACCTTTCCTTTCAAATCTT
1 -TAAGGTATCGGGTTC-GCCGTTGCGGCCTCAACCTTTCCTTTCAAATCTT
* * * * * *
171652 CATGGTACCGGGTTCGCCGTTGCGACCTCAACCTTTCCCATT-ACATCTT
1 TAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTT-CCTTTCAAATCTT
* * * * * * * **
171701 CTAAGGTACCGGATTAGTCGTTGCGACCTCAATCTTTCCCTTCGTATCTT
1 -TAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCTTTCAAATCTT
*** * * ** * ** **
171751 CGTGATACCGGGTTCATCATTGCGGCCTCAACCTTTCCCATCACCTCTT
1 TAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCTTTCAAATCTT
* * * * * * *
171800 CTAAGGTACCGGATTCACCGTCGTGGCATCAATCC-TTCCCTTC--ATCTCT
1 -TAAGGTATCGGGTTCGCCGTTGCGGCCTCAA-CCTTTCCTTTCAAATCT-T
* * * * *
171849 T----CAT--GGTTTGCAGTTGCGGCCTCAACCTTTTCC-ATCACATCTT
1 TAAGGTATCGGGTTCGCCGTTGCGGCCTCAACC-TTTCCTTTCAAATCTT
* * * * * * * * *
171892 CTTAGGTACCGAGTTCACCGCTGTGGTCTCAACCTTTCCCTTCACATCTT
1 -TAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCTTTCAAATCTT
* * ** * * ***
171942 CTAAGGTACCGGATTTACCGTCGTGGCCTCAATCCTTTCCTTT-GTCTCTT
1 -TAAGGTATCGGGTTCGCCGTTGCGGCCTCAA-CCTTTCCTTTCAAATCTT
* * * ** *
171992 CATGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTT
1 TAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCTTTCAAATCTT
* * *
172041 CTTAGGTATTGGATTCGCCGT
1 -TAAGGTATCGGGTTCGCCGT
172062 CGTGGTGTAA
Statistics
Matches: 405, Mismatches: 125, Indels: 54
0.69 0.21 0.09
Matches are distributed among these distances:
41 2 0.00
42 16 0.04
43 5 0.01
44 6 0.01
47 1 0.00
48 41 0.10
49 120 0.30
50 200 0.49
51 14 0.03
ACGTcount: A:0.17, C:0.31, G:0.18, T:0.34
Consensus pattern (49 bp):
TAAGGTATCGGGTTCGCCGTTGCGGCCTCAACCTTTCCTTTCAAATCTT
Found at i:171698 original size:99 final size:99
Alignment explanation
Indices: 171458--172041 Score: 442
Period size: 99 Copynumber: 6.0 Consensus size: 99
171448 TGTTTTCTAA
* ** ** * * * **
171458 GGTATCGGGTTCGCCGCTGCGGCCTCAACCTTTCCTTTCATATCTTTTAAGGTACC-AAGTTTGC
1 GGTACCGGGTTCGCCATTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGA-TTCAC
* * *
171522 TGTTGCGACCTCAACCTTT-CCTTAAAATCTTCAT
65 CGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT
* * * * * * * *
171556 GGTATCTGGTTCGCCATTACGGCCTTAACCTTTCTCATCACATCTTCTTAGGTATCGGATTCAGC
1 GGTACCGGGTTCGCCATTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGATTCACC
*
171621 GTTGCGGCCTCAACCTTTCCTTTCAAATCTTCAT
66 GTTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT
* * * *
171655 GGTACCGGGTTCGCCGTTGCGACCTCAACCTTTCCCATTACATCTTCTAAGGTACCGGATT-AGT
1 GGTACCGGGTTCGCCATTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGATTCA-C
* * ** *
171719 CGTTGCGACCTCAATCTTTCCCTTCGTATCTTCGT
65 CGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT
* ** *
171754 GATACCGGGTTCATCATTGCGGCCTCAACCTTTCCCATCACCTCTTCTAAGGTACCGGATTCACC
1 GGTACCGGGTTCGCCATTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGATTCACC
* * * **
171819 GTCGTGGCATCAATCC-TTCCCTTCATCTCTTCAT
66 GTTGCGGCCTCAA-CCTTTCCCTTCAAATCTTCAT
* *
171853 GGT------TT-G-CAGTTGCGGCCTCAACCTTTTCCATCACATCTTCTTAGGTACC-GAGTTCA
1 GGTACCGGGTTCGCCA-TTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGA-TTCA
* * * * *
171909 CCGCTGTGGTCTCAACCTTTCCCTTCACATCTTCTAA
64 CCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTC-AT
* ** * * * ** ** * * *
171946 GGTACCGGATTTACCGTCGTGGCCTCAATCCTTTCCTTTGTC-TCTTC-ATGGTACCGGGTTCGC
1 GGTACCGGGTTCGCCATTGCGGCCTCAA-CCTTTCCCATCACATCTTCTAAGGTACCGGATTCAC
* *
172009 CGTTGCGGCCTCAACCTTTCCCATCACATCTTC
65 CGTTGCGGCCTCAACCTTTCCCTTCAAATCTTC
172042 TTAGGTATTG
Statistics
Matches: 385, Mismatches: 82, Indels: 37
0.76 0.16 0.07
Matches are distributed among these distances:
91 6 0.02
92 66 0.17
93 6 0.02
98 64 0.17
99 216 0.56
100 18 0.05
101 9 0.02
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.34
Consensus pattern (99 bp):
GGTACCGGGTTCGCCATTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGATTCACC
GTTGCGGCCTCAACCTTTCCCTTCAAATCTTCAT
Found at i:171927 original size:142 final size:144
Alignment explanation
Indices: 171777--172048 Score: 404
Period size: 142 Copynumber: 1.9 Consensus size: 144
171767 TCATTGCGGC
*
171777 CTCAACCTTTCCCATCACCTCTTCTAAGGTACCGGATTCACCGTCGTGGCATCAATCCTTCCCTT
1 CTCAACCTTTCCCATCACATCTTCTAAGGTACCGGATTCACCGTCGTGGCATCAATCCTTCCCTT
*
171842 CATCTCTTCATGGT-TT-GCAGTTGCGGCCTCAACCTTTTCCATCACATCTTCTTAGGTACCGAG
66 CATCTCTTCATGGTGTTCGCAGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGAG
171905 TTCACCGCTGTGGT
131 TTCACCGCTGTGGT
* * * *
171919 CTCAACCTTTCCCTTCACATCTTCTAAGGTACCGGATTTACCGTCGTGGCCTCAATCCTTTCCTT
1 CTCAACCTTTCCCATCACATCTTCTAAGGTACCGGATTCACCGTCGTGGCATCAATCCTTCCCTT
** *
171984 TGTCTCTTCATGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTA
66 CATCTCTTCATGGT-----GTTCGCAGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTA
172049 TTGGATTCGC
Statistics
Matches: 114, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
142 72 0.63
148 2 0.02
149 40 0.35
ACGTcount: A:0.16, C:0.34, G:0.16, T:0.34
Consensus pattern (144 bp):
CTCAACCTTTCCCATCACATCTTCTAAGGTACCGGATTCACCGTCGTGGCATCAATCCTTCCCTT
CATCTCTTCATGGTGTTCGCAGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGAG
TTCACCGCTGTGGT
Found at i:173968 original size:18 final size:18
Alignment explanation
Indices: 173945--173981 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
173935 TCAAAATTGA
173945 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
* *
173963 AAATTGGAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
173981 A
1 A
173982 TATGAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:174185 original size:37 final size:38
Alignment explanation
Indices: 174085--174187 Score: 91
Period size: 37 Copynumber: 2.7 Consensus size: 38
174075 GACCTTGAGT
* **
174085 CGATGAGACACTGGGTGTCATTATTTTACTTTGGATAGATT
1 CGATGAGACACTGGGTGTC---ACTTTACTTTGGATAGAGC
* ** ** *
174126 CGGTGAGGTACTGGGTACCACTTTACTTTGGCTAG-GC
1 CGATGAGACACTGGGTGTCACTTTACTTTGGATAGAGC
174163 CGATGAGACACTGGGTGTCACTTTA
1 CGATGAGACACTGGGTGTCACTTTA
174188 TTGCTTCGAA
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
37 20 0.42
38 14 0.29
41 14 0.29
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.33
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCACTTTACTTTGGATAGAGC
Found at i:175976 original size:16 final size:16
Alignment explanation
Indices: 175955--176010 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 16
175945 CTCATTTTTG
175955 TTTTTTCTTCCTCTTC
1 TTTTTTCTTCCTCTTC
* *
175971 TTTTTTTTTCCTTTTTC
1 TTTTTTCTTCC-TCTTC
*
175988 TTTTTAT-TT-TTCTTC
1 TTTTT-TCTTCCTCTTC
176003 TTTTTTCT
1 TTTTTTCT
176011 GTCTTTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
14 1 0.03
15 10 0.30
16 10 0.30
17 11 0.33
18 1 0.03
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTCTTCCTCTTC
Found at i:175987 original size:7 final size:6
Alignment explanation
Indices: 175968--176035 Score: 50
Period size: 6 Copynumber: 10.8 Consensus size: 6
175958 TTTCTTCCTC
* *
175968 TTCTTT TT-TTT TCCTTT TTCTTT TTATTT TTCTTCT TT-TTT CTGTCTTT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTT-T TTCTTT -T-TCTTT
*
176017 TTATTT ATTCATTT TTCTT
1 TTCTTT -TTC-TTT TTCTT
176036 CATTAAATCC
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
5 5 0.10
6 28 0.57
7 10 0.20
8 6 0.12
ACGTcount: A:0.06, C:0.15, G:0.01, T:0.78
Consensus pattern (6 bp):
TTCTTT
Found at i:176002 original size:32 final size:34
Alignment explanation
Indices: 175966--176036 Score: 94
Period size: 32 Copynumber: 2.1 Consensus size: 34
175956 TTTTTCTTCC
* *
175966 TCTTCTTTTTT-TTTCCTTTTTCTTT-TT-ATTTT
1 TCTTCTTTTTTCTGT-CTTTTTATTTATTCATTTT
175998 TCTTCTTTTTTCTGTCTTTTTATTTATTCATTTT
1 TCTTCTTTTTTCTGTCTTTTTATTTATTCATTTT
176032 TCTTC
1 TCTTC
176037 ATTAAATCCG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 20 0.59
33 4 0.12
34 10 0.29
ACGTcount: A:0.06, C:0.17, G:0.01, T:0.76
Consensus pattern (34 bp):
TCTTCTTTTTTCTGTCTTTTTATTTATTCATTTT
Found at i:176009 original size:10 final size:10
Alignment explanation
Indices: 175966--176018 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
175956 TTTTTCTTCC
175966 TCTTCTTTTT
1 TCTTCTTTTT
* *
175976 TTTTCCTTTT
1 TCTTCTTTTT
*
175986 TCTTTTTATTTT
1 TC-TTCT-TTTT
175998 TCTTCTTTTT
1 TCTTCTTTTT
176008 TCTGTCTTTTT
1 TCT-TCTTTTT
176019 ATTTATTCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
10 16 0.47
11 12 0.35
12 6 0.18
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (10 bp):
TCTTCTTTTT
Found at i:176900 original size:19 final size:19
Alignment explanation
Indices: 176872--176913 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
176862 CCTTTGCGGG
176872 TTTTCGTCTTGACTTTCCTT
1 TTTTCGTCTT-ACTTTCCTT
* *
176892 TTTTC-TCTTTCTTTTCTT
1 TTTTCGTCTTACTTTCCTT
176910 TTTT
1 TTTT
176914 TTTTCTCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 11 0.55
19 4 0.20
20 5 0.25
ACGTcount: A:0.02, C:0.21, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTCGTCTTACTTTCCTT
Found at i:176924 original size:11 final size:11
Alignment explanation
Indices: 176890--176926 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
176880 TTGACTTTCC
176890 TTTTTTCTCTT
1 TTTTTTCTCTT
* *
176901 TCTTTTCTTTT
1 TTTTTTCTCTT
176912 TTTTTTCTCTT
1 TTTTTTCTCTT
176923 TTTT
1 TTTT
176927 ATTGGGTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTCTCTT
Found at i:181400 original size:29 final size:28
Alignment explanation
Indices: 181253--181556 Score: 127
Period size: 29 Copynumber: 10.5 Consensus size: 28
181243 TTTAAGGTCG
*
181253 AAAATGTGATTTTTGGATGTTCGGGGGT
1 AAAATGTAATTTTTGGATGTTCGGGGGT
* * *
181281 AAAATGATAATGTTT-GATGTTCGAGGGC
1 AAAATG-TAATTTTTGGATGTTCGGGGGT
* * * * *
181309 AAAAGAGTAATTTTAGAAAAGTTC-GGTGT
1 AAAA-TGTAATTTTTG-GATGTTCGGGGGT
* ** * **
181338 CAAAATAGTAATCTTTTGTACATTC-GAGAA
1 -AAAAT-GTAAT-TTTTGGATGTTCGGGGGT
181368 AAAATGGTAATTTTTGGATGTTCGGGGGT
1 AAAAT-GTAATTTTTGGATGTTCGGGGGT
* ** *
181397 AAAATGGTAATTTTTGAATGTTC-AAGGA
1 AAAAT-GTAATTTTTGGATGTTCGGGGGT
* *
181425 AAAATAGTAA-TTTTGGAAATATT-TGGGGT
1 AAAAT-GTAATTTTTGG--ATGTTCGGGGGT
* * * *
181454 CAAAATGTAGTTTTTACGAAGTTCGAGGGT
1 -AAAATGTAATTTTT-GGATGTTCGGGGGT
* * *
181484 CAAAATGTAATTTTTGCAAAGTTTGGGGGT
1 -AAAATGTAATTTTTG-GATGTTCGGGGGT
* *
181514 CAAAATGTAA-TTTTGTGAAGTTCGAGGGTT
1 -AAAATGTAATTTTTG-GATGTTCG-GGGGT
181544 AAAATGTAATTTT
1 AAAATGTAATTTT
181557 AGAGAAGTTT
Statistics
Matches: 205, Mismatches: 53, Indels: 34
0.70 0.18 0.12
Matches are distributed among these distances:
27 5 0.02
28 47 0.23
29 75 0.37
30 73 0.36
31 5 0.02
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (28 bp):
AAAATGTAATTTTTGGATGTTCGGGGGT
Found at i:181484 original size:30 final size:29
Alignment explanation
Indices: 181450--181556 Score: 135
Period size: 30 Copynumber: 3.6 Consensus size: 29
181440 GAAATATTTG
*
181450 GGGTCAAAATGTAGTTTTTACGAAGTTCGA
1 GGGTCAAAATGTAATTTTT-CGAAGTTCGA
* * *
181480 GGGTCAAAATGTAATTTTTGCAAAGTTTGG
1 GGGTCAAAATGTAATTTTT-CGAAGTTCGA
181510 GGGTCAAAATGTAATTTTGT-GAAGTTCGA
1 GGGTCAAAATGTAATTTT-TCGAAGTTCGA
*
181539 GGGTTAAAATGTAATTTT
1 GGGTCAAAATGTAATTTT
181557 AGAGAAGTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
29 23 0.34
30 43 0.64
31 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (29 bp):
GGGTCAAAATGTAATTTTTCGAAGTTCGA
Found at i:181494 original size:116 final size:117
Alignment explanation
Indices: 181247--181565 Score: 291
Period size: 116 Copynumber: 2.7 Consensus size: 117
181237 AGAAAATTTA
* * * * *
181247 AGGTCGAAAATGTGATTTTTGGATGTTCGGGGGTAAAATGATAATGTTTG-ATGTTCGAGGGCAA
1 AGGTC-AAAATGTAATTTTTGGATGTTCGGGGGTAAAATGGTAATTTTTGAATGTTCGAAGGAAA
*
181311 AAGAGTAATTTTAGAAAAGTTCGGTGTCAAAATAGTAATCTTTTGTACATTCG
65 AAGAGTAATTTTAGAAAAGTTCGGGGTCAAAATAGTAATCTTTTGTACATTCG
**
181364 A-GAAAAAATGGTAATTTTTGGATGTTCGGGGGTAAAATGGTAATTTTTGAATGTTC-AAGGAAA
1 AGGTCAAAAT-GTAATTTTTGGATGTTCGGGGGTAAAATGGTAATTTTTGAATGTTCGAAGGAAA
* * * *
181427 AATAGTAATTTTGGAAATA-TTTGGGGTCAAAAT-GT-A-GTTTT-TACGAAGTTCG
65 AAGAGTAATTTTAGAAA-AGTTCGGGGTCAAAATAGTAATCTTTTGTAC--A-TTCG
* * * *
181479 AGGGTCAAAATGTAATTTTTGCAAAGTTTGGGGGTCAAAAT-GTAATTTTGTGAA-GTTCGAGGG
1 A-GGTCAAAATGTAATTTTTG-GATGTTCGGGGGT-AAAATGGTAATTTT-TGAATGTTCGAAGG
* * *
181542 TTAAAA-TGTAATTTTAGAGAAGTT
62 -AAAAAGAGTAATTTTAGAAAAGTT
181566 TAGGAGTCAA
Statistics
Matches: 166, Mismatches: 22, Indels: 27
0.77 0.10 0.13
Matches are distributed among these distances:
112 3 0.02
113 4 0.02
114 2 0.01
115 12 0.07
116 79 0.48
117 37 0.22
118 25 0.15
119 4 0.02
ACGTcount: A:0.33, C:0.06, G:0.26, T:0.35
Consensus pattern (117 bp):
AGGTCAAAATGTAATTTTTGGATGTTCGGGGGTAAAATGGTAATTTTTGAATGTTCGAAGGAAAA
AGAGTAATTTTAGAAAAGTTCGGGGTCAAAATAGTAATCTTTTGTACATTCG
Found at i:181565 original size:59 final size:58
Alignment explanation
Indices: 181253--181585 Score: 206
Period size: 59 Copynumber: 5.7 Consensus size: 58
181243 TTTAAGGTCG
* * * * * *
181253 AAAAT-GTGATTTTTGGATGTTCGGGGGT-AAAATGATAATGTTTGATGTTCGAGGG-C
1 AAAATAGTAATTTTTGGAAGTTTGGGGGTCAAAATG-TAATTTTTGAAGTTCGAGGGTA
* * * * * *
181309 AAAAGAGTAATTTTAGAAAAG-TTCGGTGTCAAAATAGTAATCTTTTGTACA-TTCGA--GAA
1 AAAATAGTAATTTTTG-GAAGTTTGGGGGTCAAAAT-GTAAT-TTTTG-A-AGTTCGAGGGTA
* * * *
181368 AAAATGGTAATTTTTGGATGTTCGGGGGT-AAAATGGTAATTTTTGAATGTTC-AAGG-A
1 AAAATAGTAATTTTTGGAAGTTTGGGGGTCAAAAT-GTAATTTTTGAA-GTTCGAGGGTA
* * * *
181425 AAAATAGTAA-TTTTGGAAATATTTGGGGTCAAAATGTAGTTTTTACGAAGTTCGAGGGTC
1 AAAATAGTAATTTTTGGAAGT-TTGGGGGTCAAAATGTAATTTTT--GAAGTTCGAGGGTA
* *
181485 AAAAT-GTAATTTTTGCAAAGTTTGGGGGTCAAAATGTAATTTTGTGAAGTTCGAGGGTT
1 AAAATAGTAATTTTTG-GAAGTTTGGGGGTCAAAATGTAATTTT-TGAAGTTCGAGGGTA
* * * * *
181544 AAAAT-GTAATTTTAGAGAAGTTTAGGAGTCAACATATAATTT
1 AAAATAGTAATTTTTG-GAAGTTTGGGGGTCAAAATGTAATTT
181586 CTAAAAAGTT
Statistics
Matches: 215, Mismatches: 40, Indels: 41
0.73 0.14 0.14
Matches are distributed among these distances:
55 1 0.00
56 14 0.07
57 45 0.21
58 34 0.16
59 81 0.38
60 36 0.17
61 4 0.02
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.35
Consensus pattern (58 bp):
AAAATAGTAATTTTTGGAAGTTTGGGGGTCAAAATGTAATTTTTGAAGTTCGAGGGTA
Found at i:183624 original size:16 final size:15
Alignment explanation
Indices: 183597--183632 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
183587 GAGTTTATAC
*
183597 TAAAAAATTAAAATT
1 TAAAAAATTAAAAAT
183612 TAAAAAATATAAAAAT
1 TAAAAAAT-TAAAAAT
183628 TAAAA
1 TAAAA
183633 TTGATGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAAAAATTAAAAAT
Found at i:183642 original size:23 final size:24
Alignment explanation
Indices: 183599--183647 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
183589 GTTTATACTA
*
183599 AAAAATTAAAATTTAAAAAA-TAT
1 AAAAATTAAAATTGAAAAAATTAT
**
183622 AAAAATTAAAATTGATGAAATTAT
1 AAAAATTAAAATTGAAAAAATTAT
183646 AA
1 AA
183648 TACAAACTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (24 bp):
AAAAATTAAAATTGAAAAAATTAT
Found at i:184927 original size:19 final size:19
Alignment explanation
Indices: 184891--184927 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
184881 AATTAAATTT
*
184891 TTTTATAAAAATCGTAAAC
1 TTTTATAAAAATCATAAAC
*
184910 TTTTATAAAAATTATAAA
1 TTTTATAAAAATCATAAA
184928 AAAAATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (19 bp):
TTTTATAAAAATCATAAAC
Found at i:184933 original size:12 final size:12
Alignment explanation
Indices: 184916--184940 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
184906 AAACTTTTAT
184916 AAAAATTATAAA
1 AAAAATTATAAA
184928 AAAAATTATAAA
1 AAAAATTATAAA
184940 A
1 A
184941 TGCATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:185350 original size:27 final size:27
Alignment explanation
Indices: 185300--185360 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 27
185290 ATGTCACACA
*
185300 AAAAATAATTTAAAAATTATAAAAATATT
1 AAAAA-AACTTAAAAATTATAAAAATA-T
*
185329 AAAAAAACTTAAAATTTA-AAAAATAT
1 AAAAAAACTTAAAAATTATAAAAATAT
185355 AAAAAA
1 AAAAAA
185361 GTTCATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 7 0.23
27 7 0.23
28 11 0.37
29 5 0.17
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (27 bp):
AAAAAAACTTAAAAATTATAAAAATAT
Found at i:185371 original size:21 final size:22
Alignment explanation
Indices: 185345--185397 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
185335 ACTTAAAATT
*
185345 TAAAAAATATAAAAAAGT-TCA
1 TAAAAAATATAAAAAAGTGACA
*
185366 TAAAAATTCA-AAAAAAGTGACA
1 TAAAAAAT-ATAAAAAAGTGACA
*
185388 TAAAATATAT
1 TAAAAAATAT
185398 GTGGATTGCC
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.25
Consensus pattern (22 bp):
TAAAAAATATAAAAAAGTGACA
Found at i:187833 original size:24 final size:26
Alignment explanation
Indices: 187797--187844 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
187787 AGAGAAGTGT
187797 AAATGTGATATATGA-A-ATTATGAG
1 AAATGTGATATATGAGAGATTATGAG
187821 AAATGATGA-ATATGAGAGATTATG
1 AAATG-TGATATATGAGAGATTATG
187845 CCCATGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (26 bp):
AAATGTGATATATGAGAGATTATGAG
Found at i:187958 original size:22 final size:22
Alignment explanation
Indices: 187932--187973 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
187922 TTTCATGCCA
187932 TCTGTTCAACACTGTGTGTGCT
1 TCTGTTCAACACTGTGTGTGCT
* *
187954 TCTGTTTAGCACTGTGTGTG
1 TCTGTTCAACACTGTGTGTG
187974 TCTATTGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.19, G:0.26, T:0.43
Consensus pattern (22 bp):
TCTGTTCAACACTGTGTGTGCT
Found at i:194682 original size:18 final size:19
Alignment explanation
Indices: 194645--194682 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
194635 TCATTTTAAG
* *
194645 TAATTTTTTTGTGTTCTTT
1 TAATTTTTTTCTGTTATTT
194664 TAATTTTTTTCT-TTATTT
1 TAATTTTTTTCTGTTATTT
194682 T
1 T
194683 TTATTCTCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.13, C:0.05, G:0.05, T:0.76
Consensus pattern (19 bp):
TAATTTTTTTCTGTTATTT
Found at i:197531 original size:28 final size:28
Alignment explanation
Indices: 197500--197554 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
197490 TCATTGGAAG
*
197500 TATAAATTTCAACATTTATAAATAAAAC
1 TATAAATTTCAACATTGATAAATAAAAC
* * *
197528 TATAAATTTTAATATTGGTAAATAAAA
1 TATAAATTTCAACATTGATAAATAAAA
197555 TTATTTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (28 bp):
TATAAATTTCAACATTGATAAATAAAAC
Found at i:197782 original size:18 final size:17
Alignment explanation
Indices: 197731--197782 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 17
197721 GCTTGACTCA
* *
197731 TTTTA-ATTTTATAATA
1 TTTTATATTATATAATT
* *
197747 TTTTATATTATGTTATT
1 TTTTATATTATATAATT
197764 TTTATATATTATATAATT
1 TTT-TATATTATATAATT
197782 T
1 T
197783 AAAAGACATT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
16 5 0.18
17 10 0.36
18 13 0.46
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTTATATTATATAATT
Found at i:197912 original size:20 final size:20
Alignment explanation
Indices: 197887--197932 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
197877 TAAAATTATT
197887 AAATA-TTAAAATAAAATAAA
1 AAATATTTAAAA-AAAATAAA
*
197907 AAATATTTTTAAAAAAATAAA
1 AAATA-TTTAAAAAAAATAAA
197928 AAATA
1 AAATA
197933 ATATGGATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 5 0.22
21 13 0.57
22 5 0.22
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
AAATATTTAAAAAAAATAAA
Found at i:198530 original size:12 final size:12
Alignment explanation
Indices: 198497--198551 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
198487 AAAGTACTGG
* *
198497 TTTTGGTTTTGA
1 TTTTAGTTTTAA
198509 TTTT-GATTTTAA
1 TTTTAG-TTTTAA
*
198521 TTTTAGTTTTAGG
1 TTTTAGTTTTA-A
198534 TTTTAGTTTT-A
1 TTTTAGTTTTAA
198545 TTTTAGT
1 TTTTAGT
198552 GTATATATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
11 8 0.22
12 18 0.49
13 11 0.30
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.67
Consensus pattern (12 bp):
TTTTAGTTTTAA
Found at i:198543 original size:19 final size:18
Alignment explanation
Indices: 198515--198550 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
198505 TTGATTTTGA
198515 TTTTAATTTTAGTTTTAGG
1 TTTTAATTTTA-TTTTAGG
*
198534 TTTTAGTTTTATTTTAG
1 TTTTAATTTTATTTTAG
198551 TGTATATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.19, C:0.00, G:0.14, T:0.67
Consensus pattern (18 bp):
TTTTAATTTTATTTTAGG
Found at i:199012 original size:11 final size:10
Alignment explanation
Indices: 198996--199050 Score: 58
Period size: 11 Copynumber: 5.3 Consensus size: 10
198986 AATTTTATAT
198996 ATAATTATAAA
1 ATAATTA-AAA
199007 ATAATT-AAA
1 ATAATTAAAA
*
199016 ATGATTAAGAA
1 ATAATTAA-AA
*
199027 AAAATTAAAA
1 ATAATTAAAA
199037 ATTAATTAAAA
1 A-TAATTAAAA
199048 ATA
1 ATA
199051 TCAAAATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
9 8 0.22
10 6 0.16
11 23 0.62
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (10 bp):
ATAATTAAAA
Found at i:201218 original size:2 final size:2
Alignment explanation
Indices: 201211--201245 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
201201 CAATTTTACA
201211 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 A
201246 CCTTTTGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:202532 original size:299 final size:299
Alignment explanation
Indices: 201994--202597 Score: 1154
Period size: 299 Copynumber: 2.0 Consensus size: 299
201984 TGCTAACCTA
201994 AATTTTTCTTACTACATGTGTTTCTCATGACTTGCCCCTATTTTATTTTCCCTGTACATGCATTA
1 AATTTTTCTTACTACATGTGTTTCTCATGACTTGCCCCTATTTTATTTTCCCTGTACATGCATTA
202059 TTCATTTCATTTGTTTATAGGTTTTCTTTTTCAAAGTAAAAAAGATTTGATAGTGACAAATGATA
66 TTCATTTCATTTGTTTATAGGTTTTCTTTTTCAAAGTAAAAAAGATTTGATAGTGACAAATGATA
*
202124 TTTCTTCCTCTAAGGCCTATGGGGGATTCATAGACTTGAATTATGTGTTTTCTGATAATTGATTA
131 TTTCTTCCTCTAAGGCCTATGGGGGATTCATAGACTTGAATTATGTGTCTTCTGATAATTGATTA
*
202189 ATGCTTAATTGATAGTAAGTGTTTACCGTTTCAGGTGCGATATAAATTCGAGTTGCGTTAATCAT
196 AGGCTTAATTGATAGTAAGTGTTTACCGTTTCAGGTGCGATATAAATTCGAGTTGCGTTAATCAT
*
202254 ATTTATTGTTCGGGTTTTATTCTGTCATTATAATTCACT
261 ATTTATTGTTCGGGTTTTACTCTGTCATTATAATTCACT
202293 AATTTTTCTTACTACATGTGTTTCTCATGACTTGCCCCTATTTTATTTTCCCTGTACATGCATTA
1 AATTTTTCTTACTACATGTGTTTCTCATGACTTGCCCCTATTTTATTTTCCCTGTACATGCATTA
202358 TTCATTTCATTTGTTTATAGGTTTTCTTTTTCAAAGTAAAAAAGATTTGATAGTGACAAATGATA
66 TTCATTTCATTTGTTTATAGGTTTTCTTTTTCAAAGTAAAAAAGATTTGATAGTGACAAATGATA
*
202423 TTTCTTCCTCTAAGGCCTATGGGGGATTCATAGACTTGAATTATGTGTCTTCTGATAATTTATTA
131 TTTCTTCCTCTAAGGCCTATGGGGGATTCATAGACTTGAATTATGTGTCTTCTGATAATTGATTA
* *
202488 AGGCTTAATTGATAGTAAGTGTTTGCCGTTTCAGGTGCGATATAAATTCGAGTTGCGTTAATCGT
196 AGGCTTAATTGATAGTAAGTGTTTACCGTTTCAGGTGCGATATAAATTCGAGTTGCGTTAATCAT
202553 ATTTATTGTTCGGGTTTTACTCTGTCATTATAATTCACT
261 ATTTATTGTTCGGGTTTTACTCTGTCATTATAATTCACT
202592 AATTTT
1 AATTTT
202598 CTTTTTGCAA
Statistics
Matches: 299, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
299 299 1.00
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (299 bp):
AATTTTTCTTACTACATGTGTTTCTCATGACTTGCCCCTATTTTATTTTCCCTGTACATGCATTA
TTCATTTCATTTGTTTATAGGTTTTCTTTTTCAAAGTAAAAAAGATTTGATAGTGACAAATGATA
TTTCTTCCTCTAAGGCCTATGGGGGATTCATAGACTTGAATTATGTGTCTTCTGATAATTGATTA
AGGCTTAATTGATAGTAAGTGTTTACCGTTTCAGGTGCGATATAAATTCGAGTTGCGTTAATCAT
ATTTATTGTTCGGGTTTTACTCTGTCATTATAATTCACT
Found at i:204559 original size:9 final size:10
Alignment explanation
Indices: 204545--204577 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 10
204535 TTGGCTCGAT
204545 TATTTTTA-A
1 TATTTTTATA
204554 TATTTTTATA
1 TATTTTTATA
204564 TATTATTTATA
1 TATT-TTTATA
204575 TAT
1 TAT
204578 ATTATATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 8 0.36
10 5 0.23
11 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TATTTTTATA
Found at i:207140 original size:18 final size:17
Alignment explanation
Indices: 207117--207151 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
207107 CAAAATTATT
207117 ATTTTATAATTTTTTAAA
1 ATTTTA-AATTTTTTAAA
*
207135 ATTTTAACTTTTTTAAA
1 ATTTTAAATTTTTTAAA
207152 CATTCTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTAAATTTTTTAAA
Found at i:207228 original size:19 final size:19
Alignment explanation
Indices: 207195--207257 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
207185 TTTTCAAAAC
*
207195 TATAAA-TTTTGGAATTTT
1 TATAAATTTTTTGAATTTT
207213 TATAAATTTTTTGAATTTT
1 TATAAATTTTTTGAATTTT
*
207232 TGA-AAATTACTTTGAATTTTT
1 T-ATAAATT-TTTTGAA-TTTT
207253 TATAA
1 TATAA
207258 TTCTTGTTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
18 6 0.16
19 17 0.45
20 8 0.21
21 7 0.18
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (19 bp):
TATAAATTTTTTGAATTTT
Found at i:207232 original size:20 final size:20
Alignment explanation
Indices: 207195--207257 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
207185 TTTTCAAAAC
*
207195 TATAAA-TTTTGGAA-TTTT
1 TATAAATTTTTTGAATTTTT
207213 TATAAATTTTTTGAATTTTT
1 TATAAATTTTTTGAATTTTT
* *
207233 GA-AAATTACTTTGAATTTTT
1 TATAAATT-TTTTGAATTTTT
207253 TATAA
1 TATAA
207258 TTCTTGTTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 6 0.16
19 12 0.32
20 17 0.46
21 2 0.05
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (20 bp):
TATAAATTTTTTGAATTTTT
Found at i:207372 original size:14 final size:14
Alignment explanation
Indices: 207353--207388 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
207343 TTGTAAAATT
207353 TAACTCAACTCGAA
1 TAACTCAACTCGAA
* *
207367 TAACTCAATTCGAT
1 TAACTCAACTCGAA
207381 TAACTCAA
1 TAACTCAA
207389 AATTCGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.42, C:0.25, G:0.06, T:0.28
Consensus pattern (14 bp):
TAACTCAACTCGAA
Found at i:210924 original size:60 final size:60
Alignment explanation
Indices: 210851--210971 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
210841 AAGTCAAGGG
*
210851 AGTTGAAAATTTCGGTTTCGAGATCCCGTTTCCATAAACTGAGTTAGTAAATATTATTAA
1 AGTTGAAAATTTCGATTTCGAGATCCCGTTTCCATAAACTGAGTTAGTAAATATTATTAA
210911 AGTTGAAAATTTCGATTTCGAGATCCCGTTTCCATAAACTGAGTTAGTAAATATTATTAA
1 AGTTGAAAATTTCGATTTCGAGATCCCGTTTCCATAAACTGAGTTAGTAAATATTATTAA
210971 A
1 A
210972 TATTATTTAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (60 bp):
AGTTGAAAATTTCGATTTCGAGATCCCGTTTCCATAAACTGAGTTAGTAAATATTATTAA
Found at i:218689 original size:17 final size:17
Alignment explanation
Indices: 218666--218773 Score: 128
Period size: 17 Copynumber: 6.4 Consensus size: 17
218656 CCGGACCCCT
218666 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
*
218684 -TTAAATTTGTTTTAAA
1 TTTAAATTTATTTTAAA
*
218700 TTTAGATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* ** *
218717 TTTGAATTTAAGTTAAG
1 TTTAAATTTATTTTAAA
218734 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
218751 TTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAA
218768 TTTAAA
1 TTTAAA
218774 ATAAATAATG
Statistics
Matches: 75, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
16 1 0.01
17 74 0.99
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:218703 original size:6 final size:6
Alignment explanation
Indices: 218694--218773 Score: 53
Period size: 6 Copynumber: 14.0 Consensus size: 6
218684 TTAAATTTGT
* * * * *
218694 TTTAAA TTTAGA TTT-AT TTTAAA TTTGAA TTT-AA GTTAAG TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
218740 TTT-AT TTTAAA TTTAAA ATT--A TTATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA
218774 ATAAATAATG
Statistics
Matches: 55, Mismatches: 13, Indels: 12
0.69 0.16 0.15
Matches are distributed among these distances:
4 2 0.04
5 12 0.22
6 38 0.69
7 3 0.05
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:218737 original size:28 final size:28
Alignment explanation
Indices: 218684--218737 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
218674 TATTTTAAGA
* *
218684 TTAAATTTGTTTTAAATTTAGATTTATT
1 TTAAATTTGATTTAAATTAAGATTTATT
*
218712 TTAAATTTGAATTTAAGTTAAG-TTTA
1 TTAAATTTG-ATTTAAATTAAGATTTA
218738 AATTTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 13 0.59
29 9 0.41
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (28 bp):
TTAAATTTGATTTAAATTAAGATTTATT
Found at i:218748 original size:11 final size:11
Alignment explanation
Indices: 218700--218754 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
218690 TTGTTTTAAA
*
218700 TTTAGATTTAT
1 TTTAAATTTAT
*
218711 TTTAAATTTGAA
1 TTTAAATTT-AT
* * *
218723 TTTAAGTTAAG
1 TTTAAATTTAT
218734 TTTAAATTTAT
1 TTTAAATTTAT
218745 TTTAAATTTA
1 TTTAAATTTA
218755 AAATTATTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
11 27 0.77
12 8 0.23
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.56
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:219534 original size:21 final size:21
Alignment explanation
Indices: 219489--219551 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
219479 AAATATTAGC
*
219489 AATAAATAGCATTAATAAGTATT
1 AATAAA-AACATTAATAA-TATT
* *
219512 AATAAAAATATTATTAATATT
1 AATAAAAACATTAATAATATT
219533 AATAAAAACATTAATAATA
1 AATAAAAACATTAATAATA
219552 ATAAAAGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 21 0.60
22 8 0.23
23 6 0.17
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (21 bp):
AATAAAAACATTAATAATATT
Found at i:220676 original size:30 final size:29
Alignment explanation
Indices: 220654--220902 Score: 240
Period size: 30 Copynumber: 8.6 Consensus size: 29
220644 ACTGTCTGAC
*
220654 AATTACATTTTCACCCTCAAACTTC-AAA
1 AATTACATTTTTACCCTCAAACTTCTAAA
*
220682 AATT-CAATTTTTGACCCTAAAACTTCTAAA
1 AATTAC-ATTTTT-ACCCTCAAACTTCTAAA
*
220712 AATTACATTTTTACCCTTAAACTTCTAAA
1 AATTACATTTTTACCCTCAAACTTCTAAA
* * * *
220741 AATTCCATTTTTAACCTCAAAATTTCCAAA
1 AATTACATTTTTACCCTC-AAACTTCTAAA
* *
220771 AATTACATATTTACCCT-AAACTTCCAAA
1 AATTACATTTTTACCCTCAAACTTCTAAA
* * *
220799 AATTCCATTTTTAACCTCAAAACTTCCAAA
1 AATTACATTTTTACCCTC-AAACTTCTAAA
**
220829 AATTACA-TTTTACCCTTGAACTTCTAAA
1 AATTACATTTTTACCCTCAAACTTCTAAA
*
220857 AATTCCATTTTTAACCC-CGAAACTT-TCAAA
1 AATTACATTTTT-ACCCTC-AAACTTCT-AAA
**
220887 AATTACCCTTTTACCC
1 AATTACATTTTTACCC
220903 CAGATGTCCC
Statistics
Matches: 184, Mismatches: 26, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
27 1 0.01
28 48 0.26
29 60 0.33
30 74 0.40
31 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.01, T:0.36
Consensus pattern (29 bp):
AATTACATTTTTACCCTCAAACTTCTAAA
Found at i:220728 original size:58 final size:59
Alignment explanation
Indices: 220654--220902 Score: 335
Period size: 58 Copynumber: 4.3 Consensus size: 59
220644 ACTGTCTGAC
* * * * *
220654 AATTACATTTTCACCCTCAAACTTC-AAAAATTCAATTTTTGACC-CTAAAACTTCTAAA
1 AATTACATTTTTACCCTTAAACTTCTAAAAATTCCATTTTTAACCTC-AAAACTTCCAAA
*
220712 AATTACATTTTTACCCTTAAACTTCTAAAAATTCCATTTTTAACCTCAAAATTTCCAAA
1 AATTACATTTTTACCCTTAAACTTCTAAAAATTCCATTTTTAACCTCAAAACTTCCAAA
* *
220771 AATTACATATTTACCC-TAAACTTCCAAAAATTCCATTTTTAACCTCAAAACTTCCAAA
1 AATTACATTTTTACCCTTAAACTTCTAAAAATTCCATTTTTAACCTCAAAACTTCCAAA
* * * *
220829 AATTACA-TTTTACCCTTGAACTTCTAAAAATTCCATTTTTAACCCCGAAACTTTCAAA
1 AATTACATTTTTACCCTTAAACTTCTAAAAATTCCATTTTTAACCTCAAAACTTCCAAA
**
220887 AATTACCCTTTTACCC
1 AATTACATTTTTACCC
220903 CAGATGTCCC
Statistics
Matches: 171, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
57 7 0.04
58 113 0.66
59 50 0.29
60 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.01, T:0.36
Consensus pattern (59 bp):
AATTACATTTTTACCCTTAAACTTCTAAAAATTCCATTTTTAACCTCAAAACTTCCAAA
Found at i:220949 original size:116 final size:117
Alignment explanation
Indices: 220654--220892 Score: 344
Period size: 117 Copynumber: 2.1 Consensus size: 117
220644 ACTGTCTGAC
* *
220654 AATTACAT-TTTCACCCTCAAACTT-CAAAAATTCAATTTTTGACC-CTAAAACTTCTAAAAATT
1 AATTACATATTT-ACCC-CAAACTTCCAAAAATTCCATTTTTAACCTC-AAAACTTCTAAAAATT
*
220716 ACATTTTTACCCTTAAACTTCTAAAAATTCCATTTTTAACCTCAAAATTTCCAAA
63 ACATTTTTACCCTTAAACTTCTAAAAATTCCATTTTTAACCCCAAAATTTCCAAA
* *
220771 AATTACATATTTACCCTAAACTTCCAAAAATTCCATTTTTAACCTCAAAACTTCCAAAAATTACA
1 AATTACATATTTACCCCAAACTTCCAAAAATTCCATTTTTAACCTCAAAACTTCTAAAAATTACA
* *
220836 -TTTTACCCTTGAACTTCTAAAAATTCCATTTTTAACCCCGAAACTTT-CAAA
66 TTTTTACCCTTAAACTTCTAAAAATTCCATTTTTAACCCC-AAAATTTCCAAA
220887 AATTAC
1 AATTAC
220893 CCTTTTACCC
Statistics
Matches: 111, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
116 53 0.48
117 54 0.49
118 4 0.04
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (117 bp):
AATTACATATTTACCCCAAACTTCCAAAAATTCCATTTTTAACCTCAAAACTTCTAAAAATTACA
TTTTTACCCTTAAACTTCTAAAAATTCCATTTTTAACCCCAAAATTTCCAAA
Found at i:221015 original size:59 final size:58
Alignment explanation
Indices: 220855--221020 Score: 138
Period size: 58 Copynumber: 2.8 Consensus size: 58
220845 TGAACTTCTA
* * * *
220855 AAAATTCCATTTTTAACCCCGAAACTTT-CAAAAATTACCCTTTTACCCCAGATGTCCC
1 AAAATTTCGTTTTTAATCCCG-AACTTTCCAAAAATTACCATTTTACCCCAGATGTCCC
* ** * ** * **
220913 AAAATTTCGTTTTTGATCCCGATTTTTCTAAAAATTATAATTTTATCCCCGGATGT-TT
1 AAAATTTCGTTTTTAATCCCGAACTTTCCAAAAATTACCATTTTA-CCCCAGATGTCCC
* * * *
220971 AAAGTTTCATTTTTTAATCCCGAACTTTCCCAAAATTACCATTTTGCCCC
1 AAAATTTC-GTTTTTAATCCCGAACTTTCCAAAAATTACCATTTTACCCC
221021 TCGAGAGTCT
Statistics
Matches: 82, Mismatches: 23, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
57 4 0.05
58 41 0.50
59 37 0.45
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (58 bp):
AAAATTTCGTTTTTAATCCCGAACTTTCCAAAAATTACCATTTTACCCCAGATGTCCC
Found at i:222408 original size:12 final size:12
Alignment explanation
Indices: 222391--222417 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
222381 GTTTAAAAAT
222391 AATTGAAATTAA
1 AATTGAAATTAA
222403 AATTGAAATTAA
1 AATTGAAATTAA
222415 AAT
1 AAT
222418 GCAAAGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (12 bp):
AATTGAAATTAA
Found at i:222648 original size:15 final size:16
Alignment explanation
Indices: 222630--222659 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
222620 CTAAACTTCG
222630 AAAACCCT-AAAATAA
1 AAAACCCTCAAAATAA
222645 AAAACCCTCAAAATA
1 AAAACCCTCAAAATA
222660 TTTTTCTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.63, C:0.23, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAACCCTCAAAATAA
Found at i:223472 original size:6 final size:6
Alignment explanation
Indices: 223461--223489 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
223451 ATCATTGTTG
223461 CCTCCA CCTCCA CCTCCA CCTCCA CCTCC
1 CCTCCA CCTCCA CCTCCA CCTCCA CCTCC
223490 GTTTGGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.69, G:0.00, T:0.17
Consensus pattern (6 bp):
CCTCCA
Found at i:223998 original size:11 final size:11
Alignment explanation
Indices: 223982--224041 Score: 50
Period size: 11 Copynumber: 5.3 Consensus size: 11
223972 GGGTTCAAAC
223982 TTATTTTAAAT
1 TTATTTTAAAT
223993 TTATTTTAAGAT
1 TTATTTTAA-AT
* *
224005 TAAATTT-AAT
1 TTATTTTAAAT
* *
224015 TTAAGTTTAAAA
1 TT-ATTTTAAAT
224027 TTATTTTCAAAT
1 TTATTTT-AAAT
224039 TTA
1 TTA
224042 AAATTATTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
10 3 0.08
11 18 0.47
12 17 0.45
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (11 bp):
TTATTTTAAAT
Found at i:224027 original size:18 final size:18
Alignment explanation
Indices: 223989--224062 Score: 73
Period size: 17 Copynumber: 4.2 Consensus size: 18
223979 AACTTATTTT
*
223989 AAATTTATTTTAAGATT-
1 AAATTTATTTTAAGTTTA
*
224006 AAATTTAATTTAAGTTTA
1 AAATTTATTTTAAGTTTA
*
224024 AAA-TTATTTTCAAATTTA
1 AAATTTATTTT-AAGTTTA
* *
224042 AAA-TTATTATAAATTTA
1 AAATTTATTTTAAGTTTA
224059 AAAT
1 AAAT
224063 AAATAAAGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
17 31 0.63
18 18 0.37
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (18 bp):
AAATTTATTTTAAGTTTA
Found at i:224043 original size:35 final size:34
Alignment explanation
Indices: 223986--224062 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 34
223976 TCAAACTTAT
* * *
223986 TTTAAATTTATTTTAAGATTAAATTTAATT-TAAG
1 TTTAAAATTATTTTAAGATTAAAATT-ATTATAAA
224020 TTTAAAATTATTTTCAA-ATTTAAAATTATTATAAA
1 TTTAAAATTATTTT-AAGA-TTAAAATTATTATAAA
224055 TTTAAAAT
1 TTTAAAAT
224063 AAATAAAGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
34 17 0.46
35 20 0.54
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (34 bp):
TTTAAAATTATTTTAAGATTAAAATTATTATAAA
Found at i:224057 original size:17 final size:18
Alignment explanation
Indices: 224020--224062 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
224010 TTAATTTAAG
*
224020 TTTAAAATTATTTTCAAA
1 TTTAAAATTATTATCAAA
224038 TTTAAAATTATTAT-AAA
1 TTTAAAATTATTATCAAA
224055 TTTAAAAT
1 TTTAAAAT
224063 AAATAAAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTAAAATTATTATCAAA
Done.