Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold328
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: 936272
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
File 1 of 6
Found at i:357 original size:13 final size:13
Alignment explanation
Indices: 339--363 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
329 TACAGTGGTC
339 ATGTATCGATACA
1 ATGTATCGATACA
352 ATGTATCGATAC
1 ATGTATCGATAC
364 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:381 original size:33 final size:32
Alignment explanation
Indices: 322--384 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
312 ATCTTTGCAA
*
322 GTATCGATACAGTGGTCATGTATCGATACAAT
1 GTATCGATACAGTGATCATGTATCGATACAAT
* *
354 GTATCGATACTGTGCATTATGTATCGATACA
1 GTATCGATACAGTG-ATCATGTATCGATACA
385 TCTGAAGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (32 bp):
GTATCGATACAGTGATCATGTATCGATACAAT
Found at i:4520 original size:54 final size:54
Alignment explanation
Indices: 4424--4526 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 54
4414 GAATCGGAGG
* * * * *
4424 TAAAGGTTTTGGTGTGTTTGAGATTTATTGGCTCGGTGGGTGGTAAATCAAAAA
1 TAAAGGTTTAGGTGTGATAGAGATTGATTGGCTCGATGGGTGGTAAATCAAAAA
* * *
4478 TAAAGGTTTAGGTGTGATAGAGATTGATTGGCTTGATTGGTGGTGAATC
1 TAAAGGTTTAGGTGTGATAGAGATTGATTGGCTCGATGGGTGGTAAATC
4527 TTTTCTTTGA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 41 1.00
ACGTcount: A:0.25, C:0.05, G:0.33, T:0.37
Consensus pattern (54 bp):
TAAAGGTTTAGGTGTGATAGAGATTGATTGGCTCGATGGGTGGTAAATCAAAAA
Found at i:5930 original size:13 final size:13
Alignment explanation
Indices: 5912--5936 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5902 ATATTGCACA
5912 GTATCGATACATT
1 GTATCGATACATT
5925 GTATCGATACAT
1 GTATCGATACAT
5937 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:6045 original size:13 final size:13
Alignment explanation
Indices: 6027--6051 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6017 ACACACAGTA
6027 TGTATCGATACAT
1 TGTATCGATACAT
6040 TGTATCGATACA
1 TGTATCGATACA
6052 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6068 original size:33 final size:32
Alignment explanation
Indices: 6007--6074 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
5997 GTAGCCAAAC
**
6007 TTGTATCGATACACACAGTATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
* *
6039 TTGTATCGATACACCATAAAATGTATCGATATA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
6072 TTG
1 TTG
6075 GCTTGTAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:12411 original size:20 final size:20
Alignment explanation
Indices: 12376--12416 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
12366 CAAAATTCTT
12376 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
12398 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
12417 ACTAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:12721 original size:20 final size:21
Alignment explanation
Indices: 12683--12722 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
12673 CCTAGGCAGC
*
12683 ACCCACCAGGTCACGACCGGT
1 ACCCACCAGGTCACAACCGGT
*
12704 ACCC-CCAGGTCGCAACCGG
1 ACCCACCAGGTCACAACCGG
12723 GCAACCCCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.23, C:0.45, G:0.25, T:0.07
Consensus pattern (21 bp):
ACCCACCAGGTCACAACCGGT
Found at i:14725 original size:13 final size:13
Alignment explanation
Indices: 14707--14731 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14697 ATGTTGCACA
14707 GTATCGATACATT
1 GTATCGATACATT
14720 GTATCGATACAT
1 GTATCGATACAT
14732 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:14866 original size:33 final size:32
Alignment explanation
Indices: 14802--14869 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
14792 GTAGCCAAAC
**
14802 TTGTATCGATACACACAGTATGTATCAATACA
1 TTGTATCGATACACACAAAATGTATCAATACA
* *
14834 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCAATACA
14867 TTG
1 TTG
14870 GCTTGTAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCAATACA
Found at i:23439 original size:20 final size:20
Alignment explanation
Indices: 23414--23538 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
23404 TTTTAACTAG
23414 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
23434 ATGTATCGATACATCTAGGTAAAAAGACAGA
1 ATGTATCGATACAT-T--G-----A-A-A-A
* *
23465 ATGTAACGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * *
23485 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
23505 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
23525 ATGTATCAATACAT
1 ATGTATCGATACAT
23539 CTAGGTACTT
Statistics
Matches: 83, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
20 60 0.72
21 1 0.01
22 1 0.01
23 2 0.02
28 2 0.02
29 1 0.01
30 2 0.02
31 14 0.17
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:24941 original size:14 final size:14
Alignment explanation
Indices: 24922--24949 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
24912 ATTTCAATGA
24922 AAAAAATGAAAAAC
1 AAAAAATGAAAAAC
24936 AAAAAATGAAAAAC
1 AAAAAATGAAAAAC
24950 TCATAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.07
Consensus pattern (14 bp):
AAAAAATGAAAAAC
Found at i:31086 original size:15 final size:15
Alignment explanation
Indices: 31066--31105 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
31056 GAAAAACAAG
*
31066 AAAAATAAGAAATAA
1 AAAAATAAAAAATAA
**
31081 AAAAATAAAAAATTT
1 AAAAATAAAAAATAA
31096 AAAAATAAAA
1 AAAAATAAAA
31106 TAAATACTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (15 bp):
AAAAATAAAAAATAA
Found at i:36780 original size:13 final size:13
Alignment explanation
Indices: 36762--36792 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
36752 CGATACATGG
36762 TACATTGTATCGA
1 TACATTGTATCGA
36775 TACATTGTATCGA
1 TACATTGTATCGA
36788 TACAT
1 TACAT
36793 AGTGAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:49257 original size:30 final size:30
Alignment explanation
Indices: 49206--49263 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
49196 CATTTATCCC
* * * *
49206 AAATATAGCCTATATAGCCCACATAGTCCT
1 AAATATAGCCTACACAACCCACACAGTCCT
49236 AAATATAGCCTACACAACCCACACAGTC
1 AAATATAGCCTACACAACCCACACAGTC
49264 TCAATCACAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.31, G:0.09, T:0.21
Consensus pattern (30 bp):
AAATATAGCCTACACAACCCACACAGTCCT
Found at i:50693 original size:16 final size:16
Alignment explanation
Indices: 50672--50704 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
50662 GATTTTTTAG
50672 TGTATAAAAGATCTAC
1 TGTATAAAAGATCTAC
50688 TGTATAAAAGATCTAC
1 TGTATAAAAGATCTAC
50704 T
1 T
50705 ACAAGGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (16 bp):
TGTATAAAAGATCTAC
Found at i:51603 original size:36 final size:36
Alignment explanation
Indices: 51561--51635 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
51551 CATTAAAAAT
51561 TCTCACATAAAGAAATAGAAAAAATAACCCTTCCTA
1 TCTCACATAAAGAAATAGAAAAAATAACCCTTCCTA
51597 TCTCACATAAAGAAATAGAAAAAATAACCCTTCCTA
1 TCTCACATAAAGAAATAGAAAAAATAACCCTTCCTA
51633 TCT
1 TCT
51636 AAATGCATCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.48, C:0.23, G:0.05, T:0.24
Consensus pattern (36 bp):
TCTCACATAAAGAAATAGAAAAAATAACCCTTCCTA
Found at i:62463 original size:39 final size:39
Alignment explanation
Indices: 62419--62494 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
62409 AATCTATTTA
62419 CAGCTCATCTACACCTCAAAACTAGCAAGTATTGAAGTC
1 CAGCTCATCTACACCTCAAAACTAGCAAGTATTGAAGTC
62458 CAGCTCATCTACACCTCAAAACTAGCAAGTATTGAAG
1 CAGCTCATCTACACCTCAAAACTAGCAAGTATTGAAG
62495 CCTTCGTAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.37, C:0.28, G:0.13, T:0.22
Consensus pattern (39 bp):
CAGCTCATCTACACCTCAAAACTAGCAAGTATTGAAGTC
Found at i:65972 original size:15 final size:16
Alignment explanation
Indices: 65941--65972 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
65931 TGAGAAAACC
65941 AAGGAAAATGTAAAAA
1 AAGGAAAATGTAAAAA
65957 AAGGAAAATG-AAAAA
1 AAGGAAAATGTAAAAA
65972 A
1 A
65973 CAGAGAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (16 bp):
AAGGAAAATGTAAAAA
Found at i:68864 original size:34 final size:34
Alignment explanation
Indices: 68788--68937 Score: 135
Period size: 34 Copynumber: 4.2 Consensus size: 34
68778 AAGATATTTG
* * *
68788 ATTAAAATAGATATATATAATAAATAATTAAAAATT
1 ATTAAAAT--ATATTTATATTAAATAATTAAAAATA
68824 ATTAAAATATATTTATATTAAATAA-TAAAATATA
1 ATTAAAATATATTTATATTAAATAATTAAAA-ATA
* *
68858 AATAAAAT-TATTTATATGTTGAATAATAATTAAAAATT
1 ATTAAAATATATTTATA--TT--A-AATAATTAAAAATA
*
68896 ATTAAATTATATTTATATTAAATAA-TAAAATATA
1 ATTAAAATATATTTATATTAAATAATTAAAA-ATA
68930 CATTAAAA
1 -ATTAAAA
68938 ACTAAATATT
Statistics
Matches: 95, Mismatches: 9, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
33 18 0.19
34 31 0.33
35 9 0.09
36 8 0.08
37 3 0.03
38 13 0.14
39 13 0.14
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (34 bp):
ATTAAAATATATTTATATTAAATAATTAAAAATA
Found at i:72422 original size:26 final size:24
Alignment explanation
Indices: 72350--72422 Score: 62
Period size: 26 Copynumber: 2.9 Consensus size: 24
72340 TACATAAAAT
*
72350 TATAATAATAATAAGATATTTTCATA
1 TATAAT-ATAATTAGATATTTT-ATA
72376 TATAA-A-AATTA-ATTATATTTATA
1 TATAATATAATTAGA-TAT-TTTATA
72399 TCATAATATAATTAGATAATTTTA
1 T-ATAATATAATTAGAT-ATTTTA
72423 ACATAAATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
22 1 0.03
23 11 0.28
24 8 0.21
25 1 0.03
26 15 0.38
27 3 0.08
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (24 bp):
TATAATATAATTAGATATTTTATA
Found at i:72945 original size:12 final size:12
Alignment explanation
Indices: 72921--72960 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
72911 TTTTTTTGTA
72921 TTATTTA-TAAT
1 TTATTTATTAAT
72932 TTATTTATTAAT
1 TTATTTATTAAT
*
72944 TTATTTTTTAAGT
1 TTATTTATTAA-T
72957 TTAT
1 TTAT
72961 CCATCTTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 7 0.27
12 14 0.54
13 5 0.19
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (12 bp):
TTATTTATTAAT
Found at i:73093 original size:94 final size:94
Alignment explanation
Indices: 72921--73170 Score: 273
Period size: 94 Copynumber: 2.7 Consensus size: 94
72911 TTTTTTTGTA
* *
72921 TTATTTA-TA-ATTTATTTATTAATTTATTTTTTAAGTTTATCCATCTTTCATGAAGAGTCAAAT
1 TTATTTATTATATTT-TTTATTTATTTATTTTTTAA-TTTATCCATCTTTCATGAAGAATCAAAT
*
72984 AAAATCAAAATTTTATCTTC-AGTTTTAAATT
64 AAAATCAAAAATTTATCTTCGA-TTTTAAATT
* **
73015 TTATTT-TTATA-TTTTTATTTATTTAATTTTTTAATTTATTCAT-TTTACATGAATGAATTGAA
1 TTATTTATTATATTTTTTATTTATTT-ATTTTTTAATTTATCCATCTTT-CATGAA-GAATCAAA
*
73077 TGAAATCAAAAATTTATCTTCGATTTTAAATT
63 TAAAATCAAAAATTTATCTTCGATTTTAAATT
* * * *
73109 TTATTTATTGTATTTTTTATTTATTGCATTTTTTAATTTA-CACATC-TCCATGAAGAACCAAA
1 TTATTTATTATATTTTTTATTTATT-TATTTTTTAATTTATC-CATCTTTCATGAAGAATCAAA
73171 ATTTCATGTT
Statistics
Matches: 131, Mismatches: 14, Indels: 22
0.78 0.08 0.13
Matches are distributed among these distances:
92 3 0.02
93 24 0.18
94 63 0.48
95 12 0.09
96 29 0.22
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.52
Consensus pattern (94 bp):
TTATTTATTATATTTTTTATTTATTTATTTTTTAATTTATCCATCTTTCATGAAGAATCAAATAA
AATCAAAAATTTATCTTCGATTTTAAATT
Found at i:73147 original size:17 final size:16
Alignment explanation
Indices: 73107--73148 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
73097 CGATTTTAAA
*
73107 TTTTATTTATTGTATT
1 TTTTATTTATTGCATT
73123 TTTTATTTATTGCATT
1 TTTTATTTATTGCATT
73139 TTTTAATTTA
1 TTTT-ATTTA
73149 CACATCTCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.71
Consensus pattern (16 bp):
TTTTATTTATTGCATT
Found at i:79724 original size:13 final size:13
Alignment explanation
Indices: 79706--79730 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79696 AACTGATTTT
79706 AATAAAAAATATG
1 AATAAAAAATATG
79719 AATAAAAAATAT
1 AATAAAAAATAT
79731 TTTTACGCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (13 bp):
AATAAAAAATATG
Found at i:83702 original size:14 final size:14
Alignment explanation
Indices: 83683--83710 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
83673 TTTTCTTTAA
83683 GAAATAATATGTTT
1 GAAATAATATGTTT
83697 GAAATAATATGTTT
1 GAAATAATATGTTT
83711 TGGGGTTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (14 bp):
GAAATAATATGTTT
Found at i:86265 original size:13 final size:13
Alignment explanation
Indices: 86247--86272 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
86237 ACATTTTGGG
86247 ATGTATCGATACA
1 ATGTATCGATACA
86260 ATGTATCGATACA
1 ATGTATCGATACA
86273 TATTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:86267 original size:33 final size:32
Alignment explanation
Indices: 86225--86292 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
86215 TATTACAAGC
*
86225 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATATTGGG-TGTATCGATA
*
86258 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTGGGTGTATCGATA
86290 CAA
1 CAA
86293 ACAGTTAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATATTGGGTGTATCGATA
Found at i:86380 original size:20 final size:21
Alignment explanation
Indices: 86333--86385 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
86323 GCCAATGACC
*
86333 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
86354 AGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
86374 TGTATCGATACA
1 TGTATCGATACA
86386 ATATATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:95014 original size:13 final size:13
Alignment explanation
Indices: 94996--95021 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94986 ACATTTTGGG
94996 ATGTATCGATACA
1 ATGTATCGATACA
95009 ATGTATCGATACA
1 ATGTATCGATACA
95022 TATTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:95038 original size:32 final size:33
Alignment explanation
Indices: 94974--95041 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
94964 CGTTACAAGC
*
94974 CAATGTATCGAAACATTTTGGGATGTATCGATA
1 CAATGTATCGAAACATATTGGGATGTATCGATA
* *
95007 CAATGTATCGATACATATTGTG-TGTATCGATA
1 CAATGTATCGAAACATATTGGGATGTATCGATA
95039 CAA
1 CAA
95042 ACAGTTAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (33 bp):
CAATGTATCGAAACATATTGGGATGTATCGATA
Found at i:95129 original size:20 final size:21
Alignment explanation
Indices: 95082--95134 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
95072 GCCAATGACC
*
95082 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
95103 AGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
95123 TGTATCGATACA
1 TGTATCGATACA
95135 ATATATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:97486 original size:144 final size:143
Alignment explanation
Indices: 97217--97486 Score: 321
Period size: 144 Copynumber: 1.9 Consensus size: 143
97207 TCTTAAATGG
* * * * *
97217 TTTAAAATTACAATTTGACCTTTATAATGTTTAAAAATGCATGGAATGCACTTAAATGGACAAAA
1 TTTAAAATTACAATTTGACCCTTAAAAGGTTTAAAAATGCACGGAATACACTTAAATGGACAAAA
* * * * *
97282 TACCTTAAATGGGTTATGTTGCATGAAAATGACCTAAATAGCCCTAAAATGGAATATTTTGCTAA
66 TACCTTAAATGGGTAATATT-CATGAAAATAACCTAAATAGCCCTAAAATGCAAGATTTTGCTAA
97347 ATATCCCTATATTT
130 ATATCCCTATATTT
* *
97361 TTTAAAATTACTATTTGACCCTTAAAAGGTTTAAAAATGCACGGAATACAC-TAAA-GTACCAAA
1 TTTAAAATTACAATTTGACCCTTAAAAGGTTTAAAAATGCACGGAATACACTTAAATGGA-CAAA
* * * * *
97424 ATACCTTAAATGGGTAATATT-ATGGTAGAGATAACTTAAATAGCCTTAGAATGCAAGGTTTTG
65 ATACCTTAAATGGGTAATATTCAT-G-A-AAATAACCTAAATAGCCCTAAAATGCAAGATTTTG
97487 TTAGAAAGTC
Statistics
Matches: 105, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
141 2 0.02
142 3 0.03
143 28 0.27
144 72 0.69
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (143 bp):
TTTAAAATTACAATTTGACCCTTAAAAGGTTTAAAAATGCACGGAATACACTTAAATGGACAAAA
TACCTTAAATGGGTAATATTCATGAAAATAACCTAAATAGCCCTAAAATGCAAGATTTTGCTAAA
TATCCCTATATTT
Found at i:112747 original size:17 final size:17
Alignment explanation
Indices: 112727--112768 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
112717 AACAAAAACT
* *
112727 AAAAAAGAAAGAAAATG
1 AAAAAAAAAAGAAAAAG
112744 AAAAAAAAAAGAAAAAG
1 AAAAAAAAAAGAAAAAG
112761 AAAAAAAA
1 AAAAAAAA
112769 TTCTTTAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAAGAAAAAG
Found at i:113717 original size:49 final size:48
Alignment explanation
Indices: 113630--113799 Score: 155
Period size: 49 Copynumber: 3.5 Consensus size: 48
113620 CATGCATTTT
* * *
113630 TGAGTTTTTTAATGTTAGTTTTGAACTTA-CTATTAAAATTGACTAAAA
1 TGAGTCTTTTAAGGTTAGTTTTGAACTTATC-ATCAAAATTGACTAAAA
* * * *
113678 TCGAGCCTTTTAAAGTTAGTTTTGAACTTATCATCAAAATCGGCT-AAA
1 T-GAGTCTTTTAAGGTTAGTTTTGAACTTATCATCAAAATTGACTAAAA
* ** * * * *
113726 TGAAGTTTTTTGGGGTTAGTTTTAAACTTATTATCAAAACTGACAAAAA
1 TG-AGTCTTTTAAGGTTAGTTTTGAACTTATCATCAAAATTGACTAAAA
*
113775 TAGAATCTTTTAAGGTTAGTTTTGA
1 T-GAGTCTTTTAAGGTTAGTTTTGA
113800 CCCAATGTCA
Statistics
Matches: 95, Mismatches: 22, Indels: 9
0.75 0.17 0.07
Matches are distributed among these distances:
47 1 0.01
48 36 0.38
49 56 0.59
50 2 0.02
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.41
Consensus pattern (48 bp):
TGAGTCTTTTAAGGTTAGTTTTGAACTTATCATCAAAATTGACTAAAA
Found at i:114025 original size:49 final size:49
Alignment explanation
Indices: 113629--114039 Score: 182
Period size: 48 Copynumber: 8.5 Consensus size: 49
113619 CCATGCATTT
* * * ** * **
113629 TTGAGTTTTTTAATGTTAGTTTTGAACTTACTATTAAAATTGACTAAAA
1 TTGAGTCTTTTAAAGTTAGTTTTGAACCTACCGTCAAAATCAACTAAAA
* * * * * **
113678 TCGAGCCTTTTAAAGTTAGTTTTGAACTTATCATCAAAATCGGCT-AAA
1 TTGAGTCTTTTAAAGTTAGTTTTGAACCTACCGTCAAAATCAACTAAAA
* *** * * *** * *
113726 -TGAAGTTTTTTGGGGTTAGTTTTAAACTTATTATCAAAA-CTGACAAAAA
1 TTG-AGTCTTTTAAAGTTAGTTTTGAACCTACCGTCAAAATC-AACTAAAA
* * * * ** * *
113775 TAGAATCTTTTAAGGTTAGTTTTG-ACCCAATGTCAAAATCGA-TCATAA
1 TTGAGTCTTTTAAAGTTAGTTTTGAACCTACCGTCAAAATCAACT-AAAA
* * * * *
113823 TTAAG-CTTTTCAAGATTAGTTTTGAACCTACCATTAAAAATCAACCAAAA
1 TTGAGTCTTTTAAAG-TTAGTTTTGAACCTACC-GTCAAAATCAACTAAAA
* * * * * *
113873 CTGAG-CTTTTTAAAATTACTTTTGAA-CTACTGTCAAGACCAA-TCAAAA
1 TTGAGTC-TTTTAAAGTTAGTTTTGAACCTACCGTCAAAATCAACT-AAAA
* * * *
113921 TTGAGTCTTTTAGTA-TTAGTTTGGAACCTA-CATCAAAA-CTAATTAAAA
1 TTGAGTCTTTTA-AAGTTAGTTTTGAACCTACCGTCAAAATC-AACTAAAA
** *
113969 TCAAGTCTTTTAAAGTTAGTTTTAAACCTACCGTCAAAATCAACTAAAA
1 TTGAGTCTTTTAAAGTTAGTTTTGAACCTACCGTCAAAATCAACTAAAA
114018 TTGAGTCTTTTAAAGTTA-TTTT
1 TTGAGTCTTTTAAAGTTAGTTTT
114040 CAAACTCATT
Statistics
Matches: 271, Mismatches: 71, Indels: 41
0.71 0.19 0.11
Matches are distributed among these distances:
47 11 0.04
48 127 0.47
49 100 0.37
50 27 0.10
51 6 0.02
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (49 bp):
TTGAGTCTTTTAAAGTTAGTTTTGAACCTACCGTCAAAATCAACTAAAA
Found at i:128120 original size:29 final size:27
Alignment explanation
Indices: 128084--128144 Score: 86
Period size: 29 Copynumber: 2.2 Consensus size: 27
128074 CAATATATTT
*
128084 TTAAAATTTATTTATATAATAAAAATATA
1 TTAAAATTTATTTAAAT-AT-AAAATATA
*
128113 TTAAAATTTATTTAAATATAAAATATC
1 TTAAAATTTATTTAAATATAAAATATA
128140 TTAAA
1 TTAAA
128145 TATGATTATG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 12 0.40
28 2 0.07
29 16 0.53
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (27 bp):
TTAAAATTTATTTAAATATAAAATATA
Found at i:128121 original size:25 final size:27
Alignment explanation
Indices: 128093--128144 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
128083 TTTAAAATTT
128093 ATTTATAT-AATA-AAAATATATTAAA
1 ATTTATATAAATATAAAATATATTAAA
* *
128118 ATTTATTTAAATATAAAATATCTTAAA
1 ATTTATATAAATATAAAATATATTAAA
128145 TATGATTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.30
26 4 0.17
27 12 0.52
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
ATTTATATAAATATAAAATATATTAAA
Found at i:130102 original size:17 final size:16
Alignment explanation
Indices: 130073--130109 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
130063 TAACTAAAAT
130073 ATAACATAAATATAAC
1 ATAACATAAATATAAC
*
130089 ATAACATGAAATATAAT
1 ATAACAT-AAATATAAC
130106 ATAA
1 ATAA
130110 TTATAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.27
Consensus pattern (16 bp):
ATAACATAAATATAAC
Found at i:130286 original size:19 final size:19
Alignment explanation
Indices: 130264--130305 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
130254 TTGTATTAAT
*
130264 ATAAAT-TATTTTAGTTGAA
1 ATAAATGTATTTGAG-TGAA
130283 AT-AATGTATTTGAGTGAA
1 ATAAATGTATTTGAGTGAA
130301 ATAAA
1 ATAAA
130306 ATCTTGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.40
Consensus pattern (19 bp):
ATAAATGTATTTGAGTGAA
Found at i:130620 original size:149 final size:149
Alignment explanation
Indices: 130350--130644 Score: 554
Period size: 149 Copynumber: 2.0 Consensus size: 149
130340 TTAACCTAAT
* *
130350 GTTTGGTAAGAATTATAGAAAATGGAGGAAAAAGAAAAAAGTAAGGAGAGAAAAAAGCGATGAAG
1 GTTTGGTAAGAATAATAGAAAATGGAGGAAAAAGAAAAAAGTAAGGAGAGAAAAAAGAGATGAAG
*
130415 GAAAGTTACTTTTCTTTCATTGTATTAAATACGAAGGATGGAAAATATAAAGAAACAAACACGTT
66 GAAAGTTACTTGTCTTTCATTGTATTAAATACGAAGGATGGAAAATATAAAGAAACAAACACGTT
130480 AATAGTAAAGTAGCATAAC
131 AATAGTAAAGTAGCATAAC
130499 GTTTGGTAAGAATAATAGAAAATGGAGGAAAAAGAAAAAAGTAAGGAGAGAAAAAAGAGATGAAG
1 GTTTGGTAAGAATAATAGAAAATGGAGGAAAAAGAAAAAAGTAAGGAGAGAAAAAAGAGATGAAG
130564 GAAAGTTACTTGTCTTTCATTGTATTAAATACGAAGGATGGAAAATATAAAGAAACAAACACGTT
66 GAAAGTTACTTGTCTTTCATTGTATTAAATACGAAGGATGGAAAATATAAAGAAACAAACACGTT
*
130629 AATAGTAAAGTTGCAT
131 AATAGTAAAGTAGCAT
130645 GTAAAATCAT
Statistics
Matches: 142, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 142 1.00
ACGTcount: A:0.49, C:0.06, G:0.22, T:0.23
Consensus pattern (149 bp):
GTTTGGTAAGAATAATAGAAAATGGAGGAAAAAGAAAAAAGTAAGGAGAGAAAAAAGAGATGAAG
GAAAGTTACTTGTCTTTCATTGTATTAAATACGAAGGATGGAAAATATAAAGAAACAAACACGTT
AATAGTAAAGTAGCATAAC
Found at i:134247 original size:28 final size:27
Alignment explanation
Indices: 134210--134263 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 27
134200 CAAACATATC
*
134210 ATTATTAAATCTACAAATAAATATAAAT
1 ATTATCAAATCTACAAATAAA-ATAAAT
134238 ATTATCAAATCTACAAATAAAATAAA
1 ATTATCAAATCTACAAATAAAATAAA
134264 GTTCATCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (27 bp):
ATTATCAAATCTACAAATAAAATAAAT
Found at i:134644 original size:2 final size:2
Alignment explanation
Indices: 134637--134680 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
134627 GATGAAACAA
134637 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
134679 AT
1 AT
134681 TGATTTGGTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:134838 original size:14 final size:14
Alignment explanation
Indices: 134821--134872 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
134811 ATTATATTTT
134821 TATATAAATTTTAA
1 TATATAAATTTTAA
* *
134835 TATATTAATAATTAATAT
1 TATA-T-A-AATT-TTAA
134853 TATATAAATTTTAA
1 TATATAAATTTTAA
134867 TATATA
1 TATATA
134873 TTTATATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
14 12 0.40
15 5 0.17
16 2 0.07
17 5 0.17
18 6 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TATATAAATTTTAA
Found at i:134882 original size:17 final size:17
Alignment explanation
Indices: 134834--134892 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
134824 ATAAATTTTA
* *
134834 ATATATTAATAATTAAT
1 ATATATTTATATTTAAT
* *
134851 AT-TATATAAATTTTAAT
1 ATATATTTATA-TTTAAT
134868 ATATATTTATATTT-AT
1 ATATATTTATATTTAAT
134884 ATTATATTT
1 A-TATATTT
134893 TAATTATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
16 8 0.24
17 19 0.58
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATATATTTATATTTAAT
Found at i:135650 original size:18 final size:18
Alignment explanation
Indices: 135627--135662 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
135617 AATAGGAAGA
*
135627 AAGAAAATAAGATAAAAT
1 AAGAAAATAAGAAAAAAT
135645 AAGAAAATAAGAAAAAAT
1 AAGAAAATAAGAAAAAAT
135663 TATCATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (18 bp):
AAGAAAATAAGAAAAAAT
Found at i:135656 original size:26 final size:24
Alignment explanation
Indices: 135611--135659 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
135601 TTTGATAAGA
* *
135611 AAGAAAAATAGGAAGAAAGAAAAT
1 AAGAAAAATAAGAAAAAAGAAAAT
135635 AAGATAAAATAAGAAAATAAGAAAA
1 AAGA-AAAATAAGAAAA-AAGAAAA
135660 AATTATCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 10 0.48
26 7 0.33
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.10
Consensus pattern (24 bp):
AAGAAAAATAAGAAAAAAGAAAAT
Found at i:136869 original size:166 final size:164
Alignment explanation
Indices: 136697--137290 Score: 565
Period size: 166 Copynumber: 3.6 Consensus size: 164
136687 GCATTTTTAG
* * * * *
136697 TGGTTTAAAATTTATAAAATTCATAAAATATTATTACTTAA-TCACCATTTAATCAGTTTTGAAA
1 TGGTTTAAAATTTTTAAAATTCATCAAATATTATCATTTAATTCA-CATTAAATCAGTTTTGAAA
* * *
136761 ATTTCCTTTTATTTCATAAGTTTTTCATTTTTT-TCTTAAAATTCTCATGTTTCTAAAATACAGA
65 AATTCCTTTTATTTCATAAGTTTTTCATTTTTTCT-TTAAAATTCTC-TATTTCTAAAATATAGA
136825 GTTTTCTACTTCATAAATATTTTCATGGGGATTTTTCT
128 GTTTTCTACTTCATAAATATTTTCA-GGGGATTTTTCT
* * ** ** *
136863 TGGTTTATAATTTTTAAATTTCATCAAATAAAATCATTTAATTCACATTAAATTGGTTTTAAAAA
1 TGGTTTAAAATTTTTAAAATTCATCAAATATTATCATTTAATTCACATTAAATCAGTTTT-GAAA
* * *
136928 AATTCTTTTTATTTCA-AGAGTTTTTCATTTTTTCTTTGAAATTCCTCTAATTT-TGAAATATAG
65 AATTCCTTTTATTTCATA-AGTTTTTCATTTTTTCTTTAAAATT-CTCT-ATTTCTAAAATATAG
* * * * *
136991 AATTTTCTACTCCGTAAATATTTTCGAGGAGATTTTTTT
127 AGTTTTCTACTTCATAAATATTTTC-AGGGGATTTTTCT
* * * * *
137030 TGGTTTAAAATTTTTAAAATTTATCAAATGTTATCATTTAATTCATAGTAAATCATTTTTGAAAA
1 TGGTTTAAAATTTTTAAAATTCATCAAATATTATCATTTAATTCACATTAAATCAGTTTTGAAAA
* * * **
137095 ATT-CATTTATTTTCATAAGTTTTTCATTTTTTCTTTGAAAATTCACTATTTCTAAAAAATTTAG
66 ATTCCTTTTA-TTTCATAAGTTTTTCATTTTTTCTTT-AAAATTCTCTATTTCTAAAATATAGAG
* *
137159 TTTTCTATTTCATAAATGTTTTCAGGGAGATTTTTCT
129 TTTTCTACTTCATAAATATTTTCAGGG-GATTTTTCT
** * * * * * * *
137196 CAGTTTAAAATTTTTAAAATTAATCTAACATTGTCA-TTAGA--CTCTTTAGATCAGTTTTGAAA
1 TGGTTTAAAATTTTTAAAATTCATCAAATATTATCATTTA-ATTCACATTAAATCAGTTTTGAAA
** * * **
137258 AATTCAATTTATTTGATAAATTTTGAATTTTTT
65 AATTCCTTTTATTTCATAAGTTTTTCATTTTTT
137291 GTGTATGTTA
Statistics
Matches: 346, Mismatches: 68, Indels: 30
0.78 0.15 0.07
Matches are distributed among these distances:
164 37 0.11
165 19 0.05
166 144 0.42
167 138 0.40
168 8 0.02
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (164 bp):
TGGTTTAAAATTTTTAAAATTCATCAAATATTATCATTTAATTCACATTAAATCAGTTTTGAAAA
ATTCCTTTTATTTCATAAGTTTTTCATTTTTTCTTTAAAATTCTCTATTTCTAAAATATAGAGTT
TTCTACTTCATAAATATTTTCAGGGGATTTTTCT
Found at i:136952 original size:167 final size:162
Alignment explanation
Indices: 136766--137213 Score: 497
Period size: 167 Copynumber: 2.7 Consensus size: 162
136756 TGAAAATTTC
* *
136766 CTTTTATTTCATAAGTTTTTCATTTTTT-TCTTAAAATTCTCATGTTTCTAAAATACAGAGTTTT
1 CTTTTATTTCATAAGTTTTTCATTTTTTCT-TTAAAATTCTC-TATTTCTAAAATATAGAGTTTT
*
136830 CTACTTCATAAATATTTTCATGGGGATTTTTCTTGGTTTATAATTTTTAAATTTCATCAAATAAA
64 CTACTTCATAAATATTTTCA-GGGGATTTTTCTTGGTTTAAAATTTTTAAATTT-ATCAAATAAA
* **
136895 ATCATTTAATTCACATTAAATTGGTTTTAAAAAAATT
127 ATCATTTAATTCACAGTAAA-TCATTTTAAAAAAATT
* * *
136932 CTTTTTATTTCA-AGAGTTTTTCATTTTTTCTTTGAAATTCCTCTAATTT-TGAAATATAGAATT
1 C-TTTTATTTCATA-AGTTTTTCATTTTTTCTTTAAAATT-CTCT-ATTTCTAAAATATAGAGTT
* * * * *
136995 TTCTACTCCGTAAATATTTTCGAGGAGATTTTTTTTGGTTTAAAATTTTTAAAATTTATCAAATG
62 TTCTACTTCATAAATATTTTC-AGGGGATTTTTCTTGGTTTAAAATTTTT-AAATTTATCAAATA
** * **
137060 TTATCATTTAATTCATAGTAAATCATTTTTGAAAAATT
125 AAATCATTTAATTCACAGTAAATCATTTTAAAAAAATT
* * * **
137098 CATTTATTTTCATAAGTTTTTCATTTTTTCTTTGAAAATTCACTATTTCTAAAAAATTTAGTTTT
1 CTTTTA-TTTCATAAGTTTTTCATTTTTTCTTT-AAAATTCTCTATTTCTAAAATATAGAGTTTT
* * **
137163 CTATTTCATAAATGTTTTCAGGGAGATTTTTCTCAGTTTAAAATTTTTAAA
64 CTACTTCATAAATATTTTCAGGG-GATTTTTCTTGGTTTAAAATTTTTAAA
137214 ATTAATCTAA
Statistics
Matches: 235, Mismatches: 35, Indels: 25
0.80 0.12 0.08
Matches are distributed among these distances:
165 14 0.06
166 89 0.38
167 118 0.50
168 14 0.06
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.50
Consensus pattern (162 bp):
CTTTTATTTCATAAGTTTTTCATTTTTTCTTTAAAATTCTCTATTTCTAAAATATAGAGTTTTCT
ACTTCATAAATATTTTCAGGGGATTTTTCTTGGTTTAAAATTTTTAAATTTATCAAATAAAATCA
TTTAATTCACAGTAAATCATTTTAAAAAAATT
Found at i:137125 original size:333 final size:331
Alignment explanation
Indices: 136591--137213 Score: 767
Period size: 333 Copynumber: 1.9 Consensus size: 331
136581 AATCAATTTA
* * *
136591 AAAAAAATTCATTTTATTCCATGAGTTTTTTATTTTCTTTTGGAATTCCTCCTATTTTCAAAATA
1 AAAAAAATTCATTTTATTCCAAGAGTTTTTCATTTTCTTTTGAAATTCCTCCTATTTTCAAAATA
* * *
136656 CGGAACTTTCTTCTCCGTAATTTTTTTGGGAGCATTTTTAGTGGTTTAAAATTTATAAAATTCAT
66 C-GAACTTTCTACTCCGTAATATTTTCGGGAGCATTTTTAGTGGTTTAAAATTTATAAAATTCAT
* * * * *
136721 AAAATATTATTACTTAATCACCATTTAATCAGTTTTGAAAATTTCCTTTTATTTCATAAGTTTTT
130 AAAATATTATCACTTAATCACCAGTAAATCAGTTTTGAAAAATTCATTTTATTTCATAAGTTTTT
* * *
136786 CATTTTTT-TCTT-AAAATTCTCATGTTTCTAAAATACAGAGTTTTCTACTTCATAAATATTTTC
195 CATTTTTTCT-TTGAAAATTCAC-TATTTCTAAAAAACAGAGTTTTCTACTTCATAAATATTTTC
** *
136849 ATGGG-GATTTTTCTTGGTTTATAATTTTTAAATTTCATCAAATAAAATCATTTAATTCACATTA
258 A-GGGAGATTTTTCTCAGTTTAAAATTTTTAAATTTCATCAAATAAAATCATTTAATTCACATTA
136913 AATTGGTTTT
322 AATTGGTTTT
* * * *
136923 AAAAAAATTCTTTTTATTTCAAGAGTTTTTCATTTTTTCTTTGAAATTCCT-CTAATTTTGAAAT
1 AAAAAAATTCATTTTATTCCAAGAGTTTTTCATTTTCT-TTTGAAATTCCTCCT-ATTTTCAAA-
* ** *
136987 ATA-GAATTTTCTACTCCGTAAATATTTTCGAGGAG-ATTTTTTTTGGTTTAAAATTTTTAAAAT
63 ATACGAACTTTCTACTCCGT-AATATTTTCG-GGAGCATTTTTAGTGGTTTAAAATTTATAAAAT
* * * * * *
137050 TTATCAAATGTTATCATTTAATTCA-TAGTAAATCATTTTTGAAAAATTCA-TTTATTTTCATAA
126 TCATAAAATATTATCACTTAA-TCACCAGTAAATCAGTTTTGAAAAATTCATTTTA-TTTCATAA
*** * *
137113 GTTTTTCATTTTTTCTTTGAAAATTCACTATTTCTAAAAAATTTAGTTTTCTATTTCATAAATGT
189 GTTTTTCATTTTTTCTTTGAAAATTCACTATTTCTAAAAAACAGAGTTTTCTACTTCATAAATAT
137178 TTTCAGGGAGATTTTTCTCAGTTTAAAATTTTTAAA
254 TTTCAGGGAGATTTTTCTCAGTTTAAAATTTTTAAA
137214 ATTAATCTAA
Statistics
Matches: 245, Mismatches: 36, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
332 56 0.23
333 170 0.69
334 19 0.08
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.49
Consensus pattern (331 bp):
AAAAAAATTCATTTTATTCCAAGAGTTTTTCATTTTCTTTTGAAATTCCTCCTATTTTCAAAATA
CGAACTTTCTACTCCGTAATATTTTCGGGAGCATTTTTAGTGGTTTAAAATTTATAAAATTCATA
AAATATTATCACTTAATCACCAGTAAATCAGTTTTGAAAAATTCATTTTATTTCATAAGTTTTTC
ATTTTTTCTTTGAAAATTCACTATTTCTAAAAAACAGAGTTTTCTACTTCATAAATATTTTCAGG
GAGATTTTTCTCAGTTTAAAATTTTTAAATTTCATCAAATAAAATCATTTAATTCACATTAAATT
GGTTTT
Found at i:141159 original size:155 final size:155
Alignment explanation
Indices: 140810--141167 Score: 379
Period size: 155 Copynumber: 2.3 Consensus size: 155
140800 ATTATTACTT
* *
140810 ATCATTTTTAAGTCCTTTA-CAGTTAGCGAGATACTT-TCATGTCGAAGGTATACCCACAAGGGC
1 ATCATTTTTAAGTCCTTTAGGAG-TAG-GAGACACTTCT-ATGTCGAA-GTATACCCACAAGGGC
* * * * * * *
140873 ATTTTTGTAATTTTATACAACTGAGTCTTGGGTTGTCACTGGGTTCGTTTTTATGCCTAAGGTGG
62 ATTTTTGTAATTTTATAAAACTGAGTCTTAGGTTGTCACCGAGTCCGTTTTTATGCCTAAAGTGA
* * *
140938 GTATTTAAGATAGGTTCATCCTATCTATA
127 GTATTTAAGATAAGTTCACCCCATCTATA
* * * * * * *
140967 ATCTTTTTTAAGTCCTTTAGGGGTATCGAG-CATTTCTATGTCGAAGTATACCCATAGGGGTATT
1 ATCATTTTTAAGTCCTTTAGGAGTA-GGAGACACTTCTATGTCGAAGTATACCCACAAGGGCATT
* *
141031 TTTGTAATTTTTTCAAAA-TCGAGTCTTAGGTTTTCACCGAGTCCG-TTTTATG-CTAAAAGTGA
65 TTTGTAATTTTAT-AAAACT-GAGTCTTAGGTTGTCACCGAGTCCGTTTTTATGCCT-AAAGTGA
141093 GTATTT-AGAATAAGTTCACCCCATCTATA
127 GTATTTAAG-ATAAGTTCACCCCATCTATA
* *
141122 ATCATTTTTAAGTCTTTTAGGAGTAGGAGACACTTCTATGTTGAAG
1 ATCATTTTTAAGTCCTTTAGGAGTAGGAGACACTTCTATGTCGAAG
141168 GTATTCCCTA
Statistics
Matches: 166, Mismatches: 27, Indels: 18
0.79 0.13 0.09
Matches are distributed among these distances:
154 7 0.04
155 100 0.60
156 34 0.20
157 24 0.14
158 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (155 bp):
ATCATTTTTAAGTCCTTTAGGAGTAGGAGACACTTCTATGTCGAAGTATACCCACAAGGGCATTT
TTGTAATTTTATAAAACTGAGTCTTAGGTTGTCACCGAGTCCGTTTTTATGCCTAAAGTGAGTAT
TTAAGATAAGTTCACCCCATCTATA
Found at i:141235 original size:155 final size:151
Alignment explanation
Indices: 141076--141353 Score: 319
Period size: 155 Copynumber: 1.8 Consensus size: 151
141066 ACCGAGTCCG
* *
141076 TTTTATGCTAAAAG-TGAGTATTTAGAAT-AAGTTCACCCCATCTATAATCATTTTTAAGTCTTT
1 TTTTATGCTAAAAGTTG-GTAATTAGAATCAA-TTCACCCCATCTATAATCATTTTTAAGTCCTT
*
141139 TAGGAGTAGGAGACACTTCTATGTTGAAGGTATTCCCTAGGA-ACATTTTCATAATTTTCTAGAA
64 T-GG-GTAGGAGACACTTCTATGTCGAAGGTA--CCCTAGGAGACATTTTCATAATTTT-TAGAA
141203 CTAAGTCCTAAGTTATCATCGGGTCTAC
124 CTAAGTCCTAAGTTATCATCGGGTCTAC
* * * * ** *
141231 TTTTATGTTGAAGGTTGGTAATTAGGATCAATTCACCTTATCTATAATCGTTTTTAAGTCCTTTG
1 TTTTATGCTAAAAGTTGGTAATTAGAATCAATTCACCCCATCTATAATCATTTTTAAGTCCTTTG
** ** * **
141296 GGTATTAGGTACTTCTATGTCGAAGGTACCCTTGGAGGTATTTTCATAATTTTTAGAA
66 GGTAGGAGACACTTCTATGTCGAAGGTACCCTAGGAGACATTTTCATAATTTTTAGAA
141354 TCGAGTCCTA
Statistics
Matches: 103, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
151 12 0.12
152 14 0.14
153 22 0.21
154 2 0.02
155 49 0.48
156 4 0.04
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (151 bp):
TTTTATGCTAAAAGTTGGTAATTAGAATCAATTCACCCCATCTATAATCATTTTTAAGTCCTTTG
GGTAGGAGACACTTCTATGTCGAAGGTACCCTAGGAGACATTTTCATAATTTTTAGAACTAAGTC
CTAAGTTATCATCGGGTCTAC
Found at i:142937 original size:16 final size:16
Alignment explanation
Indices: 142913--142944 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
142903 ATGGATAGAA
142913 AAAAGATATTTTCTAT
1 AAAAGATATTTTCTAT
*
142929 AAAATATATTTTCTAT
1 AAAAGATATTTTCTAT
142945 CTTTCAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (16 bp):
AAAAGATATTTTCTAT
Found at i:146505 original size:2 final size:2
Alignment explanation
Indices: 146470--146495 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
146460 GAACAAAATA
146470 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
146496 GGCATATATA
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:146668 original size:16 final size:17
Alignment explanation
Indices: 146647--146678 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
146637 ACATATATCT
146647 AAAAATA-AAATTTAAC
1 AAAAATATAAATTTAAC
146663 AAAAATATAAATTTAA
1 AAAAATATAAATTTAA
146679 TAGCGTACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAATATAAATTTAAC
Found at i:152127 original size:560 final size:560
Alignment explanation
Indices: 151068--152187 Score: 2222
Period size: 560 Copynumber: 2.0 Consensus size: 560
151058 AGTGAGTAGA
151068 CAACCAAACCATCCTTAAAATTATATCAAAATTCTACATACTCAAAGCATGCAAGTCAGCTACCA
1 CAACCAAACCATCCTTAAAATTATATCAAAATTCTACATACTCAAAGCATGCAAGTCAGCTACCA
151133 ATTCCTTATCTTTAATTTATATGACACACATTCTACAAATTTGATTAGACAGAAGTTGCCATTTA
66 ATTCCTTATCTTTAATTTATATGACACACATTCTACAAATTTGATTAGACAGAAGTTGCCATTTA
151198 GTAGATGTATCAACATATAATTCATATTTTAAAGGTGTACAAGGCAAAGTAGACTTTTGAACATA
131 GTAGATGTATCAACATATAATTCATATTTTAAAGGTGTACAAGGCAAAGTAGACTTTTGAACATA
151263 AATAGACGTAATAAAAGATTGCGAAGCACTAGTATCAAATAAAACATAAGCATAAATAGTGGCAA
196 AATAGACGTAATAAAAGATTGCGAAGCACTAGTATCAAATAAAACATAAGCATAAATAGTGGCAA
*
151328 ATGGTAGGATACCTGAAATAATATCGTTGGATGCTTCAGCATCCTACTAGGTTAAAGCAAGCCAA
261 ATGGTAGGATACCTGAAATAATAGCGTTGGATGCTTCAGCATCCTACTAGGTTAAAGCAAGCCAA
151393 CGACCTTGGGTTCGAGGTCTTCATCTTCTTTGGGGTCCAGATGAAGGTGTCTGTGTAGTATGAAA
326 CGACCTTGGGTTCGAGGTCTTCATCTTCTTTGGGGTCCAGATGAAGGTGTCTGTGTAGTATGAAA
151458 AGCCTGATTTGGTTGCATCTTTTGAACGACTGGTGGTTCAAGAGCTCGAAAGTTCTAAGGCTGCT
391 AGCCTGATTTGGTTGCATCTTTTGAACGACTGGTGGTTCAAGAGCTCGAAAGTTCTAAGGCTGCT
151523 GCACTTATTTTGAATCTTAAGAATTTAAAGGGCAATCAGCAATATGATGACTTAACTGGCCACAT
456 GCACTTATTTTGAATCTTAAGAATTTAAAGGGCAATCAGCAATATGATGACTTAACTGGCCACAT
151588 ATAAAACACACTCCAATGACATGCCTATAATCAGTGACTC
521 ATAAAACACACTCCAATGACATGCCTATAATCAGTGACTC
151628 CAACCAAACCATCCTTAAAATTATATCAAAATTCTACATACTCAAAGCATGCAAGTCAGCTACCA
1 CAACCAAACCATCCTTAAAATTATATCAAAATTCTACATACTCAAAGCATGCAAGTCAGCTACCA
*
151693 ATTCCTTATCTTTAATTTATATGACACACATTCTACAAATTTGATTAGACAGAAGTTTCCATTTA
66 ATTCCTTATCTTTAATTTATATGACACACATTCTACAAATTTGATTAGACAGAAGTTGCCATTTA
151758 GTAGATGTATCAACATATAATTCATATTTTAAAGGTGTACAAGGCAAAGTAGACTTTTGAACATA
131 GTAGATGTATCAACATATAATTCATATTTTAAAGGTGTACAAGGCAAAGTAGACTTTTGAACATA
151823 AATAGACGTAATAAAAGATTGCGAAGCACTAGTATCAAATAAAACATAAGCATAAATAGTGGCAA
196 AATAGACGTAATAAAAGATTGCGAAGCACTAGTATCAAATAAAACATAAGCATAAATAGTGGCAA
151888 ATGGTAGGATACCTGAAATAATAGCGTTGGATGCTTCAGCATCCTACTAGGTTAAAGCAAGCCAA
261 ATGGTAGGATACCTGAAATAATAGCGTTGGATGCTTCAGCATCCTACTAGGTTAAAGCAAGCCAA
151953 CGACCTTGGGTTCGAGGTCTTCATCTTCTTTGGGGTCCAGATGAAGGTGTCTGTGTAGTATGAAA
326 CGACCTTGGGTTCGAGGTCTTCATCTTCTTTGGGGTCCAGATGAAGGTGTCTGTGTAGTATGAAA
152018 AGCCTGATTTGGTTGCATCTTTTGAACGACTGGTGGTTCAAGAGCTCGAAAGTTCTAAGGCTGCT
391 AGCCTGATTTGGTTGCATCTTTTGAACGACTGGTGGTTCAAGAGCTCGAAAGTTCTAAGGCTGCT
152083 GCACTTATTTTGAATCTTAAGAATTTAAAGGGCAATCAGCAATATGATGACTTAACTGGCCACAT
456 GCACTTATTTTGAATCTTAAGAATTTAAAGGGCAATCAGCAATATGATGACTTAACTGGCCACAT
152148 ATAAAACACACTCCAATGACATGCCTATAATCAGTGACTC
521 ATAAAACACACTCCAATGACATGCCTATAATCAGTGACTC
152188 AATGTCCTCA
Statistics
Matches: 558, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
560 558 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (560 bp):
CAACCAAACCATCCTTAAAATTATATCAAAATTCTACATACTCAAAGCATGCAAGTCAGCTACCA
ATTCCTTATCTTTAATTTATATGACACACATTCTACAAATTTGATTAGACAGAAGTTGCCATTTA
GTAGATGTATCAACATATAATTCATATTTTAAAGGTGTACAAGGCAAAGTAGACTTTTGAACATA
AATAGACGTAATAAAAGATTGCGAAGCACTAGTATCAAATAAAACATAAGCATAAATAGTGGCAA
ATGGTAGGATACCTGAAATAATAGCGTTGGATGCTTCAGCATCCTACTAGGTTAAAGCAAGCCAA
CGACCTTGGGTTCGAGGTCTTCATCTTCTTTGGGGTCCAGATGAAGGTGTCTGTGTAGTATGAAA
AGCCTGATTTGGTTGCATCTTTTGAACGACTGGTGGTTCAAGAGCTCGAAAGTTCTAAGGCTGCT
GCACTTATTTTGAATCTTAAGAATTTAAAGGGCAATCAGCAATATGATGACTTAACTGGCCACAT
ATAAAACACACTCCAATGACATGCCTATAATCAGTGACTC
Found at i:154142 original size:36 final size:38
Alignment explanation
Indices: 154047--154152 Score: 101
Period size: 37 Copynumber: 2.8 Consensus size: 38
154037 GGCTTGATTT
* * * * * * *
154047 GAAATAAAAATTACTATTCTTAACCAGTGACATGGTTC
1 GAAACAAAAACTACTACTCTTAGCTAGTGGCATAGTTC
* *
154085 GAAACAAAAACTACTATTCTTA-CTGGTGGCATAGTTC
1 GAAACAAAAACTACTACTCTTAGCTAGTGGCATAGTTC
154122 G-AACAAAAA-TCACTACTCTTAGCTAGTGGCA
1 GAAACAAAAACT-ACTACTCTTAGCTAGTGGCA
154153 CGATTCAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
35 1 0.02
36 17 0.29
37 20 0.34
38 20 0.34
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (38 bp):
GAAACAAAAACTACTACTCTTAGCTAGTGGCATAGTTC
Found at i:154151 original size:37 final size:38
Alignment explanation
Indices: 153973--154152 Score: 179
Period size: 38 Copynumber: 4.8 Consensus size: 38
153963 AAAAGCTGTG
* * * *
153973 AACAAAAAGCACTATTCTAAACTAGTGGTATGGCTCGA
1 AACAAAAATCACTATTCTTAACTAGTGGCATGGTTCGA
* * *
154011 AACAAAAATCACTATT-TTAAACTAGTGGCTTGATTTGA
1 AACAAAAATCACTATTCTT-AACTAGTGGCATGGTTCGA
* * * *
154049 AATAAAAATTACTATTCTTAACCAGTGACATGGTTCGA
1 AACAAAAATCACTATTCTTAACTAGTGGCATGGTTCGA
* *
154087 AACAAAAA-CTACTATTCTT-ACTGGTGGCATAGTTCG-
1 AACAAAAATC-ACTATTCTTAACTAGTGGCATGGTTCGA
* *
154123 AACAAAAATCACTACTCTTAGCTAGTGGCA
1 AACAAAAATCACTATTCTTAACTAGTGGCA
154153 CGATTCAAAA
Statistics
Matches: 114, Mismatches: 23, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
36 16 0.14
37 23 0.20
38 73 0.64
39 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (38 bp):
AACAAAAATCACTATTCTTAACTAGTGGCATGGTTCGA
Found at i:166874 original size:18 final size:17
Alignment explanation
Indices: 166853--166896 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
166843 AAATCTTAAC
166853 AAAAAAAATTAAAAAATT
1 AAAAAAAATTAAAAAA-T
* *
166871 AAAAAAATTTTAAAAAT
1 AAAAAAAATTAAAAAAT
166888 AAAACAAAA
1 AAAA-AAAA
166897 AAATCAAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAAAAAATTAAAAAAT
Found at i:168496 original size:132 final size:129
Alignment explanation
Indices: 168308--168802 Score: 661
Period size: 132 Copynumber: 3.8 Consensus size: 129
168298 TTCATTTATA
* *
168308 TTTGACATATGGTTACCACCCTGGTCAAACTCTTCAT-ATTTCGGTCTAACGTATGGTTACCACC
1 TTTGACATATGGTTACCACCCTAGTCAAACTCTTC-TCATTTCGGTCTGACGTATGGTTACCACC
* * *
168372 CTGGTCAGATTCTTTTCATTATGATTTGATGTATGGTTACCACCCTGGTCAAATCTATCTTCTTC
65 CTAGTCAGATTCTTTTCATTCTGATTTGACGTATGGTTACCACCCTGGTCAAATCTA-CTTCTTC
168437 AT
129 -T
* * * * *
168439 GTTTGACATATGGTTACCACCCTGGTCAAACTCTCCTCATTTTGGTTTGACGCATGGTTACCACC
1 -TTTGACATATGGTTACCACCCTAGTCAAACTCTTCTCATTTCGGTCTGACGTATGGTTACCACC
* * * * * * *
168504 TTGGTCAGATTCTTTTCATTCTAATTTGACGTATGCTTACTACCCTGGTCAAATCTGCCTCCTTC
65 CTAGTCAGATTCTTTTCATTCTGATTTGACGTATGGTTACCACCCTGGTCAAATCT-ACTTCTTC
168569 -
129 T
* * * *
168569 CTTGACGTATGGTTACCACCCTAGTCAAACTCTTCTCATTTCGATCTGACATATGGTTACCACCC
1 TTTGACATATGGTTACCACCCTAGTCAAACTCTTCTCATTTCGGTCTGACGTATGGTTACCACCC
* * *
168634 TAGTCAGATTCTTTTCATTCTGATTTGATGTATGGTTACCACCTTGGTCAAATCTACCTCATTCT
66 TAGTCAGATTCTTTTCATTCTGATTTGACGTATGGTTACCACCCTGGTCAAATCTACTTC-TTC-
168699 T
129 T
* *
168700 ATTTGACGTATGGTTACCACCCTAGTCAAACTCTTCTCATTTCAGTCTGACGTATGGTTACCACC
1 -TTTGACATATGGTTACCACCCTAGTCAAACTCTTCTCATTTCGGTCTGACGTATGGTTACCACC
*
168765 CTAGTCAGATTCTTTTCATTCTGATTTGACATATGGTT
65 CTAGTCAGATTCTTTTCATTCTGATTTGACGTATGGTT
168803 CTGCCCTAGT
Statistics
Matches: 319, Mismatches: 38, Indels: 12
0.86 0.10 0.03
Matches are distributed among these distances:
128 2 0.01
129 107 0.34
131 1 0.00
132 209 0.66
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.38
Consensus pattern (129 bp):
TTTGACATATGGTTACCACCCTAGTCAAACTCTTCTCATTTCGGTCTGACGTATGGTTACCACCC
TAGTCAGATTCTTTTCATTCTGATTTGACGTATGGTTACCACCCTGGTCAAATCTACTTCTTCT
Found at i:168824 original size:44 final size:45
Alignment explanation
Indices: 168244--168824 Score: 370
Period size: 44 Copynumber: 13.3 Consensus size: 45
168234 TTTGCCTAAC
* * * * * *
168244 CAAATTTCTTTTCCTTCTTG-TTTAAGGTATGGTTACTACCCTGGT
1 CAAACTTCTTTTCATTC-TGATTTGACGTATGGTTACCACCCTAGT
* * * * *
168289 -TAAGTTCTTTTCATT-TATATTTGACATATGGTTACCACCCTGGT
1 CAAACTTCTTTTCATTCT-GATTTGACGTATGGTTACCACCCTAGT
* * * * *
168333 CAAAC-TC--TTCATATTTCGGTCTAACGTATGGTTACCACCCTGGT
1 CAAACTTCTTTTCAT-TCT-GATTTGACGTATGGTTACCACCCTAGT
* * * *
168377 CAGA-TTCTTTTCATTATGATTTGATGTATGGTTACCACCCTGGT
1 CAAACTTCTTTTCATTCTGATTTGACGTATGGTTACCACCCTAGT
* *
168421 CAAA--TCTATCTTC-TTCATG-TTTGACATATGGTTACCACCCTGGT
1 CAAACTTCT-T-TTCATTC-TGATTTGACGTATGGTTACCACCCTAGT
** * * * * *
168465 CAAAC-TCTCCTCATTTTGGTTTGACGCATGGTTACCACCTTGGT
1 CAAACTTCTTTTCATTCTGATTTGACGTATGGTTACCACCCTAGT
* * * * *
168509 CAGA-TTCTTTTCATTCTAATTTGACGTATGCTTACTACCCTGGT
1 CAAACTTCTTTTCATTCTGATTTGACGTATGGTTACCACCCTAGT
** * *
168553 CAAA--TCTGCCTCCTTC---CTTGACGTATGGTTACCACCCTAGT
1 CAAACTTCT-TTTCATTCTGATTTGACGTATGGTTACCACCCTAGT
* * *
168594 CAAAC-TCTTCTCATT-TCGATCTGACATATGGTTACCACCCTAGT
1 CAAACTTCTTTTCATTCT-GATTTGACGTATGGTTACCACCCTAGT
* * * *
168638 CAGA-TTCTTTTCATTCTGATTTGATGTATGGTTACCACCTTGGT
1 CAAACTTCTTTTCATTCTGATTTGACGTATGGTTACCACCCTAGT
** *
168682 CAAA--TCTACCTCATTCTTATTTGACGTATGGTTACCACCCTAGT
1 CAAACTTCT-TTTCATTCTGATTTGACGTATGGTTACCACCCTAGT
* * *
168726 CAAAC-TCTTCTCATT-TCAGTCTGACGTATGGTTACCACCCTAGT
1 CAAACTTCTTTTCATTCTGA-TTTGACGTATGGTTACCACCCTAGT
* * **
168770 CAGA-TTCTTTTCATTCTGATTTGACATATGGTT-CTGCCCTAGT
1 CAAACTTCTTTTCATTCTGATTTGACGTATGGTTACCACCCTAGT
*
168813 CAAACTCCTTTT
1 CAAACTTCTTTT
168825 ATTTTTTGTT
Statistics
Matches: 426, Mismatches: 81, Indels: 59
0.75 0.14 0.10
Matches are distributed among these distances:
41 30 0.07
42 9 0.02
43 27 0.06
44 337 0.79
45 18 0.04
46 5 0.01
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.40
Consensus pattern (45 bp):
CAAACTTCTTTTCATTCTGATTTGACGTATGGTTACCACCCTAGT
Found at i:168872 original size:132 final size:132
Alignment explanation
Indices: 168308--168873 Score: 625
Period size: 132 Copynumber: 4.3 Consensus size: 132
168298 TTCATTTATA
*
168308 TTTGACATATGGTTACCACCCTGGTCAAACTC-TTCATATTTCGGTCTAACGTATGGTTACCACC
1 TTTGACATATGGTTACCACCCTGGTCAAACTCTTTC--ATTTCGGTCTGACGTATGGTTACCACC
* * * *
168372 CTGGTCAGATTCTTTTCATTATGATTTGATGTATGGTTACCACCCTGGTCAAATCTA--TCTTCT
64 CTAGTCAGATTCTTTTCATTCTGATTTGACGTATGGTTACCACCCTGGTCAAATCTACCTCAT-T
*
168435 TCATG
128 TCTTG
* * * * *
168440 TTTGACATATGGTTACCACCCTGGTCAAACTCTCCTCATTTTGGTTTGACGCATGGTTACCACCT
1 TTTGACATATGGTTACCACCCTGGTCAAACTCT-TTCATTTCGGTCTGACGTATGGTTACCACCC
* * * * *
168505 TGGTCAGATTCTTTTCATTCTAATTTGACGTATGCTTACTACCCTGGTCAAATCTGCCTC----C
65 TAGTCAGATTCTTTTCATTCTGATTTGACGTATGGTTACCACCCTGGTCAAATCTACCTCATTTC
*
168566 TTC
130 TTG
* * * * *
168569 CTTGACGTATGGTTACCACCCTAGTCAAACTCTTCTCATTTCGATCTGACATATGGTTACCACCC
1 TTTGACATATGGTTACCACCCTGGTCAAACTCTT-TCATTTCGGTCTGACGTATGGTTACCACCC
* *
168634 TAGTCAGATTCTTTTCATTCTGATTTGATGTATGGTTACCACCTTGGTCAAATCTACCTCA-TTC
65 TAGTCAGATTCTTTTCATTCTGATTTGACGTATGGTTACCACCCTGGTCAAATCTACCTCATTTC
*
168698 TTA
130 TTG
* * *
168701 TTTGACGTATGGTTACCACCCTAGTCAAACTCTTCTCATTTCAGTCTGACGTATGGTTACCACCC
1 TTTGACATATGGTTACCACCCTGGTCAAACTCTT-TCATTTCGGTCTGACGTATGGTTACCACCC
* ** * *
168766 TAGTCAGATTCTTTTCATTCTGATTTGACATATGGTT-CTGCCCTAGTCAAA-CT-CCTTTTATT
65 TAGTCAGATTCTTTTCATTCTGATTTGACGTATGGTTACCACCCTGGTCAAATCTACC--TCATT
*
168828 TTTTG
128 TCTTG
* * *
168833 TTTAACATGATGGTT-CTACCTTGGTCAAACTTCTTTCATTT
1 TTTGACAT-ATGGTTACCACCCTGGTCAAAC-TCTTTCATTT
168874 TTTATTTGAC
Statistics
Matches: 371, Mismatches: 50, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
129 111 0.30
130 2 0.01
131 12 0.03
132 232 0.63
133 10 0.03
134 4 0.01
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (132 bp):
TTTGACATATGGTTACCACCCTGGTCAAACTCTTTCATTTCGGTCTGACGTATGGTTACCACCCT
AGTCAGATTCTTTTCATTCTGATTTGACGTATGGTTACCACCCTGGTCAAATCTACCTCATTTCT
TG
Found at i:168920 original size:90 final size:89
Alignment explanation
Indices: 168753--168961 Score: 206
Period size: 90 Copynumber: 2.3 Consensus size: 89
168743 AGTCTGACGT
* * * * * *
168753 ATGGTTACCACCCTAGTCAGATTCTTTTCA-TTCTGATTTGACATATGGTTCTGCCCTAGTCAAA
1 ATGGTT-CTACCCTAGTCAAACTCCTTTCATTTTTTATTTGACATATGGTTCTGCCCTAGTCAAA
**
168817 CTCCTTTTATTTTTTGTTTAACATG
65 CTCCTTTTATTTTTCATTTAACATG
* * * * * *
168842 ATGGTTCTACCTTGGTCAAACTTCTTTCATTTTTTATTTGACGTGATGGTTTTGCCCTGGTCAAA
1 ATGGTTCTACCCTAGTCAAACTCCTTTCATTTTTTATTTGACAT-ATGGTTCTGCCCTAGTCAAA
* * **
168907 CTTCTTTCT-TTTTTCATTTGATGTG
65 CTCCTTT-TATTTTTCATTTAACATG
*
168932 ATGGTTCTGCCCTAGTCAAACTCCTTTCAT
1 ATGGTTCTACCCTAGTCAAACTCCTTTCAT
168962 CCACGTTTCA
Statistics
Matches: 95, Mismatches: 22, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
88 16 0.17
89 17 0.18
90 61 0.64
91 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (89 bp):
ATGGTTCTACCCTAGTCAAACTCCTTTCATTTTTTATTTGACATATGGTTCTGCCCTAGTCAAAC
TCCTTTTATTTTTCATTTAACATG
Found at i:168959 original size:45 final size:44
Alignment explanation
Indices: 168788--168959 Score: 193
Period size: 45 Copynumber: 3.9 Consensus size: 44
168778 TTTCATTCTG
* *
168788 ATTTGACAT-ATGGTTCTGCCCTAGTCAAACTCCTTTTATTTTTT
1 ATTTGACGTGATGGTTCTGCCCTAGTCAAACTCC-TTTCTTTTTT
* * * * * * *
168832 GTTTAACATGATGGTTCTACCTTGGTCAAACTTCTTTCATTTTTT
1 ATTTGACGTGATGGTTCTGCCCTAGTCAAACTCCTTTC-TTTTTT
* * *
168877 ATTTGACGTGATGGTTTTGCCCTGGTCAAACTTCTTTCTTTTTT
1 ATTTGACGTGATGGTTCTGCCCTAGTCAAACTCCTTTCTTTTTT
*
168921 CATTTGATGTGATGGTTCTGCCCTAGTCAAACTCCTTTC
1 -ATTTGACGTGATGGTTCTGCCCTAGTCAAACTCCTTTC
168960 ATCCACGTTT
Statistics
Matches: 108, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
44 16 0.15
45 92 0.85
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.47
Consensus pattern (44 bp):
ATTTGACGTGATGGTTCTGCCCTAGTCAAACTCCTTTCTTTTTT
Found at i:170567 original size:164 final size:164
Alignment explanation
Indices: 170123--170812 Score: 685
Period size: 165 Copynumber: 4.2 Consensus size: 164
170113 GGATTTCGGC
* * *
170123 TTTAAAATTTTGAAAATTCATCAAATATTATTATTTAATTAATATTAAATCA-TTTTC-AAGAAT
1 TTTAAAATTTTTAAATTTCATCAAATATTATTATTTAATTCATATTAAATCATTTTTCTAA-AAT
* * * * *
170186 TCATTTATTTTCGTAAATTTCTCAATTTTTTC-TTAAAATTTTCTTGTTTTT-AAAGTATAAAGT
65 TCATTCATTTTCATGAGTTTTTC-ATTTTTTCTTTAAAATTTTCTTGTTTTTGAAA-TATAAAGT
* *
170249 TTTCTACTCCA-TAAATATTTTTGGGGAGATTTTTATTGG
128 TTTCTACT-CAGTAAAT-TTTTTGGAG-GATTTTTCTTGG
* * * *
170288 TTTAAAAATTTTAAAATTT-ATCAAAAATTATTATATAATTCATATTAAATCATTTTTTTAAAAA
1 TTT-AAAATTTTTAAATTTCATCAAATATTATTATTTAATTCATATTAAATCATTTTTCT-AAAA
* * * * **
170352 TTCATTCATTTTCATTCA-TTTTTCATTTTTT-TCTTGAAATTCTCCTGTTTTTGAAATATGGAG
64 TTCATTCATTTTCA-TGAGTTTTTCATTTTTTCT-TTAAAATTTTCTTGTTTTTGAAATATAAAG
170415 TTTTCTACTCAGTAAATTTTTTGGAGGATTTTTCTTGG
127 TTTTCTACTCAGTAAATTTTTTGGAGGATTTTTCTTGG
* *
170453 TTTAAAATTTTTAAATTTCACCAAATATTATTATTTATTTCATATTAAATCATTTTTCTAAAATT
1 TTTAAAATTTTTAAATTTCATCAAATATTATTATTTAATTCATATTAAATCATTTTTCTAAAATT
* *
170518 CATTCATTTTCATGAGTTTTTCATTTTTTCTTTGAAATTTTCTTGTTTTTGAAATACAAAGTTTT
66 CATTCATTTTCATGAGTTTTTCATTTTTTCTTTAAAATTTTCTTGTTTTTGAAATATAAAGTTTT
*
170583 CTACTCCGTAAATTTTTTCTGGA-GATTTTTCTTGG
131 CTACTCAGTAAA-TTTTT-TGGAGGATTTTTCTTGG
** * * **
170618 TTTTTAATTTTTTAATTTCATCAAATATTATTATTT-ATT-TTATTAAATCAAGTTT-TAGAAAT
1 TTTAAAATTTTTAAATTTCATCAAATATTATTATTTAATTCATATTAAATCATTTTTCTA-AAAT
* * * * *
170680 TCATTCATTTTTATGAGTTTTTGAATATTTTTCTTTAAAATTCTCCTT-TTTTTCAAAAAATTAA
65 TCATTCATTTTCATGAGTTTTT-CAT-TTTTTCTTTAAAATT-TTCTTGTTTTT-GAAATA-TAA
* * * *
170744 A-TTTTCTATTTCA-TAAATATTTTTAAGG-GGTTTTTTCTCGA
125 AGTTTTCTA-CTCAGTAAAT-TTTTT--GGAGGATTTTTCTTGG
* *
170785 TTT-AAATTTTTAAAATTCATCTAATATT
1 TTTAAAATTTTTAAATTTCATCAAATATT
170813 GTCACTAAAT
Statistics
Matches: 446, Mismatches: 54, Indels: 49
0.81 0.10 0.09
Matches are distributed among these distances:
162 2 0.00
163 40 0.09
164 89 0.20
165 153 0.34
166 82 0.18
167 73 0.16
168 7 0.02
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.53
Consensus pattern (164 bp):
TTTAAAATTTTTAAATTTCATCAAATATTATTATTTAATTCATATTAAATCATTTTTCTAAAATT
CATTCATTTTCATGAGTTTTTCATTTTTTCTTTAAAATTTTCTTGTTTTTGAAATATAAAGTTTT
CTACTCAGTAAATTTTTTGGAGGATTTTTCTTGG
Found at i:170751 original size:330 final size:331
Alignment explanation
Indices: 170123--170812 Score: 803
Period size: 330 Copynumber: 2.1 Consensus size: 331
170113 GGATTTCGGC
*
170123 TTTAAAATTTTGAAAATTCATCAAATATTATTATTTAATTAATATTAAATCATTTTCAAGAATTC
1 TTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTAATATTAAATCATTTTCAAGAATTC
* * *
170188 ATTTATTTTCGTAAATTTCTCAATTTTTTCTTAAAATTTTCTTGTTTTTAAAGTATAAAGTTTTC
66 ATTCATTTTCATAAATTTCTCAATTTTTTCTTAAAATTTTCTTGTTTTTAAAGTACAAAGTTTTC
*
170253 TACTCCATAAATATTTTTGGGGAGATTTTTATTGGTTTAAAAATTTTAAAATTTATCAAAAATTA
131 TACTCCATAAATATTTTTCGGGAGATTTTTATTGGTTTAAAAATTTTAAAATTTATCAAAAATTA
** * *
170318 TTATATAATTCATATTAAATCATTTTTTTAAAAATTCATTCATTTTCATTCATTTTTCATTTTTT
196 TTATATAATTCATATTAAATCATAGTTTTAAAAATTCATTCATTTTCATTCATTTTTAATATTTT
* * * * *
170383 TCTTGAAATTCTCCTGTTTTTGAAATATGGAGTTTTCTA-CTCAGTAAAT-TTTTT-GGAGGATT
261 TCTTAAAATTCTCCTGTTTTTAAAAAATGAAATTTTCTATCTCA-TAAATATTTTTAGG-GGATT
* *
170445 TTTCTTGG
324 TTTCTCGA
* * * *
170453 TTTAAAATTTTTAAATTTCACCAAATATTATTATTTATTTCATATTAAATCATTTTTCTAA-AAT
1 TTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTAATATTAAATCA-TTTTC-AAGAAT
* * * *
170517 TCATTCATTTTCATGAGTTTTTC-ATTTTTTCTTTGAAATTTTCTTGTTTTTGAAA-TACAAAGT
64 TCATTCATTTTCATAAATTTCTCAATTTTTTC-TTAAAATTTTCTTGTTTTT-AAAGTACAAAGT
* * * ** **
170580 TTTCTACTCCGTAAAT-TTTTTCTGGAGATTTTTCTTGGTTT-TTAATTTTTTAATTTCATCAAA
127 TTTCTACTCCATAAATATTTTTCGGGAGATTTTTATTGGTTTAAAAATTTTAAAATTT-ATCAAA
* * * * * *
170643 TATTATTAT-TTATT-TTATTAAATCA-AGTTTTAGAAATTCATTCATTTTTA-TGAGTTTTTGA
191 AATTATTATATAATTCATATTAAATCATAGTTTTAAAAATTCATTCATTTTCATTCA-TTTTT-A
* * *
170704 ATATTTTTCTTTAAAATTCTCCTTTTTTTCAAAAAATTAAATTTTCTATTTCATAAATATTTTTA
254 ATATTTTTC-TTAAAATTCTCCTGTTTTT-AAAAAATGAAATTTTCTATCTCATAAATATTTTT-
*
170769 AGGGGTTTTTTCTCGA
316 AGGGGATTTTTCTCGA
*
170785 TTT-AAATTTTTAAAATTCATCTAATATT
1 TTTAAAATTTTTAAAATTCATCAAATATT
170813 GTCACTAAAT
Statistics
Matches: 303, Mismatches: 44, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
326 2 0.01
327 26 0.09
328 18 0.06
329 32 0.11
330 109 0.36
331 96 0.32
332 18 0.06
333 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.53
Consensus pattern (331 bp):
TTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTAATATTAAATCATTTTCAAGAATTC
ATTCATTTTCATAAATTTCTCAATTTTTTCTTAAAATTTTCTTGTTTTTAAAGTACAAAGTTTTC
TACTCCATAAATATTTTTCGGGAGATTTTTATTGGTTTAAAAATTTTAAAATTTATCAAAAATTA
TTATATAATTCATATTAAATCATAGTTTTAAAAATTCATTCATTTTCATTCATTTTTAATATTTT
TCTTAAAATTCTCCTGTTTTTAAAAAATGAAATTTTCTATCTCATAAATATTTTTAGGGGATTTT
TCTCGA
Found at i:170849 original size:331 final size:331
Alignment explanation
Indices: 170123--170850 Score: 742
Period size: 331 Copynumber: 2.2 Consensus size: 331
170113 GGATTTCGGC
* * * * * * * * *
170123 TTTAAAATTTTGAAAATTCATCAAATATTATTATTTAATTAATATTAAATCA-TTTTCAAGAATT
1 TTTAAAATTTTTAAAATTCACCAAATATTATCACTAAATTCACAGTAAATCAGTTTTCAAAAATT
* * *
170187 CATTTATTTTCGTAAATTTCTCAATTTTTTCTTAAAATTTTCTTGTTTTTAAAGTATAAAGTTTT
66 CATTCATTTTCATAAATTTCTCAATTTTTTCTTAAAATTTTCTTGTTTTTAAAGTACAAAGTTTT
*
170252 CTACTCCATAAATATTTTTGGGGAGATTTTTATTGGTTTAAAAATTTTAAAATTTATCAAAAATT
131 CTACTCCATAAATATTTTTCGGGAGATTTTTATTGGTTTAAAAATTTTAAAATTTATCAAAAATT
** * *
170317 ATTATATAATTCATATTAAATCATTTTTTTAAAAATTCATTCATTTTCATTCATTTTTCATTTTT
196 ATTATATAATTCATATTAAATCATAGTTTTAAAAATTCATTCATTTTCATTCATTTTTAATATTT
* * * * *
170382 TTCTTGAAATTCTCCTGTTTTTGAAATATGGAGTTTTCTACTCAGTAAATTTTTTGGAGGATTTT
261 TTCTTAAAATTCTCCTGTTTTTAAAAAATGAAATTTTCTACTCAGTAAATTTTTTGGAGGATTTT
* *
170447 TCTTGG
326 TCTCGA
* * * * * * * * *
170453 TTTAAAATTTTTAAATTTCACCAAATATTATTATTTATTTCATATTAAATCATTTTTCTAAAATT
1 TTTAAAATTTTTAAAATTCACCAAATATTATCACTAAATTCACAGTAAATCAGTTTTCAAAAATT
* * * *
170518 CATTCATTTTCATGAGTTTTTC-ATTTTTTCTTTGAAATTTTCTTGTTTTTGAAA-TACAAAGTT
66 CATTCATTTTCATAAATTTCTCAATTTTTTC-TTAAAATTTTCTTGTTTTT-AAAGTACAAAGTT
* * * ** ** *
170581 TTCTACTCCGTAAAT-TTTTTCTGGAGATTTTTCTTGGTTT-TTAATTTTTTAATTTCATCAAAT
129 TTCTACTCCATAAATATTTTTCGGGAGATTTTTATTGGTTTAAAAATTTTAAAATTT-ATCAAAA
* * * * *
170644 ATTATTAT-TTATT-TTATTAAATCA-AGTTTTAGAAATTCATTCATTTTTA-TGAGTTTTTGAA
193 ATTATTATATAATTCATATTAAATCATAGTTTTAAAAATTCATTCATTTTCATTCA-TTTTT-AA
* * *
170705 TATTTTTCTTTAAAATTCTCCTTTTTTTCAAAAAATTAAATTTTCTATTTCA-TAAATATTTTTA
256 TATTTTTC-TTAAAATTCTCCTGTTTTT-AAAAAATGAAATTTTCTA-CTCAGTAAAT-TTTTT-
*
170769 AGG-GGTTTTTTCTCGA
316 -GGAGGATTTTTCTCGA
* * * * *
170785 TTT-AAATTTTTAAAATTCATCTAATATTGTCACTAAATTCACAGTAAATTAGTTTTGAAAAATT
1 TTTAAAATTTTTAAAATTCACCAAATATTATCACTAAATTCACAGTAAATCAGTTTTCAAAAATT
170849 CA
66 CA
170851 CATTATTTCA
Statistics
Matches: 329, Mismatches: 57, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
326 2 0.01
327 26 0.08
328 18 0.05
329 32 0.10
330 109 0.33
331 124 0.38
332 16 0.05
333 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.52
Consensus pattern (331 bp):
TTTAAAATTTTTAAAATTCACCAAATATTATCACTAAATTCACAGTAAATCAGTTTTCAAAAATT
CATTCATTTTCATAAATTTCTCAATTTTTTCTTAAAATTTTCTTGTTTTTAAAGTACAAAGTTTT
CTACTCCATAAATATTTTTCGGGAGATTTTTATTGGTTTAAAAATTTTAAAATTTATCAAAAATT
ATTATATAATTCATATTAAATCATAGTTTTAAAAATTCATTCATTTTCATTCATTTTTAATATTT
TTCTTAAAATTCTCCTGTTTTTAAAAAATGAAATTTTCTACTCAGTAAATTTTTTGGAGGATTTT
TCTCGA
Found at i:171381 original size:9 final size:9
Alignment explanation
Indices: 171367--171392 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
171357 AAAGCGATAA
171367 AGAAAAAAG
1 AGAAAAAAG
171376 AGAAAAAAG
1 AGAAAAAAG
171385 AGAAAAAA
1 AGAAAAAA
171393 ATAAAGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (9 bp):
AGAAAAAAG
Found at i:171398 original size:23 final size:25
Alignment explanation
Indices: 171343--171399 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 25
171333 GATCAGCTGA
*
171343 AAAAGAAGAGAGAAAAAGCGATAAAG
1 AAAA-AAGAGAGAAAAAGAGATAAAG
171369 AAAAAAGAGA-AAAAAGAGA-AAA-
1 AAAAAAGAGAGAAAAAGAGATAAAG
171391 AAATAAAGA
1 AAA-AAAGA
171400 AATTCGCTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 3 0.10
23 8 0.28
24 8 0.28
25 6 0.21
26 4 0.14
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.04
Consensus pattern (25 bp):
AAAAAAGAGAGAAAAAGAGATAAAG
Found at i:172426 original size:9 final size:9
Alignment explanation
Indices: 172410--172439 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
172400 AACCAAAGTA
172410 AAATTAAAT
1 AAATTAAAT
*
172419 ATATTAAAT
1 AAATTAAAT
172428 AAATTAAAT
1 AAATTAAAT
172437 AAA
1 AAA
172440 AAATGAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AAATTAAAT
Found at i:172794 original size:150 final size:149
Alignment explanation
Indices: 172492--172870 Score: 512
Period size: 150 Copynumber: 2.5 Consensus size: 149
172482 TTTTTTGAAA
* * *
172492 TTTTCAATATTCC-ATGGGCATCCGTAGTGGT-ATAAAAGAT-CTAAAAACTTTTTGTACCTTTT
1 TTTT-AATATTCCTATGGGCATCCGTAGAGGTAAT-AAAG-TCCTAAAAACTTTTCGTATCTTTT
* * * * *
172554 CGAGCTTCCATTAAAGTACGAGATGAATTATAAAAAAAATAAAAATATAAATAATAATAAAGATT
63 CGGGCTTCCATTAAGGTACGAGATAAATTATAAAAAAAATAAAAAAATAAATAACAATAAAGATT
172619 TTTTTACATTAATAATTAAGGC
128 TTTTTACATTAATAATTAAGGC
* * * *
172641 TTTTAATATTCCTATAGGCATCCGTAGGGGTAATAAAGTCCTAAAAAATTTTCATATCTTTTCGG
1 TTTTAATATTCCTATGGGCATCCGTAGAGGTAATAAAGTCCTAAAAACTTTTCGTATCTTTTCGG
* * * * * *
172706 GCTTCTATTAAGGTACGAGATAAATTTTTTAAAACATTAAAAAAATAGATAACAATAAAGATTTT
66 GCTTCCATTAAGGTACGAGATAAA-TTATAAAAAAAATAAAAAAATAAATAACAATAAAGATTTT
**
172771 TTTATGTTAATAATTAAGGC
130 TTTACATTAATAATTAAGGC
*
172791 TTTTAATATTCCTATGGGCATCCGTAGAGGTAATAAAGTCCTAAAAACTTTTCGTATCTTTTTGG
1 TTTTAATATTCCTATGGGCATCCGTAGAGGTAATAAAGTCCTAAAAACTTTTCGTATCTTTTCGG
172856 GCTTCCATTAAGGTA
66 GCTTCCATTAAGGTA
172871 GAAATTATTT
Statistics
Matches: 201, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
148 9 0.04
149 65 0.32
150 127 0.63
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (149 bp):
TTTTAATATTCCTATGGGCATCCGTAGAGGTAATAAAGTCCTAAAAACTTTTCGTATCTTTTCGG
GCTTCCATTAAGGTACGAGATAAATTATAAAAAAAATAAAAAAATAAATAACAATAAAGATTTTT
TTACATTAATAATTAAGGC
Found at i:175023 original size:18 final size:18
Alignment explanation
Indices: 175000--175034 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
174990 CCGAAAGTCA
175000 TCAAAAT-TTTAGAAAAAC
1 TCAAAATATTTA-AAAAAC
175018 TCAAAATATTTAAAAAA
1 TCAAAATATTTAAAAAA
175035 AAGTATGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.60, C:0.09, G:0.03, T:0.29
Consensus pattern (18 bp):
TCAAAATATTTAAAAAAC
Found at i:175035 original size:19 final size:18
Alignment explanation
Indices: 175000--175035 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
174990 CCGAAAGTCA
*
175000 TCAAAATTTTAGAAAAAC
1 TCAAAATTTTAAAAAAAC
175018 TCAAAATATTTAAAAAAA
1 TCAAAAT-TTTAAAAAAA
175036 AGTATGAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.28
Consensus pattern (18 bp):
TCAAAATTTTAAAAAAAC
Found at i:180094 original size:20 final size:20
Alignment explanation
Indices: 180058--180105 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
180048 AATTTTTATT
180058 GATACAATAAGGCAATGTATC
1 GATAC-ATAAGGCAATGTATC
180079 GATACATAAGTG-AATGTATC
1 GATACATAAG-GCAATGTATC
180099 GATACAT
1 GATACAT
180106 GCCTAAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (20 bp):
GATACATAAGGCAATGTATC
Found at i:182715 original size:71 final size:73
Alignment explanation
Indices: 182631--182784 Score: 213
Period size: 73 Copynumber: 2.1 Consensus size: 73
182621 GTTCTTTCGA
*** *
182631 AGGGATACTCCAACCC-CATTTTT-TAAAATTGTCAATATCTAAATCTTATTTTGCCTAATTTAT
1 AGGGATACTCCAACCCTCATTTTTATAAAAAAATCAATATCTAAATCTTATTCTGCCTAATTTAT
182694 CATTCATC
66 CATTCATC
** *
182702 AGGGATACTCCAACCCTTTTTTTTATAAAAAAATCAATATTTAAATCTTATTCTGCCTAATTTAT
1 AGGGATACTCCAACCCTCATTTTTATAAAAAAATCAATATCTAAATCTTATTCTGCCTAATTTAT
*
182767 CATTCATT
66 CATTCATC
*
182775 GGGGATACTC
1 AGGGATACTC
182785 TAATCTCATT
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
71 16 0.22
72 5 0.07
73 51 0.71
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.40
Consensus pattern (73 bp):
AGGGATACTCCAACCCTCATTTTTATAAAAAAATCAATATCTAAATCTTATTCTGCCTAATTTAT
CATTCATC
Found at i:184601 original size:52 final size:52
Alignment explanation
Indices: 184544--184683 Score: 167
Period size: 52 Copynumber: 2.7 Consensus size: 52
184534 AATTGCCTGC
* * *
184544 ATGTATCAATACAATGAAAAATGTATAGATACATTTGGGTTAAAAAGCC-AGA
1 ATGTATCGATACAATGAAAAATGTATAGATACATTTGAGTCAAAAA-CCTAGA
* * *
184596 ATGTATCGATATAATGAATAATGTATCA-ATACATTTGAGTCAAAAACCTCGA
1 ATGTATCGATACAATGAAAAATGTAT-AGATACATTTGAGTCAAAAACCTAGA
* * *
184648 ATGTATCGATACAATAAAAAATGTATCGGTACATTT
1 ATGTATCGATACAATGAAAAATGTATAGATACATTT
184684 TCTTTCTAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
51 2 0.03
52 71 0.96
53 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (52 bp):
ATGTATCGATACAATGAAAAATGTATAGATACATTTGAGTCAAAAACCTAGA
Found at i:184765 original size:20 final size:20
Alignment explanation
Indices: 184742--184780 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
184732 TTCAAACATA
184742 TATCGATACATTCACTTATG
1 TATCGATACATTCACTTATG
184762 TATCGATACATTCACTTAT
1 TATCGATACATTCACTTAT
184781 TATATCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.41
Consensus pattern (20 bp):
TATCGATACATTCACTTATG
Found at i:190179 original size:21 final size:18
Alignment explanation
Indices: 190133--190166 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
190123 TTATGGAGAT
*
190133 AAGTAACTTTCTAACCAG
1 AAGTAACTTTCTAACAAG
190151 AA-TAACTTTCTAACAA
1 AAGTAACTTTCTAACAA
190167 AGCCAAGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (18 bp):
AAGTAACTTTCTAACAAG
Found at i:190476 original size:21 final size:21
Alignment explanation
Indices: 190406--190478 Score: 60
Period size: 21 Copynumber: 3.6 Consensus size: 21
190396 TACACTACTT
* *
190406 AATGTATCAATAAATTAGGCC
1 AATGTATCGATACATTAGGCC
* * * ***
190427 TATATATTGATACATTATATC
1 AATGTATCGATACATTAGGCC
190448 AA--TATCGATACATTAGGCC
1 AATGTATCGATACATTAGGCC
190467 AATGTATCGATA
1 AATGTATCGATA
190479 GGCTTAAATT
Statistics
Matches: 37, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
19 15 0.41
21 22 0.59
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (21 bp):
AATGTATCGATACATTAGGCC
Found at i:192994 original size:14 final size:13
Alignment explanation
Indices: 192975--193016 Score: 59
Period size: 12 Copynumber: 3.2 Consensus size: 13
192965 GGCAAGTGAG
192975 AAAAGAGTGAGAAA
1 AAAAGAG-GAGAAA
192989 AAAAGA-GAGAAA
1 AAAAGAGGAGAAA
*
193001 AAAAGAGAAGAAA
1 AAAAGAGGAGAAA
193014 AAA
1 AAA
193017 GAAAAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 12 0.46
13 8 0.31
14 6 0.23
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (13 bp):
AAAAGAGGAGAAA
Found at i:194052 original size:169 final size:170
Alignment explanation
Indices: 193772--194217 Score: 441
Period size: 169 Copynumber: 2.6 Consensus size: 170
193762 TTTTAATCAT
* *
193772 TTTTTCAGGATTTTAATATTCCTATGAGTATCCGTAGGGGTATAAAAGTCTTTAAAACTTTTCGT
1 TTTTTCAAGATTTTAATATTCCTATGAGTATCCGTAGGGGTATAAAAGTCTTTAAAACATTTCGT
* * * *
193837 ATCTTTTTGAGTTTCTATTAAGGTATGAAATGAAATTTTCAAAAATA-AAAAAAT-AAT-A-AAT
66 ATCCTTTCGAGTTTCCATTAAGGTACGAAATGAAATTTTCAAAAATAGAAAAAATAAATAATAAT
193898 AAATAAATATTATTTTATCACTAAATAAAAATTATTTTTTTAA
131 AAATAAATATTATTTTAT--CT-AATAAAAATTATTTTTTTAA
* * *
193941 TTTTTCAAGATTTTTGATATTCCTATG-GTTATCCGTAGGGTTATAAAA-TTTTTAAAACATTTC
1 TTTTTCAAGA-TTTTAATATTCCTATGAG-TATCCGTAGGGGTATAAAAGTCTTTAAAACATTTC
*
194004 GTATCCTTTCGA-TTCTCCATT-AGGATACGAAATGAAATTTTTAAAAATAGAAAAAATAAAATA
64 GTATCCTTTCGAGTT-TCCATTAAGG-TACGAAATGAAATTTTCAAAAATAGAAAAAAT-AAAT-
**** *
194067 AAATAATAAATAAATATTATTTTATCTAATAAAAATTATCACCTCAA
125 -AATAATAAATAAATATTATTTTATCTAATAAAAATTATTTTTTTAA
** * * *
194114 TTTTTCATA-ATTTCTAATATTTCC-ATTG-GTATCCGTAAAGGTATAAAAATGTTTAAAACTTT
1 TTTTTCA-AGATTT-TAATA-TTCCTA-TGAGTATCCGTAGGGGTATAAAAGTCTTTAAAACATT
** * * *
194176 TTTTATCTTTTCG-GTTCTCTATTAAGGTATGAAAT-AAATTTT
62 TCGTATCCTTTCGAGTT-TCCATTAAGGTACGAAATGAAATTTT
194218 TTGAAAATTA
Statistics
Matches: 233, Mismatches: 26, Indels: 32
0.80 0.09 0.11
Matches are distributed among these distances:
168 5 0.02
169 60 0.26
170 40 0.17
172 6 0.03
173 51 0.22
174 46 0.20
175 4 0.02
176 21 0.09
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.42
Consensus pattern (170 bp):
TTTTTCAAGATTTTAATATTCCTATGAGTATCCGTAGGGGTATAAAAGTCTTTAAAACATTTCGT
ATCCTTTCGAGTTTCCATTAAGGTACGAAATGAAATTTTCAAAAATAGAAAAAATAAATAATAAT
AAATAAATATTATTTTATCTAATAAAAATTATTTTTTTAA
Found at i:200598 original size:22 final size:21
Alignment explanation
Indices: 200573--200612 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
200563 TTTGGATTAT
200573 TTTTTA-CTTGAAAACATATGA
1 TTTTTATCTTGAAAA-ATATGA
200594 TTTTTATCTTGAAAAATAT
1 TTTTTATCTTGAAAAATAT
200613 TTATACTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.47
Consensus pattern (21 bp):
TTTTTATCTTGAAAAATATGA
Found at i:202451 original size:34 final size:33
Alignment explanation
Indices: 202403--202623 Score: 266
Period size: 34 Copynumber: 6.5 Consensus size: 33
202393 TGGTAAAAAC
*
202403 CACCATTTAATCAACAATGGCAACCTACCAAAT
1 CACCATTTAATCAACAATGGTAACCTACCAAAT
*
202436 CTACCATTTAGTCAACAATGGTAAGCC-ACCAAAT
1 C-ACCATTTAATCAACAATGGTAA-CCTACCAAAT
* *
202470 CACCCATTTAATCAATAATGGTAAGCTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
** *
202504 TTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CAC-CATTTAATCAACAATGGTAACCTACCAAAT
* * *
202538 CTCCCATTTAGTCAACAATGGCAAACC-ACCAAAT
1 C-ACCATTTAATCAACAATGG-TAACCTACCAAAT
*
202572 CACCCATTTAATCAACAATGGTAAACTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
202606 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
202624 TCTCCCACTT
Statistics
Matches: 162, Mismatches: 17, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
33 23 0.14
34 133 0.82
35 6 0.04
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.25
Consensus pattern (33 bp):
CACCATTTAATCAACAATGGTAACCTACCAAAT
Found at i:202519 original size:68 final size:67
Alignment explanation
Indices: 202405--202623 Score: 296
Period size: 68 Copynumber: 3.2 Consensus size: 67
202395 GTAAAAACCA
* * *
202405 CCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAAT-TACCATTTAATCAACAATGGTAAGCTACCAAAT
202470 CAC
65 CAC
* * * *
202473 CCATTTAATCAATAATGGTAAGCTACCAAATTTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTAC-CATTTAATCAACAATGGTAAGCTACCAAAT
*
202538 CTC
65 CAC
* * * *
202541 CCATTTAGTCAACAATGGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTA-CCATTTAATCAACAATGGTAAGCTACCAAAT
202606 CA-
65 CAC
202608 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
202624 TCTCCCACTT
Statistics
Matches: 132, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
67 17 0.13
68 114 0.86
69 1 0.01
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (67 bp):
CCATTTAATCAACAATGGCAAACTACCAAATTACCATTTAATCAACAATGGTAAGCTACCAAATC
AC
Found at i:202547 original size:102 final size:101
Alignment explanation
Indices: 202403--202623 Score: 352
Period size: 102 Copynumber: 2.2 Consensus size: 101
202393 TGGTAAAAAC
* *
202403 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
* *
202468 ATCACCCATTTAATCAATAATGGTAAGCTACCAAAT
66 ATCACCCATTTAATCAACAATGGTAAACTACCAAAT
** * * *
202504 TTCTCATTTAATCAACAATGGTAAGCTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCA
1 CAC-CATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCA
202569 AATCACCCATTTAATCAACAATGGTAAACTACCAAAT
65 AATCACCCATTTAATCAACAATGGTAAACTACCAAAT
202606 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
202624 TCTCCCACTT
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
101 16 0.15
102 92 0.85
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.25
Consensus pattern (101 bp):
CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
ATCACCCATTTAATCAACAATGGTAAACTACCAAAT
Found at i:207077 original size:34 final size:33
Alignment explanation
Indices: 207029--207245 Score: 249
Period size: 34 Copynumber: 6.4 Consensus size: 33
207019 TGGTAAAAAC
*
207029 CACCATTTAATCAACAATGGCAACCTACCAAAT
1 CACCATTTAATCAACAATGGTAACCTACCAAAT
*
207062 CTACCATTTAGTCAACAATGGTAAGCC-ACCAAAT
1 C-ACCATTTAATCAACAATGGTAA-CCTACCAAAT
* *
207096 CACCCATTTAATCAATAATGGTAAGCTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
** *
207130 TTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CAC-CATTTAATCAACAATGGTAACCTACCAAAT
* * *
207164 CTCCCATTTAGTCAACAATGGCAAACC-ACCAAAT
1 C-ACCATTTAATCAACAATGG-TAACCTACCAAAT
* *
207198 CACCCATTTAATCAATAATGGTAAACTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
207232 CACCATTTAATCAA
1 CACCATTTAATCAA
207246 AATCTTCTTC
Statistics
Matches: 157, Mismatches: 18, Indels: 18
0.81 0.09 0.09
Matches are distributed among these distances:
33 19 0.12
34 132 0.84
35 6 0.04
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (33 bp):
CACCATTTAATCAACAATGGTAACCTACCAAAT
Found at i:207145 original size:68 final size:67
Alignment explanation
Indices: 207031--207245 Score: 279
Period size: 68 Copynumber: 3.2 Consensus size: 67
207021 GTAAAAACCA
* * *
207031 CCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAAT-TACCATTTAATCAACAATGGTAAGCTACCAAAT
207096 CAC
65 CAC
* * * *
207099 CCATTTAATCAATAATGGTAAGCTACCAAATTTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTAC-CATTTAATCAACAATGGTAAGCTACCAAAT
*
207164 CTC
65 CAC
* * * * *
207167 CCATTTAGTCAACAATGGCAAACCACCAAATCACCCATTTAATCAATAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTA-CCATTTAATCAACAATGGTAAGCTACCAAAT
207232 CA-
65 CAC
207234 CCATTTAATCAA
1 CCATTTAATCAA
207246 AATCTTCTTC
Statistics
Matches: 127, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
67 13 0.10
68 113 0.89
69 1 0.01
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (67 bp):
CCATTTAATCAACAATGGCAAACTACCAAATTACCATTTAATCAACAATGGTAAGCTACCAAATC
AC
Found at i:207173 original size:102 final size:101
Alignment explanation
Indices: 207029--207245 Score: 353
Period size: 102 Copynumber: 2.1 Consensus size: 101
207019 TGGTAAAAAC
* *
207029 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
*
207094 ATCACCCATTTAATCAATAATGGTAAGCTACCAAAT
66 ATCACCCATTTAATCAATAATGGTAAACTACCAAAT
** * * *
207130 TTCTCATTTAATCAACAATGGTAAGCTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCA
1 CAC-CATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCA
207195 AATCACCCATTTAATCAATAATGGTAAACTACCAAAT
65 AATCACCCATTTAATCAATAATGGTAAACTACCAAAT
207232 CACCATTTAATCAA
1 CACCATTTAATCAA
207246 AATCTTCTTC
Statistics
Matches: 105, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
101 12 0.11
102 93 0.89
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (101 bp):
CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
ATCACCCATTTAATCAATAATGGTAAACTACCAAAT
Found at i:213063 original size:13 final size:13
Alignment explanation
Indices: 213045--213069 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
213035 CATAAAGTGT
213045 TGTATCGATACAA
1 TGTATCGATACAA
213058 TGTATCGATACA
1 TGTATCGATACA
213070 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:213067 original size:33 final size:33
Alignment explanation
Indices: 213025--213091 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
213015 TTCAACGATT
213025 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
213058 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
213091 T
1 T
213092 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:213150 original size:13 final size:13
Alignment explanation
Indices: 213132--213156 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
213122 ATTACTCAAA
213132 TGTATCGATACAT
1 TGTATCGATACAT
213145 TGTATCGATACA
1 TGTATCGATACA
213157 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:213285 original size:52 final size:52
Alignment explanation
Indices: 213165--213285 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
213155 CACCGATCTT
* *
213165 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACAGTATAAAA
*
213217 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACAGTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACAGTATAAAA
213269 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
213286 ATAAATTTTC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACAGTATAAAA
Found at i:222645 original size:13 final size:13
Alignment explanation
Indices: 222627--222653 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
222617 ACAATATTCC
222627 TTGTATCGATACA
1 TTGTATCGATACA
222640 TTGTATCGATACA
1 TTGTATCGATACA
222653 T
1 T
222654 GGGTTACTAT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:222817 original size:20 final size:21
Alignment explanation
Indices: 222781--222819 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
222771 TTACAAATTT
*
222781 CTTCATTTTTACTTCAAAACA
1 CTTCATTTTTACATCAAAACA
222802 CTTCATTTTT-CATCAAAA
1 CTTCATTTTTACATCAAAA
222820 TCACCAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (21 bp):
CTTCATTTTTACATCAAAACA
Found at i:223137 original size:22 final size:20
Alignment explanation
Indices: 223093--223137 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
223083 GCAGCCACCT
* *
223093 CCAGGTCGCGATCGGCACTC
1 CCAGGTCGCAACCGGCACTC
223113 CCAGGTCGCAACCGGACAACTC
1 CCAGGTCGCAACCGG-C-ACTC
223135 CCA
1 CCA
223138 CACCCACTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 1 0.05
22 7 0.33
ACGTcount: A:0.22, C:0.42, G:0.24, T:0.11
Consensus pattern (20 bp):
CCAGGTCGCAACCGGCACTC
Found at i:225193 original size:20 final size:20
Alignment explanation
Indices: 225168--225221 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
225158 AACCCTTGAA
225168 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
225188 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
225208 TGTATCGATACATT
1 TGTATCGATACATT
225222 GTATCGATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
TGTATCGATACATTATGCTT
Found at i:225225 original size:13 final size:13
Alignment explanation
Indices: 225207--225233 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
225197 ACATTATGCT
225207 TTGTATCGATACA
1 TTGTATCGATACA
225220 TTGTATCGATACA
1 TTGTATCGATACA
225233 T
1 T
225234 GATCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:225229 original size:33 final size:32
Alignment explanation
Indices: 225187--225252 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 32
225177 ACATTATGCT
* *
225187 TTGTATCGATACATTATGCTTTGTATCGATACA
1 TTGTATCGATACATGAT-CATTGTATCGATACA
225220 TTGTATCGATACATGATCATTGTATCGATACA
1 TTGTATCGATACATGATCATTGTATCGATACA
225252 T
1 T
225253 AGACAATTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.48
33 16 0.52
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (32 bp):
TTGTATCGATACATGATCATTGTATCGATACA
Found at i:225263 original size:20 final size:19
Alignment explanation
Indices: 225168--225274 Score: 75
Period size: 20 Copynumber: 5.8 Consensus size: 19
225158 AACCCTTGAA
* *
225168 TGTATCGATACATTATGCTT
1 TGTATCGATACATGAT-CAT
* *
225188 TGTATCGATACATTATGCTT
1 TGTATCGATACATGAT-CAT
225208 TGTATCG----AT-A-CAT
1 TGTATCGATACATGATCAT
225221 TGTATCGATACATGATCAT
1 TGTATCGATACATGATCAT
225240 TGTATCGATACATAGA-CAAT
1 TGTATCGATACAT-GATC-AT
* *
225260 TGTATTGATAGATGA
1 TGTATCGATACATGA
225275 AACTGGCAAT
Statistics
Matches: 76, Mismatches: 3, Indels: 17
0.79 0.03 0.18
Matches are distributed among these distances:
13 9 0.12
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 19 0.25
20 42 0.55
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (19 bp):
TGTATCGATACATGATCAT
Found at i:225346 original size:33 final size:33
Alignment explanation
Indices: 225303--225367 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
225293 TACCACTGTT
* *
225303 TGTATTGATACATGGT-ACATTGTATCGATACAG
1 TGTATCGATACATGATGA-ATTGTATCGATACAG
*
225336 TGTATCGATACGTGATGAATTGTATCGATACA
1 TGTATCGATACATGATGAATTGTATCGATACA
225368 TTGCTTGTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATGATGAATTGTATCGATACAG
Found at i:231115 original size:3 final size:3
Alignment explanation
Indices: 231090--231142 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
231080 ATGTAGTGAG
* * * *
231090 ATA AAA ATA AAA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
231138 ATA AT
1 ATA AT
231143 TTAAGTTATT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:232350 original size:48 final size:49
Alignment explanation
Indices: 232269--232361 Score: 127
Period size: 48 Copynumber: 1.9 Consensus size: 49
232259 TAATTAATCA
* *
232269 ATCTGAACCTGAAAATAACCCAAATTCATAATGATCCAAAATCGAGATT
1 ATCTGAACCTCAAAATAACCCAAATTCAAAATGATCCAAAATCGAGATT
* *
232318 ATCTGAACC-CAAAATAACCCAAAATT-AAAATGATTCAAACTCGA
1 ATCTGAACCTCAAAATAACCC-AAATTCAAAATGATCCAAAATCGA
232362 AGTAATCTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
48 25 0.64
49 14 0.36
ACGTcount: A:0.47, C:0.22, G:0.09, T:0.23
Consensus pattern (49 bp):
ATCTGAACCTCAAAATAACCCAAATTCAAAATGATCCAAAATCGAGATT
Found at i:234340 original size:22 final size:19
Alignment explanation
Indices: 234300--234341 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
234290 TTTTCTAAGT
234300 TTAAAATTTTTAAAATTCA
1 TTAAAATTTTTAAAATTCA
234319 TTAAATATTTTTATTAAATTCA
1 TTAAA-ATTTTTA--AAATTCA
234341 T
1 T
234342 GTTAAATCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 7 0.35
22 8 0.40
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAAAATTTTTAAAATTCA
Found at i:236490 original size:17 final size:18
Alignment explanation
Indices: 236455--236494 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
236445 AATTTTATCT
*
236455 ATTAATATTTTTAATAAA
1 ATTAAAATTTTTAATAAA
236473 ATTAAAATTTTTAA-AAA
1 ATTAAAATTTTTAATAAA
236490 ATTAA
1 ATTAA
236495 GACAATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTAAAATTTTTAATAAA
Found at i:237950 original size:19 final size:19
Alignment explanation
Indices: 237909--237953 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
237899 CCTTAAGCAC
* *
237909 AAAAAAGCAAAAGAGAGAA
1 AAAAAAACAAAAGAGAAAA
237928 AAAAAAACAAAAGA-AAAA
1 AAAAAAACAAAAGAGAAAA
237946 GAAAAAAA
1 -AAAAAAA
237954 AAGGAAAGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.82, C:0.04, G:0.13, T:0.00
Consensus pattern (19 bp):
AAAAAAACAAAAGAGAAAA
Found at i:237960 original size:11 final size:10
Alignment explanation
Indices: 237909--237956 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
237899 CCTTAAGCAC
*
237909 AAAAAAGCAA
1 AAAAAAGAAA
* *
237919 AAGAGAGAAA
1 AAAAAAGAAA
*
237929 AAAAAACAAA
1 AAAAAAGAAA
237939 AGAAAAAGAAA
1 A-AAAAAGAAA
237950 AAAAAAG
1 AAAAAAG
237957 GAAAGCAACA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
10 21 0.70
11 9 0.30
ACGTcount: A:0.81, C:0.04, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:239477 original size:51 final size:50
Alignment explanation
Indices: 239416--239527 Score: 161
Period size: 51 Copynumber: 2.2 Consensus size: 50
239406 TACTATTTGG
* *
239416 ATTGATACATTATTCATTGTATCGATACATTCTGAGTTTTTACCTAGATGT
1 ATTGATACATTATTCATTGTATCAATACATTCT-AGATTTTACCTAGATGT
* * *
239467 ATTGATACATTCTTCATTTTATTAATACATTCTAGATTTTACCTAGATGT
1 ATTGATACATTATTCATTGTATCAATACATTCTAGATTTTACCTAGATGT
*
239517 ATCGATACATT
1 ATTGATACATT
239528 GAATAATGTA
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
50 26 0.47
51 29 0.53
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (50 bp):
ATTGATACATTATTCATTGTATCAATACATTCTAGATTTTACCTAGATGT
Found at i:239505 original size:20 final size:20
Alignment explanation
Indices: 239466--239507 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
239456 TACCTAGATG
* *
239466 TATTGATACATTCTTCATTT
1 TATTAATACATTCTACATTT
*
239486 TATTAATACATTCTAGATTT
1 TATTAATACATTCTACATTT
239506 TA
1 TA
239508 CCTAGATGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.05, T:0.52
Consensus pattern (20 bp):
TATTAATACATTCTACATTT
Found at i:240486 original size:20 final size:21
Alignment explanation
Indices: 240447--240487 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
240437 ACAGCCCATG
240447 TTCATGCATTTTGAGCTATGT
1 TTCATGCATTTTGAGCTATGT
*
240468 TTCATGCATTTTTAG-TATGT
1 TTCATGCATTTTGAGCTATGT
240488 CCAACACCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.51
Consensus pattern (21 bp):
TTCATGCATTTTGAGCTATGT
Found at i:241489 original size:30 final size:26
Alignment explanation
Indices: 241441--241494 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 26
241431 TGCAATAATT
241441 AAATTAGAGATTTTGATTTACATTGAA
1 AAATTAGAGATTTTGATTTA-ATTGAA
241468 AAATTAGAGATTAGGTTGATTTAATTG
1 AAATTAGAGATT---TTGATTTAATTG
241495 TGATTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 12 0.50
29 4 0.17
30 8 0.33
ACGTcount: A:0.39, C:0.02, G:0.19, T:0.41
Consensus pattern (26 bp):
AAATTAGAGATTTTGATTTAATTGAA
Found at i:245430 original size:28 final size:27
Alignment explanation
Indices: 245375--245445 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
245365 ACTACCCATT
*
245375 TGTTTGTCAAAAATAGTGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTTATTTTG
245402 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATGGTGGTTAT--TTTG
* *
245430 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
245446 AGGCTTGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 20 0.51
28 18 0.46
ACGTcount: A:0.24, C:0.07, G:0.23, T:0.46
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTATTTTG
Found at i:248049 original size:21 final size:22
Alignment explanation
Indices: 248020--248065 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
248010 TGTTTAGACA
** *
248020 AGTAGTACTCCGCAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
248042 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
248063 AGT
1 AGT
248066 TTCAACAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:250014 original size:27 final size:27
Alignment explanation
Indices: 249951--250019 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 27
249941 CACCCATTTG
*
249951 TTTGTCAAAAATGGTAGTTATTTTGTG
1 TTTGTCAAAAATGGTAGTTATTTTGTA
249978 TTTGTCAAAAATGGTAGTT-TCCTTTGTA
1 TTTGTCAAAAATGGTAGTTAT--TTTGTA
250006 TTTGT-AAAATATGG
1 TTTGTCAAAA-ATGG
250020 AGGCTTGTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
26 1 0.03
27 23 0.61
28 14 0.37
ACGTcount: A:0.28, C:0.06, G:0.20, T:0.46
Consensus pattern (27 bp):
TTTGTCAAAAATGGTAGTTATTTTGTA
Found at i:250505 original size:21 final size:21
Alignment explanation
Indices: 250481--250521 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
250471 CTATATTACG
250481 TTTAAAAATACCACTAAAAAT
1 TTTAAAAATACCACTAAAAAT
* **
250502 TTTAAAGATATTACTAAAAA
1 TTTAAAAATACCACTAAAAA
250522 CCTGCTTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.32
Consensus pattern (21 bp):
TTTAAAAATACCACTAAAAAT
Found at i:252448 original size:16 final size:16
Alignment explanation
Indices: 252427--252457 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
252417 TAAATATTAT
252427 TTTTTTAATATTTAAA
1 TTTTTTAATATTTAAA
252443 TTTTTTAATATTTAA
1 TTTTTTAATATTTAA
252458 TATATTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTTTAATATTTAAA
Found at i:252469 original size:23 final size:24
Alignment explanation
Indices: 252430--252485 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
252420 ATATTATTTT
252430 TTTAATAT-TTAAATTTT-TTAATA
1 TTTAATATATTAAATTTTATTAA-A
*
252453 TTTAATATATT-ATTTTTATTAAA
1 TTTAATATATTAAATTTTATTAAA
*
252476 TTTAAAATAT
1 TTTAATATAT
252486 AATATATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 23 0.79
24 6 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTAATATATTAAATTTTATTAAA
Found at i:252490 original size:28 final size:28
Alignment explanation
Indices: 252459--252520 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 28
252449 AATATTTAAT
252459 ATATTATT-TT-TATTAAATTTAAAATATA
1 ATATTATTATTATATT--ATTTAAAATATA
*
252487 ATA-TATTAATTATATTTTTTAAAATATA
1 ATATTATT-ATTATATTATTTAAAATATA
252515 ATATTA
1 ATATTA
252521 ACTAATCACA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
27 4 0.14
28 17 0.59
29 4 0.14
30 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
ATATTATTATTATATTATTTAAAATATA
Found at i:252493 original size:39 final size:37
Alignment explanation
Indices: 252402--252506 Score: 105
Period size: 38 Copynumber: 2.9 Consensus size: 37
252392 TCAATCAATG
*
252402 TTTATATATAATA-ATTAA-ATATTATTTTTTTAATA
1 TTTAAATATAATATATTAATATATTATTTTTTTAATA
*
252437 TTTAAATTTTTTAATAT-TTAATATATTATTTTTATTAA-A
1 TTTAAA---TATAATATATTAATATATTATTTTT-TTAATA
252476 TTTAAAATATAATATATTAAT-TA-TATTTTTT
1 TTT-AAATATAATATATTAATATATTATTTTTT
252507 AAAATATAAT
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
35 6 0.10
36 7 0.12
37 9 0.15
38 15 0.25
39 15 0.25
40 7 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (37 bp):
TTTAAATATAATATATTAATATATTATTTTTTTAATA
Found at i:253617 original size:36 final size:36
Alignment explanation
Indices: 253572--253649 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 36
253562 TTTTTGAAGT
* * * *
253572 ATGTAAAAATCAATATTCAACGTATCTAATCCAACG
1 ATGTGAAAATCAATATTCAAAGGATCTAATCCAACA
* *
253608 ATGTGAAAATCGATATTCAAAGGATTTAATCCAACA
1 ATGTGAAAATCAATATTCAAAGGATCTAATCCAACA
253644 ATGTGA
1 ATGTGA
253650 CATATTGTCC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (36 bp):
ATGTGAAAATCAATATTCAAAGGATCTAATCCAACA
Found at i:254660 original size:15 final size:15
Alignment explanation
Indices: 254621--254668 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
254611 CGAACTCAAC
*
254621 TAAAAAAATTAAATGT
1 TAAAAAATTTAAAT-T
* *
254637 GAAATAATTTAAATT
1 TAAAAAATTTAAATT
254652 TAAAAAATTTAAATT
1 TAAAAAATTTAAATT
254667 TA
1 TA
254669 TCTGAAATGT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 16 0.59
16 11 0.41
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (15 bp):
TAAAAAATTTAAATT
Done.