Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 11 of 199
Found at i:4508900 original size:16 final size:16
Alignment explanation
Indices: 4508879--4508912 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
4508869 CTCACTCTTC
4508879 CATAGATTACTTGTCT
1 CATAGATTACTTGTCT
4508895 CATAGATTACTTGTCT
1 CATAGATTACTTGTCT
4508911 CA
1 CA
4508913 CTCTTCCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.41
Consensus pattern (16 bp):
CATAGATTACTTGTCT
Found at i:4508995 original size:30 final size:30
Alignment explanation
Indices: 4508961--4509021 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
4508951 CATTCACTGA
4508961 AACCCTTAAGAAAACCAAAAACAATCTACT
1 AACCCTTAAGAAAACCAAAAACAATCTACT
4508991 AACCCTTAAGAAAACCAAAAACAATCTACT
1 AACCCTTAAGAAAACCAAAAACAATCTACT
4509021 A
1 A
4509022 CCAACCAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.16
Consensus pattern (30 bp):
AACCCTTAAGAAAACCAAAAACAATCTACT
Found at i:4509789 original size:16 final size:16
Alignment explanation
Indices: 4509768--4509801 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4509758 CTCACTCTTC
*
4509768 CATAGTTTACTTGTCT
1 CATAGTTTACTTATCT
4509784 CATAGTTTACTTATCT
1 CATAGTTTACTTATCT
4509800 CA
1 CA
4509802 CTCTTTCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.21, G:0.09, T:0.47
Consensus pattern (16 bp):
CATAGTTTACTTATCT
Found at i:4520729 original size:19 final size:20
Alignment explanation
Indices: 4520705--4520745 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
4520695 AAAAATAAAA
4520705 TTAAAA-GAGAAGAAGCTTT
1 TTAAAATGAGAAGAAGCTTT
**
4520724 TTAAAATTTGAAGAAGCTTT
1 TTAAAATGAGAAGAAGCTTT
4520744 TT
1 TT
4520746 TATTAATTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.41, C:0.05, G:0.17, T:0.37
Consensus pattern (20 bp):
TTAAAATGAGAAGAAGCTTT
Found at i:4523181 original size:19 final size:19
Alignment explanation
Indices: 4523157--4523197 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
4523147 TATATAAACA
4523157 GCACTCGGTCGTGATTCTG
1 GCACTCGGTCGTGATTCTG
4523176 GCACTCGGTCGTGATTCTG
1 GCACTCGGTCGTGATTCTG
4523195 GCA
1 GCA
4523198 AATCCATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.12, C:0.27, G:0.32, T:0.29
Consensus pattern (19 bp):
GCACTCGGTCGTGATTCTG
Found at i:4531427 original size:8 final size:9
Alignment explanation
Indices: 4531414--4531488 Score: 84
Period size: 9 Copynumber: 8.4 Consensus size: 9
4531404 TTTGGTTAAA
4531414 AATTAACC-
1 AATTAACCG
4531422 AATTAAACCG
1 AATT-AACCG
*
4531432 AATTACCCG
1 AATTAACCG
4531441 AATTAACCG
1 AATTAACCG
* *
4531450 GATTACCCG
1 AATTAACCG
4531459 AA-TAACCG
1 AATTAACCG
4531467 AATTAACCCG
1 AATTAA-CCG
4531477 AATTAA-CG
1 AATTAACCG
4531485 AATT
1 AATT
4531489 GAATCACTAC
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
8 17 0.30
9 27 0.47
10 13 0.23
ACGTcount: A:0.43, C:0.24, G:0.11, T:0.23
Consensus pattern (9 bp):
AATTAACCG
Found at i:4531448 original size:18 final size:18
Alignment explanation
Indices: 4531422--4531488 Score: 93
Period size: 18 Copynumber: 3.7 Consensus size: 18
4531412 AAAATTAACC
4531422 AATTAAACCGAATTACCCG
1 AATT-AACCGAATTACCCG
*
4531441 AATTAACCGGATTACCCG
1 AATTAACCGAATTACCCG
4531459 AA-TAACCGAATTAACCCG
1 AATTAACCGAATT-ACCCG
4531477 AATTAA-CGAATT
1 AATTAACCGAATT
4531489 GAATCACTAC
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
17 9 0.20
18 28 0.64
19 7 0.16
ACGTcount: A:0.42, C:0.24, G:0.12, T:0.22
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:4531546 original size:12 final size:13
Alignment explanation
Indices: 4531526--4531554 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
4531516 ACTTTTAGAC
4531526 TTAGTTTTTAGTT
1 TTAGTTTTTAGTT
4531539 TTAG-TTTTAGTT
1 TTAGTTTTTAGTT
4531551 TTAG
1 TTAG
4531555 AAATTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (13 bp):
TTAGTTTTTAGTT
Found at i:4533929 original size:7 final size:7
Alignment explanation
Indices: 4533917--4533941 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4533907 TGAAGTTTTA
4533917 TTTTTCT
1 TTTTTCT
4533924 TTTTTCT
1 TTTTTCT
4533931 TTTTTCT
1 TTTTTCT
4533938 TTTT
1 TTTT
4533942 GATTTCTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:4562048 original size:12 final size:12
Alignment explanation
Indices: 4562029--4562058 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4562019 TCTGATGGCC
4562029 CCGAGGCGGAGG
1 CCGAGGCGGAGG
*
4562041 CGGAGGCGGAGG
1 CCGAGGCGGAGG
4562053 CCGAGG
1 CCGAGG
4562059 ATGCGCCCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.60, T:0.00
Consensus pattern (12 bp):
CCGAGGCGGAGG
Found at i:4571384 original size:13 final size:13
Alignment explanation
Indices: 4571341--4571385 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
4571331 AAAATTAAAA
4571341 TATTA-AATAATT
1 TATTATAATAATT
* *
4571353 TATTAAAATAATA
1 TATTATAATAATT
*
4571366 AATTATAATAATT
1 TATTATAATAATT
4571379 TATTATA
1 TATTATA
4571386 TGACTAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 5 0.19
13 22 0.81
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TATTATAATAATT
Found at i:4576440 original size:27 final size:28
Alignment explanation
Indices: 4576388--4576450 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 28
4576378 AAAAAATAAT
*
4576388 CAAAATATTATAACTTTTTTTTATTTAC
1 CAAAATATTATAACTTTTTCTTATTTAC
*
4576416 TAAAATATTATAA-TTTTTCTTATTTAC
1 CAAAATATTATAACTTTTTCTTATTTAC
4576443 CAAAATAT
1 CAAAATAT
4576451 ACCAAAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 20 0.62
28 12 0.38
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.51
Consensus pattern (28 bp):
CAAAATATTATAACTTTTTCTTATTTAC
Found at i:4576890 original size:37 final size:37
Alignment explanation
Indices: 4576849--4576951 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
4576839 ACTATTTACT
* * *
4576849 TAATTTTTTAAATTAAAAAAGAGTTATTAATTGAGAA
1 TAATTTATTAAATTAAAATAGAGTTATTAAATGAGAA
4576886 TAATTTATTAAATTAAAATAGAGTTATTAAATGAGAA
1 TAATTTATTAAATTAAAATAGAGTTATTAAATGAGAA
*
4576923 TAGTTTATTAAATTAAAATAGAGTTATTA
1 TAATTTATTAAATTAAAATAGAGTTATTA
4576952 CTTAATTAGA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.41
Consensus pattern (37 bp):
TAATTTATTAAATTAAAATAGAGTTATTAAATGAGAA
Found at i:4576934 original size:18 final size:18
Alignment explanation
Indices: 4576872--4576935 Score: 74
Period size: 18 Copynumber: 3.5 Consensus size: 18
4576862 TAAAAAAGAG
* *
4576872 TTATTAATTGAGAATAAT
1 TTATTAAATGAGAATAGT
* * *
4576890 TTATTAAATTAAAATAGAG
1 TTATTAAATGAGAATAG-T
4576909 TTATTAAATGAGAATAGT
1 TTATTAAATGAGAATAGT
4576927 TTATTAAAT
1 TTATTAAAT
4576936 TAAAATAGAG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 22 0.59
19 15 0.41
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (18 bp):
TTATTAAATGAGAATAGT
Found at i:4576956 original size:18 final size:19
Alignment explanation
Indices: 4576856--4576951 Score: 108
Period size: 19 Copynumber: 5.2 Consensus size: 19
4576846 ACTTAATTTT
*
4576856 TTAAATTAAAAAAGAGTTA
1 TTAAATTAAAATAGAGTTA
* *
4576875 TT-AATTGAGAATA-ATTTA
1 TTAAATT-AAAATAGAGTTA
4576893 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
4576912 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
4576930 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
4576949 TTA
1 TTA
4576952 CTTAATTAGA
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
18 30 0.48
19 32 0.52
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:4577049 original size:19 final size:19
Alignment explanation
Indices: 4577027--4577122 Score: 115
Period size: 19 Copynumber: 5.2 Consensus size: 19
4577017 TTTAATTTTT
*
4577027 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGATTTA
* *
4577046 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGATTTA
*
4577064 TTAAATTAAAATATATTTA
1 TTAAATTAAAATAGATTTA
* *
4577083 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGATTTA
*
4577101 TTAAATTAAAATAGAATTA
1 TTAAATTAAAATAGATTTA
4577120 TTA
1 TTA
4577123 CTTAATTAGA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
18 30 0.48
19 33 0.52
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
TTAAATTAAAATAGATTTA
Found at i:4577075 original size:37 final size:37
Alignment explanation
Indices: 4577027--4577122 Score: 165
Period size: 37 Copynumber: 2.6 Consensus size: 37
4577017 TTTAATTTTT
*
4577027 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAATTATTAAATGAGAATAGTTTA
* *
4577064 TTAAATTAAAATATATTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAATTATTAAATGAGAATAGTTTA
4577101 TTAAATTAAAATAGAATTATTA
1 TTAAATTAAAATAGAATTATTA
4577123 CTTAATTAGA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (37 bp):
TTAAATTAAAATAGAATTATTAAATGAGAATAGTTTA
Found at i:4577091 original size:171 final size:168
Alignment explanation
Indices: 4576769--4577137 Score: 587
Period size: 171 Copynumber: 2.2 Consensus size: 168
4576759 ATAAGCTCTT
*
4576769 AAATAGAGTTATTACTTAATTATAATTCTCTCAATTAATAACTCTATTTTAATTTAAAAAAATTA
1 AAATAGAGTTATTACTTAATTAGAATTCTCTCAATTAATAACTCTATTTTAATTTAAAAAAATTA
*
4576834 AGTAAACTATTTACTTAATTTTTTAAATTAAAAAAGAGTTATTAATTGAGAATAATTTATTAAAT
66 AGTAAAC-ATTTACTTAATTTTTTAAATTAAAAAAGAGTTATTAAATGAGAATAATTTATTAAAT
4576899 TAAAATAGAGTTATTAAATGAGAATAGTTTATTAAATTA
130 TAAAATAGAGTTATTAAATGAGAATAGTTTATTAAATTA
**
4576938 AAATAGAGTTATTACTTAATTAGAATTCTCTCCTTTAATAACTCTATTTTAATTTAAAAAAATTA
1 AAATAGAGTTATTACTTAATTAGAATTCTCTCAATTAATAACTCTATTTTAATTTAAAAAAATT-
* * * *
4577003 AATTAAA-AGTTTAATTTAATTTTTTTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTATTA
65 AAGTAAACA-TTT-ACTTAA-TTTTTTAAATTAAAAAAGAGTTATTAAATGAGAATAATTTATTA
* *
4577067 AATTAAAATATATTTATTAAATGAGAATAGTTTATTAAATTA
127 AATTAAAATAGAGTTATTAAATGAGAATAGTTTATTAAATTA
*
4577109 AAATAGAATTATTACTTAATTAGAATTCT
1 AAATAGAGTTATTACTTAATTAGAATTCT
4577138 AAGTATCTTA
Statistics
Matches: 185, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
168 1 0.01
169 64 0.35
170 11 0.06
171 109 0.59
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.43
Consensus pattern (168 bp):
AAATAGAGTTATTACTTAATTAGAATTCTCTCAATTAATAACTCTATTTTAATTTAAAAAAATTA
AGTAAACATTTACTTAATTTTTTAAATTAAAAAAGAGTTATTAAATGAGAATAATTTATTAAATT
AAAATAGAGTTATTAAATGAGAATAGTTTATTAAATTA
Found at i:4577113 original size:18 final size:18
Alignment explanation
Indices: 4577027--4577114 Score: 104
Period size: 18 Copynumber: 4.8 Consensus size: 18
4577017 TTTAATTTTT
*
4577027 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAG-TTTA
* *
4577046 TTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGTTTA
*
4577064 TTAAATTAAAATATATTTA
1 TTAAATTAAAATA-GTTTA
* *
4577083 TTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGTTTA
4577101 TTAAATTAAAATAG
1 TTAAATTAAAATAG
4577115 AATTATTACT
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
18 30 0.53
19 27 0.47
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (18 bp):
TTAAATTAAAATAGTTTA
Found at i:4577734 original size:27 final size:27
Alignment explanation
Indices: 4577676--4577735 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
4577666 ATTTTAGTCT
4577676 ATTGGCACCATTGGTGCCGCCAATCTC
1 ATTGGCACCATTGGTGCCGCCAATCTC
* * * *
4577703 TTTGGCACCTTTGGTGCCGCCAATGTG
1 ATTGGCACCATTGGTGCCGCCAATCTC
4577730 ATTGGC
1 ATTGGC
4577736 CTGATCAGGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.15, C:0.28, G:0.27, T:0.30
Consensus pattern (27 bp):
ATTGGCACCATTGGTGCCGCCAATCTC
Found at i:4577843 original size:27 final size:27
Alignment explanation
Indices: 4577781--4577844 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
4577771 TTTTTTGGGT
* *
4577781 ATATTTTGATAAATAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
4577808 ATATTTTGGTAAATAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
4577835 ATATTTTGGT
1 ATATTTTGGT
4577845 TTTTTTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTATA
Found at i:4583971 original size:19 final size:20
Alignment explanation
Indices: 4583947--4583984 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4583937 TAATTTTAAT
4583947 ATTTAT-TTAAAAATAAAAA
1 ATTTATATTAAAAATAAAAA
4583966 ATTTATATTAAAAATAAAA
1 ATTTATATTAAAAATAAAA
4583985 TAATATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATTTATATTAAAAATAAAAA
Found at i:4591958 original size:21 final size:21
Alignment explanation
Indices: 4591934--4591976 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4591924 TAATAATAAA
4591934 TTTTAAAAATCTTTTAATTTT
1 TTTTAAAAATCTTTTAATTTT
** **
4591955 TTTTCCACTTCTTTTAATTTT
1 TTTTAAAAATCTTTTAATTTT
4591976 T
1 T
4591977 CATCTTTCAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTAAAAATCTTTTAATTTT
Found at i:4592543 original size:14 final size:14
Alignment explanation
Indices: 4592524--4592555 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
4592514 AGGTCATTTA
4592524 GCCCAACCAAACTG
1 GCCCAACCAAACTG
4592538 GCCCAACCAAACTG
1 GCCCAACCAAACTG
4592552 GCCC
1 GCCC
4592556 GGTAATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:4597675 original size:14 final size:14
Alignment explanation
Indices: 4597656--4597687 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
4597646 AGGTCATTTA
4597656 GCCCAACCAAACTG
1 GCCCAACCAAACTG
4597670 GCCCAACCAAACTG
1 GCCCAACCAAACTG
4597684 GCCC
1 GCCC
4597688 GGTAATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:4615410 original size:43 final size:43
Alignment explanation
Indices: 4615347--4615502 Score: 181
Period size: 43 Copynumber: 3.7 Consensus size: 43
4615337 TATCGTAACA
* * * * ***
4615347 ATGCC-ATATCCCAGATATGGTCTTATATGTAATCTTGTATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGAAATCACATATCG
* *
4615389 ATGCCAATATCCCTGCCATGGTCTTACACGAAATCACATATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGAAATCACATATCG
* * *
4615432 ATGCCAATGTCCCAGACATGGTCTTACACGAATTCTCATATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGAAATCACATATCG
*
4615475 ATGCC-ATATCCCAGATATGGTCTTACAC
1 ATGCCAATATCCCAGACATGGTCTTACAC
4615503 ATAATCTCGG
Statistics
Matches: 97, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 26 0.27
43 71 0.73
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.30
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACACGAAATCACATATCG
Found at i:4622880 original size:21 final size:21
Alignment explanation
Indices: 4622854--4623087 Score: 169
Period size: 21 Copynumber: 11.3 Consensus size: 21
4622844 GTGTTTTACT
*
4622854 TTCTGTTAAGCTCTTATGAGC
1 TTCTGTTAAGCTCTTACGAGC
* *
4622875 TTCTGTTCAA-CTCTTATGAGT
1 TTCTGTT-AAGCTCTTACGAGC
* *
4622896 TTTTGTTTAGCTCTTACGAGC
1 TTCTGTTAAGCTCTTACGAGC
*
4622917 TTCTGTTCAGCT-TT-CGAGC
1 TTCTGTTAAGCTCTTACGAGC
* * * *
4622936 TTCTACTCAA-CTCTTATGAGT
1 TTCT-GTTAAGCTCTTACGAGC
* *
4622957 TTCTATTTAGCTCTTACGAGC
1 TTCTGTTAAGCTCTTACGAGC
*
4622978 TTCTGTTTAGCT-TT-CGAGC
1 TTCTGTTAAGCTCTTACGAGC
* * *
4622997 TTCAGTTCAA-CTCTTA-TAAC
1 TTCTGTT-AAGCTCTTACGAGC
* * *
4623017 TTTTTGTTTAGATCTTACGAGC
1 -TTCTGTTAAGCTCTTACGAGC
* * *
4623039 TTCTGTTCAGCTCTTATGAGA
1 TTCTGTTAAGCTCTTACGAGC
*
4623060 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTAAGCTCTTACGAGC
4623081 TTCTGTT
1 TTCTGTT
4623088 GGTGTATTCA
Statistics
Matches: 166, Mismatches: 35, Indels: 24
0.74 0.16 0.11
Matches are distributed among these distances:
19 24 0.14
20 17 0.10
21 121 0.73
22 4 0.02
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (21 bp):
TTCTGTTAAGCTCTTACGAGC
Found at i:4622909 original size:42 final size:42
Alignment explanation
Indices: 4622854--4623087 Score: 226
Period size: 42 Copynumber: 5.7 Consensus size: 42
4622844 GTGTTTTACT
* * * *
4622854 TTCTGTTAAGCTCTTATGAGCTTCTGTTCAACTCTTATGAGT
1 TTCTGTTTAGCTCTTACGAGCTTCTGTTCAGCTCTTATGAGC
* *
4622896 TTTTGTTTAGCTCTTACGAGCTTCTGTTCAGCT-TT-CGAGC
1 TTCTGTTTAGCTCTTACGAGCTTCTGTTCAGCTCTTATGAGC
** * * * * * * *
4622936 TTCTACTCAACTCTTATGAGTTTCTATTTAGCTCTTACGAGC
1 TTCTGTTTAGCTCTTACGAGCTTCTGTTCAGCTCTTATGAGC
* * *
4622978 TTCTGTTTAGCT-TT-CGAGCTTCAGTTCAACTCTTAT-AAC
1 TTCTGTTTAGCTCTTACGAGCTTCTGTTCAGCTCTTATGAGC
* * *
4623017 TTTTTGTTTAGATCTTACGAGCTTCTGTTCAGCTCTTATGAGA
1 -TTCTGTTTAGCTCTTACGAGCTTCTGTTCAGCTCTTATGAGC
*
4623060 TTCTGTTCAGCTCTTACGAGCTTCTGTT
1 TTCTGTTTAGCTCTTACGAGCTTCTGTT
4623088 GGTGTATTCA
Statistics
Matches: 150, Mismatches: 36, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
39 2 0.01
40 52 0.35
41 8 0.05
42 87 0.58
43 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (42 bp):
TTCTGTTTAGCTCTTACGAGCTTCTGTTCAGCTCTTATGAGC
Found at i:4622938 original size:61 final size:61
Alignment explanation
Indices: 4622871--4623075 Score: 284
Period size: 61 Copynumber: 3.3 Consensus size: 61
4622861 AAGCTCTTAT
4622871 GAGCTTCTGTTCAACTCTTATGAGTTTTTGTTTAGCTCTTACGAGCTTCTGTTCAGCTTTC
1 GAGCTTCTGTTCAACTCTTATGAGTTTTTGTTTAGCTCTTACGAGCTTCTGTTCAGCTTTC
** * * *
4622932 GAGCTTCTACTCAACTCTTATGAGTTTCTATTTAGCTCTTACGAGCTTCTGTTTAGCTTTC
1 GAGCTTCTGTTCAACTCTTATGAGTTTTTGTTTAGCTCTTACGAGCTTCTGTTCAGCTTTC
* * * * *
4622993 GAGCTTCAGTTCAACTCTTATAACTTTTTGTTTAGATCTTACGAGCTTCTGTTCAGCTCTTAT
1 GAGCTTCTGTTCAACTCTTATGAGTTTTTGTTTAGCTCTTACGAGCTTCTGTTCAGCT-TT-C
* *
4623056 GAGATTCTGTTCAGCTCTTA
1 GAGCTTCTGTTCAACTCTTA
4623076 CGAGCTTCTG
Statistics
Matches: 124, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
61 105 0.85
62 2 0.02
63 17 0.14
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.44
Consensus pattern (61 bp):
GAGCTTCTGTTCAACTCTTATGAGTTTTTGTTTAGCTCTTACGAGCTTCTGTTCAGCTTTC
Found at i:4623342 original size:112 final size:112
Alignment explanation
Indices: 4623145--4623368 Score: 430
Period size: 112 Copynumber: 2.0 Consensus size: 112
4623135 CTATTATCCG
* *
4623145 TAAGTTGTTCTTCGAATGGAAAAATTTCGGTAAGGTGATTTATCTAATGAATTTTCAAGACATGT
1 TAAGTTGTTCTTCGAATGGAAAAATTTCGGTAAGATGATTTATCTAATGAATTTTAAAGACATGT
4623210 TATTCATTTTTATATTGATTTGAAAATAGATGTATTTATTAATAGAA
66 TATTCATTTTTATATTGATTTGAAAATAGATGTATTTATTAATAGAA
4623257 TAAGTTGTTCTTCGAATGGAAAAATTTCGGTAAGATGATTTATCTAATGAATTTTAAAGACATGT
1 TAAGTTGTTCTTCGAATGGAAAAATTTCGGTAAGATGATTTATCTAATGAATTTTAAAGACATGT
4623322 TATTCATTTTTATATTGATTTGAAAATAGATGTATTTATTAATAGAA
66 TATTCATTTTTATATTGATTTGAAAATAGATGTATTTATTAATAGAA
4623369 GTTATGTATG
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 110 1.00
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.43
Consensus pattern (112 bp):
TAAGTTGTTCTTCGAATGGAAAAATTTCGGTAAGATGATTTATCTAATGAATTTTAAAGACATGT
TATTCATTTTTATATTGATTTGAAAATAGATGTATTTATTAATAGAA
Found at i:4623410 original size:21 final size:20
Alignment explanation
Indices: 4623376--4623420 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
4623366 GAAGTTATGT
*
4623376 ATGACAGGAAATTGTCAGTGA
1 ATGACAGGAAATTGACA-TGA
**
4623397 ATGACAGGGGATTGACATGA
1 ATGACAGGAAATTGACATGA
4623417 ATGA
1 ATGA
4623421 TTTTATTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.38, C:0.09, G:0.31, T:0.22
Consensus pattern (20 bp):
ATGACAGGAAATTGACATGA
Found at i:4625533 original size:42 final size:42
Alignment explanation
Indices: 4625487--4625595 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 42
4625477 TGAGTTTCCA
* * *
4625487 TTCAGCTCTATTGAGCTTCTGTTTAACCCTTATTGGTTTTTG
1 TTCAGCTCTATTGAGCTTCTGTTCAACCCTTATGGGTTTCTG
**
4625529 TTCAGCTCT-TACAAGCTT-TCGTTCAACCCTTATGGGTTTCTG
1 TTCAGCTCTAT-TGAGCTTCT-GTTCAACCCTTATGGGTTTCTG
* *
4625571 TTTAGCTCTCA-TGAGCTCCTGTTCA
1 TTCAGCTCT-ATTGAGCTTCTGTTCA
4625596 GCCTTCGGGT
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
41 2 0.04
42 50 0.94
43 1 0.02
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.44
Consensus pattern (42 bp):
TTCAGCTCTATTGAGCTTCTGTTCAACCCTTATGGGTTTCTG
Found at i:4626738 original size:16 final size:16
Alignment explanation
Indices: 4626717--4626785 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
4626707 TTTGGTTCGC
*
4626717 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
4626733 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
4626749 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
4626766 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
4626782 TGTA
1 TGTA
4626786 ATAGCTAATC
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
16 35 0.69
17 16 0.31
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:4626763 original size:33 final size:32
Alignment explanation
Indices: 4626717--4626785 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
4626707 TTTGGTTCGC
4626717 TGTATTGGATTAGAGATGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAGG
*
4626749 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGATGTATTGGATTAGAGG
4626782 TGTA
1 TGTA
4626786 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAGG
Found at i:4626850 original size:44 final size:45
Alignment explanation
Indices: 4626766--4626856 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
4626756 GGATTAGAGG
* * *
4626766 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
4626811 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
4626855 TG
1 TG
4626857 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:4627042 original size:18 final size:17
Alignment explanation
Indices: 4627021--4627055 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4627011 TTATTATTAA
*
4627021 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4627039 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4627056 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4627456 original size:6 final size:6
Alignment explanation
Indices: 4627445--4627472 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
4627435 ATTATATTTA
4627445 CCATGC CCATGC CCATGC CCATGC CCAT
1 CCATGC CCATGC CCATGC CCATGC CCAT
4627473 TTTCTTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.50, G:0.14, T:0.18
Consensus pattern (6 bp):
CCATGC
Found at i:4641371 original size:14 final size:15
Alignment explanation
Indices: 4641354--4641386 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4641344 GAAAAAACAT
4641354 TTTAAAA-AATTATA
1 TTTAAAACAATTATA
*
4641368 TTTAAAACAATTTTA
1 TTTAAAACAATTATA
4641383 TTTA
1 TTTA
4641387 GAAATCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTAAAACAATTATA
Found at i:4654117 original size:2 final size:2
Alignment explanation
Indices: 4654110--4654136 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4654100 TCGATCTGTT
4654110 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
4654137 CTATAAGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4655301 original size:12 final size:12
Alignment explanation
Indices: 4655270--4655302 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
4655260 AATTCATTAT
*
4655270 TTTTAAAAATAA
1 TTTTATAAATAA
4655282 TTTT-TAAATAA
1 TTTTATAAATAA
4655293 TTTTATAAAT
1 TTTTATAAAT
4655303 CAAATTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTATAAATAA
Found at i:4655672 original size:13 final size:13
Alignment explanation
Indices: 4655654--4655679 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4655644 GGACTCTTGC
4655654 TCACTGTCTACGT
1 TCACTGTCTACGT
4655667 TCACTGTCTACGT
1 TCACTGTCTACGT
4655680 GTGGTTTGAG
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:0.15, C:0.31, G:0.15, T:0.38
Consensus pattern (13 bp):
TCACTGTCTACGT
Found at i:4655801 original size:13 final size:13
Alignment explanation
Indices: 4655783--4655808 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4655773 AGTAAGTTGC
4655783 TCACTGTCTACGT
1 TCACTGTCTACGT
4655796 TCACTGTCTACGT
1 TCACTGTCTACGT
4655809 GTGGTTTGAG
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:0.15, C:0.31, G:0.15, T:0.38
Consensus pattern (13 bp):
TCACTGTCTACGT
Found at i:4655880 original size:129 final size:129
Alignment explanation
Indices: 4655650--4655907 Score: 516
Period size: 129 Copynumber: 2.0 Consensus size: 129
4655640 AATGGGACTC
4655650 TTGCTCACTGTCTACGTTCACTGTCTACGTGTGGTTTGAGTTCGAGTCGCAATAGTCCCATTAAT
1 TTGCTCACTGTCTACGTTCACTGTCTACGTGTGGTTTGAGTTCGAGTCGCAATAGTCCCATTAAT
4655715 TGTTCAGGCTTTGCGCTGTTATTGTAATTCACTAAAAAAAATGTAATATTAGTAAATTAGTAAG
66 TGTTCAGGCTTTGCGCTGTTATTGTAATTCACTAAAAAAAATGTAATATTAGTAAATTAGTAAG
4655779 TTGCTCACTGTCTACGTTCACTGTCTACGTGTGGTTTGAGTTCGAGTCGCAATAGTCCCATTAAT
1 TTGCTCACTGTCTACGTTCACTGTCTACGTGTGGTTTGAGTTCGAGTCGCAATAGTCCCATTAAT
4655844 TGTTCAGGCTTTGCGCTGTTATTGTAATTCACTAAAAAAAATGTAATATTAGTAAATTAGTAAG
66 TGTTCAGGCTTTGCGCTGTTATTGTAATTCACTAAAAAAAATGTAATATTAGTAAATTAGTAAG
4655908 GTTTTATTTT
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 129 1.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.37
Consensus pattern (129 bp):
TTGCTCACTGTCTACGTTCACTGTCTACGTGTGGTTTGAGTTCGAGTCGCAATAGTCCCATTAAT
TGTTCAGGCTTTGCGCTGTTATTGTAATTCACTAAAAAAAATGTAATATTAGTAAATTAGTAAG
Found at i:4662667 original size:30 final size:30
Alignment explanation
Indices: 4662631--4662690 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
4662621 CATCTGCAAA
4662631 TGATGTTTTAACTCTATAGTTATTCAGGAT
1 TGATGTTTTAACTCTATAGTTATTCAGGAT
4662661 TGATGTTTTAACTCTATAGTTATTCAGGAT
1 TGATGTTTTAACTCTATAGTTATTCAGGAT
4662691 AACCAATTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.47
Consensus pattern (30 bp):
TGATGTTTTAACTCTATAGTTATTCAGGAT
Found at i:4667528 original size:9 final size:9
Alignment explanation
Indices: 4667504--4667550 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
4667494 TGGCTGAAGC
4667504 TCTTCCTCT
1 TCTTCCTCT
* *
4667513 TCATCCTCG
1 TCTTCCTCT
4667522 TCTTCCTCT
1 TCTTCCTCT
*
4667531 TCTTCTTCT
1 TCTTCCTCT
*
4667540 TCCTCCTCT
1 TCTTCCTCT
4667549 TC
1 TC
4667551 CTCACCATCA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.02, C:0.45, G:0.02, T:0.51
Consensus pattern (9 bp):
TCTTCCTCT
Found at i:4667537 original size:24 final size:24
Alignment explanation
Indices: 4667503--4667553 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
4667493 GTGGCTGAAG
*
4667503 CTCTTCCTCTTCATCCTCGTCTTC
1 CTCTTCCTCTTCATCCTCCTCTTC
* *
4667527 CTCTTCTTCTTCTTCCTCCTCTTC
1 CTCTTCCTCTTCATCCTCCTCTTC
4667551 CTC
1 CTC
4667554 ACCATCATCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.02, C:0.47, G:0.02, T:0.49
Consensus pattern (24 bp):
CTCTTCCTCTTCATCCTCCTCTTC
Found at i:4667576 original size:12 final size:12
Alignment explanation
Indices: 4667556--4667598 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
4667546 TCTTCCTCAC
*
4667556 CATCATCGTCGT
1 CATCATCGTCAT
*
4667568 CATCGTCGTCAT
1 CATCATCGTCAT
*
4667580 CATCCTCGTCAT
1 CATCATCGTCAT
4667592 CATCATC
1 CATCATC
4667599 CTCGTCTCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.19, C:0.37, G:0.12, T:0.33
Consensus pattern (12 bp):
CATCATCGTCAT
Found at i:4667594 original size:15 final size:15
Alignment explanation
Indices: 4667570--4667604 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
4667560 ATCGTCGTCA
*
4667570 TCGTCGTCATCATCC
1 TCGTCATCATCATCC
4667585 TCGTCATCATCATCC
1 TCGTCATCATCATCC
4667600 TCGTC
1 TCGTC
4667605 TCCACTGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.40, G:0.11, T:0.34
Consensus pattern (15 bp):
TCGTCATCATCATCC
Found at i:4667702 original size:21 final size:21
Alignment explanation
Indices: 4667678--4667717 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4667668 TGCATCCTCC
4667678 TCATCTGCAT-CTTCATCTTGA
1 TCATCT-CATGCTTCATCTTGA
*
4667699 TCATCTCCTGCTTCATCTT
1 TCATCTCATGCTTCATCTT
4667718 TCTCATCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.15, C:0.33, G:0.07, T:0.45
Consensus pattern (21 bp):
TCATCTCATGCTTCATCTTGA
Found at i:4672891 original size:91 final size:94
Alignment explanation
Indices: 4672776--4672960 Score: 331
Period size: 93 Copynumber: 2.0 Consensus size: 94
4672766 AGCTACGTCC
*
4672776 CACACCTAAACTCAAGAAATCAGTGTAG-AAGATCTATTTTTCTTCATATCAAT-GACAAATAAC
1 CACACCTAAACTCAAGAAATCAGTGTAGAAAGATCTATTTTTCTTCATATCAATAAACAAATAAC
4672839 TATTCAATCATAACTAACCTTGATGGTCT
66 TATTCAATCATAACTAACCTTGATGGTCT
*
4672868 CACACCTAAAC-CAAGAAATCAGTGTAGAAAGATCTATTTTTCTTCATATCAATAAAGAAATAAC
1 CACACCTAAACTCAAGAAATCAGTGTAGAAAGATCTATTTTTCTTCATATCAATAAACAAATAAC
4672932 TATTCAATCATAACTAACCTTGATGGTCT
66 TATTCAATCATAACTAACCTTGATGGTCT
4672961 TGTCATCACC
Statistics
Matches: 89, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
91 16 0.18
92 36 0.40
93 37 0.42
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (94 bp):
CACACCTAAACTCAAGAAATCAGTGTAGAAAGATCTATTTTTCTTCATATCAATAAACAAATAAC
TATTCAATCATAACTAACCTTGATGGTCT
Found at i:4677692 original size:18 final size:17
Alignment explanation
Indices: 4677650--4677685 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 17
4677640 ATTACTAGAC
4677650 AAAATATTTTTAAAAATT
1 AAAAT-TTTTTAAAAATT
4677668 AATAATTTTTTAAAAATT
1 AA-AATTTTTTAAAAATT
4677686 TTAAATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAATTTTTTAAAAATT
Found at i:4696354 original size:3 final size:3
Alignment explanation
Indices: 4696346--4696387 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
4696336 GAAGAGACAA
4696346 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4696388 GTACCAATCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4700802 original size:16 final size:16
Alignment explanation
Indices: 4700777--4700826 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
4700767 TTACCCATTA
4700777 CAACAAACCTAAAACC
1 CAACAAACCTAAAACC
* *
4700793 CAACAGACCTAACACC
1 CAACAAACCTAAAACC
4700809 CAA-ATAACCTAACAACC
1 CAACA-AACCTAA-AACC
4700826 C
1 C
4700827 TAGCCCAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 1 0.04
16 23 0.82
17 4 0.14
ACGTcount: A:0.50, C:0.40, G:0.02, T:0.08
Consensus pattern (16 bp):
CAACAAACCTAAAACC
Found at i:4701923 original size:3 final size:3
Alignment explanation
Indices: 4701915--4701948 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4701905 CAATTTTATG
4701915 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4701949 ATATATCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4704921 original size:16 final size:16
Alignment explanation
Indices: 4704875--4704919 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
4704865 TAAATATGGA
* * *
4704875 TTAATATGTCTTTTTT
1 TTAATATTTATTTATT
4704891 TTAATATTTATTTATT
1 TTAATATTTATTTATT
4704907 TTAATATTATATT
1 TTAATATT-TATT
4704920 ATACTCCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 21 0.84
17 4 0.16
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (16 bp):
TTAATATTTATTTATT
Found at i:4706767 original size:17 final size:17
Alignment explanation
Indices: 4706729--4706785 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
4706719 ATTAAATTTA
**
4706729 TAATTTAAATAATTCGAT
1 TAATTTAAATAA-TAAAT
4706747 TAATTTAAATAATAAAT
1 TAATTTAAATAATAAAT
* *
4706764 TAATGTAAAT-ATGAAT
1 TAATTTAAATAATAAAT
4706780 TAATTT
1 TAATTT
4706786 TTCTCAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
16 10 0.29
17 12 0.35
18 12 0.35
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (17 bp):
TAATTTAAATAATAAAT
Found at i:4706824 original size:19 final size:17
Alignment explanation
Indices: 4706802--4706853 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 17
4706792 ATAAAAATAA
4706802 TATAAAATTTTAAAGTATT
1 TATAAAATTTTAAA-T-TT
*
4706821 TATAAAAATTTCAAATTT
1 TAT-AAAATTTTAAATTT
*
4706839 TCATAATATTTTAAA
1 T-ATAAAATTTTAAA
4706854 AATTAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 12 0.43
19 6 0.21
20 10 0.36
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (17 bp):
TATAAAATTTTAAATTT
Found at i:4707180 original size:27 final size:27
Alignment explanation
Indices: 4707130--4707182 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
4707120 TCACTTTCTT
*
4707130 TTTTGTGTATCTTTTTTTTCTGAAAGC
1 TTTTGTGTATCTTTTTTATCTGAAAGC
*
4707157 TTTTGTTTATCTTTTTTAAT-TGAAAG
1 TTTTGTGTATCTTTTTT-ATCTGAAAG
4707183 TCTACAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.19, C:0.08, G:0.13, T:0.60
Consensus pattern (27 bp):
TTTTGTGTATCTTTTTTATCTGAAAGC
Found at i:4708866 original size:20 final size:19
Alignment explanation
Indices: 4708843--4708882 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
4708833 TGTCTCAGAA
4708843 ATAATTACTTTGTTCAGTGG
1 ATAATTACTTTGTTC-GTGG
*
4708863 ATAATTATTTTGTTCGTGG
1 ATAATTACTTTGTTCGTGG
4708882 A
1 A
4708883 ACAAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.47
Consensus pattern (19 bp):
ATAATTACTTTGTTCGTGG
Found at i:4711758 original size:3 final size:3
Alignment explanation
Indices: 4711750--4711783 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4711740 TTCATTATCC
4711750 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4711784 CGTCGTTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4714620 original size:24 final size:24
Alignment explanation
Indices: 4714605--4714656 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
4714595 AATCAAAGTC
4714605 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
4714629 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
4714653 AAAT
1 AAAT
4714657 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:4719036 original size:24 final size:24
Alignment explanation
Indices: 4719020--4719072 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
4719010 TAATCAAAGT
4719020 TAAATATATTATGCTAATAAATGC
1 TAAATATATTATGCTAATAAATGC
* * *
4719044 TAAATATATTATACTCATAAATAC
1 TAAATATATTATGCTAATAAATGC
4719068 TAAAT
1 TAAAT
4719073 CTTCTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (24 bp):
TAAATATATTATGCTAATAAATGC
Found at i:4720920 original size:11 final size:11
Alignment explanation
Indices: 4720906--4720932 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
4720896 AGATAAATAT
4720906 TATTTAATTAA
1 TATTTAATTAA
4720917 TATTTAATTAA
1 TATTTAATTAA
4720928 TATTT
1 TATTT
4720933 TTAGTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TATTTAATTAA
Found at i:4720926 original size:19 final size:20
Alignment explanation
Indices: 4720881--4720928 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
4720871 TTGTGATATT
4720881 TTTAATTAATTAATTAGATA
1 TTTAATTAATTAATTAGATA
** *
4720901 AAT-ATTATTTAATTA-ATA
1 TTTAATTAATTAATTAGATA
4720919 TTTAATTAAT
1 TTTAATTAAT
4720929 ATTTTTAGTA
Statistics
Matches: 21, Mismatches: 6, Indels: 3
0.70 0.20 0.10
Matches are distributed among these distances:
18 4 0.19
19 16 0.76
20 1 0.05
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TTTAATTAATTAATTAGATA
Found at i:4724263 original size:31 final size:31
Alignment explanation
Indices: 4724228--4724286 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
4724218 TTATAACATA
* *
4724228 TTTCATATTATGTTTTCAATTCACTATCATT
1 TTTCACATTATATTTTCAATTCACTATCATT
*
4724259 TTTCACATTCTATTTTCAATTCACTATC
1 TTTCACATTATATTTTCAATTCACTATC
4724287 TCATATTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.25, C:0.20, G:0.02, T:0.53
Consensus pattern (31 bp):
TTTCACATTATATTTTCAATTCACTATCATT
Found at i:4724407 original size:22 final size:22
Alignment explanation
Indices: 4724376--4724441 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
4724366 TGCACTAATG
4724376 AACAGAGAGCACTGAAGTGCTA
1 AACAGAGAGCACTGAAGTGCTA
* * * *
4724398 TACAGTGAGCACAGATGTGCTA
1 AACAGAGAGCACTGAAGTGCTA
*
4724420 AACAGAGAGCACTGACGTGCTA
1 AACAGAGAGCACTGAAGTGCTA
4724442 GTAATCAGGG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.17
Consensus pattern (22 bp):
AACAGAGAGCACTGAAGTGCTA
Found at i:4724487 original size:25 final size:25
Alignment explanation
Indices: 4724422--4724493 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 25
4724412 ATGTGCTAAA
* *
4724422 CAGAGAGCACTGACGTGCTAGTAAT
1 CAGAGAGCACTAACGTGCTAATAAT
*
4724447 CAGGGGAGCACTAACGTGCTAATAAT
1 CA-GAGAGCACTAACGTGCTAATAAT
*
4724473 CAGAGAGCACCAACGTGCTAA
1 CAGAGAGCACTAACGTGCTAA
4724494 ATGCTAATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
25 19 0.46
26 22 0.54
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.17
Consensus pattern (25 bp):
CAGAGAGCACTAACGTGCTAATAAT
Found at i:4724661 original size:13 final size:13
Alignment explanation
Indices: 4724643--4724668 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4724633 TTTCACATTT
4724643 ATAATATATATTC
1 ATAATATATATTC
4724656 ATAATATATATTC
1 ATAATATATATTC
4724669 CACTTCAATT
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
ATAATATATATTC
Found at i:4725474 original size:8 final size:8
Alignment explanation
Indices: 4725461--4725503 Score: 59
Period size: 8 Copynumber: 5.2 Consensus size: 8
4725451 TTTTTTATAT
4725461 ATATAATA
1 ATATAATA
4725469 ATATAATA
1 ATATAATA
* *
4725477 TTATAACA
1 ATATAATA
4725485 ATATAATTA
1 ATATAA-TA
4725494 ATATAATA
1 ATATAATA
4725502 AT
1 AT
4725504 TATTTATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
8 23 0.77
9 7 0.23
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (8 bp):
ATATAATA
Found at i:4725487 original size:16 final size:17
Alignment explanation
Indices: 4725457--4725491 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
4725447 TGTTTTTTTT
*
4725457 ATATATATAATAATATA
1 ATATATATAACAATATA
4725474 ATAT-TATAACAATATA
1 ATATATATAACAATATA
4725490 AT
1 AT
4725492 TAATATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATATATAACAATATA
Found at i:4726177 original size:8 final size:8
Alignment explanation
Indices: 4726152--4726185 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
4726142 GAGAATTAAT
4726152 GTTTAGGG
1 GTTTAGGG
*
4726160 G-TTAGAG
1 GTTTAGGG
4726167 GTTTAGGG
1 GTTTAGGG
4726175 GTTTAGGG
1 GTTTAGGG
4726183 GTT
1 GTT
4726186 AGATGTTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.15, C:0.00, G:0.47, T:0.38
Consensus pattern (8 bp):
GTTTAGGG
Found at i:4726187 original size:15 final size:16
Alignment explanation
Indices: 4726152--4726185 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
4726142 GAGAATTAAT
4726152 GTTTAGGGG-TTAGAG
1 GTTTAGGGGTTTAGAG
*
4726167 GTTTAGGGGTTTAGGG
1 GTTTAGGGGTTTAGAG
4726183 GTT
1 GTT
4726186 AGATGTTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.15, C:0.00, G:0.47, T:0.38
Consensus pattern (16 bp):
GTTTAGGGGTTTAGAG
Found at i:4726640 original size:302 final size:297
Alignment explanation
Indices: 4726026--4726765 Score: 876
Period size: 302 Copynumber: 2.5 Consensus size: 297
4726016 TATCACTATA
*
4726026 GTTTAGGGTTTTTGGTTTAGGGTATGGTATATGATTTATTTAAGATTTAAGGCCAGTTTAGGAGT
1 GTTTAGGGTTTTTGGTTTA----A-GGTATATGATTTATTTAAGATTTAAGGCCGGTTTAGGAGT
** * * *
4726091 T-ACTATTTTAAGGTTTAGGGAGTATGGA-TTAGGGATTATGGTTTAAGGGTTGAGAATTAATGT
61 TCA-TATTTTAAGGTTTAGGGAGTATGGATTTAGGGATTATGAATTAAGGATTGAGAATTAAGGG
* * * **
4726154 TTAGGGGTTAGAGGTTTAGGGGTTTAGGGGTTAGATGTTATGGGTTAAGAGTTAAGAATTTAGGG
125 TTAGGGGTTAGAGATTTAGGGGATTAGGGGTTAGATGTTATGGGTTAAGAGTTAAGAATTAAAAG
*
4726219 TTTAGGGATTCAGGGGTCGAGTTAGGATTTTGGGCGTTTAGATTAATTTTTTTAATTTATGTTTT
190 TTTAGGGATTCAGGGGTCGAGTTAGGATTTTGGGCGTTTAGATTAATTTTTTTAATTTATATTTT
4726284 AAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAATTT
255 AAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAATTT
4726327 GTTTAGGGTTTTTGGTTTAAGGTATATGATTTATTTAAGATTTAAGGCCGGTTTAGGAGTTCATA
1 GTTTAGGGTTTTTGGTTTAAGGTATATGATTTATTTAAGATTTAAGGCCGGTTTAGGAGTTCATA
* **
4726392 TTTTAAGGTTTAGGGAGTATGGATTTATGGATTATGAATT-AGTGATT-ATGGTTTAAGGGTT-G
66 TTTTAAGGTTTAGGGAGTATGGATTTAGGGATTATGAATTAAG-GATTGA-GAATTAAGGGTTAG
* * * * **
4726454 GGATTTA-AGATTTA-GGGATTAGAGGGTTATG-GGTTTATGGGTACTTAGACGCGTTAGGGGTT
129 GG-GTTAGAGATTTAGGGGATTAG-GGGTTA-GATG-TTATGGG---TTA-A-GAGTTAAGAATT
*
4726516 AAAAG-TTAGGGATTCAGGGGTC-AGGTTAGGGTTTT-GG-GTTTAGATTAATTATTTTTTTAAT
185 AAAAGTTTAGGGATTCAGGGGTCGA-GTTAGGATTTTGGGCGTTTAGATT-A--ATTTTTTTAAT
4726577 TTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAATTT
246 TTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAATTT
* * * *
4726629 GTTTAGGGTTTTTAGTTTAGGGTATATTATTAATTTAAGATTTAAGGCCGGTTTAGGTA-TTCAT
1 GTTTAGGGTTTTTGGTTTAAGGTATATGATTTATTTAAGATTTAAGGCCGGTTTAGG-AGTTCAT
* * ** * * * * *
4726693 ATTTTAAGGTTTATGGAGTGTGGATTTAGGGATTATGGTTTAAGGGTTGGGATTTAATGTTTAGG
65 ATTTTAAGGTTTAGGGAGTATGGATTTAGGGATTATGAATTAAGGATTGAGAATTAAGGGTTAGG
4726758 GGTTAGAG
130 GGTTAGAG
4726766 GTTTCCCCCT
Statistics
Matches: 380, Mismatches: 37, Indels: 42
0.83 0.08 0.09
Matches are distributed among these distances:
295 7 0.02
296 84 0.22
297 37 0.10
299 9 0.02
300 7 0.02
301 47 0.12
302 181 0.48
303 8 0.02
ACGTcount: A:0.27, C:0.03, G:0.28, T:0.42
Consensus pattern (297 bp):
GTTTAGGGTTTTTGGTTTAAGGTATATGATTTATTTAAGATTTAAGGCCGGTTTAGGAGTTCATA
TTTTAAGGTTTAGGGAGTATGGATTTAGGGATTATGAATTAAGGATTGAGAATTAAGGGTTAGGG
GTTAGAGATTTAGGGGATTAGGGGTTAGATGTTATGGGTTAAGAGTTAAGAATTAAAAGTTTAGG
GATTCAGGGGTCGAGTTAGGATTTTGGGCGTTTAGATTAATTTTTTTAATTTATATTTTAAATAT
GTTCTTATATAATTGTAAAAGAGATAATAATAAATTT
Found at i:4729263 original size:23 final size:22
Alignment explanation
Indices: 4729209--4729264 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
4729199 ACTAAAAGTA
*
4729209 TATATTTAATACTAATTAATTT
1 TATATTTAATAATAATTAATTT
* **
4729231 TTTATATTAATAATGTTTAATTT
1 TATAT-TTAATAATAATTAATTT
4729254 TAATATTTAAT
1 T-ATATTTAAT
4729265 TTTTTTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
22 4 0.15
23 20 0.74
24 3 0.11
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TATATTTAATAATAATTAATTT
Found at i:4729376 original size:44 final size:42
Alignment explanation
Indices: 4729328--4729470 Score: 146
Period size: 43 Copynumber: 3.3 Consensus size: 42
4729318 GAACGGTACT
* *
4729328 TTTAGCGGCGTTTGTGATAAAAAGCGTCACTAAAGGTCATGTTC
1 TTTAGCGGCATTTGT-ATAAAAAGCGTCGCTAAAGG-CATGTTC
* *
4729372 TTTAGCGGCAATTGT-TAGAAAACCGTCGCTAAAGGCTATGTTC
1 TTTAGCGGCATTTGTATA-AAAAGCGTCGCTAAAGGC-ATGTTC
* * * *
4729415 TTTAGCGGCATTTAT-TAAAAAAGCGCCGCTAAAGAACATGGTC
1 TTTAGCGGCATTTGTAT-AAAAAGCGTCGCTAAAG-GCATGTTC
4729458 TTTAGCGGCATTT
1 TTTAGCGGCATTT
4729471 ATTTCTAAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
42 3 0.04
43 67 0.79
44 15 0.18
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (42 bp):
TTTAGCGGCATTTGTATAAAAAGCGTCGCTAAAGGCATGTTC
Found at i:4730758 original size:22 final size:22
Alignment explanation
Indices: 4730730--4730773 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4730720 TGGGTACTTC
4730730 CATATACTTAGTTTATCATTGT
1 CATATACTTAGTTTATCATTGT
*
4730752 CATATACTTAGTTTATTATTGT
1 CATATACTTAGTTTATCATTGT
4730774 GGCTGATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.52
Consensus pattern (22 bp):
CATATACTTAGTTTATCATTGT
Found at i:4733149 original size:6 final size:6
Alignment explanation
Indices: 4733138--4733167 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
4733128 AAATAGAGTC
4733138 TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT
1 TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT
4733168 GTCAGTCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (6 bp):
TCTCTT
Found at i:4745397 original size:45 final size:45
Alignment explanation
Indices: 4745347--4745437 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
4745337 ACTTCACTAT
4745347 AAATCCTTACCAGGTATCATTTTACGTGCTTTTAGGGTTTTGTGA
1 AAATCCTTACCAGGTATCATTTTACGTGCTTTTAGGGTTTTGTGA
4745392 AAATCCTTACCAGGTATCATTTTACGTGCTTTTAGGGTTTTGTGA
1 AAATCCTTACCAGGTATCATTTTACGTGCTTTTAGGGTTTTGTGA
4745437 A
1 A
4745438 TATTTTGGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (45 bp):
AAATCCTTACCAGGTATCATTTTACGTGCTTTTAGGGTTTTGTGA
Found at i:4749289 original size:4 final size:4
Alignment explanation
Indices: 4749280--4749307 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
4749270 ACAAAAAGGC
4749280 CCCT CCCT CCCT CCCT CCCT CCCT CCCT
1 CCCT CCCT CCCT CCCT CCCT CCCT CCCT
4749308 AGCATCATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.75, G:0.00, T:0.25
Consensus pattern (4 bp):
CCCT
Found at i:4751185 original size:2 final size:2
Alignment explanation
Indices: 4751174--4751206 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4751164 TGATTGAATC
4751174 CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4751207 GATGATTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:4760328 original size:46 final size:46
Alignment explanation
Indices: 4760261--4760529 Score: 376
Period size: 46 Copynumber: 5.6 Consensus size: 46
4760251 TTTGAGTACT
*
4760261 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
4760307 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
4760353 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
4760405 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
4760457 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
4760503 TCTGATCAAGTGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
4760530 GCTACACTTA
Statistics
Matches: 207, Mismatches: 10, Indels: 12
0.90 0.04 0.05
Matches are distributed among these distances:
46 113 0.55
52 94 0.45
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:4760380 original size:98 final size:92
Alignment explanation
Indices: 4760261--4760566 Score: 369
Period size: 98 Copynumber: 3.3 Consensus size: 92
4760251 TTTGAGTACT
* *
4760261 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGT
4760326 GATAAGTGATAGCTTCAGCTACACTTA
66 GATAAGTGATAGCTTCAGCTACACTTA
*
4760353 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGAGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
* *
4760418 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 C------AAAGTGATAAGTGATAGCTTCAGCTACACTTA
**
4760457 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGT
4760522 GATAA--G-T-G-----GCTACACTTA
66 GATAAGTGATAGCTTCAGCTACACTTA
*
4760540 TCTGATCAAGAAACAAAGTGATAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTG
4760567 GCTACACTTA
Statistics
Matches: 194, Mismatches: 8, Indels: 33
0.83 0.03 0.14
Matches are distributed among these distances:
83 35 0.18
88 1 0.01
89 1 0.01
90 1 0.01
92 23 0.12
98 90 0.46
104 43 0.22
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (92 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGATAGCTTCAGCTACACTTA
Found at i:4760386 original size:52 final size:51
Alignment explanation
Indices: 4760321--4760529 Score: 302
Period size: 52 Copynumber: 4.1 Consensus size: 51
4760311 ATCAAGTGAC
4760321 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
*
4760373 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
4760424 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
4760471 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGTG
4760523 ATAAGTG
1 A-AAGTG
4760530 GCTACACTTA
Statistics
Matches: 142, Mismatches: 7, Indels: 15
0.87 0.04 0.09
Matches are distributed among these distances:
46 42 0.30
51 1 0.01
52 94 0.66
53 5 0.04
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:4760537 original size:37 final size:37
Alignment explanation
Indices: 4760493--4760638 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
4760483 GATAGCTTTA
**
4760493 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4760530 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
4760567 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
4760604 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4760639 ATCATACGTA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 88 0.85
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:4761955 original size:49 final size:49
Alignment explanation
Indices: 4761894--4762135 Score: 412
Period size: 49 Copynumber: 4.9 Consensus size: 49
4761884 ATGTGAACAT
4761894 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
4761944 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
4761993 GTGATATGTGATTTCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * *
4762042 GTGATTTGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
4762091 GTGATATGTGATTTCGTGTAAGACCATAGCTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
4762136 AGAAAACGAA
Statistics
Matches: 185, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
49 181 0.98
50 4 0.02
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:4765344 original size:46 final size:44
Alignment explanation
Indices: 4765319--4765619 Score: 325
Period size: 46 Copynumber: 6.5 Consensus size: 44
4765309 GATCAAGTGA
* *
4765319 CAAGTGGA-AAGTGATAAGTAATAGCTTCGGCTATACTTATCTGAT
1 CAAGT-GACAAGTGATAAGTGATAGCTT-AGCTATACTTATCTGAT
* *
4765364 CAAGTGATAAAGTGATAAGTGATAGCTTCGCTATACTTATCTGAT
1 CAAGTGA-CAAGTGATAAGTGATAGCTTAGCTATACTTATCTGAT
*
4765409 CAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGAT
1 CAAGTGAC-AAGTGATAAGTGATAGCTT-AGCTATACTTATCTGAT
*
4765455 CAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGAT
1 CAAGTGAC-------AAGTGATAAGTGATAGCTT-AGCTATACTTATCTGAT
* * *
4765507 CAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATATTTATCTGAT
1 CAAGTGA-CAAGTGATAAGTGATAGCTT-AGCTATACTTATCTGAT
* *
4765553 CAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGAT
1 CAAGTGAC-AAGTGATAAGTGATAGC-TTAGCTATACTTATCTGAT
*
4765599 CAAGAGACAAAGTGATAAGTG
1 CAAGTGAC-AAGTGATAAGTG
4765620 GCTACACTTA
Statistics
Matches: 229, Mismatches: 14, Indels: 25
0.85 0.05 0.09
Matches are distributed among these distances:
44 2 0.01
45 47 0.21
46 135 0.59
47 2 0.01
52 43 0.19
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (44 bp):
CAAGTGACAAGTGATAAGTGATAGCTTAGCTATACTTATCTGAT
Found at i:4765380 original size:98 final size:94
Alignment explanation
Indices: 4765260--4765619 Score: 464
Period size: 98 Copynumber: 3.8 Consensus size: 94
4765250 TTTGAGTACT
*
4765260 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-A-T-
*
4765325 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
63 -AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
4765358 TCTGATCAAGTGATAAAGTGATAAGTGATAGC-TTCGCTATACTTATCTGATCAAGTGAC--AAA
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACATAAA
* *
4765420 GTGATAAGTGATAGCTTCAGCTACACTTA
66 GTGATAAGTGATAGCTTCGGCTATACTTA
** *
4765449 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTG-
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGA
*
4765513 -ATAAAGTGATAAGTGATAGCTTCGGCTATATTTA
60 CATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * *
4765547 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--AAA
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACATAAA
4765610 GTGATAAGTG
66 GTGATAAGTG
4765620 GCTACACTTA
Statistics
Matches: 234, Mismatches: 17, Indels: 28
0.84 0.06 0.10
Matches are distributed among these distances:
91 41 0.18
92 53 0.23
94 1 0.00
95 2 0.01
97 43 0.18
98 94 0.40
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (94 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACATAAA
GTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:4765474 original size:143 final size:144
Alignment explanation
Indices: 4765260--4765608 Score: 628
Period size: 143 Copynumber: 2.4 Consensus size: 144
4765250 TTTGAGTACT
* *
4765260 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
4765325 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
4765390 TTC-GCTATACTTA
131 TTCGGCTATACTTA
*
4765403 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
4765468 GAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
*
4765533 TTCGGCTATATTTA
131 TTCGGCTATACTTA
* *
4765547 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAA
4765609 AGTGATAAGT
Statistics
Matches: 197, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
143 129 0.65
144 68 0.35
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.30
Consensus pattern (144 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
TTCGGCTATACTTA
Found at i:4765627 original size:37 final size:37
Alignment explanation
Indices: 4765583--4765691 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
4765573 GATAGCTTTA
4765583 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
4765620 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
4765657 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
4765692 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:4767844 original size:37 final size:37
Alignment explanation
Indices: 4767787--4767891 Score: 169
Period size: 37 Copynumber: 2.9 Consensus size: 37
4767777 TATGATCACT
*
4767787 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
4767822 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
4767859 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
4767892 TAAAGCTATC
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 6 0.09
36 4 0.06
37 54 0.84
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:4767922 original size:46 final size:46
Alignment explanation
Indices: 4767855--4768215 Score: 470
Period size: 46 Copynumber: 7.6 Consensus size: 46
4767845 TAAGTGTAGC
* * **
4767855 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
4767901 CACTTATCACTTTGTCTCTTGATCAGATAAATATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
4767947 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
4767993 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTATAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
4768045 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
4768091 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * ** *
4768137 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
4768189 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
4768216 AGTACTCAAA
Statistics
Matches: 282, Mismatches: 21, Indels: 24
0.86 0.06 0.07
Matches are distributed among these distances:
46 197 0.70
48 2 0.01
50 2 0.01
52 81 0.29
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:4768051 original size:98 final size:95
Alignment explanation
Indices: 4767855--4768215 Score: 443
Period size: 98 Copynumber: 3.8 Consensus size: 95
4767845 TAAGTGTAGC
* * * *
4767855 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC--T-TTGTC
1 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATTGTC
* *
4767917 TCTTGATCAGATAAATATAGCCGAAGCTAT
66 ACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
4767947 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTT--A-TT
*
4768012 GTCACTTGATCAGATAAGTATAGCTGAAGCTAT
63 GTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
4768045 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTA---TC
1 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATTGTC
4768107 ACTTGATCAGATAAGTATAGCCGAAGCTAT
66 ACTTGATCAGATAAGTATAGCCGAAGCTAT
* * * *
4768137 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
1 CACTTATCACTTT--A----TCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTT
4768202 A---TCACTTGATCAGA
60 ATTGTCACTTGATCAGA
4768216 AGTACTCAAA
Statistics
Matches: 239, Mismatches: 18, Indels: 18
0.87 0.07 0.07
Matches are distributed among these distances:
92 93 0.39
94 1 0.00
96 1 0.00
98 144 0.60
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (95 bp):
CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATTGTC
ACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:4768092 original size:144 final size:144
Alignment explanation
Indices: 4767866--4768215 Score: 637
Period size: 144 Copynumber: 2.4 Consensus size: 144
4767856 ACTTATCACT
* *
4767866 TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
4767931 ATATAGCCGAAGCTATCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTAC
66 ATATAGCCGAAGCTATCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTAC
4767996 TTATCACTTTCCAC
131 TTATCACTTTCCAC
* *
4768010 TTGTCACTTGATCAGATAAGTATAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
*
4768075 GTATAGCCGAAGCTATCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTAC
66 ATATAGCCGAAGCTATCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTAC
4768140 TTATCACTTTCCAC
131 TTATCACTTTCCAC
* *
4768154 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
4768216 AGTACTCAAA
Statistics
Matches: 197, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
144 197 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (144 bp):
TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
ATATAGCCGAAGCTATCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTAC
TTATCACTTTCCAC
Found at i:4769167 original size:178 final size:179
Alignment explanation
Indices: 4768867--4769224 Score: 691
Period size: 178 Copynumber: 2.0 Consensus size: 179
4768857 ACTCATTAAG
4768867 GATTCTAACCATATAAACTACAACTCATAATAATTTTTGTACAATTTTTAATGATTTTCCAAAGT
1 GATTCTAACCATATAAACTACAACTCATAATAATTTTTGTACAATTTTTAATGATTTTCCAAAGT
4768932 CAGAACAGGGGAACCCGAATTCATTCTGACCTTGTCTCACAAAATCTATTATATCTCATGATTTA
66 CAGAACAGGGGAACCCGAATTCATTCTGACCTTGTCTCACAAAATCTATTATATCTCATGATTTA
4768997 CAATTCCATTACTCACATCATTTCTTTTATAAGAAACTAGAGTCAATAA
131 CAATTCCATTACTCACATCATTTCTTTTATAAGAAACTAGAGTCAATAA
*
4769046 GATTCTAACCATATAAACTACAACTCATAATAA-TTTTGTACAATTTTTAATGATTTTCCAAATT
1 GATTCTAACCATATAAACTACAACTCATAATAATTTTTGTACAATTTTTAATGATTTTCCAAAGT
4769110 CAGAACAGGGGAACCCGAATTCATTCTGACCTTGTCTCACAAAATCTATTATATCTCATGATTTA
66 CAGAACAGGGGAACCCGAATTCATTCTGACCTTGTCTCACAAAATCTATTATATCTCATGATTTA
*
4769175 CAATTCCATTGCTCACATCATTTCTTTTATAAGAAACTAGAGTCAATAA
131 CAATTCCATTACTCACATCATTTCTTTTATAAGAAACTAGAGTCAATAA
4769224 G
1 G
4769225 CTTTAATTTC
Statistics
Matches: 177, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
178 144 0.81
179 33 0.19
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (179 bp):
GATTCTAACCATATAAACTACAACTCATAATAATTTTTGTACAATTTTTAATGATTTTCCAAAGT
CAGAACAGGGGAACCCGAATTCATTCTGACCTTGTCTCACAAAATCTATTATATCTCATGATTTA
CAATTCCATTACTCACATCATTTCTTTTATAAGAAACTAGAGTCAATAA
Found at i:4771720 original size:24 final size:24
Alignment explanation
Indices: 4771678--4771726 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 24
4771668 ATTAAAAAAA
4771678 TAGGATTTAAATAATATAA-TTTT
1 TAGGATTTAAATAATATAACTTTT
4771701 TAGGATTTATAAT-ATAATAACTTTT
1 TAGGATTTA-AATAAT-ATAACTTTT
4771726 T
1 T
4771727 TACCATGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 11 0.48
24 7 0.30
25 5 0.22
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (24 bp):
TAGGATTTAAATAATATAACTTTT
Found at i:4789276 original size:96 final size:96
Alignment explanation
Indices: 4789112--4789304 Score: 314
Period size: 96 Copynumber: 2.0 Consensus size: 96
4789102 TCAAGTGTAG
* *
4789112 TGAAGGTGAAAACTTAGCTATGGAACCATCAGTTATTGAAAAGGAAGGGTATCTTATGGTCCAAC
1 TGAAGGTGAAAACTTAGCTATGGAACCATCAGTCATTGAAAAGGAAGGGTATCTTATAGTCCAAC
*
4789177 CTAGCCGACAGGGAATTTACATTCCTGATAA
66 CTAGCCGACAGGGAAGTTACATTCCTGATAA
* *
4789208 TGAAGGTGAAAACTTTGCTATGGAACCATCGGTCATTGAAAAGGAAGGGTATCTTATAGTCCAAC
1 TGAAGGTGAAAACTTAGCTATGGAACCATCAGTCATTGAAAAGGAAGGGTATCTTATAGTCCAAC
* * *
4789273 CTAGGCGACAGGGAAGTTATATTCCTGGTAA
66 CTAGCCGACAGGGAAGTTACATTCCTGATAA
4789304 T
1 T
4789305 CTTGGCTCAT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 89 1.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.26
Consensus pattern (96 bp):
TGAAGGTGAAAACTTAGCTATGGAACCATCAGTCATTGAAAAGGAAGGGTATCTTATAGTCCAAC
CTAGCCGACAGGGAAGTTACATTCCTGATAA
Found at i:4808497 original size:8 final size:9
Alignment explanation
Indices: 4808463--4808498 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
4808453 TCCATTGTCA
4808463 ATAGCATAC
1 ATAGCATAC
4808472 AT-GCATAC
1 ATAGCATAC
4808480 ATA-CATAC
1 ATAGCATAC
4808488 ATAGCA-AC
1 ATAGCATAC
4808496 ATA
1 ATA
4808499 TAGCTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 21 0.84
9 4 0.16
ACGTcount: A:0.47, C:0.22, G:0.08, T:0.22
Consensus pattern (9 bp):
ATAGCATAC
Found at i:4812138 original size:12 final size:12
Alignment explanation
Indices: 4812114--4812157 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
4812104 GGACGTTTTG
*
4812114 GGAGGAGGAGGA
1 GGAGGAGGCGGA
*
4812126 GGAGGCGGCGGA
1 GGAGGAGGCGGA
*
4812138 GGCGGAGGCGGA
1 GGAGGAGGCGGA
*
4812150 GGTGGAGG
1 GGAGGAGG
4812158 AAGGAGAACC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.20, C:0.09, G:0.68, T:0.02
Consensus pattern (12 bp):
GGAGGAGGCGGA
Found at i:4812144 original size:15 final size:15
Alignment explanation
Indices: 4812120--4812158 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
4812110 TTTGGGAGGA
4812120 GGAGGAGGAGGCGGC
1 GGAGGAGGAGGCGGC
* *
4812135 GGAGGCGGAGGCGGA
1 GGAGGAGGAGGCGGC
*
4812150 GGTGGAGGA
1 GGAGGAGGA
4812159 AGGAGAACCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.21, C:0.10, G:0.67, T:0.03
Consensus pattern (15 bp):
GGAGGAGGAGGCGGC
Found at i:4815698 original size:20 final size:21
Alignment explanation
Indices: 4815673--4815712 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
4815663 CGTTGAGTTT
*
4815673 GTGGCA-GGGTCTCAAGGATA
1 GTGGCATGGATCTCAAGGATA
4815693 GTGGCATTGGATCTCAAGGA
1 GTGGCA-TGGATCTCAAGGA
4815713 ATCACCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.25, C:0.15, G:0.38, T:0.23
Consensus pattern (21 bp):
GTGGCATGGATCTCAAGGATA
Found at i:4818193 original size:5 final size:5
Alignment explanation
Indices: 4818183--4818211 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
4818173 TACCTTAATA
4818183 ATTAT ATTAT ATTAT ATTAT ATTAT ATTA
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTA
4818212 AAACAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:4818281 original size:17 final size:17
Alignment explanation
Indices: 4818241--4818282 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
4818231 AGAAATAGAA
* *
4818241 AAAGAAA-CAGAGATGG
1 AAAGAAAGCAGAAAGGG
4818257 AAACGAAAGCAGAAAGGG
1 AAA-GAAAGCAGAAAGGG
4818275 AAAGAAAG
1 AAAGAAAG
4818283 AAAAAGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 3 0.14
17 9 0.41
18 10 0.45
ACGTcount: A:0.60, C:0.07, G:0.31, T:0.02
Consensus pattern (17 bp):
AAAGAAAGCAGAAAGGG
Found at i:4818288 original size:6 final size:6
Alignment explanation
Indices: 4818279--4818309 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
4818269 AAAGGGAAAG
*
4818279 AAAGAA AAAGAA AAAGAA AAAGAG AAAGAA A
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA A
4818310 GAAAGGAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:4818999 original size:24 final size:24
Alignment explanation
Indices: 4818972--4819018 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4818962 ATTGAAATGG
4818972 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
4818996 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
4819019 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:4819266 original size:37 final size:40
Alignment explanation
Indices: 4819175--4819268 Score: 104
Period size: 41 Copynumber: 2.4 Consensus size: 40
4819165 GACTTTGAGT
* * **
4819175 CGATGAGACACTGGGTGTCAATTTACTACTTTGGATTAATT
1 CGATGAGACACTGGGTGCCAATTTA-TACTTCGGATTAAGC
* *
4819216 CGATGAGGCACTGGGTGCCAA-TT-TACTTCGG-TTTAGC
1 CGATGAGACACTGGGTGCCAATTTATACTTCGGATTAAGC
4819253 CGATGAGACACTGGGT
1 CGATGAGACACTGGGT
4819269 TTCATATTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 18 0.39
38 7 0.15
40 2 0.04
41 19 0.41
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (40 bp):
CGATGAGACACTGGGTGCCAATTTATACTTCGGATTAAGC
Found at i:4820020 original size:21 final size:22
Alignment explanation
Indices: 4819980--4820020 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4819970 CAATTTCTCA
*
4819980 ATCCAATATATATATTTCAATC
1 ATCCAATATATATAATTCAATC
4820002 ATCCAATA-ATATAATTCAA
1 ATCCAATATATATAATTCAA
4820021 GTTACACGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (22 bp):
ATCCAATATATATAATTCAATC
Found at i:4822357 original size:13 final size:13
Alignment explanation
Indices: 4822339--4822365 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4822329 TGAATGATAT
4822339 TTTGATGATATAA
1 TTTGATGATATAA
4822352 TTTGATGATATAA
1 TTTGATGATATAA
4822365 T
1 T
4822366 CATGGTACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TTTGATGATATAA
Found at i:4824349 original size:31 final size:31
Alignment explanation
Indices: 4824314--4824383 Score: 140
Period size: 31 Copynumber: 2.3 Consensus size: 31
4824304 AAATTTCTAC
4824314 TTTGGCCCTCCTTCTTTGCTTCTTTCTTTAA
1 TTTGGCCCTCCTTCTTTGCTTCTTTCTTTAA
4824345 TTTGGCCCTCCTTCTTTGCTTCTTTCTTTAA
1 TTTGGCCCTCCTTCTTTGCTTCTTTCTTTAA
4824376 TTTGGCCC
1 TTTGGCCC
4824384 AATTGTTCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.06, C:0.30, G:0.11, T:0.53
Consensus pattern (31 bp):
TTTGGCCCTCCTTCTTTGCTTCTTTCTTTAA
Found at i:4841763 original size:17 final size:17
Alignment explanation
Indices: 4841725--4841766 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
4841715 AAACATTTAT
* *
4841725 TTTA-ATATTTTTGATA
1 TTTATATATTTTTAAAA
4841741 TATTATATATTTTTAAAA
1 T-TTATATATTTTTAAAA
4841759 TTTATATA
1 TTTATATA
4841767 ATAAATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 1 0.05
17 10 0.45
18 11 0.50
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTATATATTTTTAAAA
Found at i:4842854 original size:38 final size:38
Alignment explanation
Indices: 4842810--4842882 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
4842800 AACCCAACCT
*
4842810 AATTACCAACCCAATAAAACTAAAACTAAAGTCTATCC
1 AATTACCAACCCAATAAAAATAAAACTAAAGTCTATCC
4842848 AATTACCAACCCAATAAAAATAAAACTAAAGTCTA
1 AATTACCAACCCAATAAAAATAAAACTAAAGTCTA
4842883 ACTCTAAGTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.53, C:0.23, G:0.03, T:0.21
Consensus pattern (38 bp):
AATTACCAACCCAATAAAAATAAAACTAAAGTCTATCC
Found at i:4857178 original size:15 final size:16
Alignment explanation
Indices: 4857158--4857190 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
4857148 GACTATTAGT
4857158 TTTTTCTATTAA-TCC
1 TTTTTCTATTAATTCC
4857173 TTTTTCTATTAATTCC
1 TTTTTCTATTAATTCC
4857189 TT
1 TT
4857191 AATTTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTTCTATTAATTCC
Found at i:4859320 original size:16 final size:18
Alignment explanation
Indices: 4859295--4859327 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4859285 GTAATTTATG
4859295 AAAATATTTAT-TTTTCC
1 AAAATATTTATATTTTCC
4859312 AAAAT-TTTATATTTTC
1 AAAATATTTATATTTTC
4859328 ATTTTTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (18 bp):
AAAATATTTATATTTTCC
Found at i:4862332 original size:7 final size:7
Alignment explanation
Indices: 4862322--4862350 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
4862312 ATATATATAA
4862322 TTTATTT
1 TTTATTT
4862329 TTTATTT
1 TTTATTT
4862336 TTTATTT
1 TTTATTT
4862343 TTTATTT
1 TTTATTT
4862350 T
1 T
4862351 ACGATATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTATTT
Found at i:4862884 original size:45 final size:45
Alignment explanation
Indices: 4862820--4862913 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
4862810 ATTAAACTTT
* *
4862820 ATTTTCATTATATATTAATTAGGTGTTTAAGTCGTTTTTAATTTC
1 ATTTTCATTATATATTAATTAGGTATTTAAGCCGTTTTTAATTTC
* *
4862865 ATTTTCATTATATATTAATTAGGTATTTAGGCCGTTTTTAATTTT
1 ATTTTCATTATATATTAATTAGGTATTTAAGCCGTTTTTAATTTC
4862910 ATTT
1 ATTT
4862914 AGGAAAATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.06, G:0.11, T:0.56
Consensus pattern (45 bp):
ATTTTCATTATATATTAATTAGGTATTTAAGCCGTTTTTAATTTC
Found at i:4863559 original size:18 final size:18
Alignment explanation
Indices: 4863538--4863572 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4863528 AATATTATAA
4863538 AATAAAATAATTATTTTG
1 AATAAAATAATTATTTTG
* *
4863556 AATATAATTATTATTTT
1 AATAAAATAATTATTTT
4863573 TATACGTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
AATAAAATAATTATTTTG
Found at i:4863926 original size:37 final size:36
Alignment explanation
Indices: 4863850--4863931 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
4863840 TAAAAAGACG
** **
4863850 AATT-AAAATAAAAAATTGAAAACAATATATTTATT
1 AATTAAAAATAAAAAATTGAAAACAATATAAATAAA
4863885 AATTAAAAATAAAAAACTTG-AAACAATATGAAATAAA
1 AATTAAAAATAAAAAA-TTGAAAACAATAT-AAATAAA
*
4863922 AATTACAAAT
1 AATTAAAAAT
4863932 GTGTTTAGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
35 4 0.10
36 20 0.51
37 15 0.38
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (36 bp):
AATTAAAAATAAAAAATTGAAAACAATATAAATAAA
Found at i:4875184 original size:5 final size:5
Alignment explanation
Indices: 4875174--4875206 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
4875164 ATAAACCACT
4875174 GCATA GCATA GCATA GCATA GCATA GCA-A GCAT
1 GCATA GCATA GCATA GCATA GCATA GCATA GCAT
4875207 TATAGCTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (5 bp):
GCATA
Found at i:4877976 original size:6 final size:6
Alignment explanation
Indices: 4877965--4877992 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
4877955 TAATTCACAC
4877965 AAATAA AAATAA AAATAA AAATAA AAAT
1 AAATAA AAATAA AAATAA AAATAA AAAT
4877993 TTGATATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:4882870 original size:18 final size:17
Alignment explanation
Indices: 4882848--4882982 Score: 95
Period size: 18 Copynumber: 8.0 Consensus size: 17
4882838 AATACTAAGA
4882848 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
4882865 ATTTTTGTTAAA-T-TAT
1 A-TTTTATTAAATTATAT
* *
4882881 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
4882895 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* *
4882914 AATATTA-TATATTATA-
1 -ATTTTATTAAATTATAT
*
4882930 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
4882948 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
4882965 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
4882983 TTAATAATAA
Statistics
Matches: 92, Mismatches: 13, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
13 2 0.02
14 6 0.07
15 9 0.10
16 9 0.10
17 20 0.22
18 41 0.45
19 1 0.01
20 4 0.04
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:4882901 original size:26 final size:25
Alignment explanation
Indices: 4882863--4882921 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
4882853 ATTAAATTAT
*
4882863 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
4882889 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
4882915 ATATTAT
1 ATATTAT
4882922 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Done.