Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 23 of 204
Found at i:8570563 original size:128 final size:130
Alignment explanation
Indices: 8570285--8570564 Score: 336
Period size: 128 Copynumber: 2.2 Consensus size: 130
8570275 CTTAATGGCG
* ** *
8570285 TTTCTCACAAAAACGCCGCTATAGAACATGACCTTTAACGACGCTTTTCCCACAAATGCTGCTAA
1 TTTCTC-CAAAAACGCCGCTAAAGAACATGACCTTTAACGACGCTTTTCCCACAAACACCGCTAA
* * * *
8570350 AGAACATGACCTATATCGACGCTTTTCCCACAAATGCCGCTAAAGAACATGACCTTTAGCTGTGC
65 AGAACATGACCTATAGCGACGCTTTTCCCAAAAATGCCGCTAAAGAACATGACATTTAGCGGTGC
8570415 T
130 T
* ** * *
8570416 TTTCTCC-TAAACGCCGCTAAAGAACATGACCTTTAGTTG-CGCTTTT-CCTCAAACACCGTTAA
1 TTTCTCCAAAAACGCCGCTAAAGAACATGACCTTTA-ACGACGCTTTTCCCACAAACACCGCTAA
* * * *
8570478 AGAATATTGACCTTTAGCTACGCTTTT-CCAAAAATGCCTCTAAAGAACATGACATTTAGCGGTG
65 AGAACA-TGACCTATAGCGACGCTTTTCCCAAAAATGCCGCTAAAGAACATGACATTTAGCGGTG
*
8570542 TT
129 CT
8570544 TTTC-CCAAAAACGCCGCTAAA
1 TTTCTCCAAAAACGCCGCTAAA
8570565 AGTCATGTTC
Statistics
Matches: 127, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
127 2 0.02
128 67 0.53
129 50 0.39
130 2 0.02
131 6 0.05
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (130 bp):
TTTCTCCAAAAACGCCGCTAAAGAACATGACCTTTAACGACGCTTTTCCCACAAACACCGCTAAA
GAACATGACCTATAGCGACGCTTTTCCCAAAAATGCCGCTAAAGAACATGACATTTAGCGGTGCT
Found at i:8571239 original size:33 final size:33
Alignment explanation
Indices: 8571201--8571289 Score: 153
Period size: 33 Copynumber: 2.7 Consensus size: 33
8571191 AGGAAGAAAT
*
8571201 AAAGGGATTTGGGAAATTGGGAATTTTGATCAG
1 AAAGGGATTTGGGAAGTTGGGAATTTTGATCAG
8571234 AAAGGGATTTGGGAAGTTGAGG-ATTTTGATCAG
1 AAAGGGATTTGGGAAGTTG-GGAATTTTGATCAG
8571267 AAAGGGATTTGGGAAGTTGGGAA
1 AAAGGGATTTGGGAAGTTGGGAA
8571290 ATTGGGGAAG
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
32 2 0.04
33 49 0.92
34 2 0.04
ACGTcount: A:0.33, C:0.02, G:0.37, T:0.28
Consensus pattern (33 bp):
AAAGGGATTTGGGAAGTTGGGAATTTTGATCAG
Found at i:8572958 original size:18 final size:19
Alignment explanation
Indices: 8572935--8572974 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
8572925 CATAATGATA
8572935 TATATAATGTA-AT-TTTAT
1 TATATAAT-TACATATTTAT
8572953 TATATAATTACATATTTAT
1 TATATAATTACATATTTAT
8572972 TAT
1 TAT
8572975 TTTATTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 2 0.10
18 10 0.50
19 8 0.40
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (19 bp):
TATATAATTACATATTTAT
Found at i:8572979 original size:95 final size:100
Alignment explanation
Indices: 8572811--8573010 Score: 304
Period size: 95 Copynumber: 2.0 Consensus size: 100
8572801 TTTAAAATAT
8572811 AAAATATATTTAACATAATGATAAATATCACATATATAATTTTTCATTATATAATTACATATTTA
1 AAAATATATTTAACATAATGAT-AATATCACATATATAATTTTTCATTATATAATTACATATTTA
*
8572876 TTGATTTATTTATATAAATAAAAGAGTTATTAATTA
65 TTGATTTATTTATATAAATAAAAAAGTTATTAATTA
* *
8572912 AAAATATATTTAACATAATGAT-ATAT-ATA-ATGTAA-TTTT-ATTATATAATTACATATTTAT
1 AAAATATATTTAACATAATGATAATATCACATATATAATTTTTCATTATATAATTACATATTTAT
*
8572972 T-ATTTTATTTCTATAAATAAAAAAGTTATTAATTA
66 TGA-TTTATTTATATAAATAAAAAAGTTATTAATTA
8573007 AAAA
1 AAAA
8573011 GATGAATTAA
Statistics
Matches: 94, Mismatches: 4, Indels: 8
0.89 0.04 0.08
Matches are distributed among these distances:
94 1 0.01
95 56 0.60
96 4 0.04
97 5 0.05
98 2 0.02
99 4 0.04
101 22 0.23
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (100 bp):
AAAATATATTTAACATAATGATAATATCACATATATAATTTTTCATTATATAATTACATATTTAT
TGATTTATTTATATAAATAAAAAAGTTATTAATTA
Found at i:8573515 original size:24 final size:24
Alignment explanation
Indices: 8573488--8573539 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
8573478 CAAAGTATAC
*
8573488 AGAGAGAAAAAAAAGTAGAATG-TT
1 AGAGAGAAAAAAAAG-AGAAAGATT
* *
8573512 AGAGAGTAATAAAAGAGAAAGATT
1 AGAGAGAAAAAAAAGAGAAAGATT
8573536 AGAG
1 AGAG
8573540 TGCAATTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.58, C:0.00, G:0.27, T:0.15
Consensus pattern (24 bp):
AGAGAGAAAAAAAAGAGAAAGATT
Found at i:8598648 original size:24 final size:23
Alignment explanation
Indices: 8598588--8598660 Score: 74
Period size: 24 Copynumber: 3.1 Consensus size: 23
8598578 TACGGGTTGT
8598588 ATAACGGGAAGCTCATAAGAGCC
1 ATAACGGGAAGCTCATAAGAGCC
* **
8598611 ATAATTGGGAAGCTCATGTGAGCC
1 ATAA-CGGGAAGCTCATAAGAGCC
* **
8598635 AATAACGGGCAGCTCCGAAGAGCC
1 -ATAACGGGAAGCTCATAAGAGCC
8598659 AT
1 AT
8598661 TAATCAAGAA
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
23 6 0.15
24 29 0.74
25 4 0.10
ACGTcount: A:0.34, C:0.22, G:0.27, T:0.16
Consensus pattern (23 bp):
ATAACGGGAAGCTCATAAGAGCC
Found at i:8598720 original size:25 final size:25
Alignment explanation
Indices: 8598645--8598721 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 25
8598635 AATAACGGGC
* *
8598645 AGCTCCGAAGAGCCATTAATCAAGA
1 AGCTCCGGAGAGCCATTAATCAGGA
* * * *
8598670 AACTCCAGATAGCCA-TATATCGGGA
1 AGCTCCGGAGAGCCATTA-ATCAGGA
*
8598695 AGCTCCGGAGAGCGATTAATCAGGA
1 AGCTCCGGAGAGCCATTAATCAGGA
8598720 AG
1 AG
8598722 ATCACAAAGA
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
24 2 0.05
25 35 0.90
26 2 0.05
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (25 bp):
AGCTCCGGAGAGCCATTAATCAGGA
Found at i:8603203 original size:26 final size:24
Alignment explanation
Indices: 8603152--8603210 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
8603142 TTTTTAAAAA
**
8603152 TATTAAAAAAATTGAAACAAAATT
1 TATTAAAAAAATCAAAACAAAATT
*
8603176 TATTAAAAAAATCAAAACACAATT
1 TATTAAAAAAATCAAAACAAAATT
*
8603200 T-TTATAAAAAT
1 TATTAAAAAAAT
8603211 GGATTGTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 9 0.29
24 22 0.71
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.31
Consensus pattern (24 bp):
TATTAAAAAAATCAAAACAAAATT
Found at i:8614498 original size:30 final size:29
Alignment explanation
Indices: 8614438--8614500 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
8614428 AAAAAAACAA
* *
8614438 TCACTAAACTTTGAAAAGTTACAACTTAG
1 TCACTAAACTTTGAAAAATAACAACTTAG
*
8614467 TCACTGAACTTTAGAAAAATAACAA-TCTAG
1 TCACTAAACTTT-GAAAAATAACAACT-TAG
8614497 TCAC
1 TCAC
8614501 CAATAACCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 12 0.41
30 17 0.59
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.29
Consensus pattern (29 bp):
TCACTAAACTTTGAAAAATAACAACTTAG
Found at i:8625113 original size:21 final size:22
Alignment explanation
Indices: 8625084--8625130 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
8625074 CTTCTTTAAA
*
8625084 TATCATAAAGTTAATA-TTATT
1 TATCATAAAGTTAAAATTTATT
* *
8625105 TATCTTAAATTTAAAATTTATT
1 TATCATAAAGTTAAAATTTATT
8625127 TATC
1 TATC
8625131 CCTTCATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.51
Consensus pattern (22 bp):
TATCATAAAGTTAAAATTTATT
Found at i:8625838 original size:19 final size:20
Alignment explanation
Indices: 8625798--8625840 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
8625788 GTTTTTTTTT
*
8625798 TTTTTAATTTATAACTAATC
1 TTTTTAATATATAACTAATC
8625818 TTTTTAATAT-TAA-TAACTC
1 TTTTTAATATATAACTAA-TC
8625837 TTTT
1 TTTT
8625841 ATTTATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 9 0.43
20 9 0.43
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTTAATATATAACTAATC
Found at i:8634907 original size:44 final size:44
Alignment explanation
Indices: 8634794--8634908 Score: 142
Period size: 44 Copynumber: 2.6 Consensus size: 44
8634784 ATTAGGATAT
*
8634794 CATAGCATCTTTCAGCTATTGTCTTAATCATGTTTACCATGATGC
1 CATAGCATCTTTCAGCTATTGTCTT-ATCATGTTCACCATGATGC
* * * * * *
8634839 CATAACGTCTTTCAACCATGGTCTTATCAT-TTCCATCATGATGC
1 CATAGCATCTTTCAGCTATTGTCTTATCATGTT-CACCATGATGC
8634883 CATAGCATCTTTCAGCTATTGTCTTA
1 CATAGCATCTTTCAGCTATTGTCTTA
8634909 CCCATTTTAG
Statistics
Matches: 57, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
43 2 0.04
44 35 0.61
45 20 0.35
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.39
Consensus pattern (44 bp):
CATAGCATCTTTCAGCTATTGTCTTATCATGTTCACCATGATGC
Found at i:8637547 original size:111 final size:110
Alignment explanation
Indices: 8637408--8637630 Score: 376
Period size: 111 Copynumber: 2.0 Consensus size: 110
8637398 TCTAAATATA
*
8637408 TTGTTTCAACCAAGGTTAAGTTTTTGTTTGATTTTTAAGAATATTATTTATTTTTATTTCTAGAA
1 TTGTTTCAACCAAGGTTAAGTTTTTGTTTGATTTTTAAGAATATTATTTATTTTTATTTCTAAAA
*
8637473 AAACATTTTTATTTTTT-TAACATATGTTTGGTAAATAGAAATAATT
66 AAACATTTTTATTTTTTCT-A-ATATGTTTGATAAATAGAAATAATT
*
8637519 TTGTTTCAACCAAGGTTAAGTTTTTGTTTGGTTTTTAAGAATATTATTTATTTTTATTTCTAAAA
1 TTGTTTCAACCAAGGTTAAGTTTTTGTTTGATTTTTAAGAATATTATTTATTTTTATTTCTAAAA
* *
8637584 AAACATTTTTCTTTTTTCTAATATGTTTGATAAATATAAATAATT
66 AAACATTTTTATTTTTTCTAATATGTTTGATAAATAGAAATAATT
8637629 TT
1 TT
8637631 TTTAAAAAAT
Statistics
Matches: 106, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
110 25 0.24
111 80 0.75
112 1 0.01
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.52
Consensus pattern (110 bp):
TTGTTTCAACCAAGGTTAAGTTTTTGTTTGATTTTTAAGAATATTATTTATTTTTATTTCTAAAA
AAACATTTTTATTTTTTCTAATATGTTTGATAAATAGAAATAATT
Found at i:8638525 original size:43 final size:43
Alignment explanation
Indices: 8638464--8638672 Score: 285
Period size: 43 Copynumber: 4.8 Consensus size: 43
8638454 GCGTCGCTAA
8638464 CTTTAGCGGCGCTTATCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTATCCCACAAACGCCGCTAAAGACCAAGAC
* * *
8638507 CTTTAGCGGCGCTTATCCCACAAACACCGCTAAAGGCCAAGAA
1 CTTTAGCGGCGCTTATCCCACAAACGCCGCTAAAGACCAAGAC
* * *
8638550 CATTAACGGCGCATT-TCTCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGC-TTATCCCACAAACGCCGCTAAAGACCAAGAC
*
8638593 CTTTAGCAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTT---AGCGGCGCTTATCCCACAAACGCCGCTAAAGACCAAGAC
** *
8638639 CTTTAGCGGTACTTTTCCCACAAACGCCGCTAAA
1 CTTTAGCGGCGCTTATCCCACAAACGCCGCTAAA
8638673 AACATGACTT
Statistics
Matches: 147, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
43 105 0.71
44 2 0.01
45 2 0.01
46 38 0.26
ACGTcount: A:0.31, C:0.33, G:0.18, T:0.18
Consensus pattern (43 bp):
CTTTAGCGGCGCTTATCCCACAAACGCCGCTAAAGACCAAGAC
Found at i:8638661 original size:89 final size:86
Alignment explanation
Indices: 8638462--8638672 Score: 296
Period size: 89 Copynumber: 2.4 Consensus size: 86
8638452 ACGCGTCGCT
*
8638462 AACTTTAGCGGCGCTTATCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTATCCCA
1 AACTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTATCCCA
*
8638527 CAAACACCGCTAAAGGCCAAG
66 CAAACACCGCTAAAGACCAAG
* * * * *
8638548 AACATTAACGGCGCATTTCTCACAAACGCCGCTAAAGACCAAGACCTTTAGCAGCGGCGCTTTTC
1 AACTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGACCTTT---AGCGGCGCTTATC
*
8638613 CCACAAACGCCGCTAAAGACCAAG
63 CCACAAACACCGCTAAAGACCAAG
* **
8638637 ACCTTTAGCGGTACTTTTCCCACAAACGCCGCTAAA
1 AACTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
8638673 AACATGACTT
Statistics
Matches: 107, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
86 44 0.41
89 63 0.59
ACGTcount: A:0.31, C:0.33, G:0.18, T:0.18
Consensus pattern (86 bp):
AACTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTATCCCA
CAAACACCGCTAAAGACCAAG
Found at i:8643551 original size:14 final size:14
Alignment explanation
Indices: 8643501--8643568 Score: 75
Period size: 14 Copynumber: 4.9 Consensus size: 14
8643491 AACCTTAAAT
* *
8643501 CACTAACTCTTAAC
1 CACTAACCCCTAAC
*
8643515 CACTAACCTCTAAC
1 CACTAACCCCTAAC
*
8643529 CCCTAACCCCTAAC
1 CACTAACCCCTAAC
*
8643543 TACTAACCCCTAAC
1 CACTAACCCCTAAC
*
8643557 C-CCAACCCCTAA
1 CACTAACCCCTAA
8643569 ACATTATTTA
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
13 10 0.22
14 35 0.78
ACGTcount: A:0.34, C:0.47, G:0.00, T:0.19
Consensus pattern (14 bp):
CACTAACCCCTAAC
Found at i:8643565 original size:6 final size:7
Alignment explanation
Indices: 8643511--8643568 Score: 73
Period size: 7 Copynumber: 8.4 Consensus size: 7
8643501 CACTAACTCT
*
8643511 TAACCAC
1 TAACCCC
*
8643518 TAACCTC
1 TAACCCC
8643525 TAACCCC
1 TAACCCC
8643532 TAACCCC
1 TAACCCC
**
8643539 TAACTAC
1 TAACCCC
8643546 TAACCCC
1 TAACCCC
8643553 TAACCCC
1 TAACCCC
8643560 -AACCCC
1 TAACCCC
8643566 TAA
1 TAA
8643569 ACATTATTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
6 6 0.14
7 38 0.86
ACGTcount: A:0.34, C:0.48, G:0.00, T:0.17
Consensus pattern (7 bp):
TAACCCC
Found at i:8644126 original size:20 final size:19
Alignment explanation
Indices: 8644085--8644128 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
8644075 AATTTTAATT
*
8644085 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
* *
8644104 AATAGTAAATAGACAGATAA
1 AATA-TAAATAAACAAATAA
8644124 AATAT
1 AATAT
8644129 TTTTGCGGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.25
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:8644199 original size:41 final size:41
Alignment explanation
Indices: 8644133--8644490 Score: 536
Period size: 41 Copynumber: 8.7 Consensus size: 41
8644123 AAATATTTTT
* *
8644133 GCGGCGCTTTTTCAAAAAACACCGCTAAAGGTCTGAGCATTA
1 GCGGCGC-TTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* *
8644175 GCGGCGCTTTTCCATAAACGCCGCTAAAGGTCTAAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* * *
8644216 GCGGCGCCTTTCCAAAAACGCCGCTAAAGCTCTGAGCACTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
*
8644257 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTAAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* * *
8644298 GCGGCGCTTTTCCCAAAATGCCGCTAAAAGTCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* *
8644339 ACGGCGCTTTTCCAGAAACGCCGCTAAAGGTCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* * *
8644380 GCGGCGCTTTTCCATAAATGTCGCTAAAGGTCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
*
8644421 GCGGCGCTTTTCCATAAACGCCGCTAAAGGTCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* *
8644462 GCGGCGCTTTTTCAAAAATGCCGCTAAAG
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAG
8644491 CCTCGAAAGG
Statistics
Matches: 285, Mismatches: 31, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
41 278 0.98
42 7 0.02
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
Found at i:8649120 original size:75 final size:75
Alignment explanation
Indices: 8649038--8649187 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
8649028 ATCCAACCTA
8649038 ACCCAATCATAAAAATTATAAATAATTTAATAAATAAAAATAAAATTTCAATTATGCGTTAATTT
1 ACCCAATCATAAAAATTATAAATAATTTAATAAATAAAAATAAAATTTCAATTATGCGTTAATTT
8649103 CAAGACTTAT
66 CAAGACTTAT
8649113 ACCCAATCATAAAAATTATAAATAATTTAATAAATAAAAATAAAATTTCAATTATGCGTTAATTT
1 ACCCAATCATAAAAATTATAAATAATTTAATAAATAAAAATAAAATTTCAATTATGCGTTAATTT
8649178 CAAGACTTAT
66 CAAGACTTAT
8649188 GTAATGTTAG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.35
Consensus pattern (75 bp):
ACCCAATCATAAAAATTATAAATAATTTAATAAATAAAAATAAAATTTCAATTATGCGTTAATTT
CAAGACTTAT
Found at i:8649255 original size:9 final size:9
Alignment explanation
Indices: 8649241--8649278 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
8649231 GTAGTGATTC
8649241 AATTCGGTT
1 AATTCGGTT
*
8649250 AATTCGGGT
1 AATTCGGTT
8649259 AATTCGGTT
1 AATTCGGTT
8649268 AATTCGGTT
1 AATTCGGTT
8649277 AA
1 AA
8649279 CCGAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:8650440 original size:10 final size:10
Alignment explanation
Indices: 8650425--8650533 Score: 74
Period size: 10 Copynumber: 11.6 Consensus size: 10
8650415 AAAATTTAAA
8650425 ATTTTTATAT
1 ATTTTTATAT
*
8650435 ATTTTTA-AA
1 ATTTTTATAT
* *
8650444 ATTTTCAAAT
1 ATTTTTATAT
8650454 ATTTTT-TAT
1 ATTTTTATAT
*
8650463 -TTTTTA-AA
1 ATTTTTATAT
*
8650471 ATTTTAATAT
1 ATTTTTATAT
*
8650481 ATTTTAATCAT
1 ATTTTTAT-AT
*
8650492 ATTCTT-TAT
1 ATTTTTATAT
8650501 -TTTTTA-AT
1 ATTTTTATAT
8650509 -TTTTTATAT
1 ATTTTTATAT
8650518 ATTTTT-TAT
1 ATTTTTATAT
8650527 CATTTTT
1 -ATTTTT
8650534 CGTCATATGT
Statistics
Matches: 79, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
8 18 0.23
9 21 0.27
10 34 0.43
11 6 0.08
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:8650453 original size:27 final size:27
Alignment explanation
Indices: 8650409--8650523 Score: 103
Period size: 27 Copynumber: 4.2 Consensus size: 27
8650399 TTTATGATTT
*
8650409 TTTTTAAAAATTTAAA-ATTTTTATATA
1 TTTTTAAAATTTTAAATA-TTTTATATA
*
8650436 TTTTTAAAATTTTCAAATATTTTTTAT-
1 TTTTTAAAATTTT-AAATATTTTATATA
8650463 TTTTTAAAATTTTAATATATTTTAATCATA
1 TTTTTAAAATTTTAA-ATATTTT-AT-ATA
* * *
8650493 TTCTTT--ATTTTTTAATTTTTTATATA
1 TT-TTTAAAATTTTAAATATTTTATATA
8650519 TTTTT
1 TTTTT
8650524 TATCATTTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 16
0.77 0.06 0.16
Matches are distributed among these distances:
25 3 0.04
26 7 0.09
27 34 0.45
28 17 0.23
29 9 0.12
30 2 0.03
31 3 0.04
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (27 bp):
TTTTTAAAATTTTAAATATTTTATATA
Found at i:8650485 original size:19 final size:19
Alignment explanation
Indices: 8650419--8650459 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
8650409 TTTTTAAAAA
* *
8650419 TTTAAAATTTTTATATATT
1 TTTAAAATTTTCAAATATT
8650438 TTTAAAATTTTCAAATATT
1 TTTAAAATTTTCAAATATT
8650457 TTT
1 TTT
8650460 TATTTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTAAAATTTTCAAATATT
Found at i:8650485 original size:37 final size:36
Alignment explanation
Indices: 8650437--8650522 Score: 97
Period size: 37 Copynumber: 2.4 Consensus size: 36
8650427 TTTTATATAT
*
8650437 TTTTAA-A-ATTTTCAA-ATATTTTTTATTTTTTAAAA
1 TTTTAATATATTTT-AACATATTCTTTATTTTTT-AAA
*
8650472 TTTTAATATATTTTAATCATATTCTTTATTTTTTAAT
1 TTTTAATATATTTTAA-CATATTCTTTATTTTTTAAA
*
8650509 TTTTTATATATTTT
1 TTTTAATATATTTT
8650523 TTATCATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
35 6 0.14
36 3 0.07
37 20 0.45
38 15 0.34
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.65
Consensus pattern (36 bp):
TTTTAATATATTTTAACATATTCTTTATTTTTTAAA
Found at i:8652047 original size:36 final size:36
Alignment explanation
Indices: 8652006--8652191 Score: 219
Period size: 36 Copynumber: 4.9 Consensus size: 36
8651996 CTAAGGCTAC
*
8652006 CACTTATCACTTTGTCACTTGATCAGATAAGTATAA
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
*
8652042 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
*
8652078 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTA
1 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--T--A---A
* * * *
8652123 CCACTTATCACTTTATCTCTTGATCAGATAAGTGTAG
1 -CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
8652160 CACTTATCACTTTTTCACTTGATCAGATAAGT
1 CACTTATCACTTTTTCACTTGATCAGATAAGT
8652192 GTAGCTAATG
Statistics
Matches: 130, Mismatches: 10, Indels: 20
0.81 0.06 0.12
Matches are distributed among these distances:
36 93 0.72
38 3 0.02
40 2 0.02
42 2 0.02
44 2 0.02
46 28 0.22
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
Found at i:8652128 original size:82 final size:81
Alignment explanation
Indices: 8651917--8652232 Score: 368
Period size: 82 Copynumber: 3.9 Consensus size: 81
8651907 TACATATGAT
* *
8651917 CACTTATCACTTGTC-C-C-TGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTT-TCTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTATCACT
8651979 TGATCAGATAAGTGTAGCTAAGG
65 TGATCAGATAA--GTA--T-A-G
* *
8652002 CTACCACTTATCACTTTGTCACTTGATCAGATAA--GTA--T-A---A-CACTTATCACTTTTTC
1 ----CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTATC
8652058 ACTTGATCAGATAAGTATAG
62 ACTTGATCAGATAAGTATAG
*
8652078 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTATCACT
*
8652143 TGATCAGATAAGTGTAG
65 TGATCAGATAAGTATAG
*
8652160 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTATCACT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAA-GCTACCACTTATCACTTTATCACT
8652225 TGATCAGA
65 TGATCAGA
8652233 AGTACTCAAA
Statistics
Matches: 204, Mismatches: 9, Indels: 35
0.82 0.04 0.14
Matches are distributed among these distances:
72 29 0.14
74 3 0.01
76 2 0.01
77 1 0.00
78 2 0.01
80 3 0.01
81 3 0.01
82 130 0.64
83 1 0.00
87 1 0.00
88 1 0.00
89 16 0.08
90 1 0.00
91 11 0.05
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (81 bp):
CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTATCACTT
GATCAGATAAGTATAG
Found at i:8652132 original size:118 final size:118
Alignment explanation
Indices: 8651960--8652196 Score: 411
Period size: 118 Copynumber: 2.0 Consensus size: 118
8651950 GCTAGGCTAC
* * *
8651960 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
8652025 TGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATAAGTATAG
66 TGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
8652078 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
* * *
8652143 TGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
66 TGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATAAGTATAG
8652196 C
1 C
8652197 TAATGCTACC
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 112 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.36
Consensus pattern (118 bp):
CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
TGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:8654989 original size:25 final size:25
Alignment explanation
Indices: 8654961--8655008 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
8654951 TTTTGACCAT
* *
8654961 AATAGTAGAATTTTTTTATAATTAA
1 AATAATAGAATTTTTTAATAATTAA
*
8654986 AATAATATAATTTTTTAATAATT
1 AATAATAGAATTTTTTAATAATT
8655009 TTATAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (25 bp):
AATAATAGAATTTTTTAATAATTAA
Found at i:8660746 original size:13 final size:13
Alignment explanation
Indices: 8660712--8660749 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
8660702 TTACAAGACT
8660712 TGTTATAATTG-A
1 TGTTATAATTGAA
8660724 TAGTTA-AATTGAA
1 T-GTTATAATTGAA
8660737 TGTTATAATTGAA
1 TGTTATAATTGAA
8660750 AATGTACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (13 bp):
TGTTATAATTGAA
Found at i:8661428 original size:16 final size:15
Alignment explanation
Indices: 8661402--8661431 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
8661392 GTTGATAATT
8661402 AAATATATATTAAAA
1 AAATATATATTAAAA
8661417 AAATAGTATATTAAA
1 AAATA-TATATTAAA
8661432 TTGATATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AAATATATATTAAAA
Found at i:8661504 original size:9 final size:9
Alignment explanation
Indices: 8661492--8661528 Score: 56
Period size: 9 Copynumber: 3.9 Consensus size: 9
8661482 TATAAATATA
8661492 TTAATAAAT
1 TTAATAAAT
8661501 TTAATAAAT
1 TTAATAAAT
8661510 TTAATAAAT
1 TTAATAAAT
8661519 ATATAATAAA
1 -T-TAATAAA
8661529 GCTTGCATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 18 0.69
10 1 0.04
11 7 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
TTAATAAAT
Found at i:8661513 original size:18 final size:20
Alignment explanation
Indices: 8661475--8661528 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 20
8661465 TTTACATACA
* *
8661475 TAATAACTATA-AATATA-T
1 TAATAAATATATAATAAATT
8661493 TAATAAAT-T-TAATAAATT
1 TAATAAATATATAATAAATT
8661511 TAATAAATATATAATAAA
1 TAATAAATATATAATAAA
8661529 GCTTGCATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 6 0.20
18 16 0.53
19 1 0.03
20 7 0.23
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
TAATAAATATATAATAAATT
Found at i:8662382 original size:49 final size:49
Alignment explanation
Indices: 8662327--8662430 Score: 147
Period size: 49 Copynumber: 2.1 Consensus size: 49
8662317 TCATGTGTTA
* * ** *
8662327 TAATTTTATACAGTGTTGAGTTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
*
8662376 TAATTTTATAAAGTGTTCCCCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
8662425 T-ATTTT
1 TAATTTT
8662431 GTTTTTTTTC
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
48 5 0.10
49 44 0.90
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.52
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:8664277 original size:60 final size:59
Alignment explanation
Indices: 8664213--8664400 Score: 165
Period size: 60 Copynumber: 3.2 Consensus size: 59
8664203 CCATATTAAT
*
8664213 AGAATTTGTAAGTATTATAGTAT-TGATTTTAGTAAATTCATATAAGAATATTTAATATTA
1 AGAATTT-TAAGTATTATA-TATATGATTTTAATAAATTCATATAAGAATATTTAATATTA
* * * * * *
8664273 AGAATTTT-ATTA-AAT-TATAT-ATTTTATTAAATTATATTTAATAATAATTATGTTAAAATT-
1 AGAATTTTAAGTATTATATATATGATTTTAATAAATT-CA--T-ATAAGAA-TAT-TTAATATTA
*
8664333 A-TATTTTAAGTATTATATATTATGATTTTAATAAATTCATATAAGAATATTTAATATTA
1 AGAATTTTAAGTATTATATA-TATGATTTTAATAAATTCATATAAGAATATTTAATATTA
*
8664392 ATAATTTTA
1 AGAATTTTA
8664401 TTAAATTATA
Statistics
Matches: 100, Mismatches: 14, Indels: 28
0.70 0.10 0.20
Matches are distributed among these distances:
55 15 0.15
56 2 0.02
57 2 0.02
58 11 0.11
59 16 0.16
60 26 0.26
61 10 0.10
62 2 0.02
63 4 0.04
64 12 0.12
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (59 bp):
AGAATTTTAAGTATTATATATATGATTTTAATAAATTCATATAAGAATATTTAATATTA
Found at i:8664296 original size:17 final size:17
Alignment explanation
Indices: 8664276--8664309 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8664266 AATATTAAGA
8664276 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
8664293 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
8664310 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:8664360 original size:119 final size:120
Alignment explanation
Indices: 8664216--8664451 Score: 406
Period size: 119 Copynumber: 2.0 Consensus size: 120
8664206 TATTAATAGA
*
8664216 ATTTGTAAGTATTATAGTATTGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT
1 ATTTGTAAGTATTATAGTATTGATTTTAATAAATTCATATAAGAATATTTAATATTAAGAATTTT
8664281 ATTAAATTATATA-TTTTATTAAATTATATTTAATAATAATTATGTTAAAATTAT
66 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATTAT
*
8664335 ATTT-TAAGTATTATA-TATTATGATTTTAATAAATTCATATAAGAATATTTAATATTAATAATT
1 ATTTGTAAGTATTATAGTA-T-TGATTTTAATAAATTCATATAAGAATATTTAATATTAAGAATT
*
8664398 TTATTAAATTATATATTTTTATTGAATTATATTTAATAATAATTATGTTAAAAT
64 TTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAAT
8664452 ATGATTAAAT
Statistics
Matches: 111, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
117 2 0.02
118 12 0.11
119 60 0.54
120 37 0.33
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (120 bp):
ATTTGTAAGTATTATAGTATTGATTTTAATAAATTCATATAAGAATATTTAATATTAAGAATTTT
ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATTAT
Found at i:8664417 original size:18 final size:18
Alignment explanation
Indices: 8664383--8664429 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
8664373 ATAAGAATAT
8664383 TTAATATTA-ATAATTTTA
1 TTAA-ATTATATAATTTTA
*
8664401 TTAAATTATATATTTTTA
1 TTAAATTATATAATTTTA
*
8664419 TTGAATTATAT
1 TTAAATTATAT
8664430 TTAATAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 4 0.15
18 22 0.85
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TTAAATTATATAATTTTA
Found at i:8664493 original size:44 final size:40
Alignment explanation
Indices: 8664380--8664496 Score: 101
Period size: 41 Copynumber: 2.7 Consensus size: 40
8664370 CATATAAGAA
* *
8664380 TATTTAATATTAATAATTTTATT-AAATTATATATTTTTAT
1 TATTT-ATATTAATAATATTATTAAAATTATAAATTTTTAT
*
8664420 TGAATTATATTTAATAATAATTATGTTAAAATATGATTAAATTATTTAT
1 T-ATTTATA-TTAATAAT-ATTA--TTAAAAT-T-A-TAAATT-TTTAT
*
8664469 TATTTATATTAATAATCTTATTAAAATT
1 TATTTATATTAATAATATTATTAAAATT
8664497 TAATAACAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
40 4 0.06
41 11 0.18
42 3 0.05
43 1 0.02
44 9 0.15
45 4 0.06
46 4 0.06
47 9 0.15
48 11 0.18
49 6 0.10
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.54
Consensus pattern (40 bp):
TATTTATATTAATAATATTATTAAAATTATAAATTTTTAT
Found at i:8664633 original size:39 final size:41
Alignment explanation
Indices: 8664585--8664682 Score: 119
Period size: 44 Copynumber: 2.3 Consensus size: 41
8664575 CTATTACACA
*
8664585 CCTCTATTCCATTCAACCAAAC-ACAAGAATACC-ATTACG
1 CCTCTATTCCATTCAACCAAACAAAAAGAATACCTATTACG
*
8664624 CCTCTATTCCATTCCATTCAACCAAACAAAAAGATTACCTATTACG
1 CCTC---T--ATTCCATTCAACCAAACAAAAAGAATACCTATTACG
8664670 CCTCTATTCCATT
1 CCTCTATTCCATT
8664683 ACAGCGAACC
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
39 4 0.08
41 8 0.16
42 1 0.02
43 1 0.02
44 17 0.34
45 9 0.18
46 10 0.20
ACGTcount: A:0.35, C:0.33, G:0.04, T:0.29
Consensus pattern (41 bp):
CCTCTATTCCATTCAACCAAACAAAAAGAATACCTATTACG
Found at i:8664640 original size:44 final size:46
Alignment explanation
Indices: 8664590--8664682 Score: 154
Period size: 46 Copynumber: 2.1 Consensus size: 46
8664580 ACACACCTCT
*
8664590 ATTCCATTCAACCAAAC-ACAAGAATACC-ATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAAGAATACCTATTACGCCTCTATTCC
*
8664634 ATTCCATTCAACCAAACAAAAAGATTACCTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAAGAATACCTATTACGCCTCTATTCC
8664680 ATT
1 ATT
8664683 ACAGCGAACC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 17 0.38
45 9 0.20
46 19 0.42
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.28
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAAGAATACCTATTACGCCTCTATTCC
Found at i:8664693 original size:46 final size:44
Alignment explanation
Indices: 8664598--8664696 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 44
8664588 CTATTCCATT
* * *
8664598 CAACCAAACACAAGAATACCATTACGCCTCTATTCCATTCCATT
1 CAACCAAACAAAAGAATACCATTACGCCTCTATTCCATTACATG
*
8664642 CAACCAAACAAAAAGATTACCTATTACGCCTCTATTCCATTACA-G
1 CAACCAAAC-AAAAGAATACC-ATTACGCCTCTATTCCATTACATG
8664687 CGAACCAAAC
1 C-AACCAAAC
8664697 GCACCCTTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
44 9 0.19
45 10 0.21
46 29 0.60
ACGTcount: A:0.39, C:0.32, G:0.06, T:0.22
Consensus pattern (44 bp):
CAACCAAACAAAAGAATACCATTACGCCTCTATTCCATTACATG
Found at i:8669289 original size:9 final size:9
Alignment explanation
Indices: 8669271--8669310 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
8669261 ACATATATTA
*
8669271 AATTCAGTT
1 AATTCGGTT
*
8669280 AATTGGGTT
1 AATTCGGTT
*
8669289 AATTTGGTT
1 AATTCGGTT
8669298 AATTCGGTT
1 AATTCGGTT
8669307 AATT
1 AATT
8669311 TTTGATATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.28, C:0.05, G:0.20, T:0.47
Consensus pattern (9 bp):
AATTCGGTT
Found at i:8669298 original size:18 final size:18
Alignment explanation
Indices: 8669277--8669311 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8669267 ATTAAATTCA
*
8669277 GTTAATTGGGTTAATTTG
1 GTTAATTCGGTTAATTTG
8669295 GTTAATTCGGTTAATTT
1 GTTAATTCGGTTAATTT
8669312 TTGATATGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.23, T:0.51
Consensus pattern (18 bp):
GTTAATTCGGTTAATTTG
Found at i:8677113 original size:20 final size:22
Alignment explanation
Indices: 8677080--8677123 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
8677070 TGTAAAAAAT
8677080 TATTTTCTAAGAA-TA-AATTC
1 TATTTTCTAAGAATTACAATTC
* *
8677100 TATTTTTTAGGAATTACAATTC
1 TATTTTCTAAGAATTACAATTC
8677122 TA
1 TA
8677124 CCAGTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 2 0.10
22 7 0.35
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (22 bp):
TATTTTCTAAGAATTACAATTC
Found at i:8678753 original size:3 final size:3
Alignment explanation
Indices: 8678747--8678778 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
8678737 GTAGAAGAAC
*
8678747 AAT AAT AAT AAA AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8678779 AGGAAAAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:8693163 original size:2 final size:2
Alignment explanation
Indices: 8693156--8693181 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8693146 AAACAAAACA
8693156 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
8693182 CCTCACTTGC
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:8698606 original size:66 final size:66
Alignment explanation
Indices: 8698528--8698651 Score: 187
Period size: 66 Copynumber: 1.9 Consensus size: 66
8698518 TTTCTGCACT
* ** * *
8698528 AATGTCGTTGCATGAGTTAATTCCAGATTG-AGTCTGAAATTTTCGCTGCAGTTGACAGATTTTC
1 AATGTCGCTGCATGAGTTAATTCCAGATTGCA-TCCAAAATTGTCGCCGCAGTTGACAGATTTTC
8698592 GC
65 GC
8698594 AATGTCGCTGCATGAGTTAATTCCAGATTGCATCCAAAATTGTCGCCGCAGTTGACAG
1 AATGTCGCTGCATGAGTTAATTCCAGATTGCATCCAAAATTGTCGCCGCAGTTGACAG
8698652 TCGTCTGATA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
66 51 0.98
67 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (66 bp):
AATGTCGCTGCATGAGTTAATTCCAGATTGCATCCAAAATTGTCGCCGCAGTTGACAGATTTTCG
C
Found at i:8706935 original size:23 final size:23
Alignment explanation
Indices: 8706904--8706954 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
8706894 ACTTACTTTC
* *
8706904 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
8706927 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
8706950 TTACA
1 TTACA
8706955 TGCTCAATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:8709279 original size:19 final size:20
Alignment explanation
Indices: 8709245--8709283 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
8709235 ATGGAGGATA
8709245 AATAATTTAAATTTTATCAAC
1 AATAATTT-AATTTTATCAAC
8709266 AATAATTT-ATTTTATCAA
1 AATAATTTAATTTTATCAA
8709284 TGAACATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (20 bp):
AATAATTTAATTTTATCAAC
Found at i:8712587 original size:93 final size:90
Alignment explanation
Indices: 8712490--8712656 Score: 244
Period size: 93 Copynumber: 1.8 Consensus size: 90
8712480 TTCTCTTTTT
* * * *
8712490 TTTTTTTGCACTCAATTGAGCACTTGAACTTTTAAAATGCATAAAAAAAGACCCTCAAACTTCTT
1 TTTTTTTCCACTCAATTGAGCACTTAAACTTTCAAAATGCAT-AAAAAA-ACCCTCAAAATTCTT
8712555 CAGAAAAAGCAATGAAGGCCCTGCTCTC
64 CA-AAAAAGCAATGAAGGCCCTGCTCTC
* * *
8712583 TTTTTTTCCACTCAATTGGGTACTTAAACTTTCAAAATGCATAAAAAAACCCTCAAAATTTTTCA
1 TTTTTTTCCACTCAATTGAGCACTTAAACTTTCAAAATGCATAAAAAAACCCTCAAAATTCTTCA
8712648 AAAAAGCAA
66 AAAAAGCAA
8712657 CTAGGCCCTA
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
90 9 0.13
91 15 0.22
92 6 0.09
93 37 0.55
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (90 bp):
TTTTTTTCCACTCAATTGAGCACTTAAACTTTCAAAATGCATAAAAAAACCCTCAAAATTCTTCA
AAAAAGCAATGAAGGCCCTGCTCTC
Found at i:8712717 original size:18 final size:19
Alignment explanation
Indices: 8712696--8712742 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
8712686 AATAAATAAT
8712696 AAATAATAAATTTTAG-AA
1 AAATAATAAATTTTAGTAA
*
8712714 AAATTATTAAATTTTAGTAA
1 AAA-TAATAAATTTTAGTAA
8712734 AAAT-ATAAA
1 AAATAATAAA
8712743 AAATTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 7 0.28
19 13 0.52
20 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (19 bp):
AAATAATAAATTTTAGTAA
Found at i:8712753 original size:28 final size:28
Alignment explanation
Indices: 8712712--8712780 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 28
8712702 TAAATTTTAG
*
8712712 AAAAATTATTAAATTTTAGTAAAAAT-ATA
1 AAAAATTA-AAAATTTTA-TAAAAATCATA
*
8712741 AAAAATTAAAAATTTTATTAAAATCATA
1 AAAAATTAAAAATTTTATAAAAATCATA
*
8712769 AAAAAATAAAAA
1 AAAAATTAAAAA
8712781 AAATTGTACA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.17
28 22 0.61
29 8 0.22
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (28 bp):
AAAAATTAAAAATTTTATAAAAATCATA
Found at i:8712813 original size:38 final size:38
Alignment explanation
Indices: 8712732--8712812 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 38
8712722 AAATTTTAGT
* *
8712732 AAAAATATAAAAAATTAAAAATTTTATTAAAATCATAA
1 AAAAATAAAAAAAATTAAAAATTTTATAAAAATCATAA
* *
8712770 AAAAATAAAAAAAATTGTACAATTTTATAAAAATCATAA
1 AAAAATAAAAAAAATT-AAAAATTTTATAAAAATCATAA
8712809 AAAA
1 AAAA
8712813 TTAATGACCC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
38 15 0.39
39 23 0.61
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.28
Consensus pattern (38 bp):
AAAAATAAAAAAAATTAAAAATTTTATAAAAATCATAA
Found at i:8713077 original size:17 final size:17
Alignment explanation
Indices: 8713018--8713077 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
8713008 CAACTTTATA
* *
8713018 AAATTTTATATTTCTAT
1 AAATTTTATATTTTTAC
*
8713035 ATATTTTATATTTTTTTAC
1 AAATTTTATA--TTTTTAC
* *
8713054 AATTTTTATATTTTTCC
1 AAATTTTATATTTTTAC
8713071 AAATTTT
1 AAATTTT
8713078 TAATAAATTT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
17 21 0.62
19 13 0.38
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (17 bp):
AAATTTTATATTTTTAC
Found at i:8713078 original size:19 final size:19
Alignment explanation
Indices: 8713038--8713079 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
8713028 TTTCTATATA
**
8713038 TTTTATATTTTTTTACAAT
1 TTTTATATTTTTCCACAAT
8713057 TTTTATATTTTTCCA-AAT
1 TTTTATATTTTTCCACAAT
8713075 TTTTA
1 TTTTA
8713080 ATAAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTATATTTTTCCACAAT
Found at i:8713391 original size:90 final size:91
Alignment explanation
Indices: 8713193--8713413 Score: 347
Period size: 90 Copynumber: 2.4 Consensus size: 91
8713183 GAAAAAGTTT
*
8713193 GTCTTTTTGATGCATTTTAAAAGTTTAAATACCCAATTGAGTGCAAAAAAAATAGTAGGGGATTA
1 GTCTTTTTGATGCATTTTAAAAGTTCAAATACCCAATTGAGTGCAAAAAAAATAGTAGGGGATTA
*
8713258 ATTGCTTTTTTTGAAAAGGTTTGAGT
66 ATTGCTTTTTTTGAAAAGGTTTGAGG
*
8713284 GTCTTTTTGATGCATTTTAAAAGTTCAAATACCCAATTGAGTGC-AAAAAAATAGTAGGGGCTTA
1 GTCTTTTTGATGCATTTTAAAAGTTCAAATACCCAATTGAGTGCAAAAAAAATAGTAGGGGATTA
*
8713348 ATTGCTTTTTTTTAAAAGGTTTGAGG
66 ATTGCTTTTTTTGAAAAGGTTTGAGG
* * * *
8713374 G-CTTTTTTTATGTATTTTAAAAGTTCAAGTACACAATTGA
1 GTC-TTTTTGATGCATTTTAAAAGTTCAAATACCCAATTGA
8713414 ATAAAAAAAA
Statistics
Matches: 121, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
89 1 0.01
90 77 0.64
91 43 0.36
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (91 bp):
GTCTTTTTGATGCATTTTAAAAGTTCAAATACCCAATTGAGTGCAAAAAAAATAGTAGGGGATTA
ATTGCTTTTTTTGAAAAGGTTTGAGG
Found at i:8713423 original size:91 final size:89
Alignment explanation
Indices: 8713196--8713467 Score: 332
Period size: 90 Copynumber: 3.0 Consensus size: 89
8713186 AAAGTTTGTC
* * *
8713196 TTTTTGATGCATTTTAAAAGTTTAAATACCCAATTGAGTGCAAAAAAAATAGTAGGGGATTAATT
1 TTTTTGATGCATTTTAAAAGTTCAAATACCCAATTGAGT-AAAAAAAAATAGTAGGGGCTTAATT
* *
8713261 GCTTTTTTTGAAAAGGTTTGAGTGT
65 GCTTTTTTTTAAAAGGTTTGAGGGT
**
8713286 CTTTTTGATGCATTTTAAAAGTTCAAATACCCAATTGAGTGCAAAAAAATAGTAGGGGCTTAATT
1 -TTTTTGATGCATTTTAAAAGTTCAAATACCCAATTGAGTAAAAAAAAATAGTAGGGGCTTAATT
8713351 GCTTTTTTTTAAAAGGTTTGAGGGCT
65 GCTTTTTTTTAAAAGGTTTGAGGG-T
* * * * * * ** **
8713377 TTTTTTATGTATTTTAAAAGTTCAAGTACACAATTGAATAAAAAAAAAAAACAAAGGCTTAATTG
1 TTTTTGATGCATTTTAAAAGTTCAAATACCCAATTGAGTAAAAAAAAATAGTAGGGGCTTAATTG
*
8713442 --TTTTTTTAAATAAGTTTGAGGGT
66 CTTTTTTTTAAA-AGGTTTGAGGGT
8713465 TTT
1 TTT
8713468 CACCCTTAAG
Statistics
Matches: 160, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
88 14 0.09
89 10 0.06
90 97 0.61
91 39 0.24
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.39
Consensus pattern (89 bp):
TTTTTGATGCATTTTAAAAGTTCAAATACCCAATTGAGTAAAAAAAAATAGTAGGGGCTTAATTG
CTTTTTTTTAAAAGGTTTGAGGGT
Found at i:8713610 original size:31 final size:29
Alignment explanation
Indices: 8713574--8713662 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 29
8713564 ATTTTAAAAA
*
8713574 TATACATGAATTTT-AGTTTAATGTGCAATTG
1 TATACATGAATTTTGA-TTT--TATGCAATTG
* *
8713605 TATACATGAACTTTGATTTTATGCAATTT
1 TATACATGAATTTTGATTTTATGCAATTG
* *
8713634 TATACATGAAATTTTGATTTGATTCAATT
1 TATACATG-AATTTTGATTTTATGCAATT
8713663 TTCACAAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 16 0.32
30 17 0.34
31 16 0.32
32 1 0.02
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (29 bp):
TATACATGAATTTTGATTTTATGCAATTG
Found at i:8713637 original size:29 final size:30
Alignment explanation
Indices: 8713597--8713664 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
8713587 TAGTTTAATG
* *
8713597 TGCAATTGTATACATG-AACTTTGATTTTA
1 TGCAATTTTATACATGAAACTTTGATTTGA
*
8713626 TGCAATTTTATACATGAAATTTTGATTTGA
1 TGCAATTTTATACATGAAACTTTGATTTGA
*
8713656 TTCAATTTT
1 TGCAATTTT
8713665 CACAAATCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.44
30 19 0.56
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.49
Consensus pattern (30 bp):
TGCAATTTTATACATGAAACTTTGATTTGA
Found at i:8715457 original size:24 final size:24
Alignment explanation
Indices: 8715425--8715496 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
8715415 TATTAAGTTA
*
8715425 TTCGGAGCTTCCTG-TGAATGGCTC
1 TTCGGAGCTACCTGAT-AATGGCTC
*
8715449 TTCGGAGCTACCTGATATTGGCTC
1 TTCGGAGCTACCTGATAATGGCTC
*
8715473 TTCGGAGCTACCTGATATTGGCTC
1 TTCGGAGCTACCTGATAATGGCTC
8715497 GCATGAGCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
24 44 0.98
25 1 0.02
ACGTcount: A:0.15, C:0.25, G:0.26, T:0.33
Consensus pattern (24 bp):
TTCGGAGCTACCTGATAATGGCTC
Found at i:8715530 original size:24 final size:24
Alignment explanation
Indices: 8715428--8715532 Score: 97
Period size: 24 Copynumber: 4.4 Consensus size: 24
8715418 TAAGTTATTC
* *
8715428 GGAGCTTCCTG-TGAATGGCTCTTC
1 GGAGCTTCCTGAT-ATTGGCTCTTA
* *
8715452 GGAGCTACCTGATATTGGCTCTTC
1 GGAGCTTCCTGATATTGGCTCTTA
* **
8715476 GGAGCTACCTGATATTGGCTCGCA
1 GGAGCTTCCTGATATTGGCTCTTA
*
8715500 TGAGCTTCCTAGATA-TGGCTCTTA
1 GGAGCTTCCT-GATATTGGCTCTTA
*
8715524 TGAGCTTCC
1 GGAGCTTCC
8715533 CGTTAAAAAG
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
24 65 0.93
25 5 0.07
ACGTcount: A:0.17, C:0.25, G:0.26, T:0.32
Consensus pattern (24 bp):
GGAGCTTCCTGATATTGGCTCTTA
Found at i:8715588 original size:25 final size:25
Alignment explanation
Indices: 8715554--8715619 Score: 98
Period size: 25 Copynumber: 2.6 Consensus size: 25
8715544 CCGGATAAGC
*
8715554 TCCCGTTACATGGCTCACATGAGTT
1 TCCCGTTACATGGCTCACATGAGCT
*
8715579 TCCCTTTACATGGCTCACATGAGCT
1 TCCCGTTACATGGCTCACATGAGCT
8715604 TCCCGATTA-ATGGCTC
1 TCCCG-TTACATGGCTC
8715620 GAGAGAGTGC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 34 0.92
26 3 0.08
ACGTcount: A:0.20, C:0.30, G:0.18, T:0.32
Consensus pattern (25 bp):
TCCCGTTACATGGCTCACATGAGCT
Found at i:8717097 original size:13 final size:13
Alignment explanation
Indices: 8717079--8717105 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8717069 GAGGCGTCCT
8717079 TGGTAGCTATAAC
1 TGGTAGCTATAAC
8717092 TGGTAGCTATAAC
1 TGGTAGCTATAAC
8717105 T
1 T
8717106 AGCTTATTGG
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:0.22, T:0.33
Consensus pattern (13 bp):
TGGTAGCTATAAC
Found at i:8719135 original size:41 final size:41
Alignment explanation
Indices: 8719089--8719177 Score: 115
Period size: 41 Copynumber: 2.2 Consensus size: 41
8719079 ACCGACTTTT
* * *
8719089 AGCCTGCTAGACCTATAGTCCGAAATGTATCACCGGCATTA
1 AGCCTGCTAGACCTAAAGTCCGAAATATATCACCGGCATCA
* * * *
8719130 AGCCTGCTAGACGTAAAGTCTGAATTATTTCACCGGCATCA
1 AGCCTGCTAGACCTAAAGTCCGAAATATATCACCGGCATCA
8719171 AGCCTGC
1 AGCCTGC
8719178 AGGCACATAG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (41 bp):
AGCCTGCTAGACCTAAAGTCCGAAATATATCACCGGCATCA
Found at i:8719460 original size:2 final size:2
Alignment explanation
Indices: 8719453--8719483 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8719443 TCTAACCTCT
8719453 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8719484 TTCATATCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8726573 original size:3 final size:3
Alignment explanation
Indices: 8726567--8726611 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
8726557 CATGTTATAC
8726567 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8726612 AGTTATTGCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8734964 original size:8 final size:8
Alignment explanation
Indices: 8734951--8734984 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
8734941 GTGTAGCTGA
8734951 TTTATTTG
1 TTTATTTG
8734959 TTTATTTG
1 TTTATTTG
*
8734967 TTTGTTTG
1 TTTATTTG
8734975 TTTATTTG
1 TTTATTTG
8734983 TT
1 TT
8734985 CGATTATTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (8 bp):
TTTATTTG
Found at i:8737696 original size:26 final size:26
Alignment explanation
Indices: 8737616--8737698 Score: 66
Period size: 26 Copynumber: 3.3 Consensus size: 26
8737606 TTTAGATGAT
* *
8737616 AAATTAATTATTCACTATCAATATTC
1 AAATTAATTATTTACTATCACTATTC
** * *
8737642 AAATTAA--AAGT-CTATAAACT-TTGT
1 AAATTAATTATTTACTAT-CACTATT-C
8737666 AAATTAATTATTTACTATCACTATTC
1 AAATTAATTATTTACTATCACTATTC
8737692 AAATTAA
1 AAATTAA
8737699 AAGTAATGAT
Statistics
Matches: 41, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
23 6 0.15
24 10 0.24
26 19 0.46
27 6 0.15
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (26 bp):
AAATTAATTATTTACTATCACTATTC
Found at i:8739449 original size:26 final size:27
Alignment explanation
Indices: 8739417--8739476 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
8739407 AAAGTTAATT
*
8739417 TATATATTTTTCATA-TATATGTATGTA
1 TATATATTTTT-ATACTATACGTATGTA
*
8739444 TA-ATATTTTTTTACTATACGTATGTA
1 TATATATTTTTATACTATACGTATGTA
8739470 TATATAT
1 TATATAT
8739477 AATAATACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 2 0.07
26 21 0.72
27 6 0.21
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (27 bp):
TATATATTTTTATACTATACGTATGTA
Found at i:8741120 original size:9 final size:9
Alignment explanation
Indices: 8741106--8741229 Score: 65
Period size: 9 Copynumber: 13.2 Consensus size: 9
8741096 AAAAAAAAAC
8741106 AAATTTTAA
1 AAATTTTAA
8741115 AAA-TTTAA
1 AAATTTTAA
8741123 AATATTTATAA
1 AA-ATTT-TAA
*
8741134 AAA-TTTCA
1 AAATTTTAA
*
8741142 AAATTTATAT
1 AAATTT-TAA
**
8741152 TTATATTTAA
1 AAAT-TTTAA
*
8741162 AAATTATAA
1 AAATTTTAA
*
8741171 TAATTTTAA
1 AAATTTTAA
*
8741180 AAA-TCTAA
1 AAATTTTAA
*
8741188 AGAATATATAA
1 A-AAT-TTTAA
*
8741199 AGAAATTTAA
1 A-AATTTTAA
*
8741209 AATTTTTAA
1 AAATTTTAA
8741218 AAATTTCTAA
1 AAATTT-TAA
8741228 AA
1 AA
8741230 TAATAATTTT
Statistics
Matches: 86, Mismatches: 19, Indels: 19
0.69 0.15 0.15
Matches are distributed among these distances:
8 17 0.20
9 34 0.40
10 20 0.23
11 15 0.17
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (9 bp):
AAATTTTAA
Found at i:8741168 original size:19 final size:19
Alignment explanation
Indices: 8741117--8741222 Score: 62
Period size: 19 Copynumber: 5.6 Consensus size: 19
8741107 AATTTTAAAA
8741117 ATTTAAAATATTTATAA-AA-
1 ATTTAAAA-A-TTATAATAAT
* * *
8741136 ATTTCAAAATTTATATTTAT
1 ATTT-AAAAATTATAATAAT
8741156 ATTTAAAAATTATAATAAT
1 ATTTAAAAATTATAATAAT
*
8741175 -TTTAAAAATCTA-AAGAAT
1 ATTTAAAAAT-TATAATAAT
*
8741193 ATATAAAGAAATT-TAA-AAT
1 AT-TTAA-AAATTATAATAAT
*
8741212 TTTTAAAAATT
1 ATTTAAAAATT
8741223 TCTAAAATAA
Statistics
Matches: 69, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
17 5 0.07
18 22 0.32
19 24 0.35
20 14 0.20
21 4 0.06
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
ATTTAAAAATTATAATAAT
Found at i:8744265 original size:21 final size:21
Alignment explanation
Indices: 8744232--8744271 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8744222 GCGACGGCGG
* *
8744232 CAACGACATCAACACCACCAT
1 CAACAACAACAACACCACCAT
*
8744253 CAACAACAACAACGCCACC
1 CAACAACAACAACACCACC
8744272 TACAGCAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.45, G:0.05, T:0.05
Consensus pattern (21 bp):
CAACAACAACAACACCACCAT
Found at i:8746539 original size:14 final size:14
Alignment explanation
Indices: 8746520--8746547 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8746510 TAAAATTTGT
8746520 CCACCTTAATCAAA
1 CCACCTTAATCAAA
8746534 CCACCTTAATCAAA
1 CCACCTTAATCAAA
8746548 ATTTTTATTA
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:0.36, G:0.00, T:0.21
Consensus pattern (14 bp):
CCACCTTAATCAAA
Found at i:8747388 original size:9 final size:9
Alignment explanation
Indices: 8747374--8747410 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
8747364 TATAGTTTGA
8747374 TATTCGAAT
1 TATTCGAAT
8747383 TATTCGAAT
1 TATTCGAAT
*
8747392 TATTCGAGT
1 TATTCGAAT
8747401 TATTCGAAT
1 TATTCGAAT
8747410 T
1 T
8747411 TGAAAATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:8749410 original size:30 final size:31
Alignment explanation
Indices: 8749347--8749411 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
8749337 TAAAAAAATC
* * ** *
8749347 AATTTGACTCTTTTTGAAATATTAATGGTCA
1 AATTCGACTCTTTTTAAAATATTAAAAGCCA
8749378 AATTCGACTC-TTTTAAAATATTAAAAGCCA
1 AATTCGACTCTTTTTAAAATATTAAAAGCCA
8749408 AATT
1 AATT
8749412 TAATTAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 20 0.69
31 9 0.31
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (31 bp):
AATTCGACTCTTTTTAAAATATTAAAAGCCA
Found at i:8751285 original size:4 final size:4
Alignment explanation
Indices: 8751276--8751307 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
8751266 CCTTACAGAT
8751276 GATG GATG GATG GATG GATG GATG GATG GATG
1 GATG GATG GATG GATG GATG GATG GATG GATG
8751308 AGATTAACGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.50, T:0.25
Consensus pattern (4 bp):
GATG
Found at i:8752600 original size:100 final size:103
Alignment explanation
Indices: 8752430--8752625 Score: 290
Period size: 100 Copynumber: 1.9 Consensus size: 103
8752420 GACAGACCGA
*
8752430 CACCAGTATACGAAAAAATAAAAAAAAAAATTTTGATGGTGACCTGCCAATGGCCGGCACCACAT
1 CACCAGTATACGAAAAAAT-AAAAAAAAAA--TTGATAGTGACCTGCCAATGGCCGGCACCACAT
*
8752495 TTATGT-AAAAAAATTTACATTTTGGGGTGTCATTGGCCGG
63 TTATGTAAAAAAAATTTACATTTTCGGGTGTCATTGGCCGG
* * *
8752535 CACCAGTATACGAAAAAAT-AAAAAAAAA-TGGTAGTGGCCTGCCAATGGCCGGCACCACCTTTA
1 CACCAGTATACGAAAAAATAAAAAAAAAATTGATAGTGACCTGCCAATGGCCGGCACCACATTTA
8752598 TGTAAAAAAAAATTTACATTTTCGGGTG
66 TGT-AAAAAAAATTTACATTTTCGGGTG
8752626 CCGATGTAAA
Statistics
Matches: 84, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
100 34 0.40
102 22 0.26
103 9 0.11
105 19 0.23
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.24
Consensus pattern (103 bp):
CACCAGTATACGAAAAAATAAAAAAAAAATTGATAGTGACCTGCCAATGGCCGGCACCACATTTA
TGTAAAAAAAATTTACATTTTCGGGTGTCATTGGCCGG
Found at i:8752896 original size:103 final size:103
Alignment explanation
Indices: 8752642--8752897 Score: 286
Period size: 103 Copynumber: 2.5 Consensus size: 103
8752632 TAAATTTTTT
* * ** *
8752642 TTTACATAAAGGTGGTGCCAACCATTGGCAGGCTACCAC-CAAATTTTTTTTTATTTTTTTGTAT
1 TTTACATAAAGGTGGTGCCAGCCATTGACAGGCTACCACTC-AATTTTTTTAAATTTTTTCGTAT
* *
8752706 ACTGGTGCCGGCCAATAACACCCCAAAATGTAAAAAAAA
65 ACTAGTGCCAGCCAATAACACCCCAAAATGTAAAAAAAA
* * * * *
8752745 TTTACATAAAAGTAGTGCCGGCCATT-AGCAGGTTACCA-TAAATTTTTTTTAAATTTTTTCGTA
1 TTTACATAAAGGTGGTGCCAGCCATTGA-CAGGCTACCACTCAA-TTTTTTTAAATTTTTTCGTA
* *
8752808 TACTAGTGCTAGCCAATGACACCCCAAAATGTAAAAAAAA
64 TACTAGTGCCAGCCAATAACACCCCAAAATGTAAAAAAAA
* * * *
8752848 -TTCCGTAAAGGTGGTGCCAGCCATTGACAGGCCAGCACTCAATGTTTTTT
1 TTTACATAAAGGTGGTGCCAGCCATTGACAGGCTACCACTCAAT-TTTTTT
8752898 TTTTTTTCCT
Statistics
Matches: 124, Mismatches: 23, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
102 30 0.24
103 94 0.76
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (103 bp):
TTTACATAAAGGTGGTGCCAGCCATTGACAGGCTACCACTCAATTTTTTTAAATTTTTTCGTATA
CTAGTGCCAGCCAATAACACCCCAAAATGTAAAAAAAA
Found at i:8753052 original size:128 final size:126
Alignment explanation
Indices: 8752870--8753124 Score: 395
Period size: 128 Copynumber: 2.0 Consensus size: 126
8752860 GGTGCCAGCC
* *
8752870 ATTGACAGGCCAGCACTCAATGTTTTTTTTTTTTTCCTTGTATACCAGTATGATATGATTTTAAA
1 ATTGACAGGCCAGCACTCAATGTTTTTTTTTTTTTCCCTGTATACCAGTATGATACGATTTTAAA
* * *
8752935 AAAATACACTGGTTCCGACCATTGAAAGACCAGAACCAAGAAAATCATTTTTTTAAGTCTG
66 AAAATACACTGATTCCGACCATTGAAAGACCAGAACCAAAAAAATCATTTTTTTAAATCTG
*
8752996 ATTGACGGGCCAGCACTCAAAAT-TTTTTTATTTTTTTCCCTGTATACCAGTATGATACGATTTT
1 ATTGACAGGCCAGCACTC--AATGTTTTTT-TTTTTTTCCCTGTATACCAGTATGATACGATTTT
* * *
8753060 AAAAAAATACACTGATTCCGACCATTGATAGACCAGAACTAAAAAAATTATTTTTTTAAATCTG
63 AAAAAAATACACTGATTCCGACCATTGAAAGACCAGAACCAAAAAAATCATTTTTTTAAATCTG
8753124 A
1 A
8753125 CACAATTATC
Statistics
Matches: 117, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
126 17 0.15
127 6 0.05
128 94 0.80
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (126 bp):
ATTGACAGGCCAGCACTCAATGTTTTTTTTTTTTTCCCTGTATACCAGTATGATACGATTTTAAA
AAAATACACTGATTCCGACCATTGAAAGACCAGAACCAAAAAAATCATTTTTTTAAATCTG
Found at i:8771065 original size:20 final size:20
Alignment explanation
Indices: 8771040--8771077 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8771030 GCAGACCAGG
*
8771040 AAAAAAAGGTAAAAAGAGAA
1 AAAAAAAGGAAAAAAGAGAA
*
8771060 AAAAAAATGAAAAAAGAG
1 AAAAAAAGGAAAAAAGAG
8771078 GGGTCCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.05
Consensus pattern (20 bp):
AAAAAAAGGAAAAAAGAGAA
Found at i:8775570 original size:12 final size:12
Alignment explanation
Indices: 8775555--8775597 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
8775545 ATATCGAAAA
8775555 AAATAAAGTAAT
1 AAATAAAGTAAT
*
8775567 AAATAATA-AAAT
1 AAATAA-AGTAAT
8775579 AAAATAAAGTAAT
1 -AAATAAAGTAAT
8775592 AAATAA
1 AAATAA
8775598 TAAAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (12 bp):
AAATAAAGTAAT
Found at i:8775576 original size:15 final size:15
Alignment explanation
Indices: 8775556--8775601 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
8775546 TATCGAAAAA
8775556 AATAAAGTAATAAAT
1 AATAAAGTAATAAAT
8775571 AAT-AA--AAT-AA-
1 AATAAAGTAATAAAT
8775581 AATAAAGTAATAAAT
1 AATAAAGTAATAAAT
8775596 AATAAA
1 AATAAA
8775602 ATAAAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
10 3 0.12
11 4 0.15
12 3 0.12
13 3 0.12
14 4 0.15
15 9 0.35
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (15 bp):
AATAAAGTAATAAAT
Found at i:8775581 original size:5 final size:5
Alignment explanation
Indices: 8775571--8775612 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
8775561 AGTAATAAAT
* *
8775571 AATAA AATAA AATAA AGTAA TAA-AT AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA -AATAA AATAA AATAA AATAA AA
8775613 ATTGGGTTGC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
4 2 0.06
5 28 0.90
6 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:8775587 original size:25 final size:25
Alignment explanation
Indices: 8775554--8775611 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
8775544 AATATCGAAA
8775554 AAAATAAAGTAATAAATAATAAAAT
1 AAAATAAAGTAATAAATAATAAAAT
8775579 AAAATAAAGTAATAAATAATAAAAT
1 AAAATAAAGTAATAAATAATAAAAT
8775604 AAAATAAA
1 AAAATAAA
8775612 AATTGGGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.22
Consensus pattern (25 bp):
AAAATAAAGTAATAAATAATAAAAT
Found at i:8775603 original size:8 final size:8
Alignment explanation
Indices: 8775551--8775605 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
8775541 ATTAATATCG
*
8775551 AAAAAAAT
1 AAAATAAT
*
8775559 AAAGTAAT
1 AAAATAAT
8775567 -AAATAAT
1 AAAATAAT
8775574 AAAATAAAAT
1 AAAAT--AAT
*
8775584 AAAGTAAT
1 AAAATAAT
8775592 -AAATAAT
1 AAAATAAT
8775599 AAAATAA
1 AAAATAA
8775606 AATAAAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
7 12 0.32
8 19 0.50
10 7 0.18
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.22
Consensus pattern (8 bp):
AAAATAAT
Found at i:8775604 original size:12 final size:12
Alignment explanation
Indices: 8775564--8775606 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
8775554 AAAATAAAGT
8775564 AATAAATAATAA
1 AATAAATAATAA
*
8775576 AATAAAATAA-AGT
1 AAT-AAATAATA-A
8775589 AATAAATAATAA
1 AATAAATAATAA
8775601 AATAAA
1 AATAAA
8775607 ATAAAAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (12 bp):
AATAAATAATAA
Found at i:8776460 original size:11 final size:11
Alignment explanation
Indices: 8776441--8776482 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
8776431 AACACCGAAT
*
8776441 TTTTTGGGTAA
1 TTTTCGGGTAA
8776452 TTTTCGGGTAA
1 TTTTCGGGTAA
8776463 -TTT-GGGTAA
1 TTTTCGGGTAA
8776472 TTTTCGGGTAA
1 TTTTCGGGTAA
8776483 ATCGGTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 6 0.21
10 6 0.21
11 16 0.57
ACGTcount: A:0.19, C:0.05, G:0.29, T:0.48
Consensus pattern (11 bp):
TTTTCGGGTAA
Found at i:8776468 original size:20 final size:20
Alignment explanation
Indices: 8776443--8776482 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
8776433 CACCGAATTT
8776443 TTTGGGTAATTTTCGGGTAA
1 TTTGGGTAATTTTCGGGTAA
8776463 TTTGGGTAATTTTCGGGTAA
1 TTTGGGTAATTTTCGGGTAA
8776483 ATCGGTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.30, T:0.45
Consensus pattern (20 bp):
TTTGGGTAATTTTCGGGTAA
Found at i:8776487 original size:9 final size:9
Alignment explanation
Indices: 8776454--8776528 Score: 71
Period size: 9 Copynumber: 8.2 Consensus size: 9
8776444 TTGGGTAATT
8776454 TTCGGGTAA
1 TTCGGGTAA
*
8776463 TTTGGGTAA
1 TTCGGGTAA
8776472 TTTTCGGGTAA
1 --TTCGGGTAA
* *
8776483 ATCGGTTAA
1 TTCGGGTAA
*
8776492 TTCGGTTAA
1 TTCGGGTAA
**
8776501 TTCGATTAA
1 TTCGGGTAA
8776510 -TCGGGTAA
1 TTCGGGTAA
8776518 TTCGGGTAA
1 TTCGGGTAA
8776527 TT
1 TT
8776529 TTTAACCAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
8 6 0.11
9 41 0.75
11 8 0.15
ACGTcount: A:0.24, C:0.09, G:0.27, T:0.40
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:8776492 original size:20 final size:20
Alignment explanation
Indices: 8776446--8776493 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
8776436 CGAATTTTTT
* *
8776446 GGGTAATTTTCGGGTAATTT
1 GGGTAATTTTCGGGTAAATC
8776466 GGGTAATTTTCGGGTAAATC
1 GGGTAATTTTCGGGTAAATC
*
8776486 GGTTAATT
1 GGGTAATT
8776494 CGGTTAATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.23, C:0.06, G:0.29, T:0.42
Consensus pattern (20 bp):
GGGTAATTTTCGGGTAAATC
Found at i:8776667 original size:12 final size:12
Alignment explanation
Indices: 8776650--8776674 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8776640 AGTAATTTCG
8776650 GGTCGGTTAACC
1 GGTCGGTTAACC
8776662 GGTCGGTTAACC
1 GGTCGGTTAACC
8776674 G
1 G
8776675 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:8781947 original size:31 final size:31
Alignment explanation
Indices: 8781912--8781997 Score: 113
Period size: 31 Copynumber: 2.8 Consensus size: 31
8781902 TAGCCAAATG
*
8781912 AATTTGAAAAGTACAAGGATTAAAATTGATT
1 AATTTGAAAAGTACAAGGACTAAAATTGATT
* *
8781943 AATTTGAAGAGTACATGGACTAAAATTGATT
1 AATTTGAAAAGTACAAGGACTAAAATTGATT
8781974 AATTT-AAATAGTACATA-GACTAAA
1 AATTTGAAA-AGTACA-AGGACTAAA
8781998 TTTACAACTT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
30 2 0.04
31 46 0.96
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.31
Consensus pattern (31 bp):
AATTTGAAAAGTACAAGGACTAAAATTGATT
Found at i:8784371 original size:17 final size:17
Alignment explanation
Indices: 8784351--8784392 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
8784341 AAAAGTGATT
8784351 GAAATAAAAAAAAAAAA
1 GAAATAAAAAAAAAAAA
***
8784368 GAAATTTCAAAAAAAAA
1 GAAATAAAAAAAAAAAA
8784385 GAAA-AAAA
1 GAAATAAAA
8784393 TTAAAAAATA
Statistics
Matches: 19, Mismatches: 6, Indels: 1
0.73 0.23 0.04
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.81, C:0.02, G:0.07, T:0.10
Consensus pattern (17 bp):
GAAATAAAAAAAAAAAA
Found at i:8784379 original size:20 final size:21
Alignment explanation
Indices: 8784356--8784394 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
8784346 TGATTGAAAT
*
8784356 AAAAAAAAA-AAAGAAATTTC
1 AAAAAAAAAGAAAAAAATTTC
8784376 AAAAAAAAAGAAAAAAATT
1 AAAAAAAAAGAAAAAAATT
8784395 AAAAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (21 bp):
AAAAAAAAAGAAAAAAATTTC
Found at i:8784399 original size:20 final size:19
Alignment explanation
Indices: 8784355--8784400 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
8784345 GTGATTGAAA
* *
8784355 TAAAAAAAAAAAAGAAATT
1 TAAAAAAAAAAAAAAAAAT
*
8784374 TCAAAAAAAAAGAAAAAAAT
1 T-AAAAAAAAAAAAAAAAAT
8784394 TAAAAAA
1 TAAAAAA
8784401 TATTTTTGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.13
Consensus pattern (19 bp):
TAAAAAAAAAAAAAAAAAT
Found at i:8791553 original size:16 final size:16
Alignment explanation
Indices: 8791534--8791585 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
8791524 TTATATTATA
8791534 AAAATATTATTAAATT
1 AAAATATTATTAAATT
8791550 AAAATATTA-TAAATT
1 AAAATATTATTAAATT
8791565 ---ATATTAATTAAAATT
1 AAAATATT-ATT-AAATT
8791580 AAAATA
1 AAAATA
8791586 ATATATTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
12 5 0.17
13 1 0.03
14 1 0.03
15 11 0.37
16 9 0.30
18 3 0.10
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAATATTATTAAATT
Found at i:8791569 original size:25 final size:26
Alignment explanation
Indices: 8791526--8791578 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
8791516 TTCTTGATTT
8791526 ATATTATAAAAATATTATTAAATTAAA
1 ATATTATAAAAATATTATT-AATTAAA
*
8791553 ATATTAT-AAATTA-TATTAATTAAA
1 ATATTATAAAAATATTATTAATTAAA
8791577 AT
1 AT
8791579 TAAAATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 9 0.36
25 4 0.16
26 5 0.20
27 7 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
ATATTATAAAAATATTATTAATTAAA
Found at i:8791581 original size:30 final size:27
Alignment explanation
Indices: 8791526--8791590 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 27
8791516 TTCTTGATTT
8791526 ATATTATAAAAATATTATTAAATTAAA
1 ATATTATAAAAATATTATTAAATTAAA
*
8791553 ATATTATAAATTATATTAATTAAAATTAAA
1 ATATTATAAA-AATATT-ATT-AAATTAAA
*
8791583 ATAATATA
1 ATATTATA
8791591 TTATAGGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 10 0.30
28 5 0.15
29 3 0.09
30 15 0.45
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
ATATTATAAAAATATTATTAAATTAAA
Found at i:8791730 original size:3 final size:3
Alignment explanation
Indices: 8791722--8791765 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
8791712 GTGAATAAAA
* *
8791722 TAT TAT TA- TAT GAT TAT TAT AAT ATAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TA
8791766 ACTAATGCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 31 0.89
4 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:8791758 original size:19 final size:22
Alignment explanation
Indices: 8791720--8791763 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
8791710 TTGTGAATAA
8791720 AATATTATTATATGATTATTAT
1 AATATTATTATATGATTATTAT
*
8791742 AATA-TATTATTATTATTATTAT
1 AATATTATTA-TATGATTATTAT
8791764 TAACTAATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
AATATTATTATATGATTATTAT
Found at i:8791849 original size:22 final size:22
Alignment explanation
Indices: 8791810--8791857 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
8791800 AACAAAAAGA
8791810 AAAAGAAACAAAAGAAGA-ACAG
1 AAAAGAAACAAAAGAAGAGAC-G
8791832 AAAAGAAAC-AAAGAAAGAGACG
1 AAAAGAAACAAAAG-AAGAGACG
8791854 AAAA
1 AAAA
8791858 TAGGGGAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.17
22 18 0.75
23 2 0.08
ACGTcount: A:0.73, C:0.08, G:0.19, T:0.00
Consensus pattern (22 bp):
AAAAGAAACAAAAGAAGAGACG
Found at i:8792797 original size:23 final size:22
Alignment explanation
Indices: 8792770--8792855 Score: 97
Period size: 21 Copynumber: 4.0 Consensus size: 22
8792760 GCTTTGCCGA
8792770 TCAGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
*
8792792 CTCAGGAACTTTATGTGTCGTA-
1 -TCAGGCACTTTATGTGTCGTAT
* **
8792814 TCAGGCACCTCGTGTGTCGT-T
1 TCAGGCACTTTATGTGTCGTAT
*
8792835 TTAGGCAC-TTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
8792856 ACTGATCAGG
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
20 9 0.17
21 24 0.45
23 20 0.38
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.38
Consensus pattern (22 bp):
TCAGGCACTTTATGTGTCGTAT
Found at i:8792820 original size:44 final size:41
Alignment explanation
Indices: 8792769--8792855 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 41
8792759 GGCTTTGCCG
* *
8792769 ATCAGGCACTTTATGTGTCGTATCTCAGGAACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT-T-TCAGGAAC-TTATGTGTCGT
* * *
8792813 ATCAGGCACCTCGTGTGTCGTTTTAGGCACTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGTTTCAGGAACTTATGTGTCGT
8792854 AT
1 AT
8792856 ACTGATCAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
41 13 0.34
42 6 0.16
43 1 0.03
44 18 0.47
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (41 bp):
ATCAGGCACCTCATGTGTCGTTTCAGGAACTTATGTGTCGT
Found at i:8794688 original size:25 final size:25
Alignment explanation
Indices: 8794660--8794733 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
8794650 CTCTGAGTTG
8794660 AATAATGGGAAGCTCATGCGAGCTA
1 AATAATGGGAAGCTCATGCGAGCTA
* *
8794685 AAT-ATCGAGAAGCTCATGCGAGCTG
1 AATAAT-GGGAAGCTCATGCGAGCTA
* ** *
8794710 TATAACAGAAAGCTCATGCGAGCT
1 AATAATGGGAAGCTCATGCGAGCT
8794734 GTATAACAGA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
24 2 0.05
25 37 0.93
26 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.20
Consensus pattern (25 bp):
AATAATGGGAAGCTCATGCGAGCTA
Found at i:8794773 original size:50 final size:50
Alignment explanation
Indices: 8794629--8794786 Score: 119
Period size: 50 Copynumber: 3.2 Consensus size: 50
8794619 TATGCTTATA
* ** *
8794629 CGAGCTGTA-AACAAGAAGCTC-CTCTGAGTTGAATAAT-GGGAAGCTCATG
1 CGAGCTGTATAACGAGAAGCTCAAGC-GAGTTGAAT-ATCGAGAAGCTCATG
** * * * * *
8794678 CGAGCTAAATATCGAGAAGCTCATGCGAGCTGTATAAC-AGAAAGCTCATG
1 CGAGCTGTATAACGAGAAGCTCAAGCGAGTTGAATATCGAG-AAGCTCATG
* *
8794728 CGAGCTGTATAAC-AGAAATCTCAAGCGAGTTGAATATCGAGAAGCTCATA
1 CGAGCTGTATAACGAG-AAGCTCAAGCGAGTTGAATATCGAGAAGCTCATG
*
8794778 CGAGTTGTA
1 CGAGCTGTA
8794787 GTGTGTCCGC
Statistics
Matches: 83, Mismatches: 20, Indels: 11
0.73 0.18 0.10
Matches are distributed among these distances:
49 11 0.13
50 69 0.83
51 3 0.04
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (50 bp):
CGAGCTGTATAACGAGAAGCTCAAGCGAGTTGAATATCGAGAAGCTCATG
Found at i:8794784 original size:25 final size:25
Alignment explanation
Indices: 8794668--8794781 Score: 115
Period size: 25 Copynumber: 4.6 Consensus size: 25
8794658 TGAATAATGG
*
8794668 GAAGCTCATGCGAGCTAAATATCGA
1 GAAGCTCATGCGAGCTGAATATCGA
* *
8794693 GAAGCTCATGCGAGCTGTATAAC-A
1 GAAGCTCATGCGAGCTGAATATCGA
* *
8794717 GAAAGCTCATGCGAGCTGTATAAC-A
1 G-AAGCTCATGCGAGCTGAATATCGA
* * *
8794742 GAAATCTCAAGCGAGTTGAATATCGA
1 G-AAGCTCATGCGAGCTGAATATCGA
*
8794768 GAAGCTCATACGAG
1 GAAGCTCATGCGAG
8794782 TTGTAGTGTG
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
24 2 0.03
25 72 0.95
26 2 0.03
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (25 bp):
GAAGCTCATGCGAGCTGAATATCGA
Found at i:8799366 original size:13 final size:13
Alignment explanation
Indices: 8799348--8799381 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
8799338 ACAAAATATT
*
8799348 AAATTTATTCATA
1 AAATTTATTCAAA
*
8799361 AAATTTATTTAAA
1 AAATTTATTCAAA
8799374 AAATTTAT
1 AAATTTAT
8799382 ACATTTTCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
AAATTTATTCAAA
Found at i:8805941 original size:21 final size:21
Alignment explanation
Indices: 8805915--8805954 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8805905 AGCAGACCAG
*
8805915 AAAAAAAAGGTAAAAAGAGAA
1 AAAAAAAAGGAAAAAAGAGAA
*
8805936 AAAAAAAATGAAAAAAGAG
1 AAAAAAAAGGAAAAAAGAG
8805955 GGGTCCATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (21 bp):
AAAAAAAAGGAAAAAAGAGAA
Found at i:8809353 original size:13 final size:13
Alignment explanation
Indices: 8809335--8809359 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8809325 TAATAGTACA
8809335 ATAATTTATTAAT
1 ATAATTTATTAAT
8809348 ATAATTTATTAA
1 ATAATTTATTAA
8809360 AATTTTATTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATAATTTATTAAT
Found at i:8812190 original size:25 final size:24
Alignment explanation
Indices: 8812162--8812208 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
8812152 TCCAGAAAAA
*
8812162 ATAATGGGAAACTCACAAAGAGCCT
1 ATAACGGGAAACTC-CAAAGAGCCT
* *
8812187 ATAACGGGTAGCTCCAAAGAGC
1 ATAACGGGAAACTCCAAAGAGC
8812209 AATTAACAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.15
Consensus pattern (24 bp):
ATAACGGGAAACTCCAAAGAGCCT
Found at i:8812204 original size:24 final size:25
Alignment explanation
Indices: 8812177--8812232 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
8812167 GGGAAACTCA
* *
8812177 CAAAGAGCCTA-TAACGGGTAGCTC
1 CAAAGAGCCAATTAACAGGTAGCTC
8812201 CAAAGAG-CAATTAACAGGTAGCTC
1 CAAAGAGCCAATTAACAGGTAGCTC
*
8812225 CGAAGAGC
1 CAAAGAGC
8812233 ACTTAAACAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 2 0.07
24 25 0.93
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.14
Consensus pattern (25 bp):
CAAAGAGCCAATTAACAGGTAGCTC
Found at i:8812233 original size:24 final size:24
Alignment explanation
Indices: 8812188--8812238 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
8812178 AAAGAGCCTA
*
8812188 TAACGGGTAGCTCCAAAGAGCAAT
1 TAACAGGTAGCTCCAAAGAGCAAT
* *
8812212 TAACAGGTAGCTCCGAAGAGCACT
1 TAACAGGTAGCTCCAAAGAGCAAT
8812236 TAA
1 TAA
8812239 ACAGAAAGCT
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:0.37, C:0.22, G:0.24, T:0.18
Consensus pattern (24 bp):
TAACAGGTAGCTCCAAAGAGCAAT
Found at i:8812248 original size:25 final size:24
Alignment explanation
Indices: 8812196--8812249 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
8812186 TATAACGGGT
**
8812196 AGCTCCAAAGAGCAATTAACAGGT
1 AGCTCCAAAGAGCAATTAACAGAA
* *
8812220 AGCTCCGAAGAGCACTTAAACAGAA
1 AGCTCCAAAGAGCAATT-AACAGAA
8812245 AGCTC
1 AGCTC
8812250 TCACTCAAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (24 bp):
AGCTCCAAAGAGCAATTAACAGAA
Found at i:8812339 original size:25 final size:24
Alignment explanation
Indices: 8812311--8812358 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
8812301 ATTCGAACAA
8812311 TATAACGGGAA-ACTCACAAAGAGCC
1 TATAACGGGAAGA-TC-CAAAGAGCC
8812336 TATAACGGGAAGATCCAAAGAGC
1 TATAACGGGAAGATCCAAAGAGC
8812359 AATTAATGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.36
25 13 0.59
26 1 0.05
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (24 bp):
TATAACGGGAAGATCCAAAGAGCC
Found at i:8812353 original size:150 final size:150
Alignment explanation
Indices: 8812082--8812388 Score: 490
Period size: 150 Copynumber: 2.0 Consensus size: 150
8812072 CTTTTATGAA
* * * *
8812082 CACTTAAACATAAAGCTCTCACTCAAGCATTATAACGGGAAGCTTATTGAGCCTTGTAACGGGAA
1 CACTTAAACAGAAAGCTCTCACTCAAGCACTATAACGGGAAGCTCATTGAGCCTTGTAAAGGGAA
* * *
8812147 GCTTATCCAGAAAAAATAATGGGAAACTCACAAAGAGCCTATAACGGGTAGCTCCAAAGAGCAAT
66 GCTTATCCAGAAAAAATAACGGGAAACTCACAAAGAGCCTATAACGGGAAGATCCAAAGAGCAAT
8812212 TAACAGGTAGCTCCGAAGAG
131 TAACAGGTAGCTCCGAAGAG
8812232 CACTTAAACAGAAAGCTCTCACTCAAGCACTATAACGGGAAGCTCATTGAGCCTTGTAAAGGGAA
1 CACTTAAACAGAAAGCTCTCACTCAAGCACTATAACGGGAAGCTCATTGAGCCTTGTAAAGGGAA
* *
8812297 GCTTATTC-GAACAATATAACGGGAAACTCACAAAGAGCCTATAACGGGAAGATCCAAAGAGCAA
66 GCTTATCCAGAA-AAAATAACGGGAAACTCACAAAGAGCCTATAACGGGAAGATCCAAAGAGCAA
**
8812361 TTAATGGGTAGCTCCGAAGAG
130 TTAACAGGTAGCTCCGAAGAG
*
8812382 CAATTAA
1 CACTTAA
8812389 CGGGAAGCAG
Statistics
Matches: 144, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
149 3 0.02
150 141 0.98
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (150 bp):
CACTTAAACAGAAAGCTCTCACTCAAGCACTATAACGGGAAGCTCATTGAGCCTTGTAAAGGGAA
GCTTATCCAGAAAAAATAACGGGAAACTCACAAAGAGCCTATAACGGGAAGATCCAAAGAGCAAT
TAACAGGTAGCTCCGAAGAG
Found at i:8820635 original size:19 final size:18
Alignment explanation
Indices: 8820583--8820635 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
8820573 ATGATTAAAC
*
8820583 AATTCAATAATATAAA-T
1 AATTCAATAATGTAAATT
*
8820600 AATGCAA-AATGTGAAATTT
1 AATTCAATAATGT-AAA-TT
8820619 AATTCAATAATGTAAAT
1 AATTCAATAATGTAAAT
8820636 AGTAAACATA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
16 4 0.14
17 9 0.31
18 1 0.03
19 10 0.34
20 5 0.17
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.34
Consensus pattern (18 bp):
AATTCAATAATGTAAATT
Found at i:8820737 original size:51 final size:51
Alignment explanation
Indices: 8820678--8820786 Score: 150
Period size: 51 Copynumber: 2.1 Consensus size: 51
8820668 GGGATTAAAA
* * *
8820678 GGAAGTAAAAGTTTTGG-GGAAAATAAAAAGAAAATAATTTTTGGGGTTT-GG
1 GGAAGTAAAAGTTATGGAGGAAAAT-AAAAGAAAA-AAATTTGGGGGTTTAGG
*
8820729 GGAAGTAAAAGTTATGGAGGAAAGTAAAAGAAAAAAATTTGGGGGTTTAGG
1 GGAAGTAAAAGTTATGGAGGAAAATAAAAGAAAAAAATTTGGGGGTTTAGG
8820780 GGAAGTA
1 GGAAGTA
8820787 CATTTTTTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
50 12 0.23
51 34 0.65
52 6 0.12
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.25
Consensus pattern (51 bp):
GGAAGTAAAAGTTATGGAGGAAAATAAAAGAAAAAAATTTGGGGGTTTAGG
Found at i:8822070 original size:18 final size:19
Alignment explanation
Indices: 8822031--8822073 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
8822021 GTAGATGTAA
8822031 TAAAATGTGCATAATAAAAT
1 TAAAATGT-CATAATAAAAT
8822051 TAAAATGT-ATAA-AAATAT
1 TAAAATGTCATAATAAA-AT
8822069 TAAAA
1 TAAAA
8822074 GAAAGTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.14
18 11 0.50
20 8 0.36
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.30
Consensus pattern (19 bp):
TAAAATGTCATAATAAAAT
Found at i:8822746 original size:42 final size:43
Alignment explanation
Indices: 8822621--8822764 Score: 166
Period size: 42 Copynumber: 3.4 Consensus size: 43
8822611 AGCATTTACA
* *
8822621 AAAATAAACGCCGCTAAAGGTCATGTTCTTTAGCAGCGC-TTAG
1 AAAA-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTAG
*
8822664 AAAAAAAAGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTA-
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTAG
* * * * *
8822706 AGAAAAACGCCGCGAAAGAACATGATCTTTAGCGGCGCTTTTG
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTAG
** *
8822749 TGAAAAACGCCACTAA
1 AAAAAAACGCCGCTAA
8822765 TTTGAGATTT
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
42 67 0.77
43 20 0.23
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (43 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTAG
Done.