Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 33 of 259
Found at i:9564473 original size:83 final size:80
Alignment explanation
Indices: 9564288--9564512 Score: 312
Period size: 83 Copynumber: 2.8 Consensus size: 80
9564278 AACCCAAGTA
* * * * *
9564288 CCTTCGGGATTTAG-CCAGATATAG-CTACTCGCACAAACGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
9564351 GTCAATAGCACAAATG
65 GTCAATAGCACAAATG
9564367 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
9564432 -CAACTACTCGCACAAATG
66 TCAA-TA---GCACAAATG
* * *
9564450 CCTTCGGGACTTCGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCAGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
9564513 CATTCGAATA
Statistics
Matches: 132, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
79 16 0.12
80 46 0.35
81 1 0.01
83 69 0.52
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAATG
Found at i:9569218 original size:27 final size:27
Alignment explanation
Indices: 9569188--9569241 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
9569178 TCATACAACC
*
9569188 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAATAATAATTTAACATTCAATT
**
9569215 CATGTAATAATAATTTGCCATTCAATT
1 CATGTAATAATAATTTAACATTCAATT
9569242 TCACATGACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAATAATAATTTAACATTCAATT
Found at i:9581461 original size:10 final size:10
Alignment explanation
Indices: 9581446--9581474 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
9581436 TATTCTTATT
9581446 TTTTAATTTA
1 TTTTAATTTA
9581456 TTTTAATTTA
1 TTTTAATTTA
9581466 TTTTAATTT
1 TTTTAATTT
9581475 TTCTTTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTAATTTA
Found at i:9587013 original size:11 final size:11
Alignment explanation
Indices: 9586997--9587022 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9586987 GTCAATACAC
9586997 TTTCATGACAT
1 TTTCATGACAT
9587008 TTTCATGACAT
1 TTTCATGACAT
9587019 TTTC
1 TTTC
9587023 TCCACCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.19, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCATGACAT
Found at i:9587195 original size:27 final size:27
Alignment explanation
Indices: 9587138--9587195 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
9587128 CAAAGATAAT
* * *
9587138 TTGATTAATGATTGATATTGTGCTTAT
1 TTGATTAATGATCGATATTATGCTTAA
*
9587165 TTGATTAATGATCGATATTATGTTTAA
1 TTGATTAATGATCGATATTATGCTTAA
9587192 TTGA
1 TTGA
9587196 CATTATGCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.50
Consensus pattern (27 bp):
TTGATTAATGATCGATATTATGCTTAA
Found at i:9590480 original size:15 final size:14
Alignment explanation
Indices: 9590424--9590493 Score: 61
Period size: 15 Copynumber: 4.8 Consensus size: 14
9590414 GATAACAAGA
9590424 AAACCAA-ATAAAG
1 AAACCAAGATAAAG
*
9590437 AAATCCAAGATAGAG
1 AAA-CCAAGATAAAG
*
9590452 AAACCCAGAATAAAG
1 AAACCAAG-ATAAAG
* *
9590467 AAACCTAGAGTAAAA
1 AAACCAAGA-TAAAG
9590482 AAACCCAAGATA
1 AAA-CCAAGATA
9590494 CGATACTATG
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
13 3 0.07
14 9 0.20
15 29 0.63
16 5 0.11
ACGTcount: A:0.60, C:0.17, G:0.13, T:0.10
Consensus pattern (14 bp):
AAACCAAGATAAAG
Found at i:9590486 original size:30 final size:29
Alignment explanation
Indices: 9590412--9590489 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 29
9590402 TTACGGAATA
*
9590412 AAGATAACAAGAAAACCAAATAAAGAAATCC
1 AAGATAA-AA-AAACCCAAATAAAGAAATCC
* *
9590443 AAGATAGAGAAACCCAGAATAAAGAAA-CC
1 AAGATAAAAAAACCCA-AATAAAGAAATCC
*
9590472 TAGAGTAAAAAAACCCAA
1 AAGA-TAAAAAAACCCAA
9590490 GATACGATAC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
29 12 0.31
30 21 0.54
31 6 0.15
ACGTcount: A:0.62, C:0.17, G:0.13, T:0.09
Consensus pattern (29 bp):
AAGATAAAAAAACCCAAATAAAGAAATCC
Found at i:9593603 original size:58 final size:60
Alignment explanation
Indices: 9593509--9593628 Score: 199
Period size: 58 Copynumber: 2.0 Consensus size: 60
9593499 CCTGCACGTA
* *
9593509 GTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACAC
1 GTACTACACACGCGACCAATTATCCGGTACACGTAGTAGCCTGCAATTAGTACTACACAC
*
9593569 GTACTACACACGTG-CCAATTATCC-GTACACGTAGTAGCCTGCAATTAGTACTACACAC
1 GTACTACACACGCGACCAATTATCCGGTACACGTAGTAGCCTGCAATTAGTACTACACAC
9593627 GT
1 GT
9593629 GACCTAACCA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
58 35 0.61
59 10 0.18
60 12 0.21
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (60 bp):
GTACTACACACGCGACCAATTATCCGGTACACGTAGTAGCCTGCAATTAGTACTACACAC
Found at i:9593623 original size:47 final size:50
Alignment explanation
Indices: 9593569--9593680 Score: 158
Period size: 50 Copynumber: 2.3 Consensus size: 50
9593559 TACTACACAC
** *
9593569 GTACTACACACGTG-CC-AATTATCCG-TACACGTAGTAGCCTGCAATTA
1 GTACTACACACGTGACCTAACCATCCGAAACACGTAGTAGCCTGCAATTA
* *
9593616 GTACTACACACGTGACCTAACCATCTGAAACACGTAGTAGCCTGCACTTA
1 GTACTACACACGTGACCTAACCATCCGAAACACGTAGTAGCCTGCAATTA
9593666 GTACTACACACGTGA
1 GTACTACACACGTGA
9593681 TCACAGTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
47 14 0.25
48 2 0.04
49 6 0.11
50 35 0.61
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (50 bp):
GTACTACACACGTGACCTAACCATCCGAAACACGTAGTAGCCTGCAATTA
Found at i:9609709 original size:14 final size:13
Alignment explanation
Indices: 9609680--9609721 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
9609670 TTTAAAAAAT
9609680 AAAAATAATTAGA
1 AAAAATAATTAGA
*
9609693 AAAAATAATTTATA
1 AAAAATAA-TTAGA
*
9609707 AAAAATTATTAGA
1 AAAAATAATTAGA
9609720 AA
1 AA
9609722 TTAATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (13 bp):
AAAAATAATTAGA
Found at i:9617807 original size:34 final size:34
Alignment explanation
Indices: 9617733--9617813 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 34
9617723 TTGCAAAGTG
* *
9617733 AGGGTTCGCATAACATATAGGCTCTCATAGACCT
1 AGGGTTCGCATAACATATAAGCTCACATAGACCT
* * *
9617767 AGGGTTCACATAACATGTAAGCTCACATAGACTT
1 AGGGTTCGCATAACATATAAGCTCACATAGACCT
**
9617801 TTGGTTCGCATAA
1 AGGGTTCGCATAA
9617814 TACATAGGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (34 bp):
AGGGTTCGCATAACATATAAGCTCACATAGACCT
Found at i:9618056 original size:28 final size:28
Alignment explanation
Indices: 9617998--9618056 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
9617988 TTATGACTTA
* * ***
9617998 CATGTATTGACTCTCAAGTATTAATTTG
1 CATGTATTAACTCACAAGTATTAACCCG
*
9618026 CATGTATTAACTCACAAGTGTTAACCCG
1 CATGTATTAACTCACAAGTATTAACCCG
9618054 CAT
1 CAT
9618057 ATTTTGACTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.36
Consensus pattern (28 bp):
CATGTATTAACTCACAAGTATTAACCCG
Found at i:9618297 original size:16 final size:15
Alignment explanation
Indices: 9618268--9618306 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
9618258 GGGTCGTAGT
*
9618268 AGGGGTTCGTATACA
1 AGGGGTTCGCATACA
9618283 AGGGGATTCGCATACA
1 AGGGG-TTCGCATACA
9618299 AGGGGTTC
1 AGGGGTTC
9618307 ACATGTCAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.26, C:0.15, G:0.36, T:0.23
Consensus pattern (15 bp):
AGGGGTTCGCATACA
Found at i:9620748 original size:46 final size:46
Alignment explanation
Indices: 9620651--9620822 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 46
9620641 CCCAGGTTCC
* * * * *
9620651 GAGCTCTTGCATATGTTCCGGGCTCAAGAATATAGGAATAGGTTCT
1 GAGCTCCTGCATATGTTGCAGACTCAAGAATATAGGAATAGTTTCT
* * *
9620697 AAGCTCCTGCATATGTTGCAGACTCAAGAATACAGGAACAAGTTTC-
1 GAGCTCCTGCATATGTTGCAGACTCAAGAATATAGGAA-TAGTTTCT
* * * **
9620743 GAGCTCCTGCATGTGTTGCAAACTCAAAAATATAGGTTTAGTTTCT
1 GAGCTCCTGCATATGTTGCAGACTCAAGAATATAGGAATAGTTTCT
* *
9620789 GAGCT-CTGGCATATGTTGGAGACTCGAGAATATA
1 GAGCTCCT-GCATATGTTGCAGACTCAAGAATATA
9620823 TCAATATTAA
Statistics
Matches: 102, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
45 8 0.08
46 89 0.87
47 5 0.05
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (46 bp):
GAGCTCCTGCATATGTTGCAGACTCAAGAATATAGGAATAGTTTCT
Found at i:9627339 original size:34 final size:34
Alignment explanation
Indices: 9627242--9627331 Score: 119
Period size: 34 Copynumber: 2.6 Consensus size: 34
9627232 GGTTCGCATC
** *
9627242 TAGGGTTCACATAACATATAGGCTCGCATAGA-CT
1 TAGGGTTTGCATAACATATAGGCTCGCACA-ACCT
*
9627276 TAGGGTTTGCATAACATGTAGGCTCGCACAACCT
1 TAGGGTTTGCATAACATATAGGCTCGCACAACCT
*
9627310 TAGGGTTTGCATAATATATAGG
1 TAGGGTTTGCATAACATATAGG
9627332 TTTGCACACT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
33 1 0.02
34 48 0.98
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (34 bp):
TAGGGTTTGCATAACATATAGGCTCGCACAACCT
Found at i:9627552 original size:14 final size:14
Alignment explanation
Indices: 9627509--9627555 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
9627499 ATGTGATTTA
*
9627509 TGACTCGCAAGTAT
1 TGACTCGCATGTAT
* **
9627523 TGATTCGCATACAT
1 TGACTCGCATGTAT
9627537 TGACTCGCATGTAT
1 TGACTCGCATGTAT
9627551 TGACT
1 TGACT
9627556 TGCAGATGTT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (14 bp):
TGACTCGCATGTAT
Found at i:9627567 original size:28 final size:28
Alignment explanation
Indices: 9627509--9627570 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
9627499 ATGTGATTTA
*
9627509 TGACTCGCAAGTATTGATTCGCATACAT
1 TGACTCGCAAGTATTGATTCGCAGACAT
* **
9627537 TGACTCGCATGTATTGACTT-GCAGATGT
1 TGACTCGCAAGTATTGA-TTCGCAGACAT
9627565 TGACTC
1 TGACTC
9627571 ACATATACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (28 bp):
TGACTCGCAAGTATTGATTCGCAGACAT
Found at i:9629872 original size:21 final size:22
Alignment explanation
Indices: 9629848--9629892 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
9629838 GTATAATTTA
9629848 TATGAATGAAGTATG-AAATAT
1 TATGAATGAAGTATGAAAATAT
* * *
9629869 TATGACTGAATTGTGAAAATAT
1 TATGAATGAAGTATGAAAATAT
9629891 TA
1 TA
9629893 ATTATATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.44, C:0.02, G:0.18, T:0.36
Consensus pattern (22 bp):
TATGAATGAAGTATGAAAATAT
Found at i:9647035 original size:33 final size:34
Alignment explanation
Indices: 9646973--9647039 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
9646963 TTTCATTGAG
9646973 AACAAACAAAAAATGAGAATTTTTTTAAATTAAA
1 AACAAACAAAAAATGAGAATTTTTTTAAATTAAA
*
9647007 AACAAACAATAAATGAGAA-TTTTTTAAATTAAA
1 AACAAACAAAAAATGAGAATTTTTTTAAATTAAA
9647040 GAATCTTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 14 0.44
34 18 0.56
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (34 bp):
AACAAACAAAAAATGAGAATTTTTTTAAATTAAA
Found at i:9659139 original size:21 final size:21
Alignment explanation
Indices: 9659114--9659172 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
9659104 CCATTTATCA
9659114 TTTATTTTTATTGTTTTT-TAT
1 TTTATTTTTA-TGTTTTTATAT
*
9659135 TTTATTTTTA-GTTTTTATTT
1 TTTATTTTTATGTTTTTATAT
*
9659155 TTTATTGTTATGTTTTTA
1 TTTATTTTTATGTTTTTA
9659173 GACTTCCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.18
20 11 0.32
21 17 0.50
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (21 bp):
TTTATTTTTATGTTTTTATAT
Found at i:9661179 original size:42 final size:42
Alignment explanation
Indices: 9661119--9661226 Score: 137
Period size: 42 Copynumber: 2.5 Consensus size: 42
9661109 ATATGTGTTA
*
9661119 TCGTGTAAGACCACGTCTGGGACAATTGCATCG-TACTTGATT
1 TCGTGTAAGACC-CGTCTGGGACAATGGCATCGATACTTGATT
*
9661161 TCGTGTAAGACCCTGTCTGGGACAATGGCATCGATATTTGATT
1 TCGTGTAAGACCC-GTCTGGGACAATGGCATCGATACTTGATT
* * *
9661204 ACATGTAAGAACACGTCTGGGAC
1 TCGTGTAAG-ACCCGTCTGGGAC
9661227 GTTGGCATTG
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
41 1 0.02
42 30 0.52
43 24 0.41
44 3 0.05
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (42 bp):
TCGTGTAAGACCCGTCTGGGACAATGGCATCGATACTTGATT
Found at i:9661233 original size:43 final size:42
Alignment explanation
Indices: 9661122--9661239 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 42
9661112 TGTGTTATCG
* * *
9661122 TGTAAGACCACGTCTGGGACAATT-GCATCGTACTTGATTTCG
1 TGTAAGAACACGTCTGGGAC-ATTGGCATCGTACTTGATTACA
* * *
9661164 TGTAAG-ACCCTGTCTGGGACAATGGCATCGATATTTGATTACA
1 TGTAAGAACAC-GTCTGGGACATTGGCATCG-TACTTGATTACA
* *
9661207 TGTAAGAACACGTCTGGGACGTTGGCATTGTAC
1 TGTAAGAACACGTCTGGGACATTGGCATCGTAC
9661240 GAGCTTTCCT
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
41 4 0.07
42 23 0.38
43 31 0.51
44 3 0.05
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
TGTAAGAACACGTCTGGGACATTGGCATCGTACTTGATTACA
Found at i:9671380 original size:25 final size:25
Alignment explanation
Indices: 9671352--9671415 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
9671342 ACTAATATTA
9671352 GAACATAGAACTTAG-CTTAAGTTTG
1 GAACATAGAA-TTAGACTTAAGTTTG
* * **
9671377 GAACTTAGGATTAGACTTAAGTTAA
1 GAACATAGAATTAGACTTAAGTTTG
*
9671402 GAACTTAGAATTAG
1 GAACATAGAATTAG
9671416 GTTTAGTCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
24 4 0.12
25 29 0.88
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.31
Consensus pattern (25 bp):
GAACATAGAATTAGACTTAAGTTTG
Found at i:9671439 original size:31 final size:31
Alignment explanation
Indices: 9671381--9671440 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
9671371 AGTTTGGAAC
9671381 TTAGGATTAGACTTAAGTTAAGAACTTAGAA
1 TTAGGATTAGACTTAAGTTAAGAACTTAGAA
* * *
9671412 TTAGGTTTAGTCTTAGGATTAAG-ACTTAG
1 TTAGGATTAGACTTAAG-TTAAGAACTTAG
9671441 GACTTAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 20 0.80
32 5 0.20
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.37
Consensus pattern (31 bp):
TTAGGATTAGACTTAAGTTAAGAACTTAGAA
Found at i:9677877 original size:11 final size:11
Alignment explanation
Indices: 9677841--9677896 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
9677831 CATGGTATGT
9677841 ATGATATGCAC
1 ATGATATGCAC
* *
9677852 ATGACATG--T
1 ATGATATGCAC
9677861 ATGATATGCAC
1 ATGATATGCAC
*
9677872 ATGATATG--T
1 ATGATATGCAC
9677881 ATGATATGCAC
1 ATGATATGCAC
9677892 ATGAT
1 ATGAT
9677897 GTATTCAGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:9677896 original size:20 final size:20
Alignment explanation
Indices: 9677830--9677896 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
9677820 ATTTTGATAA
*
9677830 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
9677850 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
9677870 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
9677890 ACATGAT
1 ACATGAT
9677897 GTATTCAGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:9678003 original size:24 final size:24
Alignment explanation
Indices: 9677946--9678064 Score: 179
Period size: 24 Copynumber: 4.9 Consensus size: 24
9677936 GAGGAAGTGT
*
9677946 AAAGGGCTTATGCCCCAGTTATGA
1 AAAGGGCTTATGCCCCAGTTATTA
9677970 TAAAGGGCTTATGCCCCAGTTATTA
1 -AAAGGGCTTATGCCCCAGTTATTA
9677995 AAAGGGCTTATGCCCCAGTTATTA
1 AAAGGGCTTATGCCCCAGTTATTA
9678019 AAAGGGCTT-TGCCCCAGTTATTA
1 AAAGGGCTTATGCCCCAGTTATTA
*
9678042 AAAGAGGC-TAGGCCTCCAGTTAT
1 AAAG-GGCTTATGCC-CCAGTTAT
9678065 ATGATAAAGC
Statistics
Matches: 89, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
23 19 0.21
24 39 0.44
25 31 0.35
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATTA
Found at i:9678292 original size:31 final size:31
Alignment explanation
Indices: 9678257--9678319 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
9678247 CGTTTACAGT
9678257 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
9678288 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
9678319 A
1 A
9678320 GTATGAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:9679401 original size:83 final size:83
Alignment explanation
Indices: 9679309--9679474 Score: 269
Period size: 83 Copynumber: 2.0 Consensus size: 83
9679299 AAGCACATAA
* * * *
9679309 CTTGTCTTATTTGTTGGCATGTTTGACCAAGATATTTTGGTTATTTGCTTGCACCTTTTTAAGAA
1 CTTGTCTTATTTGTTGGCATGTTTGACCAAGATATTTTGATGATGTACTTGCACCTTTTTAAGAA
9679374 TCATGTGCAGCCAATCTT
66 TCATGTGCAGCCAATCTT
* *
9679392 CTTGTCTTATTTGTTGGCATGTTTGACCAAGATATTTTTATGATGTACTTGCACCTTTTTAAGGA
1 CTTGTCTTATTTGTTGGCATGTTTGACCAAGATATTTTGATGATGTACTTGCACCTTTTTAAGAA
*
9679457 TCTTGTGCAGCCAATCTT
66 TCATGTGCAGCCAATCTT
9679475 GTGTTTATCA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 76 1.00
ACGTcount: A:0.20, C:0.17, G:0.18, T:0.45
Consensus pattern (83 bp):
CTTGTCTTATTTGTTGGCATGTTTGACCAAGATATTTTGATGATGTACTTGCACCTTTTTAAGAA
TCATGTGCAGCCAATCTT
Found at i:9682726 original size:26 final size:26
Alignment explanation
Indices: 9682691--9682741 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
9682681 AATGTGAAAG
*
9682691 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
9682717 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
9682742 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:9682753 original size:103 final size:104
Alignment explanation
Indices: 9682613--9682835 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
9682603 TGTATATAAA
** * *
9682613 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
9682677 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
9682716 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
9682781 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
9682820 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
9682836 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 90 0.80
104 22 0.20
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:9682887 original size:71 final size:72
Alignment explanation
Indices: 9682754--9682905 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
9682744 TCATTGGTGG
* *
9682754 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
9682819 GAGGGGT
66 GAGGGGT
***
9682826 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
9682890 GAGGGGT
66 GAGGGGT
9682897 TGCTAAGTG
1 TGCTAAGTG
9682906 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:9684673 original size:17 final size:17
Alignment explanation
Indices: 9684601--9684675 Score: 75
Period size: 17 Copynumber: 4.5 Consensus size: 17
9684591 CACTTAGTAT
* *
9684601 AGCTCGCAGTTCAGCAG
1 AGCTCGCAATTTAGCAG
9684618 AGCTCGCAATTTAGCAG
1 AGCTCGCAATTTAGCAG
* *
9684635 AGCTCACACATGTT---AT
1 AGCTCGCA-AT-TTAGCAG
9684651 AGCTCGCAATTTAGCAG
1 AGCTCGCAATTTAGCAG
9684668 AGCTCGCA
1 AGCTCGCA
9684676 TAATAGCATA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
14 2 0.04
15 2 0.04
16 8 0.17
17 31 0.66
18 2 0.04
19 2 0.04
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (17 bp):
AGCTCGCAATTTAGCAG
Found at i:9686659 original size:18 final size:18
Alignment explanation
Indices: 9686638--9686676 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9686628 GCATATTCAG
9686638 ATTCAGACACATAAT-CAA
1 ATTCAGACACA-AATGCAA
*
9686656 ATTCAGATACAAATGCAA
1 ATTCAGACACAAATGCAA
9686674 ATT
1 ATT
9686677 TTGATACAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.49, C:0.18, G:0.08, T:0.26
Consensus pattern (18 bp):
ATTCAGACACAAATGCAA
Found at i:9692623 original size:102 final size:100
Alignment explanation
Indices: 9692504--9692691 Score: 331
Period size: 102 Copynumber: 1.9 Consensus size: 100
9692494 CCTATATATA
*
9692504 TGAAATATGCTTTGGTAATTGCTTATAATTGATAAATTGAGTTTTTGAAAATTTGATCATATAAT
1 TGAAATATGCTTTGGTAACTGCTTATAATTGATAAATTGAGTTTTTGAAAATTTGATCATATAAT
9692569 ATAGGGAAAAGAAAAGAAAAAAAACGATACCCATCAT
66 AT-GGGAAAA-AAAAGAAAAAAAACGATACCCATCAT
* *
9692606 TGAAATATGCTTTGGTAACTGCTTATAATTGATAAATTGATTTTTTGGAAATTTGATCATATAAT
1 TGAAATATGCTTTGGTAACTGCTTATAATTGATAAATTGAGTTTTTGAAAATTTGATCATATAAT
9692671 ATGGGAAAAAAAAGAAAAAAA
66 ATGGGAAAAAAAAGAAAAAAA
9692692 TAATAGCCGC
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
100 12 0.14
101 7 0.08
102 64 0.77
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.34
Consensus pattern (100 bp):
TGAAATATGCTTTGGTAACTGCTTATAATTGATAAATTGAGTTTTTGAAAATTTGATCATATAAT
ATGGGAAAAAAAAGAAAAAAAACGATACCCATCAT
Found at i:9699604 original size:6 final size:6
Alignment explanation
Indices: 9699593--9699627 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
9699583 CCAATATGAT
9699593 TAATAC TAATAC TAATAC TAATAC TAATAC TAATA
1 TAATAC TAATAC TAATAC TAATAC TAATAC TAATA
9699628 AAAAGATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (6 bp):
TAATAC
Found at i:9705369 original size:24 final size:24
Alignment explanation
Indices: 9705342--9705390 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
9705332 CTTTTCTGAT
*
9705342 ATTTCTTTCTTTAGATTACGCCAA
1 ATTTCTTTCTTTAAATTACGCCAA
*
9705366 ATTTCTTTCTTTAAATTAGGCCAA
1 ATTTCTTTCTTTAAATTACGCCAA
9705390 A
1 A
9705391 AGTCCAGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (24 bp):
ATTTCTTTCTTTAAATTACGCCAA
Found at i:9706710 original size:14 final size:15
Alignment explanation
Indices: 9706684--9706714 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
9706674 GATATTAACC
9706684 ATTGGATGTGATTAA
1 ATTGGATGTGATTAA
9706699 ATTGGA-GTGATTAA
1 ATTGGATGTGATTAA
9706713 AT
1 AT
9706715 ATTGACCGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.39
Consensus pattern (15 bp):
ATTGGATGTGATTAA
Found at i:9710243 original size:40 final size:40
Alignment explanation
Indices: 9710110--9710244 Score: 159
Period size: 41 Copynumber: 3.4 Consensus size: 40
9710100 GACTTCGAGT
* * * *
9710110 CGATGAGGCACTGGGTGCCAA-TT--TACTTCGGTTTAAC
1 CGATGAGACACTGGGTGTCAATTTACTACTTCGATTTATC
* * *
9710147 CAATGAGACACTGGGTGTCAATTTACTATTTCAGATTTATT
1 CGATGAGACACTGGGTGTCAATTTACTACTTC-GATTTATC
*
9710188 CGATGAGACACTGGGTGTCAATTTACTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAATTTACTACTTCGATTTATC
*
9710228 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
9710245 CCAAACTTGT
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
37 18 0.22
38 2 0.02
40 27 0.33
41 35 0.43
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAATTTACTACTTCGATTTATC
Found at i:9711441 original size:18 final size:19
Alignment explanation
Indices: 9711412--9711447 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
9711402 CACGGCCGTA
9711412 TGCTCAAACCGTGTGCAAG
1 TGCTCAAACCGTGTGCAAG
9711431 TGCTC-AACCGTGTGCAA
1 TGCTCAAACCGTGTGCAA
9711448 TTCTGACTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (19 bp):
TGCTCAAACCGTGTGCAAG
Found at i:9721144 original size:27 final size:27
Alignment explanation
Indices: 9721090--9721146 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
9721080 AAGAGAAAGA
* * *
9721090 AAAAGTAAATTAATTAGTAATAATAAT
1 AAAAGTAAATTAATTAGCAAGAAAAAT
* *
9721117 AAAATTAAATTAATTTGCAAGAAAAAT
1 AAAAGTAAATTAATTAGCAAGAAAAAT
9721144 AAA
1 AAA
9721147 TGGCTAAAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAAGTAAATTAATTAGCAAGAAAAAT
Found at i:9722258 original size:13 final size:13
Alignment explanation
Indices: 9722240--9722265 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9722230 GCTCAGCAGG
9722240 GACACGCCCGTGT
1 GACACGCCCGTGT
9722253 GACACGCCCGTGT
1 GACACGCCCGTGT
9722266 TCGATTACTT
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:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:9730216 original size:16 final size:16
Alignment explanation
Indices: 9730197--9730247 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
9730187 AAAAACATAA
9730197 TTTTTCGAAAATATGG
1 TTTTTCGAAAATATGG
* ** *
9730213 TTTTTGGATCATA--A
1 TTTTTCGAAAATATGG
9730227 TTTTTCGAAAATATGG
1 TTTTTCGAAAATATGG
9730243 TTTTT
1 TTTTT
9730248 GGATCACATT
Statistics
Matches: 25, Mismatches: 8, Indels: 4
0.68 0.22 0.11
Matches are distributed among these distances:
14 10 0.40
16 15 0.60
ACGTcount: A:0.27, C:0.06, G:0.16, T:0.51
Consensus pattern (16 bp):
TTTTTCGAAAATATGG
Found at i:9730227 original size:30 final size:30
Alignment explanation
Indices: 9730192--9730253 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
9730182 GGGAAAAAAA
9730192 CATAATTTTTCGAAAATATGGTTTTTGGAT
1 CATAATTTTTCGAAAATATGGTTTTTGGAT
9730222 CATAATTTTTCGAAAATATGGTTTTTGGAT
1 CATAATTTTTCGAAAATATGGTTTTTGGAT
9730252 CA
1 CA
9730254 CATTAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (30 bp):
CATAATTTTTCGAAAATATGGTTTTTGGAT
Found at i:9731128 original size:50 final size:50
Alignment explanation
Indices: 9731009--9731352 Score: 367
Period size: 50 Copynumber: 6.8 Consensus size: 50
9730999 TTTGTGAGAA
* * * *
9731009 CACATGTGTAGTACTATGTGCAGGCTACTATGTGT-TTAAGATAGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGAT--TGTTAGGT
9731061 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGTTAGGT
* * * * *
9731111 CGCATGTGTAGTACTAAGTGCAGGCTACTATC-CGTACCT-GATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTA-CGTGTA-CTAGATTG-TTAGGT
*
9731162 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGA-TGATTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATTG-TTAGGT
* * *
9731212 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTA-TCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATTGTTAGGT
* *
9731262 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGTTAGGT
* * * * * * *
9731312 CACATTTTTAGTTCCAAGTGTAGGCTACTATGCGTACTAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGA
9731353 GAGCTTCGAT
Statistics
Matches: 253, Mismatches: 30, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
49 1 0.00
50 173 0.68
51 41 0.16
52 37 0.15
53 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGTTAGGT
Found at i:9731266 original size:22 final size:22
Alignment explanation
Indices: 9731191--9731268 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 22
9731181 GCAGGCTACT
9731191 ACGTGTATCAGAT-GATTAGGTC
1 ACGTGTATCAGATAG-TTAGGTC
*
9731213 ACGTGTGT-AGTACTAAGTGTAGGCTAC
1 ACGTGTATCAG-A-T-AGT-TAGG-T-C
9731240 TACGTGTATCAGATAGTTAGGTC
1 -ACGTGTATCAGATAGTTAGGTC
9731263 ACGTGT
1 ACGTGT
9731269 GTAGTACTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 18
0.69 0.03 0.28
Matches are distributed among these distances:
21 2 0.04
22 14 0.31
23 2 0.04
24 2 0.04
25 9 0.20
26 4 0.09
27 2 0.04
28 8 0.18
29 2 0.04
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (22 bp):
ACGTGTATCAGATAGTTAGGTC
Found at i:9731299 original size:151 final size:153
Alignment explanation
Indices: 9731013--9731291 Score: 438
Period size: 151 Copynumber: 1.8 Consensus size: 153
9731003 TGAGAACACA
* * * *
9731013 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATAGTTTTAGGTCACATGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATAGTATTAGGTCACATGTGTAGTACTAA
* *
9731078 GTGCAGGCTACTACGTGTACTAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATC
66 GTGCAGGCTACTACGTGTACTAGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATC
9731143 CGTACCTGATAGCTTCGATCACG
131 CGTACCTGATAGCTTCGATCACG
* *
9731166 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-G-ATTAGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATAGTATTAGGTCACATGTGTAGTACTAA
* *
9731229 GTGTAGGCTACTACGTGTA-TCAGATAGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
66 GTGCAGGCTACTACGTGTACT-AGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
9731292 CGTGTACCAG
Statistics
Matches: 115, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
150 1 0.01
151 79 0.69
152 1 0.01
153 34 0.30
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (153 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATAGTATTAGGTCACATGTGTAGTACTAA
GTGCAGGCTACTACGTGTACTAGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATC
CGTACCTGATAGCTTCGATCACG
Found at i:9738821 original size:17 final size:18
Alignment explanation
Indices: 9738783--9738829 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
9738773 GGCCCAGAAC
*
9738783 CCCACAAGCCTGTGTGGG
1 CCCACAAGCCCGTGTGGG
*
9738801 CCCACATGCCCGTGT-GG
1 CCCACAAGCCCGTGTGGG
9738818 CCCACACAGCCC
1 CCCACA-AGCCC
9738830 AAATCGGTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.17, C:0.45, G:0.26, T:0.13
Consensus pattern (18 bp):
CCCACAAGCCCGTGTGGG
Found at i:9742387 original size:61 final size:58
Alignment explanation
Indices: 9742322--9742437 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 58
9742312 AGTAATTATC
* *
9742322 TTAATATAAAATTTAATTTAATATTTATCTTATAGATAAATATTCTATTAATTTAATAGAT
1 TTAATATAAAATTTAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAGAT
* *
9742383 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATA
1 TTAATATAAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
9742438 TTAACGTGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 22 0.43
59 1 0.02
60 1 0.02
61 27 0.53
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (58 bp):
TTAATATAAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAGAT
Found at i:9747513 original size:6 final size:6
Alignment explanation
Indices: 9747484--9747545 Score: 70
Period size: 6 Copynumber: 10.2 Consensus size: 6
9747474 AGAGGAAAAC
* * * *
9747484 AAAATA AACATA ACAAGA AGAATA AAAATA AAAATA AAAGATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA-ATA AAAATA
*
9747533 AACATA AAAATA A
1 AAAATA AAAATA A
9747546 TCGGACTCAA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
6 40 0.87
7 6 0.13
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:9750954 original size:5 final size:5
Alignment explanation
Indices: 9750944--9750989 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
9750934 TTTTTCTTGC
9750944 AATTT AATTT AATTT AATTT AATTTT ACTATTT -A-TT AATTT AATTT
1 AATTT AATTT AATTT AATTT AA-TTT A--ATTT AATTT AATTT AATTT
9750990 TTCTTTCTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
3 2 0.06
4 2 0.06
5 24 0.67
6 4 0.11
7 3 0.08
8 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (5 bp):
AATTT
Found at i:9766625 original size:46 final size:46
Alignment explanation
Indices: 9766573--9766886 Score: 414
Period size: 46 Copynumber: 6.8 Consensus size: 46
9766563 AGTGTGCTCT
* **
9766573 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* **
9766619 CTGATATGTAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
9766665 GTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
9766711 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
9766757 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
9766803 ATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
9766850 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGAATAAGACCATGGTTGAAAGATAC
9766887 TATGACATCA
Statistics
Matches: 250, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 208 0.83
47 42 0.17
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:9772982 original size:10 final size:10
Alignment explanation
Indices: 9772967--9773000 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
9772957 CGGGGAAAAG
*
9772967 AGAAAAGAAA
1 AGAAAAGAGA
*
9772977 AGAAAAGAGG
1 AGAAAAGAGA
9772987 AGAAAAGAGA
1 AGAAAAGAGA
9772997 AGAA
1 AGAA
9773001 GATAGGGGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (10 bp):
AGAAAAGAGA
Found at i:9773030 original size:58 final size:59
Alignment explanation
Indices: 9772968--9773085 Score: 211
Period size: 58 Copynumber: 2.0 Consensus size: 59
9772958 GGGGAAAAGA
*
9772968 GAAAAGAAAAGAAAAGAGGAGAAAAGAGAAGAAGATA-GGGGAGGGCAGTACGATGAAG
1 GAAAAGAAAAGAAAAGAGGAGAAAAGAGAAGAAGATAGGGGGAGGGAAGTACGATGAAG
*
9773026 GAAAAGAAAAGAAAATAGGAGAAAAGAGAAGAAGATAGGGGGAGGGAAGTACGATGAAG
1 GAAAAGAAAAGAAAAGAGGAGAAAAGAGAAGAAGATAGGGGGAGGGAAGTACGATGAAG
9773085 G
1 G
9773086 GCGAGGGGGA
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
58 36 0.63
59 21 0.37
ACGTcount: A:0.53, C:0.03, G:0.38, T:0.06
Consensus pattern (59 bp):
GAAAAGAAAAGAAAAGAGGAGAAAAGAGAAGAAGATAGGGGGAGGGAAGTACGATGAAG
Found at i:9773051 original size:20 final size:20
Alignment explanation
Indices: 9773026--9773064 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9773016 TACGATGAAG
9773026 GAAAAGAAAAGAAAATAGGA
1 GAAAAGAAAAGAAAATAGGA
* *
9773046 GAAAAGAGAAGAAGATAGG
1 GAAAAGAAAAGAAAATAGG
9773065 GGGAGGGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.31, T:0.05
Consensus pattern (20 bp):
GAAAAGAAAAGAAAATAGGA
Found at i:9773268 original size:13 final size:13
Alignment explanation
Indices: 9773250--9773275 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9773240 CGTGTTGGGC
9773250 CACACGCCCGTGT
1 CACACGCCCGTGT
9773263 CACACGCCCGTGT
1 CACACGCCCGTGT
9773276 GGCTCGAGAT
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:0.46, G:0.23, T:0.15
Consensus pattern (13 bp):
CACACGCCCGTGT
Found at i:9780990 original size:17 final size:17
Alignment explanation
Indices: 9780968--9781011 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
9780958 ACTGAAAATG
9780968 GGTCCACACGTTCATGT
1 GGTCCACACGTTCATGT
*
9780985 GGTCCACACATTCATGT
1 GGTCCACACGTTCATGT
*
9781002 GGCCCACACG
1 GGTCCACACG
9781012 GTCTGGACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.20, C:0.34, G:0.23, T:0.23
Consensus pattern (17 bp):
GGTCCACACGTTCATGT
Found at i:9783686 original size:43 final size:42
Alignment explanation
Indices: 9783639--9783733 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
9783629 TCCCGGACGT
* * ** *
9783639 GGTCTTATATGTAATTCA-ATATCGATGCCTCTGTCCCAAACAG
1 GGTCTTATACG-AAATCAGATA-CGATGCCAATGTCCCAAACAA
* *
9783682 GGTCTTACACGAAATCAGATACGATGCCAATGTCCCAGACAA
1 GGTCTTATACGAAATCAGATACGATGCCAATGTCCCAAACAA
9783724 GGTCTTATAC
1 GGTCTTATAC
9783734 ATAAATCACA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
42 31 0.72
43 12 0.28
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (42 bp):
GGTCTTATACGAAATCAGATACGATGCCAATGTCCCAAACAA
Found at i:9795180 original size:166 final size:166
Alignment explanation
Indices: 9794906--9795237 Score: 646
Period size: 166 Copynumber: 2.0 Consensus size: 166
9794896 CGACCTAGAA
9794906 AGGGGGCTCTCCAGAACTTTTCTGGAACACAGAACCACACGCCGAGAATTACTTGAAGGAAGCCA
1 AGGGGGCTCTCCAGAACTTTTCTGGAACACAGAACCACACGCCGAGAATTACTTGAAGGAAGCCA
*
9794971 GACGATCCATCTCAAAATCCAGAGCTATTCCAAGACTGAAGATCTCTCTCAGAATTCCTTCAGGG
66 GACGATCCATCTCAAAAGCCAGAGCTATTCCAAGACTGAAGATCTCTCTCAGAATTCCTTCAGGG
9795036 GTTTTAGAGTTTTCTTTATGTTTTGTTATTTTTATT
131 GTTTTAGAGTTTTCTTTATGTTTTGTTATTTTTATT
*
9795072 AGGGGGCTCTCCAGAACTTTTCTGGAACGCAGAACCACACGCCGAGAATTACTTGAAGGAAGCCA
1 AGGGGGCTCTCCAGAACTTTTCTGGAACACAGAACCACACGCCGAGAATTACTTGAAGGAAGCCA
9795137 GACGATCCATCTCAAAAGCCAGAGCTATTCCAAGACTGAAGATCTCTCTCAGAATTCCTTCAGGG
66 GACGATCCATCTCAAAAGCCAGAGCTATTCCAAGACTGAAGATCTCTCTCAGAATTCCTTCAGGG
9795202 GTTTTAGAGTTTTCTTTATGTTTTGTTATTTTTATT
131 GTTTTAGAGTTTTCTTTATGTTTTGTTATTTTTATT
9795238 CTTCTGAGAT
Statistics
Matches: 164, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
166 164 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (166 bp):
AGGGGGCTCTCCAGAACTTTTCTGGAACACAGAACCACACGCCGAGAATTACTTGAAGGAAGCCA
GACGATCCATCTCAAAAGCCAGAGCTATTCCAAGACTGAAGATCTCTCTCAGAATTCCTTCAGGG
GTTTTAGAGTTTTCTTTATGTTTTGTTATTTTTATT
Found at i:9808131 original size:21 final size:21
Alignment explanation
Indices: 9808093--9808133 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9808083 ATTACTCCAA
*
9808093 AGAAGCCGATTGATTCATCAC
1 AGAAGCCGATTCATTCATCAC
9808114 AGAAGCCGGATTCA-TCATCA
1 AGAAGCC-GATTCATTCATCA
9808134 AGACTGAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (21 bp):
AGAAGCCGATTCATTCATCAC
Found at i:9808199 original size:47 final size:47
Alignment explanation
Indices: 9808130--9808222 Score: 186
Period size: 47 Copynumber: 2.0 Consensus size: 47
9808120 CGGATTCATC
9808130 ATCAAGACTGAAGATCTCTCCTCAATTCCCCTTCAGGAGTTTTGGGT
1 ATCAAGACTGAAGATCTCTCCTCAATTCCCCTTCAGGAGTTTTGGGT
9808177 ATCAAGACTGAAGATCTCTCCTCAATTCCCCTTCAGGAGTTTTGGG
1 ATCAAGACTGAAGATCTCTCCTCAATTCCCCTTCAGGAGTTTTGGG
9808223 GTTTCTTTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (47 bp):
ATCAAGACTGAAGATCTCTCCTCAATTCCCCTTCAGGAGTTTTGGGT
Found at i:9809183 original size:20 final size:19
Alignment explanation
Indices: 9809149--9809187 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
9809139 ATCAGACGAG
* *
9809149 TCATAAACGATTACAGATGC
1 TCATAAACAAGTACA-ATGC
9809169 TCATAAACAAGTACAATGC
1 TCATAAACAAGTACAATGC
9809188 CGACGTCCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.23
Consensus pattern (19 bp):
TCATAAACAAGTACAATGC
Found at i:9809280 original size:42 final size:43
Alignment explanation
Indices: 9809192--9809337 Score: 138
Period size: 43 Copynumber: 3.4 Consensus size: 43
9809182 CAATGCCGAC
* **
9809192 GTCCCAGAC-GTGGTCTTATATGTAATTCAATATCGATGCCTCT
1 GTCCCAGACAG-GGTCTTATATGTAAATCAATATCGATGCCAAT
* * *
9809235 GTCCTAGAGAGGGTCTTACATG-AAATCAGATA-CGATGCCAAT
1 GTCCCAGACAGGGTCTTATATGTAAATCA-ATATCGATGCCAAT
* * * *
9809277 GTCCCAGACATGGTCTTATATGTAAATCTCA-ATCGAGGCCTAT
1 GTCCCAGACAGGGTCTTATATGTAAATC-AATATCGATGCCAAT
*
9809320 GTCCCAGACACGGTCTTA
1 GTCCCAGACAGGGTCTTA
9809338 CACGATGTCT
Statistics
Matches: 84, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
42 32 0.38
43 51 0.61
44 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTTATATGTAAATCAATATCGATGCCAAT
Found at i:9813063 original size:225 final size:225
Alignment explanation
Indices: 9812655--9813106 Score: 778
Period size: 225 Copynumber: 2.0 Consensus size: 225
9812645 GGAAAAACTA
* *
9812655 GTTTAACCTTTCAACAATTAGGCAAAAGCATGATCGGTGAGTGTTTGGAATAGCTGTTTGTAGAC
1 GTTTAACCTTTCAACAATTAGGCAAAAGCATGATCGGTGAGTGTTTGGAATAGCTATTGGTAGAC
** *
9812720 ACTATTCATTGTGTTAATTGGGAGCTCAGGAATAGCCTAAACCCCTATCCTAAGTTCTAAACGTA
66 ACTATTCATAATGTTAATTGGGAGCTCAGGAATAGCCTAAACCCCTATCCTAAGTTCCAAACGTA
*
9812785 AGCTTCCTTATACCCTTTGTTTAATTTAAAAAGTATGTGATTGTGTTATGCGCACTGAGTATTAA
131 AGCTTCCTTATACCCTTTGTTTAATTTAAAAAGTATGTGATTGTGTGATGCGCACTGAGTATTAA
9812850 GTTGTGATAATGTGACATGTAATATATATT
196 GTTGTGATAATGTGACATGTAATATATATT
* * *
9812880 GTTTAAGCTTTCAGCAATTAGGCAAAAGCATGATCGGTGAGTGTTTGGATTAGCTATTGGTAGAC
1 GTTTAACCTTTCAACAATTAGGCAAAAGCATGATCGGTGAGTGTTTGGAATAGCTATTGGTAGAC
* * *
9812945 ACTATTCATAATGTTAATTGGGAGCTTAGGAATAGCCTAAACCCCTATGCTAAGTTCCGAACGTA
66 ACTATTCATAATGTTAATTGGGAGCTCAGGAATAGCCTAAACCCCTATCCTAAGTTCCAAACGTA
*
9813010 AGCTTCCTTATACCCTTTGTTTAATTTCAAAAGTATGTGATTGTGTGATGCGCACTGAGTATTAA
131 AGCTTCCTTATACCCTTTGTTTAATTTAAAAAGTATGTGATTGTGTGATGCGCACTGAGTATTAA
*
9813075 GTTGTGATAATGTGACATGTGATATATATT
196 GTTGTGATAATGTGACATGTAATATATATT
9813105 GT
1 GT
9813107 GATAGCTCTT
Statistics
Matches: 213, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
225 213 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (225 bp):
GTTTAACCTTTCAACAATTAGGCAAAAGCATGATCGGTGAGTGTTTGGAATAGCTATTGGTAGAC
ACTATTCATAATGTTAATTGGGAGCTCAGGAATAGCCTAAACCCCTATCCTAAGTTCCAAACGTA
AGCTTCCTTATACCCTTTGTTTAATTTAAAAAGTATGTGATTGTGTGATGCGCACTGAGTATTAA
GTTGTGATAATGTGACATGTAATATATATT
Found at i:9815828 original size:7 final size:7
Alignment explanation
Indices: 9815815--9815868 Score: 81
Period size: 7 Copynumber: 7.7 Consensus size: 7
9815805 AAGTACTCAC
9815815 CTTTGTG
1 CTTTGTG
*
9815822 TTTTGTG
1 CTTTGTG
*
9815829 TTTTGTG
1 CTTTGTG
*
9815836 TTTTGTG
1 CTTTGTG
9815843 CTTTGTG
1 CTTTGTG
9815850 CTTTGTG
1 CTTTGTG
9815857 CTTTGTG
1 CTTTGTG
9815864 CTTTG
1 CTTTG
9815869 GGCAATGAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.00, C:0.09, G:0.28, T:0.63
Consensus pattern (7 bp):
CTTTGTG
Found at i:9837266 original size:10 final size:10
Alignment explanation
Indices: 9837251--9837275 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9837241 TATAATGTCC
9837251 TAAATTAACT
1 TAAATTAACT
9837261 TAAATTAACT
1 TAAATTAACT
9837271 TAAAT
1 TAAAT
9837276 GAGAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (10 bp):
TAAATTAACT
Found at i:9838634 original size:12 final size:12
Alignment explanation
Indices: 9838599--9838650 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
9838589 AATTTGAGTT
*
9838599 TTATATTTATTA
1 TTATTTTTATTA
9838611 TTATCTTATTTATTA
1 TTA--TT-TTTATTA
*
9838626 TTATTTTTAGTA
1 TTATTTTTATTA
*
9838638 TTATTATTATTA
1 TTATTTTTATTA
9838650 T
1 T
9838651 CGTTATTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 20 0.61
13 2 0.06
14 1 0.03
15 10 0.30
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (12 bp):
TTATTTTTATTA
Found at i:9838698 original size:3 final size:3
Alignment explanation
Indices: 9838690--9838763 Score: 69
Period size: 3 Copynumber: 25.0 Consensus size: 3
9838680 CACTACCGTC
* * ** *
9838690 ATT ATT ATT A-T AGT ATT ATT AGT ATT ATT ATT ACC ATT ATT TTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
9838737 ATC ATT ATT TTT ATT ATC ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
9838764 TTTTTAAACC
Statistics
Matches: 55, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
2 2 0.04
3 53 0.96
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:9838730 original size:15 final size:15
Alignment explanation
Indices: 9838693--9838763 Score: 79
Period size: 15 Copynumber: 4.6 Consensus size: 15
9838683 TACCGTCATT
*
9838693 ATTATTATAGTATTATT
1 ATTATTAT--TATTATC
* *
9838710 AGTATTATTATTACC
1 ATTATTATTATTATC
*
9838725 ATTATTTTTATTATC
1 ATTATTATTATTATC
*
9838740 ATTATTTTTATTATC
1 ATTATTATTATTATC
9838755 ATTATTATT
1 ATTATTATT
9838764 TTTTTAAACC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
15 40 0.85
17 7 0.15
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.61
Consensus pattern (15 bp):
ATTATTATTATTATC
Found at i:9838892 original size:20 final size:21
Alignment explanation
Indices: 9838855--9838896 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
9838845 ATTTCCTTTG
9838855 TTATTTCATTTATTATTTTAT
1 TTATTTCATTTATTATTTTAT
*
9838876 TTATTTCGTTT-TTATTTTAT
1 TTATTTCATTTATTATTTTAT
9838896 T
1 T
9838897 CTTGTCCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (21 bp):
TTATTTCATTTATTATTTTAT
Found at i:9846948 original size:54 final size:54
Alignment explanation
Indices: 9846866--9846973 Score: 189
Period size: 54 Copynumber: 2.0 Consensus size: 54
9846856 AAAGCTGCTC
* *
9846866 GGTTTTGTAGTCAACAAAAAGGGAATTGAGGTAAACCCCGATAAAGTTAAGGCT
1 GGTTTTGTAGTCAACAAAAAGAGAATTGAGGTAAACCCCGACAAAGTTAAGGCT
*
9846920 GGTTTTGTAGTCAACAAAAAGAGAATTGAGGTAGACCCCGACAAAGTTAAGGCT
1 GGTTTTGTAGTCAACAAAAAGAGAATTGAGGTAAACCCCGACAAAGTTAAGGCT
9846974 ATACAAAAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (54 bp):
GGTTTTGTAGTCAACAAAAAGAGAATTGAGGTAAACCCCGACAAAGTTAAGGCT
Found at i:9850320 original size:45 final size:45
Alignment explanation
Indices: 9850271--9850374 Score: 104
Period size: 45 Copynumber: 2.3 Consensus size: 45
9850261 AGTAGCAGTA
* *
9850271 GAGCAGATCAAAGACGGT-GAATCTTATCTCCATGTAGCGGCAATG
1 GAGCAGATCAAAGACAGTAG-ATCTTATCTCCATGGAGCGGCAATG
* * * ** *
9850316 GAGCAGA-CTAAAAATAGTAGATCTTATCTCCCTGGAGTTGCAGTG
1 GAGCAGATC-AAAGACAGTAGATCTTATCTCCATGGAGCGGCAATG
9850361 GAGCAGATCAAAGA
1 GAGCAGATCAAAGA
9850375 TAGCAAACCA
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
44 1 0.02
45 44 0.94
46 2 0.04
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (45 bp):
GAGCAGATCAAAGACAGTAGATCTTATCTCCATGGAGCGGCAATG
Found at i:9851896 original size:3 final size:3
Alignment explanation
Indices: 9851888--9852082 Score: 101
Period size: 3 Copynumber: 65.7 Consensus size: 3
9851878 GAGTTTATGT
* * *
9851888 TTA TTA TTA -TA TTTA TTA TTA TTT TTA GTA TTA TTA TT- TCTG TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* * * * * **
9851933 TTA TTG TTA CTA TTA TTT TTA TTA GTA TTA TTA TTA TTG TTA TTA CCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *** * *
9851981 CTA TTA TTG TTC TT- TTA TCA CTA CCG TCA TTA TTA TTA -TA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
9852027 TTA GTA TTA TTA TTG CTA TTA TTT TTA TTA TCA TTA TTT TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9852075 TTA TTA TT
1 TTA TTA TT
9852083 TTTTTAAACC
Statistics
Matches: 142, Mismatches: 44, Indels: 12
0.72 0.22 0.06
Matches are distributed among these distances:
2 7 0.05
3 132 0.93
4 3 0.02
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:9852211 original size:20 final size:21
Alignment explanation
Indices: 9852174--9852215 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
9852164 ATTTCCTTTG
9852174 TTATTTCATTTATTATTTTAT
1 TTATTTCATTTATTATTTTAT
*
9852195 TTATTTCGTTT-TTATTTTAT
1 TTATTTCATTTATTATTTTAT
9852215 T
1 T
9852216 CTTGTCCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (21 bp):
TTATTTCATTTATTATTTTAT
Found at i:9853892 original size:21 final size:21
Alignment explanation
Indices: 9853868--9853915 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
9853858 TTCATAATGC
9853868 TTCTTATAAATAATATATTTT
1 TTCTTATAAATAATATATTTT
9853889 TTCTTATAAATAATATATTTT
1 TTCTTATAAATAATATATTTT
9853910 TTCTTA
1 TTCTTA
9853916 ACTTTTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (21 bp):
TTCTTATAAATAATATATTTT
Found at i:9855220 original size:13 final size:14
Alignment explanation
Indices: 9855196--9855224 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
9855186 AATTATAAAA
9855196 AATATGTAATATAT
1 AATATGTAATATAT
9855210 AATAT-TAATATAT
1 AATATGTAATATAT
9855223 AA
1 AA
9855225 ACAGTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (14 bp):
AATATGTAATATAT
Found at i:9855729 original size:14 final size:15
Alignment explanation
Indices: 9855695--9855730 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
9855685 CTTAACAAAT
9855695 ATTTTTACAAGATTC
1 ATTTTTACAAGATTC
*
9855710 ATTTTTACAATATTC
1 ATTTTTACAAGATTC
9855725 ATTTTT
1 ATTTTT
9855731 CTAAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.11, G:0.03, T:0.56
Consensus pattern (15 bp):
ATTTTTACAAGATTC
Found at i:9858836 original size:25 final size:26
Alignment explanation
Indices: 9858794--9858847 Score: 101
Period size: 25 Copynumber: 2.1 Consensus size: 26
9858784 TAATAAACAG
9858794 ATTAGACATTTTTTTTACTATATTAT
1 ATTAGACATTTTTTTTACTATATTAT
9858820 ATTAGAC-TTTTTTTTACTATATTAT
1 ATTAGACATTTTTTTTACTATATTAT
9858845 ATT
1 ATT
9858848 CAAGGATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 21 0.75
26 7 0.25
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (26 bp):
ATTAGACATTTTTTTTACTATATTAT
Found at i:9863595 original size:25 final size:25
Alignment explanation
Indices: 9863567--9863624 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
9863557 ATTTTACTTT
** *
9863567 TATTTATTGTATATATAAATAAATA
1 TATTTATTCAATATAAAAATAAATA
*
9863592 TATTTATTCAATATAAAAATAAATT
1 TATTTATTCAATATAAAAATAAATA
*
9863617 TATGTATT
1 TATTTATT
9863625 TATTTTTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (25 bp):
TATTTATTCAATATAAAAATAAATA
Found at i:9872426 original size:23 final size:23
Alignment explanation
Indices: 9872396--9872449 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
9872386 TATTTGTTAA
9872396 AAGGTTTATTTAGTAATTAAACT
1 AAGGTTTATTTAGTAATTAAACT
9872419 AAGGTTTATTTAGTAATTAAACT
1 AAGGTTTATTTAGTAATTAAACT
9872442 AAGGTTTA
1 AAGGTTTA
9872450 AATGGAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.43
Consensus pattern (23 bp):
AAGGTTTATTTAGTAATTAAACT
Found at i:9872459 original size:23 final size:23
Alignment explanation
Indices: 9872396--9872460 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
9872386 TATTTGTTAA
** *
9872396 AAGGTTTATTTAGTAATTAAACT
1 AAGGTTTAAATAGAAATTAAACT
** *
9872419 AAGGTTTATTTAGTAATTAAACT
1 AAGGTTTAAATAGAAATTAAACT
*
9872442 AAGGTTTAAATGGAAATTA
1 AAGGTTTAAATAGAAATTA
9872461 GGCCATAGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (23 bp):
AAGGTTTAAATAGAAATTAAACT
Found at i:9885500 original size:21 final size:22
Alignment explanation
Indices: 9885466--9885507 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
9885456 TATTTTATCT
*
9885466 AAATTATTAGTAATTTAATGAC
1 AAATTATTAATAATTTAATGAC
*
9885488 AAATTA-TAATAATTTCATGA
1 AAATTATTAATAATTTAATGA
9885508 TTTATCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (22 bp):
AAATTATTAATAATTTAATGAC
Found at i:9894049 original size:41 final size:41
Alignment explanation
Indices: 9893992--9894080 Score: 142
Period size: 41 Copynumber: 2.2 Consensus size: 41
9893982 TGAACTTAAG
** * *
9893992 GGTTTAGGGTCTTAGGTCTTGGGCATAATGTCTAGGTTTTA
1 GGTTTAGGGTCTTAGGTCTTGGGCATAAACTCCAAGTTTTA
9894033 GGTTTAGGGTCTTAGGTCTTGGGCATAAACTCCAAGTTTTA
1 GGTTTAGGGTCTTAGGTCTTGGGCATAAACTCCAAGTTTTA
9894074 GGTTTAG
1 GGTTTAG
9894081 TGTTTTAGCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.39
Consensus pattern (41 bp):
GGTTTAGGGTCTTAGGTCTTGGGCATAAACTCCAAGTTTTA
Found at i:9894827 original size:13 final size:12
Alignment explanation
Indices: 9894807--9894843 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
9894797 TTGAAAAAAA
9894807 TTCAAAAAAATT
1 TTCAAAAAAATT
9894819 TTCACAAAAAATT
1 TTCA-AAAAAATT
*
9894832 TTTAAAAAAATT
1 TTCAAAAAAATT
9894844 AATAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (12 bp):
TTCAAAAAAATT
Found at i:9897094 original size:24 final size:26
Alignment explanation
Indices: 9897048--9897186 Score: 96
Period size: 24 Copynumber: 5.4 Consensus size: 26
9897038 AAAATATTAA
*
9897048 ATAAAATAATAGAATGAATATAACAT
1 ATAATATAATAGAATGAATATAACAT
9897074 ATAATATAATAGAATG-A-ATAACAT
1 ATAATATAATAGAATGAATATAACAT
* * * *
9897098 ATAATA-ACATATAATATAATACAAAATT
1 ATAATATA-ATAGAAT-GAATATAACA-T
* *
9897126 ATAATA-AATTA-TATAAAATACTAA-AT
1 ATAATATAA-TAGAAT-GAATA-TAACAT
*
9897152 A-AA-ATAATAGATTGAATATAACAT
1 ATAATATAATAGAATGAATATAACAT
9897176 ATAATATAATA
1 ATAATATAATA
9897187 TAAAAAATCT
Statistics
Matches: 90, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
23 4 0.04
24 29 0.32
25 8 0.09
26 24 0.27
27 13 0.14
28 12 0.13
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (26 bp):
ATAATATAATAGAATGAATATAACAT
Found at i:9897138 original size:28 final size:27
Alignment explanation
Indices: 9897097--9897151 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
9897087 ATGAATAACA
*
9897097 TATAATAACATATAATATAATACAAAAT
1 TATAATAACATAT-ATAAAATACAAAAT
*
9897125 TATAATAA-ATTATATAAAATACTAAAT
1 TATAATAACA-TATATAAAATACAAAAT
9897152 AAAATAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (27 bp):
TATAATAACATATATAAAATACAAAAT
Found at i:9897139 original size:102 final size:98
Alignment explanation
Indices: 9897029--9897214 Score: 293
Period size: 102 Copynumber: 1.9 Consensus size: 98
9897019 AACATAATAC
*
9897029 AAATTATATAAAATATTAAATAAAATAATAGAATGAATATAACATATAATATAATAGAATGAATA
1 AAATTATATAAAATACTAAATAAAATAATAGAATGAATATAACATATAATATAATAGAA--AA-A
9897094 A-CATATAATAACATATAATATAATACAAAATTATAAT
63 ATC-TATAATAACATATAA-ATAATACAAAATTATAAT
* *
9897131 AAATTATATAAAATACTAAATAAAATAATAGATTGAATATAACATATAATATAATATAAAAAATC
1 AAATTATATAAAATACTAAATAAAATAATAGAATGAATATAACATATAATATAATAGAAAAAATC
9897196 TATAATAACATATAAATAA
66 TATAATAACATATAAATAA
9897215 ATAAACAATA
Statistics
Matches: 80, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
98 4 0.05
99 17 0.21
100 3 0.04
102 56 0.70
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.31
Consensus pattern (98 bp):
AAATTATATAAAATACTAAATAAAATAATAGAATGAATATAACATATAATATAATAGAAAAAATC
TATAATAACATATAAATAATACAAAATTATAAT
Found at i:9897199 original size:21 final size:22
Alignment explanation
Indices: 9897175--9897216 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
9897165 GAATATAACA
9897175 TATAATATA-ATATAAA-AAATC
1 TATAATA-ACATATAAATAAATC
9897196 TATAATAACATATAAATAAAT
1 TATAATAACATATAAATAAAT
9897217 AAACAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.05
21 14 0.74
22 4 0.21
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
TATAATAACATATAAATAAATC
Found at i:9898801 original size:20 final size:20
Alignment explanation
Indices: 9898765--9898815 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
9898755 GATATATGTT
9898765 GATTAATTAAGTAAAACA-A
1 GATTAATTAAGTAAAACATA
9898784 GATTAATTAAGATAAAACATA
1 GATTAATTAAG-TAAAACATA
9898805 -ATTAATTAAGT
1 GATTAATTAAGT
9898816 TAATTAACCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 12 0.40
20 17 0.57
21 1 0.03
ACGTcount: A:0.55, C:0.04, G:0.10, T:0.31
Consensus pattern (20 bp):
GATTAATTAAGTAAAACATA
Found at i:9902253 original size:43 final size:42
Alignment explanation
Indices: 9902190--9902309 Score: 161
Period size: 43 Copynumber: 2.8 Consensus size: 42
9902180 TATCGTACCA
*
9902190 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
* * *
9902232 ATGCCAATAGCCCAGCTATGGTCTTACACG-AATTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGTAA-TCTCATATCG
**
9902275 ATTTCATATCCCAGATATGGTCTTACATGTAATCT
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCT
9902310 TAGTAACCCT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
42 31 0.47
43 35 0.53
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
Found at i:9904472 original size:28 final size:29
Alignment explanation
Indices: 9904441--9904495 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
9904431 CTGAAATTCT
*
9904441 GATAT-CATGGCCCTAAGCCAAATCAGCC
1 GATATGCATGGCCCAAAGCCAAATCAGCC
*
9904469 GATATGCATGGCCCAAAGGCAAATCAG
1 GATATGCATGGCCCAAAGCCAAATCAG
9904496 TTTATCTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.35, C:0.27, G:0.22, T:0.16
Consensus pattern (29 bp):
GATATGCATGGCCCAAAGCCAAATCAGCC
Found at i:9908305 original size:19 final size:19
Alignment explanation
Indices: 9908251--9908313 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 19
9908241 CTAAAAAAAT
*
9908251 TAATTTTTATACTTTTTGAA
1 TAATTTTTATA-TTTTTCAA
* *
9908271 TAATTTTTAAAATTTTCAA
1 TAATTTTTATATTTTTCAA
9908290 TAAATTTTT-TATTTTT-AA
1 T-AATTTTTATATTTTTCAA
9908308 -AATTTT
1 TAATTTT
9908314 AAAAAATTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
16 6 0.16
18 2 0.05
19 12 0.32
20 17 0.46
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (19 bp):
TAATTTTTATATTTTTCAA
Found at i:9923558 original size:13 final size:13
Alignment explanation
Indices: 9923542--9923610 Score: 84
Period size: 13 Copynumber: 5.2 Consensus size: 13
9923532 TTATAGAAAC
9923542 TTCATATAACCAT
1 TTCATATAACCAT
* *
9923555 TTCATATATCTAT
1 TTCATATAACCAT
*
9923568 TTCCATATAAACAT
1 TT-CATATAACCAT
*
9923582 TTCATATATCCAT
1 TTCATATAACCAT
*
9923595 TTCATATTACCAT
1 TTCATATAACCAT
9923608 TTC
1 TTC
9923611 TGCTTGCTCA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
13 36 0.78
14 10 0.22
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCATATAACCAT
Found at i:9923582 original size:27 final size:26
Alignment explanation
Indices: 9923542--9923610 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 26
9923532 TTATAGAAAC
*
9923542 TTCATATAACCATTTCATATATCTAT
1 TTCATATAACCATTTCATATATCCAT
*
9923568 TTCCATATAAACATTTCATATATCCAT
1 TT-CATATAACCATTTCATATATCCAT
*
9923595 TTCATATTACCATTTC
1 TTCATATAACCATTTC
9923611 TGCTTGCTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 14 0.37
27 24 0.63
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.45
Consensus pattern (26 bp):
TTCATATAACCATTTCATATATCCAT
Found at i:9924042 original size:30 final size:30
Alignment explanation
Indices: 9924007--9924063 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
9923997 GGGCACTTCT
* * *
9924007 ACACGGGTGATCCACACGCTCGTGTGTGAC
1 ACACGGGTAAACCAAACGCTCGTGTGTGAC
*
9924037 ACACGGGTAAACCAAATGCTCGTGTGT
1 ACACGGGTAAACCAAACGCTCGTGTGT
9924064 CATGGCCGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.25, C:0.26, G:0.28, T:0.21
Consensus pattern (30 bp):
ACACGGGTAAACCAAACGCTCGTGTGTGAC
Found at i:9931257 original size:13 final size:12
Alignment explanation
Indices: 9931239--9931282 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 12
9931229 ATTCATTTAG
9931239 CATTTCATATATT
1 CATTTCA-ATATT
9931252 CATTTCAAGTATT
1 CATTTCAA-TATT
*
9931265 CATTCCAAATATT
1 CATTTC-AATATT
9931278 CATTT
1 CATTT
9931283 TCACATAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 1 0.04
13 24 0.89
14 2 0.07
ACGTcount: A:0.32, C:0.18, G:0.02, T:0.48
Consensus pattern (12 bp):
CATTTCAATATT
Found at i:9940118 original size:20 final size:20
Alignment explanation
Indices: 9940089--9940133 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
9940079 AGCACATGTA
* *
9940089 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
9940109 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
9940129 TTCAT
1 TTCAT
9940134 TTTATTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:9943640 original size:50 final size:50
Alignment explanation
Indices: 9943555--9943769 Score: 236
Period size: 50 Copynumber: 4.3 Consensus size: 50
9943545 GCTAAATGAC
* * * * *
9943555 CTTGTATATTCGGCCACATAGGTATGTACATATGTGATGTTGTATTGGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTGGAT
* * * * *
9943605 CTTGAATATTCGGCCATGA-AGGTATGCACAAATGTGATATTATGTTTGAAT
1 CTTGTATATTCGGCCAT-ATAGGTAAGCACATATGTGATATTAT-ATTGGAT
* * * *
9943656 -TTGTATATTCGGCCATATAAGTAAGTACATATGTGATATTAAATTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTGGAT
* * *
9943705 CTTGCATATTCGGCCATTTAGGTAAGCACATATGTGATATTATATTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTGGAT
*
9943755 CTTGTATATTTGGCC
1 CTTGTATATTCGGCC
9943770 CAATGAGTGA
Statistics
Matches: 137, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
49 5 0.04
50 126 0.92
51 6 0.04
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (50 bp):
CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTGGAT
Found at i:9943734 original size:100 final size:100
Alignment explanation
Indices: 9943555--9943769 Score: 288
Period size: 100 Copynumber: 2.1 Consensus size: 100
9943545 GCTAAATGAC
* * * **
9943555 CTTGTATATTCGGCCACATAGGTATGTACATATGTGATGTTGTATTGGATCTTGAATATTCGGCC
1 CTTGTATATTCGGCCACATAAGTAAGTACATATGTGATATTAAATTGGATCTTGAATATTCGGCC
* *
9943620 ATGAAGGTATGCACAAATGTGATATTATGTTTGAAT
66 ATGAAGGTAAGCACAAATGTGATATTATATTTG-AT
* * *
9943656 -TTGTATATTCGGCCATATAAGTAAGTACATATGTGATATTAAATTTGATCTTGCATATTCGGCC
1 CTTGTATATTCGGCCACATAAGTAAGTACATATGTGATATTAAATTGGATCTTGAATATTCGGCC
** *
9943720 ATTTAGGTAAGCACATATGTGATATTATATTTGAT
66 ATGAAGGTAAGCACAAATGTGATATTATATTTGAT
*
9943755 CTTGTATATTTGGCC
1 CTTGTATATTCGGCC
9943770 CAATGAGTGA
Statistics
Matches: 99, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
99 2 0.02
100 97 0.98
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (100 bp):
CTTGTATATTCGGCCACATAAGTAAGTACATATGTGATATTAAATTGGATCTTGAATATTCGGCC
ATGAAGGTAAGCACAAATGTGATATTATATTTGAT
Found at i:9958541 original size:18 final size:18
Alignment explanation
Indices: 9958477--9958544 Score: 77
Period size: 18 Copynumber: 3.8 Consensus size: 18
9958467 ATAAGTGACA
*
9958477 TTTTGAAAATTAATAACG
1 TTTTGAAAATGAATAACG
*
9958495 TTTTGAAAGA-GTATAAC-
1 TTTTGAAA-ATGAATAACG
*
9958512 TTTGTGATAATGAATAACG
1 TTT-TGAAAATGAATAACG
9958531 TTTTGAAAATGAAT
1 TTTTGAAAATGAAT
9958545 GACACGTTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
17 4 0.10
18 33 0.80
19 4 0.10
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.38
Consensus pattern (18 bp):
TTTTGAAAATGAATAACG
Found at i:9962959 original size:37 final size:37
Alignment explanation
Indices: 9962906--9963008 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
9962896 CGAATAGTCC
*
9962906 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
9962943 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
9962980 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
9963009 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:9963207 original size:48 final size:48
Alignment explanation
Indices: 9963149--9963364 Score: 389
Period size: 48 Copynumber: 4.5 Consensus size: 48
9963139 ATATACACAC
* * *
9963149 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
9963197 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
9963245 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
9963293 ATCTCATATATATTTCACACTAGCCATTC-GCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
9963340 ATCTCATACATATTTCACACTAGCC
1 ATCTCATACATATTTCACACTAGCC
9963365 GAATATATAT
Statistics
Matches: 163, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
47 42 0.26
48 121 0.74
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:9963414 original size:70 final size:69
Alignment explanation
Indices: 9963298--9963434 Score: 256
Period size: 70 Copynumber: 2.0 Consensus size: 69
9963288 TACATATCTC
9963298 ATATATATTTCACACTAGCCATTCGCTTTACCACATATACATATCTCATACATATTTCACACTAG
1 ATATATATTTCACACTAGCCATTCGCTTTACCACATATACATATCTCATACATATTTCACACTAG
9963363 CCGA
66 CCGA
*
9963367 ATATATATTTCATACTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACACTA
1 ATATATATTTCACACTAGCCATTC-GCTTTACCACATATACATATCTCATACATATTTCACACTA
9963432 GCC
65 GCC
9963435 ATTCGGCTTT
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
69 23 0.35
70 43 0.65
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (69 bp):
ATATATATTTCACACTAGCCATTCGCTTTACCACATATACATATCTCATACATATTTCACACTAG
CCGA
Found at i:9974292 original size:13 final size:13
Alignment explanation
Indices: 9974274--9974299 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9974264 CCATGTGGCA
9974274 CACATGGCCATGT
1 CACATGGCCATGT
9974287 CACATGGCCATGT
1 CACATGGCCATGT
9974300 GCGATCTCTT
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:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (13 bp):
CACATGGCCATGT
Found at i:9974590 original size:18 final size:18
Alignment explanation
Indices: 9974567--9974602 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
9974557 GCCAGGGGCA
9974567 AGCCCGTGTGTCGTGGCC
1 AGCCCGTGTGTCGTGGCC
9974585 AGCCCGTGTGTCGTGGCC
1 AGCCCGTGTGTCGTGGCC
9974603 GTGTGGGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.06, C:0.33, G:0.39, T:0.22
Consensus pattern (18 bp):
AGCCCGTGTGTCGTGGCC
Found at i:9976631 original size:27 final size:27
Alignment explanation
Indices: 9976601--9976681 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
9976591 GAATCTCATA
* *
9976601 TCTGT-AGGCTAGTATTACTGAAATACC
1 TCTGTAAGG-TAGAATTACTAAAATACC
9976628 TCTGTAAGGTAGAATTACTAAAATACC
1 TCTGTAAGGTAGAATTACTAAAATACC
* *
9976655 CCTATAAGGTAGAATTACTAAAATACC
1 TCTGTAAGGTAGAATTACTAAAATACC
9976682 CTTGGTTTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 46 0.94
28 3 0.06
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (27 bp):
TCTGTAAGGTAGAATTACTAAAATACC
Found at i:9976682 original size:27 final size:27
Alignment explanation
Indices: 9976614--9976682 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
9976604 GTAGGCTAGT
* * *
9976614 ATTACTGAAATACCTCTGTAAGGTAGA
1 ATTACTAAAATACCCCTATAAGGTAGA
9976641 ATTACTAAAATACCCCTATAAGGTAGA
1 ATTACTAAAATACCCCTATAAGGTAGA
9976668 ATTACTAAAATACCC
1 ATTACTAAAATACCC
9976683 TTGGTTTACA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.28
Consensus pattern (27 bp):
ATTACTAAAATACCCCTATAAGGTAGA
Found at i:9976697 original size:27 final size:27
Alignment explanation
Indices: 9976667--9977035 Score: 212
Period size: 27 Copynumber: 13.7 Consensus size: 27
9976657 TATAAGGTAG
* **
9976667 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTGTAA
** **
9976694 AATTA-CTGAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTGTAA
** *** * *
9976720 AATTACCAAAATGTCCTCAATTAGCAA
1 AATTACCAAAATACCCTTGGTTTGTAA
* *
9976747 AATTACCAAAATACCATTAGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTGTAA
*
9976774 AATTACCAAAATA-CCTCTAGTTTGTAA
1 AATTACCAAAATACCCT-TGGTTTGTAA
* * *
9976801 AA-TACCAAAATACCTTTGATTTGTGA
1 AATTACCAAAATACCCTTGGTTTGTAA
* * * ** *
9976827 AATTATCGAAATACCCTCGGCCTATAA
1 AATTACCAAAATACCCTTGGTTTGTAA
* * * *
9976854 AATTATCGAAATACTC-TCGTCTTGTAA
1 AATTACCAAAATACCCTTGGT-TTGTAA
** * *
9976881 AATTACTGAAATACCCTTGATTTGGAA
1 AATTACCAAAATACCCTTGGTTTGTAA
* ** *
9976908 AATTA-CAGAAATACCCCTAATTTATAA
1 AATTACCA-AAATACCCTTGGTTTGTAA
** *
9976935 AATTA-CAAGAATACCCTTGACTTCTAAA
1 AATTACCAA-AATACCCTTGGTTTGT-AA
* *
9976963 AATTA-CAGAAATACCATTGGTTTGCAA
1 AATTACCA-AAATACCCTTGGTTTGTAA
* *
9976990 AATTACCAAAATACCCTTGGTTTGCAG
1 AATTACCAAAATACCCTTGGTTTGTAA
* *
9977017 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
9977036 TAGGGTGAAA
Statistics
Matches: 267, Mismatches: 64, Indels: 22
0.76 0.18 0.06
Matches are distributed among these distances:
26 46 0.17
27 196 0.73
28 24 0.09
29 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTGTAA
Found at i:9976992 original size:55 final size:54
Alignment explanation
Indices: 9976879--9977013 Score: 139
Period size: 55 Copynumber: 2.5 Consensus size: 54
9976869 CTCGTCTTGT
** * * *
9976879 AAAATTACTGAAATACCCTTGATTTGGAAAATTACAGAAATACCCCTAATTTAT
1 AAAATTACCAAAATACCCTTGATTTGAAAAATTACAGAAATACCACTAATTTAC
* ** *
9976933 AAAATTA-CAAGAATACCCTTGACTTCT-AAAAATTACAGAAATACCATTGGTTTGC
1 AAAATTACCAA-AATACCCTTGA-TT-TGAAAAATTACAGAAATACCACTAATTTAC
*
9976988 AAAATTACCAAAATACCCTTGGTTTG
1 AAAATTACCAAAATACCCTTGATTTG
9977014 CAGATTTACC
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
53 2 0.03
54 20 0.30
55 40 0.61
56 4 0.06
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.30
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTGATTTGAAAAATTACAGAAATACCACTAATTTAC
Found at i:9977508 original size:22 final size:22
Alignment explanation
Indices: 9977456--9977520 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
9977446 GCCAATTATT
* *
9977456 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
9977478 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
9977500 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
9977521 ATGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:9977769 original size:22 final size:22
Alignment explanation
Indices: 9977723--9977770 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
9977713 GTTGATGTGA
* *
9977723 TGTTTACGGCTATGTGTTTTCC
1 TGTTTACAGCTATGAGTTTTCC
9977745 TGTTTACAGCTATGAGTTGTT-C
1 TGTTTACAGCTATGAGTT-TTCC
9977767 TGTT
1 TGTT
9977771 GACTTAGTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.12, C:0.15, G:0.23, T:0.50
Consensus pattern (22 bp):
TGTTTACAGCTATGAGTTTTCC
Found at i:9983032 original size:42 final size:42
Alignment explanation
Indices: 9982980--9983071 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
9982970 TGGCCCTTAG
* * ** *
9982980 GCCCCTTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
9983022 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
9983064 GCCCATTT
1 GCCCATTT
9983072 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:9983247 original size:25 final size:25
Alignment explanation
Indices: 9983219--9983287 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
9983209 CTCTTTAAAT
*
9983219 AACTGGGGCAAAGCCCTTT-CTGATA
1 AACTGGGGCAGAGCCCTTTAC-GATA
* *
9983244 AACTGAGGCAGAGCCCTTTACGGTA
1 AACTGGGGCAGAGCCCTTTACGATA
*
9983269 AACTGGGGTAGAGCCCTTT
1 AACTGGGGCAGAGCCCTTT
9983288 TAGCACTTCC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
25 37 0.97
26 1 0.03
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (25 bp):
AACTGGGGCAGAGCCCTTTACGATA
Found at i:9984133 original size:27 final size:27
Alignment explanation
Indices: 9984072--9984135 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
9984062 GGCGTATTCA
9984072 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* * *
9984099 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAAGGG-TATTACGG
*
9984126 TCTTTTTACC
1 TCATTTTACC
9984136 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:9984219 original size:27 final size:27
Alignment explanation
Indices: 9984189--9984287 Score: 92
Period size: 27 Copynumber: 3.6 Consensus size: 27
9984179 GTAAATCTAC
*
9984189 AAACCAAGGGTATTTCAATAATTTTGT
1 AAACCAAGGGTATTTCTATAATTTTGT
* *
9984216 AAACCAATGGTATTCCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
* *
9984242 AAAAAAGTCAAGGGTATTTCTGTAATTTTGT
1 ---AAA-CCAAGGGTATTTCTATAATTTTGT
* *
9984273 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
9984288 TGGTAATTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
26 1 0.02
27 33 0.56
28 3 0.05
29 3 0.05
30 18 0.31
31 1 0.02
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.38
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:9984293 original size:27 final size:26
Alignment explanation
Indices: 9984253--9984349 Score: 81
Period size: 27 Copynumber: 3.6 Consensus size: 26
9984243 AAAAAGTCAA
*
9984253 GGGTATTTCT-GTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTT-CAAATCAG
*
9984280 GGGTATTTTGGTAATTTTACAAAT-TG
1 GGGTATTTTGGTAATTTT-CAAATCAG
* * *
9984306 AGGGTATTTCGATAATTTCTCAAACCAG
1 -GGGTATTTTGGTAATTT-TCAAATCAG
*
9984334 TGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
9984350 CTATCCTACA
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
26 2 0.04
27 52 0.93
28 2 0.04
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTCAAATCAG
Found at i:9984415 original size:27 final size:27
Alignment explanation
Indices: 9984381--9984472 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
9984371 ATAATTTCAC
*
9984381 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAATGATAATTTTGTA
*
9984408 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGATAATTTTGTA
* *
9984435 AATCGAGGGTAAAATGATAATTCTATA
1 AATCGAGGGTAAAATGATAATTTTGTA
9984462 AATCGAGGGTA
1 AATCGAGGGTA
9984473 CTTTGGTAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
26 1 0.02
27 56 0.97
28 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGATAATTTTGTA
Found at i:9984497 original size:54 final size:53
Alignment explanation
Indices: 9984372--9984499 Score: 134
Period size: 54 Copynumber: 2.4 Consensus size: 53
9984362 GGTATTTCAA
* * *
9984372 TAATTTCACAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTAAAATGG
1 TAATTTTACAATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATGG
* ***
9984425 TAATTTTGTA-AATCGAGGGTAAAATGATAATTCTATAAA-TCGAGGGTACTTTGG
1 TAA-TTT-TACAATCGAGGGTAAAACGATAATTCTATAAACT-GAGGGTAAAATGG
*
9984479 TAATTTTACAAGTTGAGGGTA
1 TAATTTTACAA-TCGAGGGTA
9984500 TTTCAGTAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
52 2 0.03
53 9 0.15
54 50 0.81
55 1 0.02
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.33
Consensus pattern (53 bp):
TAATTTTACAATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATGG
Found at i:9987684 original size:31 final size:31
Alignment explanation
Indices: 9987646--9987720 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
9987636 ACGGTTACTA
*
9987646 GGCCGAAGCCTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTC
9987677 GGCCGAAGCCTTTTCATAAATCATATCACTC
1 GGCCGAAGCCTTTTCATAAATCATATCACTC
*
9987708 GGCCAAAGCCTTT
1 GGCCGAAGCCTTT
9987721 ACTATAAACG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTC
Found at i:9987803 original size:42 final size:42
Alignment explanation
Indices: 9987744--9987835 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
9987734 TGGCCCTTAG
* ** * *
9987744 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATTCAA
1 GCCCATTTCAATATCACATGAAATCCCAATGAATGTATGCAA
9987786 GCCCATTTCAATATCACATGAAATCCCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATCCCAATGAATGTATGCAA
9987828 GCCCATTT
1 GCCCATTT
9987836 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATCCCAATGAATGTATGCAA
Done.