Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 101 of 126
Found at i:30893723 original size:23 final size:21
Alignment explanation
Indices: 30893693--30893735 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
30893683 ACAGGGTTGA
30893693 AAGATGTA-GTTTTGAAATATTG
1 AAGATGTATG-TTTG-AATATTG
30893715 AAGATTGTATGTTTGAATATT
1 AAGA-TGTATGTTTGAATATT
30893736 TATGTTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 10 0.53
23 8 0.42
24 1 0.05
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (21 bp):
AAGATGTATGTTTGAATATTG
Found at i:30898728 original size:56 final size:56
Alignment explanation
Indices: 30898665--30898773 Score: 209
Period size: 56 Copynumber: 1.9 Consensus size: 56
30898655 TCATGGTGAC
*
30898665 TTGGAAGAAGAGCTTTACATGGAGCAGCCAGAGGGTTTTGTTGCACAAGGGAAAGA
1 TTGGAAGAAGAGCTTTACATGGAGCAGCCAGAGGGTTTTATTGCACAAGGGAAAGA
30898721 TTGGAAGAAGAGCTTTACATGGAGCAGCCAGAGGGTTTTATTGCACAAGGGAA
1 TTGGAAGAAGAGCTTTACATGGAGCAGCCAGAGGGTTTTATTGCACAAGGGAA
30898774 TGAGGACTAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.22
Consensus pattern (56 bp):
TTGGAAGAAGAGCTTTACATGGAGCAGCCAGAGGGTTTTATTGCACAAGGGAAAGA
Found at i:30899587 original size:22 final size:22
Alignment explanation
Indices: 30899562--30899793 Score: 210
Period size: 21 Copynumber: 10.8 Consensus size: 22
30899552 NNNAAAATCT
*
30899562 TAAACTCTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* *
30899584 TAAACCCTTAAATTAAAAACCT
1 TAAACCCTTAACTTAAAAACCC
*
30899606 TAAACCCTAAAACCTTAAAAA-CC
1 TAAACCCT-TAA-CTTAAAAACCC
* * *
30899629 TTAATCCTTAAATTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* *
30899651 T-AACACTTAAATTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
**
30899672 TAAACCCTTAACTTAATAAA-TG
1 TAAACCCTTAACTTAA-AAACCC
* *
30899694 T-AATCCTTAAATTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
* *
30899715 TAAACCCTTAACTTTAAAACCA
1 TAAACCCTTAACTTAAAAACCC
* * *
30899737 T-AACCATTAA-ATAAAAAACC
1 TAAACCCTTAACTTAAAAACCC
*
30899757 T-AACACTTAACTTAAAAACCC
1 TAAACCCTTAACTTAAAAACCC
30899778 T-AACCCTTAACTTAAA
1 TAAACCCTTAACTTAAA
30899794 TATAATTTGA
Statistics
Matches: 168, Mismatches: 34, Indels: 17
0.77 0.16 0.08
Matches are distributed among these distances:
20 17 0.10
21 70 0.42
22 62 0.37
23 12 0.07
24 7 0.04
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (22 bp):
TAAACCCTTAACTTAAAAACCC
Found at i:30899617 original size:15 final size:15
Alignment explanation
Indices: 30899578--30899624 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
30899568 CTTAACTTAA
*
30899578 AAACCCTAAACCCTT
1 AAACCCTAAAACCTT
*
30899593 AAA--TTAAAAACCTT
1 AAACCCT-AAAACCTT
30899607 AAACCCTAAAACCTT
1 AAACCCTAAAACCTT
30899622 AAA
1 AAA
30899625 AACCTTAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
13 1 0.04
14 10 0.38
15 14 0.54
16 1 0.04
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (15 bp):
AAACCCTAAAACCTT
Found at i:30899747 original size:43 final size:43
Alignment explanation
Indices: 30899569--30899793 Score: 210
Period size: 43 Copynumber: 5.2 Consensus size: 43
30899559 TCTTAAACTC
* * * *
30899569 TTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCTTAAACCC
1 TTAAATTAAAAACCCTAAACCCTTAACTTAAAAACCCT-AACCA
* * * *
30899613 TAAAACCTTAAAAA-CCTTAATCCTTAAATTAAAAACCCTAA-CA
1 TTAAA--TTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCA
**
30899656 CTTAAATTAAAAACCCTAAACCCTTAACTTAATAAA-TGTAATCC-
1 -TTAAATTAAAAACCCTAAACCCTTAACTTAA-AAACCCTAA-CCA
* *
30899700 TTAAATTAAAAACCCTAAACCCTTAACTTTAAAACCATAACCA
1 TTAAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCA
* * *
30899743 TTAAA-TAAAAAACCT-AACACTTAACTTAAAAACCCTAACCC
1 TTAAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCA
*
30899784 TTAACTTAAA
1 TTAAATTAAA
30899794 TATAATTTGA
Statistics
Matches: 150, Mismatches: 21, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
41 26 0.17
42 25 0.17
43 57 0.38
44 12 0.08
45 23 0.15
46 7 0.05
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.26
Consensus pattern (43 bp):
TTAAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCA
Found at i:30903198 original size:126 final size:126
Alignment explanation
Indices: 30902957--30903489 Score: 718
Period size: 126 Copynumber: 4.3 Consensus size: 126
30902947 CCCAAACATG
* ** *
30902957 CTACTGTAGCAAAATCGC-TCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAATATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * * *
30903021 TAGAAG-A--GATTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTTTCCAAGAC
66 TTGAAGCATTG-TTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * * *
30903080 CTATTGTAGCAAAAACGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTTA-AATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* * *
30903144 CTTGCAGCATTGTTTTACACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
65 CTTGAAGCATTGTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * * **
30903206 CTACTGTAGCAAAAGCGCGTTCATGTGGGCGCGATTTCATAAATTCTTCTCATAAAGTGTCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * *
30903271 TTGAAGCGTTTTTTTAAACTATTTGTTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
66 TTGAAGCATTGTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
* * * **
30903333 CAACTGTAGCAAAAGCGCGTCCACGAGGACGCGATTTCACAAGCTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
*
30903398 TTGAAGCATT-TTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAT
66 TTGAAGCATTGTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
*
30903458 CTACTGTAGCAAAAGCGCGTACACGTGGGCGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGC
30903490 CACTTCAAAA
Statistics
Matches: 357, Mismatches: 46, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
123 18 0.05
124 42 0.12
125 37 0.10
126 185 0.52
127 75 0.21
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCATTGTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
Found at i:30904896 original size:15 final size:16
Alignment explanation
Indices: 30904861--30904898 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
30904851 CCAATAAGCA
30904861 TAAATTATTTTTGAGT
1 TAAATTATTTTTGAGT
*
30904877 T-AATTATTTTTTA-T
1 TAAATTATTTTTGAGT
30904891 TAAATTAT
1 TAAATTAT
30904899 AGGTTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 17 0.85
16 1 0.05
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (16 bp):
TAAATTATTTTTGAGT
Found at i:30907129 original size:43 final size:43
Alignment explanation
Indices: 30907038--30907177 Score: 149
Period size: 43 Copynumber: 3.3 Consensus size: 43
30907028 TGAGACTTTG
* * * *
30907038 TGTAAGACCATATATGGGATA-TAGCATCGATATATGTGATTACA
1 TGTAAGACCATGTATAGGACATTAGCATCG-T-TATGTGATTTCA
* * *
30907082 TGTAAGACCATGTCTAGGACATTGGCATCGTTATGTGATTTCG
1 TGTAAGACCATGTATAGGACATTAGCATCGTTATGTGATTTCA
* ** *
30907125 TGTAAGACCATGTATGGGACATTAGCATCAATATATGA-TTCA
1 TGTAAGACCATGTATAGGACATTAGCATCGTTATGTGATTTCA
30907167 TGTAAGACCAT
1 TGTAAGACCAT
30907178 AGCTGGGCTA
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
42 14 0.17
43 42 0.52
44 18 0.22
45 7 0.09
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTATAGGACATTAGCATCGTTATGTGATTTCA
Found at i:30907141 original size:87 final size:87
Alignment explanation
Indices: 30907015--30907177 Score: 226
Period size: 87 Copynumber: 1.9 Consensus size: 87
30907005 AGCTGAGCTA
* *
30907015 TGGCATCGATGTATGAGACTTTGTGTAAGACCATATATGGGATA-TAGCATCGATATATGTGATT
1 TGGCATCGATGTATGAGACTTTGTGTAAGACCATATATGGGACATTAGCATC-A-ATATATGATT
30907079 ACATGTAAGACCATGTCTAGGACAT
64 -CATGTAAGACCATGTCTAGGACAT
* *
30907104 TGGCATCG-T-TATGTGA-TTTCGTGTAAGACCATGTATGGGACATTAGCATCAATATATGATTC
1 TGGCATCGATGTATGAGACTTT-GTGTAAGACCATATATGGGACATTAGCATCAATATATGATTC
30907166 ATGTAAGACCAT
65 ATGTAAGACCAT
30907178 AGCTGGGCTA
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
85 13 0.19
86 12 0.18
87 27 0.40
88 8 0.12
89 8 0.12
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.33
Consensus pattern (87 bp):
TGGCATCGATGTATGAGACTTTGTGTAAGACCATATATGGGACATTAGCATCAATATATGATTCA
TGTAAGACCATGTCTAGGACAT
Found at i:30907214 original size:85 final size:87
Alignment explanation
Indices: 30907038--30907222 Score: 209
Period size: 85 Copynumber: 2.1 Consensus size: 87
30907028 TGAGACTTTG
* *
30907038 TGTAAGACCATATATGGGATATAGCATCGATATATGTGATTACATGTAAGACCATGTCTAGGACA
1 TGTAAGACCATATATGGGACATAGCATCGATATATATGATTACATGTAAGACCATGTCTAGGACA
* * * ** *
30907103 TTGGCATCGTTATGTGATTTCG
66 TTGACATCGATATGCGATAACA
* *
30907125 TGTAAGACCATGTATGGGACATTAGCATC-A-ATATATGATT-CATGTAAGACCATAG-CT-GGG
1 TGTAAGACCATATATGGGACA-TAGCATCGATATATATGATTACATGTAAGACCAT-GTCTAGGA
30907185 CTATTGACATCGATATGCGATAACA
64 C-ATTGACATCGATATGCGATAACA
*
30907210 TGTAATACCATAT
1 TGTAAGACCATAT
30907223 CTGAGATATG
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
84 3 0.04
85 43 0.52
86 10 0.12
87 20 0.24
88 7 0.08
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.31
Consensus pattern (87 bp):
TGTAAGACCATATATGGGACATAGCATCGATATATATGATTACATGTAAGACCATGTCTAGGACA
TTGACATCGATATGCGATAACA
Found at i:30917811 original size:2 final size:2
Alignment explanation
Indices: 30917804--30917833 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
30917794 GCTTGAATAA
30917804 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30917834 TTATGTGTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30919706 original size:7 final size:7
Alignment explanation
Indices: 30919625--30919700 Score: 77
Period size: 7 Copynumber: 10.7 Consensus size: 7
30919615 AAAGTTAAAA
30919625 TATATAT
1 TATATAT
30919632 TATAATAT
1 TAT-ATAT
30919640 TATAATAT
1 TAT-ATAT
*
30919648 TATATCT
1 TATATAT
30919655 TA-AT-T
1 TATATAT
*
30919660 TTTA-AGT
1 TATATA-T
30919667 ATATATAT
1 -TATATAT
30919675 TATATAT
1 TATATAT
30919682 TATATAT
1 TATATAT
30919689 TATATAT
1 TATATAT
30919696 TATAT
1 TATAT
30919701 TATATAATAA
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
5 2 0.03
6 3 0.05
7 35 0.58
8 19 0.32
9 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (7 bp):
TATATAT
Found at i:30920448 original size:24 final size:24
Alignment explanation
Indices: 30920421--30920467 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
30920411 ATTGAAATGG
30920421 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
30920445 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
30920468 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:30921280 original size:36 final size:36
Alignment explanation
Indices: 30921231--30921305 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
30921221 TTTGATCGCC
*
30921231 GGTTCAGCTTCCAACAACGATCCCGAACTCAAATGT
1 GGTTCAGCATCCAACAACGATCCCGAACTCAAATGT
*
30921267 GGTTCAGCATCCAACAACGATCTCGAACTCAAATGT
1 GGTTCAGCATCCAACAACGATCCCGAACTCAAATGT
30921303 GGT
1 GGT
30921306 GATGTTTATC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (36 bp):
GGTTCAGCATCCAACAACGATCCCGAACTCAAATGT
Found at i:30927406 original size:201 final size:201
Alignment explanation
Indices: 30927055--30927456 Score: 732
Period size: 201 Copynumber: 2.0 Consensus size: 201
30927045 ACCACCAAAT
30927055 TGGAACTTCCCGTTCGAAATCATGTGTGATGCAAGTGATCGAAGTGTGGGAGCTGTTCTTGGCCA
1 TGGAACTTCCCGTTCGAAATCATGTGTGATGCAAGTGATCGAAGTGTGGGAGCTGTTCTTGGCCA
* * *
30927120 AAGAATAGGGAAAAAGCCTCATGTGATCTACTACGTTTCGAAAACCTTGGATGCTGCCCAAAGCA
66 AAGAATAGGCAAAAAGCCTCATGTGATCTACTACGCTTCGAAAACCTTGGATGCTACCCAAAGCA
30927185 ATTACACAACCACAGAGAAAGAATTATTAGCTCTTGTGTTTGCTTTAGATAAATTTAGATCTTAC
131 ATTACACAACCACAGAGAAAGAATTATTAGCTCTTGTGTTTGCTTTAGATAAATTTAGATCTTAC
30927250 CTATTG
196 CTATTG
30927256 TGGAACTTCCCGTTCGAAATCATGTGTGATGCAAGTGATCGAAGTGTGGGAGCTGTTCTTGGCCA
1 TGGAACTTCCCGTTCGAAATCATGTGTGATGCAAGTGATCGAAGTGTGGGAGCTGTTCTTGGCCA
* * *
30927321 AAGAATAGTCAAAGAGCCTCATGTTATCTACTACGCTTCGAAAACCTTGGATGCTACCCAAAGCA
66 AAGAATAGGCAAAAAGCCTCATGTGATCTACTACGCTTCGAAAACCTTGGATGCTACCCAAAGCA
* *
30927386 ATTACACAACCACTGAGAAAGAATTATTAGCTGTTGTGTTTGCTTTAGATAAATTTAGATCTTAC
131 ATTACACAACCACAGAGAAAGAATTATTAGCTCTTGTGTTTGCTTTAGATAAATTTAGATCTTAC
30927451 CTATTG
196 CTATTG
30927457 AGAACTAAAG
Statistics
Matches: 193, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
201 193 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (201 bp):
TGGAACTTCCCGTTCGAAATCATGTGTGATGCAAGTGATCGAAGTGTGGGAGCTGTTCTTGGCCA
AAGAATAGGCAAAAAGCCTCATGTGATCTACTACGCTTCGAAAACCTTGGATGCTACCCAAAGCA
ATTACACAACCACAGAGAAAGAATTATTAGCTCTTGTGTTTGCTTTAGATAAATTTAGATCTTAC
CTATTG
Found at i:30929316 original size:3 final size:3
Alignment explanation
Indices: 30929308--30929355 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
30929298 TTAATTTTCC
* *
30929308 TAT TAT TAT TAT TAT TAT TAT TATT TAT TTT TAC TAT T-T TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
30929352 TAT T
1 TAT T
30929356 TTCATTTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
2 4 0.11
3 31 0.82
4 3 0.08
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:30929368 original size:6 final size:6
Alignment explanation
Indices: 30929308--30929370 Score: 56
Period size: 6 Copynumber: 10.2 Consensus size: 6
30929298 TTAATTTTCC
* * *
30929308 TATTAT TATTAT TATTAT TATTATT TATTTT TACTATTT TA-TTT TATTTT
1 TATTTT TATTTT TATTTT TATT-TT TATTTT TA-T-TTT TATTTT TATTTT
*
30929358 CATTTT TATTTT T
1 TATTTT TATTTT T
30929371 GCAGGAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
5 5 0.10
6 34 0.68
7 6 0.12
8 5 0.10
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (6 bp):
TATTTT
Found at i:30932892 original size:4 final size:4
Alignment explanation
Indices: 30932883--30932910 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
30932873 AAGTTTTATT
30932883 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
30932911 CTTAGTGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:30933117 original size:89 final size:89
Alignment explanation
Indices: 30932966--30933340 Score: 750
Period size: 89 Copynumber: 4.2 Consensus size: 89
30932956 GATGGGCTTA
30932966 AATCAAGAAAATCAAGATTCACTTCTTGTTTTCAAGAAAGTCAAGAAACCGAATCTTGGCCCAAT
1 AATCAAGAAAATCAAGATTCACTTCTTGTTTTCAAGAAAGTCAAGAAACCGAATCTTGGCCCAAT
30933031 TTTGTTGTTCGAAGCGATTTCAAG
66 TTTGTTGTTCGAAGCGATTTCAAG
30933055 AATCAAGAAAATCAAGATTCACTTCTTGTTTTCAAGAAAGTCAAGAAACCGAATCTTGGCCCAAT
1 AATCAAGAAAATCAAGATTCACTTCTTGTTTTCAAGAAAGTCAAGAAACCGAATCTTGGCCCAAT
30933120 TTTGTTGTTCGAAGCGATTTCAAG
66 TTTGTTGTTCGAAGCGATTTCAAG
30933144 AATCAAGAAAATCAAGATTCACTTCTTGTTTTCAAGAAAGTCAAGAAACCGAATCTTGGCCCAAT
1 AATCAAGAAAATCAAGATTCACTTCTTGTTTTCAAGAAAGTCAAGAAACCGAATCTTGGCCCAAT
30933209 TTTGTTGTTCGAAGCGATTTCAAG
66 TTTGTTGTTCGAAGCGATTTCAAG
30933233 AATCAAGAAAATCAAGATTCACTTCTTGTTTTCAAGAAAGTCAAGAAACCGAATCTTGGCCCAAT
1 AATCAAGAAAATCAAGATTCACTTCTTGTTTTCAAGAAAGTCAAGAAACCGAATCTTGGCCCAAT
30933298 TTTGTTGTTCGAAGCGATTTCAAG
66 TTTGTTGTTCGAAGCGATTTCAAG
30933322 AATCAAGAAAATCAAGATT
1 AATCAAGAAAATCAAGATT
30933341 TCAAATCTTG
Statistics
Matches: 286, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 286 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (89 bp):
AATCAAGAAAATCAAGATTCACTTCTTGTTTTCAAGAAAGTCAAGAAACCGAATCTTGGCCCAAT
TTTGTTGTTCGAAGCGATTTCAAG
Found at i:30935620 original size:50 final size:50
Alignment explanation
Indices: 30935540--30935639 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
30935530 TAAAGGAAAA
*
30935540 TTCGGCCAAGCATATATATGGGCTGTTTTTGGGCCGAATTTTACATGTAT
1 TTCGACCAAGCATATATATGGGCTGTTTTTGGGCCGAATTTTACATGTAT
*
30935590 TTCGACCAAGCATATATATGGGTTGTTTTTGGGCCGAATTTTACATGTAT
1 TTCGACCAAGCATATATATGGGCTGTTTTTGGGCCGAATTTTACATGTAT
30935640 GTTCCTAAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.39
Consensus pattern (50 bp):
TTCGACCAAGCATATATATGGGCTGTTTTTGGGCCGAATTTTACATGTAT
Found at i:30936069 original size:4 final size:4
Alignment explanation
Indices: 30936060--30936087 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
30936050 TATCACTAAG
30936060 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
30936088 AATAAAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:30939613 original size:23 final size:22
Alignment explanation
Indices: 30939562--30939613 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
30939552 CCTCGTCTTT
*
30939562 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
30939584 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
30939607 TTCTTTT
1 TTCTTTT
30939614 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:30940283 original size:10 final size:10
Alignment explanation
Indices: 30940267--30940324 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
30940257 CAACTCCGAC
30940267 CAGCTCAATT
1 CAGCTCAATT
* *
30940277 GAGCTCATTT
1 CAGCTCAATT
30940287 CAGCTCAA-T
1 CAGCTCAATT
30940296 CGAGCTCAATT
1 C-AGCTCAATT
*
30940307 TAGCTACAATT
1 CAGCT-CAATT
30940318 CAGCTCA
1 CAGCTCA
30940325 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:30940290 original size:20 final size:20
Alignment explanation
Indices: 30940267--30940327 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
30940257 CAACTCCGAC
30940267 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
30940287 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
30940308 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
30940328 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:30943042 original size:194 final size:194
Alignment explanation
Indices: 30942713--30943680 Score: 1695
Period size: 194 Copynumber: 5.0 Consensus size: 194
30942703 TGTGCGCGGA
30942713 AACTCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTATAAGACT
1 AACTCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTATAAGACT
* *
30942778 GCCTAAGAAAATTATTAGCAACTTATTATTAAGGGTCATAAGACAAGTTTGAGTCTTGGGGCATT
66 GCCTAAGAAAATTATTAGCAACTTATTATTAAGGGTCATAAGACAAGTTTCAGTCTTGGAGCATT
*
30942843 GAAACCATGTTATATGCACAAGTATCATCACCATCAAAAAAGCTTATTTCATTTTACAAACAGT
131 GAAACCATGTTATATGCACAAGTATCATCACCATCAAAAAAGCTTAATTCATTTTACAAACAGT
*
30942907 AACTCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACT
1 AACTCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTATAAGACT
*
30942972 GCCTAAGAAAATTTTTAGCAACTTATTATTAAGGGTCATAAGACAAGTTTCAGTCTTGGAGCATT
66 GCCTAAGAAAATTATTAGCAACTTATTATTAAGGGTCATAAGACAAGTTTCAGTCTTGGAGCATT
* *
30943037 GAAACCATGTTATATGCACAAGTATCATCACCATCAAAGAAGCTTAATTCATTTTACAAGCAGT
131 GAAACCATGTTATATGCACAAGTATCATCACCATCAAAAAAGCTTAATTCATTTTACAAACAGT
*
30943101 GACTCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTATAAGACT
1 AACTCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTATAAGACT
30943166 GCCTAAGAAAATTATTAGCAACTTATTATTAAGGGTCATAAGACAAGTTTCAGTCTTGGAGCATT
66 GCCTAAGAAAATTATTAGCAACTTATTATTAAGGGTCATAAGACAAGTTTCAGTCTTGGAGCATT
* * *
30943231 GAAACCATGTTATATGCACATGTATCATCACCATCAAAAAAGCTTAATTCGTTTTACAAACTGT
131 GAAACCATGTTATATGCACAAGTATCATCACCATCAAAAAAGCTTAATTCATTTTACAAACAGT
* *
30943295 AACTCCACTATAGCGAGCCCAACTAGCTCACATGGAACTTGACTTGTTTACACCACTATAAGACT
1 AACTCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTATAAGACT
* * *
30943360 GCCTAAGAAAATTATTAGCAACTTATTATTAAAGGTCATAAGACAAGTTTGAGTCTTGGGGCATT
66 GCCTAAGAAAATTATTAGCAACTTATTATTAAGGGTCATAAGACAAGTTTCAGTCTTGGAGCATT
* * * *
30943425 GAAACCATATTATATGCACATGTATCACCACCATCAAAGAAGCTTAATTCATTTTACAAACAGT
131 GAAACCATGTTATATGCACAAGTATCATCACCATCAAAAAAGCTTAATTCATTTTACAAACAGT
* * *
30943489 GACTCCACTATAGCGAGCCCAACAAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACT
1 AACTCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTATAAGACT
*
30943554 GCCTAAGAAAATTATTAGCAACTTATTATTAAGGGTCATAAGATAAGTTTCAGTCTTGGAGCATT
66 GCCTAAGAAAATTATTAGCAACTTATTATTAAGGGTCATAAGACAAGTTTCAGTCTTGGAGCATT
*
30943619 GAAACCATGTTATATGCACATA-TATCATCACCATCAAAAAAGCTTAATTCGTTTTACAAACA
131 GAAACCATGTTATATGCACA-AGTATCATCACCATCAAAAAAGCTTAATTCATTTTACAAACA
30943681 AGAAAATTAC
Statistics
Matches: 733, Mismatches: 40, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
194 733 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.29
Consensus pattern (194 bp):
AACTCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTATAAGACT
GCCTAAGAAAATTATTAGCAACTTATTATTAAGGGTCATAAGACAAGTTTCAGTCTTGGAGCATT
GAAACCATGTTATATGCACAAGTATCATCACCATCAAAAAAGCTTAATTCATTTTACAAACAGT
Found at i:30943775 original size:122 final size:122
Alignment explanation
Indices: 30943558--30943802 Score: 368
Period size: 122 Copynumber: 2.0 Consensus size: 122
30943548 AAGACTGCCT
* *
30943558 AAGAAAATTATTAGCAACTTATTATTAAGGGTCATAAGATAAGTTTCAGTCTTGGAGCATTGAAA
1 AAGAAAATTACTAGCAACTTATTATTAAGGGTCATAAGATAAGGTTCAGTCTTGGAGCATTGAAA
* * *
30943623 CCATGTTATATGCACATATATCATCACCATCAAAAAAGCTTAATTCGTTTTACAAAC
66 CCATATTATATGCACATATATCACCACCATCAAAAAAGCTTAATTCATTTTACAAAC
* *
30943680 AAGAAAATTACTAGCAACTTATTATTGAA-GGTCATAAGA-CAGGTTCGAGTCTTGGGGCATTGA
1 AAGAAAATTACTAGCAACTTATTATT-AAGGGTCATAAGATAAGGTTC-AGTCTTGGAGCATTGA
* * *
30943743 AACCATATTATATGCACATGTATCACCACCATCAAAGAAGTTTAATTCATTTTACAAAC
64 AACCATATTATATGCACATATATCACCACCATCAAAAAAGCTTAATTCATTTTACAAAC
30943802 A
1 A
30943803 GTGACTCCAC
Statistics
Matches: 111, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
121 5 0.05
122 104 0.94
123 2 0.02
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (122 bp):
AAGAAAATTACTAGCAACTTATTATTAAGGGTCATAAGATAAGGTTCAGTCTTGGAGCATTGAAA
CCATATTATATGCACATATATCACCACCATCAAAAAAGCTTAATTCATTTTACAAAC
Found at i:30943937 original size:316 final size:316
Alignment explanation
Indices: 30943364--30943996 Score: 1090
Period size: 316 Copynumber: 2.0 Consensus size: 316
30943354 AAGACTGCCT
* *
30943364 AAGAAAATTATTAGCAACTTATTATTAAAGGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAA
1 AAGAAAATTACTAGCAACTTATTATTAAAGGTCATAAGACAAGTTCGAGTCTTGGGGCATTGAAA
30943429 CCATATTATATGCACATGTATCACCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTC
66 CCATATTATATGCACATGTATCACCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTC
30943494 CACTATAGCGAGCCCAACAAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTA
131 CACTATAGCGAGCCCAACAAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTA
*
30943559 AGAAAATTATTAGCAACTTATTATTAAGGGTCATAAGATAAGTTTCAGTCTTGGAGCATTGAAAC
196 AGAAAATTATTAGCAACTTATTATTAAGGGTCATAAGATAAGGTTCAGTCTTGGAGCATTGAAAC
* * *
30943624 CATGTTATATGCACATATATCATCACCATCAAAAAAGCTTAATTCGTTTTACAAAC
261 CATATTATATGCACATATATCACCACCATCAAAAAAGCTTAATTCATTTTACAAAC
* *
30943680 AAGAAAATTACTAGCAACTTATTATTGAAGGTCATAAGACAGGTTCGAGTCTTGGGGCATTGAAA
1 AAGAAAATTACTAGCAACTTATTATTAAAGGTCATAAGACAAGTTCGAGTCTTGGGGCATTGAAA
*
30943745 CCATATTATATGCACATGTATCACCACCATCAAAGAAGTTTAATTCATTTTACAAACAGTGACTC
66 CCATATTATATGCACATGTATCACCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTC
*
30943810 CACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTA
131 CACTATAGCGAGCCCAACAAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTA
* * *
30943875 AGAAAATTTTTAGCAACTTATTATTGAA-GGTCATAAGA-CAGGTTCGAGTCTTGGGGCATTGAA
196 AGAAAATTATTAGCAACTTATTATT-AAGGGTCATAAGATAAGGTTC-AGTCTTGGAGCATTGAA
* * *
30943938 ACCATATTATATGCACATGTATCACCACCATCAAAGAAGTTTAATTCATTTTACAAAC
259 ACCATATTATATGCACATATATCACCACCATCAAAAAAGCTTAATTCATTTTACAAAC
30943996 A
1 A
30943997 GTGACTCCAC
Statistics
Matches: 299, Mismatches: 16, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
315 5 0.02
316 292 0.98
317 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (316 bp):
AAGAAAATTACTAGCAACTTATTATTAAAGGTCATAAGACAAGTTCGAGTCTTGGGGCATTGAAA
CCATATTATATGCACATGTATCACCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTC
CACTATAGCGAGCCCAACAAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTA
AGAAAATTATTAGCAACTTATTATTAAGGGTCATAAGATAAGGTTCAGTCTTGGAGCATTGAAAC
CATATTATATGCACATATATCACCACCATCAAAAAAGCTTAATTCATTTTACAAAC
Found at i:30944135 original size:510 final size:510
Alignment explanation
Indices: 30943170--30944190 Score: 1688
Period size: 510 Copynumber: 2.0 Consensus size: 510
30943160 AAGACTGCCT
* *
30943170 AAGAAAATTATTAGCAACTTATTATTAAGGGTCATAAGACAAGTTTCAGTCTTGGAGCATTGAAA
1 AAGAAAATTACTAGCAACTTATTATTAAGGGTCATAAGACAAGGTTCAGTCTTGGAGCATTGAAA
* * * *
30943235 CCATGTTATATGCACATGTATCATCACCATCAAAAAAGCTTAATTCGTTTTACAAACTGTAACTC
66 CCATATTATATGCACATGTATCACCACCATCAAAAAAGCTTAATTCATTTTACAAACAGTAACTC
*
30943300 CACTATAGCGAGCCCAACTAGCTCACATGGAACTTGACTTGTTTACACCACTATAAGACTGCCTA
131 CACTATAGCGAGCCCAACTAGCTCACATGGAACTTGACTTGTTTACACCACTAGAAGACTGCCTA
*
30943365 AGAAAATTATTAGCAACTTATTATTAAAGGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAAC
196 AGAAAATTATTAGCAACTTATTATTAAAGGTCATAAGACAAGTTCGAGTCTTGGGGCATTGAAAC
30943430 CATATTATATGCACATGTATCACCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCC
261 CATATTATATGCACATGTATCACCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCC
30943495 ACTATAGCGAGCCCAACAAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAA
326 ACTATAGCGAGCCCAACAAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAA
* * *
30943560 GAAAATTATTAGCAACTTATTATTAAGGGTCATAAGATAAGTTTCAGTCTTGGAGCATTGAAACC
391 GAAAATTACTAGCAACTTATTATTAAGGGTCATAAGACAAGTTTCAGTCTTGGAGCATGGAAACC
* * **
30943625 ATGTTATATGCACATATATCATCACCATCAAAAAAGCTTAATTCGTTTTACAAAC
456 ATGTTATATGCACATATATCATCAACATCAAAAAAGATTAATTAATTTTACAAAC
*
30943680 AAGAAAATTACTAGCAACTTATTATTGAA-GGTCATAAGAC-AGGTTCGAGTCTTGGGGCATTGA
1 AAGAAAATTACTAGCAACTTATTATT-AAGGGTCATAAGACAAGGTTC-AGTCTTGGAGCATTGA
* * *
30943743 AACCATATTATATGCACATGTATCACCACCATCAAAGAAGTTTAATTCATTTTACAAACAGTGAC
64 AACCATATTATATGCACATGTATCACCACCATCAAAAAAGCTTAATTCATTTTACAAACAGTAAC
* *
30943808 TCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCC
129 TCCACTATAGCGAGCCCAACTAGCTCACATGGAACTTGACTTGTTTACACCACTAGAAGACTGCC
* * *
30943873 TAAGAAAATTTTTAGCAACTTATTATTGAAGGTCATAAGACAGGTTCGAGTCTTGGGGCATTGAA
194 TAAGAAAATTATTAGCAACTTATTATTAAAGGTCATAAGACAAGTTCGAGTCTTGGGGCATTGAA
*
30943938 ACCATATTATATGCACATGTATCACCACCATCAAAGAAGTTTAATTCATTTTACAAACAGTGACT
259 ACCATATTATATGCACATGTATCACCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACT
* ** *
30944003 CCACTATAGCGAGCCCAACAAGCTCACATGTAACTTGACTTGTTTACACCCCTCGGGGGCTGCCT
324 CCACTATAGCGAGCCCAACAAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCT
* *
30944068 AAGAAAATTACTAGCAACTTATTATTGAA-GGTCATAAGACAAGTTTGAGTCTTGGGGCATGGAA
389 AAGAAAATTACTAGCAACTTATTATT-AAGGGTCATAAGACAAGTTTCAGTCTTGGAGCATGGAA
* * *
30944132 ACCATGTTATGTGCACATGTATCATCAACATCAAAGAAGATTAATTAATTTTACAAAC
453 ACCATGTTATATGCACATATATCATCAACATCAAAAAAGATTAATTAATTTTACAAAC
30944190 A
1 A
30944191 GTGACTCCAC
Statistics
Matches: 474, Mismatches: 34, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
509 5 0.01
510 465 0.98
511 4 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (510 bp):
AAGAAAATTACTAGCAACTTATTATTAAGGGTCATAAGACAAGGTTCAGTCTTGGAGCATTGAAA
CCATATTATATGCACATGTATCACCACCATCAAAAAAGCTTAATTCATTTTACAAACAGTAACTC
CACTATAGCGAGCCCAACTAGCTCACATGGAACTTGACTTGTTTACACCACTAGAAGACTGCCTA
AGAAAATTATTAGCAACTTATTATTAAAGGTCATAAGACAAGTTCGAGTCTTGGGGCATTGAAAC
CATATTATATGCACATGTATCACCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCC
ACTATAGCGAGCCCAACAAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAA
GAAAATTACTAGCAACTTATTATTAAGGGTCATAAGACAAGTTTCAGTCTTGGAGCATGGAAACC
ATGTTATATGCACATATATCATCAACATCAAAAAAGATTAATTAATTTTACAAAC
Found at i:30944324 original size:704 final size:704
Alignment explanation
Indices: 30942976--30944384 Score: 2290
Period size: 704 Copynumber: 2.0 Consensus size: 704
30942966 AAGACTGCCT
** *
30942976 AAGAAAATTTTTAGCAACTTATTATTAAGGGTCATAAGACAAGTTTCAGTCTTGGAGCATTGAAA
1 AAGAAAATTACTAGCAACTTATTATTAAGGGTCATAAGACAAGGTTCAGTCTTGGAGCATTGAAA
* * *
30943041 CCATGTTATATGCACAAGTATCATCACCATCAAAGAAGCTTAATTCATTTTACAAGCAGTGACTC
66 CCATATTATATGCACAAGTATCACCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTC
*
30943106 CACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTATAAGACTGCCTA
131 CACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTA
*
30943171 AGAAAATTATTAGCAACTTATTATTAAGGGTCATAAGACAAGTTTCAGTCTTGGAGCATTGAAAC
196 AGAAAATTATTAGCAACTTATTATTAAGGGTCATAAGACAAGGTTCAGTCTTGGAGCATTGAAAC
* * * *
30943236 CATGTTATATGCACATGTATCATCACCATCAAAAAAGCTTAATTCGTTTTACAAACTGTAACTCC
261 CATATTATATGCACATGTATCACCACCATCAAAAAAGCTTAATTCATTTTACAAACAGTAACTCC
* *
30943301 ACTATAGCGAGCCCAACTAGCTCACATGGAACTTGACTTGTTTACACCACTATAAGACTGCCTAA
326 ACTATAGCGAGCCCAACAAGCTCACATGGAACTTGACTTGTTTACACCACTAGAAGACTGCCTAA
* *
30943366 GAAAATTATTAGCAACTTATTATTAAAGGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACC
391 GAAAATTACTAGCAACTTATTATTAAAGGTCATAAGACAAGTTTGAGTCTTGGGGCATGGAAACC
* * *
30943431 ATATTATATGCACATGTATCACCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCA
456 ATATTATATGCACATGTATCACCAACATCAAAGAAGATTAATTAATTTTACAAACAGTGACTCCA
* * *
30943496 CTATAGCGAGCCCAACAAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAG
521 CTATAGCGAGCCCAACAAGCTCACATGGAACATGACTTGTTTACACCCCTAGAAGACAGCCTAAG
* *
30943561 AAAATTATTAGCAACTTATTATTAAGGGTCATAAGATAAGTTTCAGTCTTGGAGCATTGAAACCA
586 AAAATTATTAGCAACTTATTATTAAGGGTCATAAGACAAGTTTCAATCTTGGAGCATTGAAACCA
*
30943626 TGTTATATGCACATA-TATCATCACCATCAAAAAAGCTTAATTCGTTTTACAAAC
651 TGTTATATGCACA-AGTATCATCACCATCAAAAAAGCTTAATTCATTTTACAAAC
*
30943680 AAGAAAATTACTAGCAACTTATTATTGAA-GGTCATAAGAC-AGGTTCGAGTCTTGGGGCATTGA
1 AAGAAAATTACTAGCAACTTATTATT-AAGGGTCATAAGACAAGGTTC-AGTCTTGGAGCATTGA
* *
30943743 AACCATATTATATGCACATGTATCACCACCATCAAAGAAGTTTAATTCATTTTACAAACAGTGAC
64 AACCATATTATATGCACAAGTATCACCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGAC
30943808 TCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCC
129 TCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCC
* *
30943873 TAAGAAAATTTTTAGCAACTTATTATTGAA-GGTCATAAGAC-AGGTTCGAGTCTTGGGGCATTG
194 TAAGAAAATTATTAGCAACTTATTATT-AAGGGTCATAAGACAAGGTTC-AGTCTTGGAGCATTG
* * *
30943936 AAACCATATTATATGCACATGTATCACCACCATCAAAGAAGTTTAATTCATTTTACAAACAGTGA
257 AAACCATATTATATGCACATGTATCACCACCATCAAAAAAGCTTAATTCATTTTACAAACAGTAA
* * * ** *
30944001 CTCCACTATAGCGAGCCCAACAAGCTCACATGTAACTTGACTTGTTTACACCCCTCGGGGGCTGC
322 CTCCACTATAGCGAGCCCAACAAGCTCACATGGAACTTGACTTGTTTACACCACTAGAAGACTGC
*
30944066 CTAAGAAAATTACTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTGAGTCTTGGGGCATGGA
387 CTAAGAAAATTACTAGCAACTTATTATTAAAGGTCATAAGACAAGTTTGAGTCTTGGGGCATGGA
* * *
30944131 AACCATGTTATGTGCACATGTATCATCAACATCAAAGAAGATTAATTAATTTTACAAACAGTGAC
452 AACCATATTATATGCACATGTATCACCAACATCAAAGAAGATTAATTAATTTTACAAACAGTGAC
* *
30944196 TCCACTATAGCGAGCCCAACTAGCTCACATGGAACATGACTTGTTTACACCCCTAGAAGTCAGCC
517 TCCACTATAGCGAGCCCAACAAGCTCACATGGAACATGACTTGTTTACACCCCTAGAAGACAGCC
* *
30944261 TAAGAAAATTATTAGCAACTTATTATTGAA-GGTCATAAGACAAGTTTGAATCTTGGGGCATTGA
582 TAAGAAAATTATTAGCAACTTATTATT-AAGGGTCATAAGACAAGTTTCAATCTTGGAGCATTGA
*
30944325 AACCATGTTATATGCACAAGTATCATCACCATCAAAGAAGCTTAATTCATTTTACAAAC
646 AACCATGTTATATGCACAAGTATCATCACCATCAAAAAAGCTTAATTCATTTTACAAAC
30944384 A
1 A
30944385 GTGACTCCAC
Statistics
Matches: 651, Mismatches: 48, Indels: 12
0.92 0.07 0.02
Matches are distributed among these distances:
703 11 0.02
704 634 0.97
705 6 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (704 bp):
AAGAAAATTACTAGCAACTTATTATTAAGGGTCATAAGACAAGGTTCAGTCTTGGAGCATTGAAA
CCATATTATATGCACAAGTATCACCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTC
CACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTA
AGAAAATTATTAGCAACTTATTATTAAGGGTCATAAGACAAGGTTCAGTCTTGGAGCATTGAAAC
CATATTATATGCACATGTATCACCACCATCAAAAAAGCTTAATTCATTTTACAAACAGTAACTCC
ACTATAGCGAGCCCAACAAGCTCACATGGAACTTGACTTGTTTACACCACTAGAAGACTGCCTAA
GAAAATTACTAGCAACTTATTATTAAAGGTCATAAGACAAGTTTGAGTCTTGGGGCATGGAAACC
ATATTATATGCACATGTATCACCAACATCAAAGAAGATTAATTAATTTTACAAACAGTGACTCCA
CTATAGCGAGCCCAACAAGCTCACATGGAACATGACTTGTTTACACCCCTAGAAGACAGCCTAAG
AAAATTATTAGCAACTTATTATTAAGGGTCATAAGACAAGTTTCAATCTTGGAGCATTGAAACCA
TGTTATATGCACAAGTATCATCACCATCAAAAAAGCTTAATTCATTTTACAAAC
Found at i:30944518 original size:898 final size:898
Alignment explanation
Indices: 30942782--30944578 Score: 3046
Period size: 898 Copynumber: 2.0 Consensus size: 898
30942772 AAGACTGCCT
* *
30942782 AAGAAAATTATTAGCAACTTATTATTAAGGGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAA
1 AAGAAAATTACTAGCAACTTATTATTAAGGGTCATAAGACAAGTTCGAGTCTTGGGGCATTGAAA
* * *
30942847 CCATGTTATATGCACAAGTATCATCACCATCAAAAAAGCTTATTTCATTTTACAAACAGTAACTC
66 CCATATTATATGCACAAGTATCACCACCATCAAAAAAGCTTAATTCATTTTACAAACAGTAACTC
30942912 CACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTA
131 CACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTA
*
30942977 AGAAAATTTTTAGCAACTTATTATTAAGGGTCATAAGACAAGTTTCAGTCTTGGAGCATTGAAAC
196 AGAAAATTTTTAGCAACTTATTATTAAGGGTCATAAGACAAGGTTCAGTCTTGGAGCATTGAAAC
* * *
30943042 CATGTTATATGCACAAGTATCATCACCATCAAAGAAGCTTAATTCATTTTACAAGCAGTGACTCC
261 CATATTATATGCACAAGTATCACCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCC
* *
30943107 ACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTATAAGACTGCCTAA
326 ACTATAGCGAGCCCAACAAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAA
* *
30943172 GAAAATTATTAGCAACTTATTATTAAGGGTCATAAGACAAGTTTCAGTCTTGGAGCATTGAAACC
391 GAAAATTACTAGCAACTTATTATTAAGGGTCATAAGACAAGTTTCAGTCTTGGAGCATGGAAACC
* * ** *
30943237 ATGTTATATGCACATGTATCATCACCATCAAAAAAGCTTAATTCGTTTTACAAACTGTAACTCCA
456 ATGTTATATGCACATGTATCATCAACATCAAAAAAGATTAATTAATTTTACAAACAGTAACTCCA
* * *
30943302 CTATAGCGAGCCCAACTAGCTCACATGGAACTTGACTTGTTTACACCACTATAAGACTGCCTAAG
521 CTATAGCGAGCCCAACTAGCTCACATGGAACATGACTTGTTTACACCACTAGAAGACAGCCTAAG
*
30943367 AAAATTATTAGCAACTTATTATTAAAGGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCA
586 AAAATTATTAGCAACTTATTATTAAAGGTCATAAGACAAGTTTGAATCTTGGGGCATTGAAACCA
*
30943432 TATTATATGCACATGTATCACCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCAC
651 TATTATATGCACAAGTATCACCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCAC
30943497 TATAGCGAGCCCAACAAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGA
716 TATAGCGAGCCCAACAAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGA
*
30943562 AAATTATTAGCAACTTATTATTAAGGGTCATAAGATAAGTTTCAGTCTTGGAGCATTGAAACCAT
781 AAATTATTAGCAACTTATTATTAAGGGTCATAAGACAAGTTTCAGTCTTGGAGCATTGAAACCAT
30943627 GTTATATGCACATATATCATCACCATCAAAAAAGCTTAATTCGTTTTACAAAC
846 GTTATATGCACATATATCATCACCATCAAAAAAGCTTAATTCGTTTTACAAAC
*
30943680 AAGAAAATTACTAGCAACTTATTATTGAA-GGTCATAAGACAGGTTCGAGTCTTGGGGCATTGAA
1 AAGAAAATTACTAGCAACTTATTATT-AAGGGTCATAAGACAAGTTCGAGTCTTGGGGCATTGAA
* * * *
30943744 ACCATATTATATGCACATGTATCACCACCATCAAAGAAGTTTAATTCATTTTACAAACAGTGACT
65 ACCATATTATATGCACAAGTATCACCACCATCAAAAAAGCTTAATTCATTTTACAAACAGTAACT
30943809 CCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCT
130 CCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCT
*
30943874 AAGAAAATTTTTAGCAACTTATTATTGAA-GGTCATAAGAC-AGGTTCGAGTCTTGGGGCATTGA
195 AAGAAAATTTTTAGCAACTTATTATT-AAGGGTCATAAGACAAGGTTC-AGTCTTGGAGCATTGA
* *
30943937 AACCATATTATATGCACATGTATCACCACCATCAAAGAAGTTTAATTCATTTTACAAACAGTGAC
258 AACCATATTATATGCACAAGTATCACCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGAC
* ** *
30944002 TCCACTATAGCGAGCCCAACAAGCTCACATGTAACTTGACTTGTTTACACCCCTCGGGGGCTGCC
323 TCCACTATAGCGAGCCCAACAAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCC
* *
30944067 TAAGAAAATTACTAGCAACTTATTATTGAA-GGTCATAAGACAAGTTTGAGTCTTGGGGCATGGA
388 TAAGAAAATTACTAGCAACTTATTATT-AAGGGTCATAAGACAAGTTTCAGTCTTGGAGCATGGA
* * *
30944131 AACCATGTTATGTGCACATGTATCATCAACATCAAAGAAGATTAATTAATTTTACAAACAGTGAC
452 AACCATGTTATATGCACATGTATCATCAACATCAAAAAAGATTAATTAATTTTACAAACAGTAAC
* *
30944196 TCCACTATAGCGAGCCCAACTAGCTCACATGGAACATGACTTGTTTACACCCCTAGAAGTCAGCC
517 TCCACTATAGCGAGCCCAACTAGCTCACATGGAACATGACTTGTTTACACCACTAGAAGACAGCC
*
30944261 TAAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTGAATCTTGGGGCATTGAA
582 TAAGAAAATTATTAGCAACTTATTATTAAAGGTCATAAGACAAGTTTGAATCTTGGGGCATTGAA
* *
30944326 ACCATGTTATATGCACAAGTATCATCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACT
647 ACCATATTATATGCACAAGTATCACCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACT
* * *
30944391 CCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTTGAAGACTGCTT
712 CCACTATAGCGAGCCCAACAAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCT
*
30944456 AAGAAAATTATTAGCAACTTATTATTAAGGGTCATAAGACAAGTTT-ATGTCTTGGGGCATTGAA
777 AAGAAAATTATTAGCAACTTATTATTAAGGGTCATAAGACAAGTTTCA-GTCTTGGAGCATTGAA
* *
30944520 ACCATGTTATATGCACATGTATCATCACCATCAAAAAAGGTTAATTCGTTTTACAAAC
841 ACCATGTTATATGCACATATATCATCACCATCAAAAAAGCTTAATTCGTTTTACAAAC
30944578 A
1 A
30944579 GTAACTCCAC
Statistics
Matches: 842, Mismatches: 52, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
897 6 0.01
898 830 0.99
899 6 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (898 bp):
AAGAAAATTACTAGCAACTTATTATTAAGGGTCATAAGACAAGTTCGAGTCTTGGGGCATTGAAA
CCATATTATATGCACAAGTATCACCACCATCAAAAAAGCTTAATTCATTTTACAAACAGTAACTC
CACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTA
AGAAAATTTTTAGCAACTTATTATTAAGGGTCATAAGACAAGGTTCAGTCTTGGAGCATTGAAAC
CATATTATATGCACAAGTATCACCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCC
ACTATAGCGAGCCCAACAAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAA
GAAAATTACTAGCAACTTATTATTAAGGGTCATAAGACAAGTTTCAGTCTTGGAGCATGGAAACC
ATGTTATATGCACATGTATCATCAACATCAAAAAAGATTAATTAATTTTACAAACAGTAACTCCA
CTATAGCGAGCCCAACTAGCTCACATGGAACATGACTTGTTTACACCACTAGAAGACAGCCTAAG
AAAATTATTAGCAACTTATTATTAAAGGTCATAAGACAAGTTTGAATCTTGGGGCATTGAAACCA
TATTATATGCACAAGTATCACCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCAC
TATAGCGAGCCCAACAAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGA
AAATTATTAGCAACTTATTATTAAGGGTCATAAGACAAGTTTCAGTCTTGGAGCATTGAAACCAT
GTTATATGCACATATATCATCACCATCAAAAAAGCTTAATTCGTTTTACAAAC
Found at i:30945064 original size:194 final size:194
Alignment explanation
Indices: 30943680--30945063 Score: 2251
Period size: 194 Copynumber: 7.1 Consensus size: 194
30943670 TTTTACAAAC
* *
30943680 AAGAAAATTACTAGCAACTTATTATTGAAGGTCATAAGAC-AGGTTCGAGTCTTGGGGCATTGAA
1 AAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTC-AGTCTTGGGGCATTGAA
* * *
30943744 ACCATATTATATGCACATGTATCACCACCATCAAAGAAGTTTAATTCATTTTACAAACAGTGACT
65 ACCATGTTATATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACT
30943809 CCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCT
130 CCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCT
* *
30943874 AAGAAAATTTTTAGCAACTTATTATTGAAGGTCATAAGAC-AGGTTCGAGTCTTGGGGCATTGAA
1 AAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTC-AGTCTTGGGGCATTGAA
* * *
30943938 ACCATATTATATGCACATGTATCACCACCATCAAAGAAGTTTAATTCATTTTACAAACAGTGACT
65 ACCATGTTATATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACT
* * ** *
30944003 CCACTATAGCGAGCCCAACAAGCTCACATGTAACTTGACTTGTTTACACCCCTCGGGGGCTGCCT
130 CCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCT
* * *
30944068 AAGAAAATTACTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTGAGTCTTGGGGCATGGAAA
1 AAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTCAGTCTTGGGGCATTGAAA
* * * *
30944133 CCATGTTATGTGCACATGTATCATCAACATCAAAGAAGATTAATTAATTTTACAAACAGTGACTC
66 CCATGTTATATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTC
* * * *
30944198 CACTATAGCGAGCCCAACTAGCTCACATGGAACATGACTTGTTTACACCCCTAGAAGTCAGCCT
131 CACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCT
* *
30944262 AAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTGAATCTTGGGGCATTGAAA
1 AAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTCAGTCTTGGGGCATTGAAA
*
30944327 CCATGTTATATGCACAAGTATCATCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTC
66 CCATGTTATATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTC
* *
30944392 CACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTTGAAGACTGCTT
131 CACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCT
30944456 AAGAAAATTATTAGCAACTTATTATT-AAGGGTCATAAGACAAGTTT-ATGTCTTGGGGCATTGA
1 AAGAAAATTATTAGCAACTTATTATTGAA-GGTCATAAGACAAGTTTCA-GTCTTGGGGCATTGA
* * * *
30944519 AACCATGTTATATGCACATGTATCATCACCATCAAAAAAGGTTAATTCGTTTTACAAACAGTAAC
64 AACCATGTTATATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGAC
* *
30944584 TCCACTGTAGCGAGCCCAACTAGCTCACATGGAACTTGACTTGTTTACACCCCTAGAAGACTGCC
129 TCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCC
30944649 T
194 T
*
30944650 AAGAAAATTTTTAGCAACTTATTATT-AAGTGTCATAAGACAAGTTT-ATGTCTTGGGGCATTGA
1 AAGAAAATTATTAGCAACTTATTATTGAAG-GTCATAAGACAAGTTTCA-GTCTTGGGGCATTGA
*
30944713 AAACATGTTATATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGAC
64 AACCATGTTATATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGAC
* * **
30944778 TCCACTATAGCGAGCCCAACTAGCTCACATGGAACTTGACTTGTTTACACCCCTAGAAGTCAACC
129 TCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCC
30944843 T
194 T
*
30944844 AAGAAAATTATTAGCAACTTATTATT-AGGGGTCATAAGACAAGTTTCAGTCTTGGGGCATTGAA
1 AAGAAAATTATTAGCAACTTATTATTGA-AGGTCATAAGACAAGTTTCAGTCTTGGGGCATTGAA
*
30944908 ACCATGTTATATGCACAAGTATCATCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACT
65 ACCATGTTATATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACT
30944973 CCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCT
130 CCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCT
30945038 AAGAAAATTATTAGCAACTTATTATT
1 AAGAAAATTATTAGCAACTTATTATT
30945064 AANNNNNNNN
Statistics
Matches: 1116, Mismatches: 68, Indels: 12
0.93 0.06 0.01
Matches are distributed among these distances:
193 4 0.00
194 1106 0.99
195 6 0.01
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (194 bp):
AAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTCAGTCTTGGGGCATTGAAA
CCATGTTATATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTC
CACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCT
Found at i:30947805 original size:19 final size:18
Alignment explanation
Indices: 30947769--30947808 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
30947759 TTTTCACTCG
*
30947769 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
30947787 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
30947806 TTT
1 TTT
30947809 GTTTGTTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:30948890 original size:14 final size:14
Alignment explanation
Indices: 30948871--30949306 Score: 872
Period size: 14 Copynumber: 31.1 Consensus size: 14
30948861 ACTAGCTCTC
30948871 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30948885 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30948899 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30948913 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30948927 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30948941 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30948955 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30948969 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30948983 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30948997 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30949011 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30949025 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30949039 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30949053 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30949067 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30949081 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30949095 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30949109 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30949123 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30949137 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30949151 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30949165 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30949179 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30949193 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30949207 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30949221 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30949235 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30949249 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30949263 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30949277 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30949291 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
30949305 TT
1 TT
30949307 CATCAACACG
Statistics
Matches: 422, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 422 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTTTTTTCACAA
Found at i:30950034 original size:23 final size:22
Alignment explanation
Indices: 30949983--30950034 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
30949973 CCACGTCTTT
*
30949983 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
30950005 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
30950028 TTCTTTT
1 TTCTTTT
30950035 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:30953323 original size:6 final size:6
Alignment explanation
Indices: 30953303--30953398 Score: 52
Period size: 6 Copynumber: 15.7 Consensus size: 6
30953293 ATAGAAATTG
* ** * *
30953303 AAAG-A AAACAA AAAGAA AAAGAA ATTGCA AAAGAA AAAGAA ATCA-AA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA A-AAGAA
** * * *
30953350 AAAGTG AGAGAA AAAGAA AATGAAGA AAAGAA AATTGAA AAAGAA AAAG
1 AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA AAAGAA AAAG
30953399 CGAAAAAAGA
Statistics
Matches: 65, Mismatches: 20, Indels: 11
0.68 0.21 0.11
Matches are distributed among these distances:
5 4 0.06
6 49 0.75
7 8 0.12
8 4 0.06
ACGTcount: A:0.72, C:0.03, G:0.18, T:0.07
Consensus pattern (6 bp):
AAAGAA
Found at i:30953353 original size:18 final size:17
Alignment explanation
Indices: 30953303--30953351 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
30953293 ATAGAAATTG
*
30953303 AAAGAAAACAAAAAGAA
1 AAAGAAATCAAAAAGAA
30953320 AAAGAAATTGC-AAAAGAA
1 AAAGAAA-T-CAAAAAGAA
30953338 AAAGAAATCAAAAA
1 AAAGAAATCAAAAA
30953352 AGTGAGAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 1 0.04
17 12 0.43
18 14 0.50
19 1 0.04
ACGTcount: A:0.76, C:0.06, G:0.12, T:0.06
Consensus pattern (17 bp):
AAAGAAATCAAAAAGAA
Found at i:30953378 original size:14 final size:13
Alignment explanation
Indices: 30953359--30953396 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
30953349 AAAAGTGAGA
30953359 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
30953371 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
30953386 GAAAAAGAAAA
1 GAAAAAGAAAA
30953397 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:30953410 original size:21 final size:21
Alignment explanation
Indices: 30953360--30953410 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
30953350 AAAGTGAGAG
*
30953360 AAAAAGAAAATGAAGAAAAGA
1 AAAAAGAAAAAGAAGAAAAGA
** *
30953381 AAATTGAAAAAGAA-AAAGCGA
1 AAAAAGAAAAAGAAGAAA-AGA
30953402 AAAAAGAAA
1 AAAAAGAAA
30953411 TTGAAAGAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.06
Consensus pattern (21 bp):
AAAAAGAAAAAGAAGAAAAGA
Found at i:30953463 original size:33 final size:32
Alignment explanation
Indices: 30953413--30953474 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
30953403 AAAAGAAATT
*
30953413 GAAAGAGAGCTTGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGCTTAAAAAGAAA-CAAGTGAAAAA
*
30953446 GAAAGAGAG-TCTAAAAAGAAACGAGTGAA
1 GAAAGAGAGCT-TAAAAAGAAACAAGTGAA
30953475 GTGAGTAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 8 0.31
33 18 0.69
ACGTcount: A:0.56, C:0.06, G:0.26, T:0.11
Consensus pattern (32 bp):
GAAAGAGAGCTTAAAAAGAAACAAGTGAAAAA
Found at i:30956324 original size:63 final size:63
Alignment explanation
Indices: 30956225--30956350 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
30956215 TACAAAATCG
*
30956225 AACAAACTTCTCGTCGACGATTGGGCAATCAAGTGAATCGACTCAATCAACCGAGCCGGATCA
1 AACAAACTTCTCGTCGACGATCGGGCAATCAAGTGAATCGACTCAATCAACCGAGCCGGATCA
*
30956288 AACAAACTTCTCGTCGACGATCGGGCAATCAAGTGAATCGACTCAATCAACTGAGCCGGATCA
1 AACAAACTTCTCGTCGACGATCGGGCAATCAAGTGAATCGACTCAATCAACCGAGCCGGATCA
30956351 CATCATTTGG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (63 bp):
AACAAACTTCTCGTCGACGATCGGGCAATCAAGTGAATCGACTCAATCAACCGAGCCGGATCA
Found at i:30962176 original size:14 final size:15
Alignment explanation
Indices: 30962150--30962182 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
30962140 TCCCAAGCTG
30962150 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
30962165 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
30962179 GGAA
1 GGAA
30962183 AAGCGTCGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:30963658 original size:88 final size:88
Alignment explanation
Indices: 30963509--30963696 Score: 304
Period size: 88 Copynumber: 2.1 Consensus size: 88
30963499 TGAAGATAAC
* * * *
30963509 AGATCTTGCCTTCTTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCTTCCCTGGGTTG
1 AGATCTTGCCTTCGTACACCGACAGCGAAGCAGATCGAAGACAACAACCTTGCCTCCCTGGGTTG
* *
30963574 TAGCGGAGCAGGTTAAAAATAGT
66 CAGCGAAGCAGGTTAAAAATAGT
* *
30963597 AGATCTTGCCTTCGTACACCGACAGCGAAGCAGATCGAAGACAATAGCCTTGCCTCCCTGGGTTG
1 AGATCTTGCCTTCGTACACCGACAGCGAAGCAGATCGAAGACAACAACCTTGCCTCCCTGGGTTG
30963662 CAGCGAAGCAGGTTAAAAATAGT
66 CAGCGAAGCAGGTTAAAAATAGT
30963685 AGATCTTGCCTT
1 AGATCTTGCCTT
30963697 TCAACACCGA
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 92 1.00
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (88 bp):
AGATCTTGCCTTCGTACACCGACAGCGAAGCAGATCGAAGACAACAACCTTGCCTCCCTGGGTTG
CAGCGAAGCAGGTTAAAAATAGT
Found at i:30963693 original size:44 final size:44
Alignment explanation
Indices: 30963557--30963695 Score: 109
Period size: 44 Copynumber: 3.2 Consensus size: 44
30963547 AGACACCAAC
* * *
30963557 CTTGCTTCCCTGGGTTGTAGCGGAGCAGGTTAAAAATAGTAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGTAGAT
* * ***** * ** * * * *
30963601 CTTGCCTTCGTACACCGACAGCGAAGCAGATCGAAGACAATAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGAAGCAGGTTAAAAATAGTAGAT
30963645 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGTAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGTAGAT
30963689 CTTGCCT
1 CTTGCCT
30963696 TTCAACACCG
Statistics
Matches: 62, Mismatches: 31, Indels: 4
0.64 0.32 0.04
Matches are distributed among these distances:
43 19 0.31
44 26 0.42
45 17 0.27
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (44 bp):
CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGTAGAT
Found at i:30963940 original size:88 final size:88
Alignment explanation
Indices: 30963715--30964076 Score: 416
Period size: 88 Copynumber: 4.2 Consensus size: 88
30963705 GATCTGTTTC
* * * * *
30963715 GCCTTGCCTCCCAGGGTTGCAGCGGAGCAGGTTAAAAATTA-CTGATCTTACCTTCCTGTATCGA
1 GCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAA-TAGCAGATCTTGCCTTCCTGCACCGA
* *
30963779 CAGTGAAACAGATCGAAGACACCA
65 CAGCGAAGCAGATCGAAGACACCA
*
30963803 GCCTTTGCCTCCCTGGGTTG--TC---GCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGA
1 GCC-TTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGA
30963863 CAGCGAAGCAGATCGAAGACACCA
65 CAGCGAAGCAGATCGAAGACACCA
* * * * * *
30963887 ACCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTAAAACTAGCAGATCTTGCCTTCTTGTACCGAC
1 GCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
* *
30963952 AAG-GAAGTAGATCGAAAACACCA
66 -AGCGAAGCAGATCGAAGACACCA
* * * * *
30963975 GCCTTGCCTCCCTGGGTTGCAGCGGAGCAAGTTAAAAATAGAAAATCTTGCCTTCTTGCACCGAT
1 GCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
* *
30964040 AGCGAAGCAGATCGATGACCCCA
66 AGCGAAGCAGATCGAAGACACCA
*
30964063 GTCCTT-TCTCCCTG
1 G-CCTTGCCTCCCTG
30964077 ACAGCAATGG
Statistics
Matches: 234, Mismatches: 30, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
83 18 0.08
84 55 0.24
87 3 0.01
88 137 0.59
89 21 0.09
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (88 bp):
GCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
AGCGAAGCAGATCGAAGACACCA
Found at i:30964136 original size:44 final size:44
Alignment explanation
Indices: 30964062--30964185 Score: 144
Period size: 44 Copynumber: 2.8 Consensus size: 44
30964052 CGATGACCCC
* * * *
30964062 AGTCCTTTCTCCCTGACAGCAATGGAATAGGTTGAATATTGT-A
1 AGTCCTATCTCCCTGGCAGCAGTGGAATAGGTTGAAGATTGTGA
*
30964105 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGA
1 AGTCCTATCTCCCTGG-CAGCAGTGGAATAGGTTGAAGATTGTGA
* * *
30964150 A-TCCTATCTCACTGAGCAACAGTGGAGTAGGTTGAA
1 AGTCCTATCTCCCTG-GCAGCAGTGGAATAGGTTGAA
30964186 AATAGCAGAT
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
43 14 0.20
44 52 0.75
45 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (44 bp):
AGTCCTATCTCCCTGGCAGCAGTGGAATAGGTTGAAGATTGTGA
Found at i:30964604 original size:44 final size:43
Alignment explanation
Indices: 30964549--30964976 Score: 237
Period size: 44 Copynumber: 9.9 Consensus size: 43
30964539 GAAGATGGCG
*
30964549 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TAAT
* * * * * * * *
30964593 AATCCTATCTCCCTAAAGTCGTAGTGGAGCGGATTAAAATCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAAT
* * * * *
30964636 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCACA-T-CT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAAT
* ** *
30964677 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCT-AAGTAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAA-T
* * * * * ***
30964720 AAGCCTTATC-CTCTTGAAGTTGTAGT-GAGGCAGACTGAAGATGGCG
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAG-T-AAT
*
30964766 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TAAT
* ** *
30964810 AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCACAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT-A-AT
* ** *** **
30964855 -ATCTTATCTCTCTGAAGTTGCAG-AAAGCAGATCGCA-T-CG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAAT
** * * *
30964894 GGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAAT
* * * *
30964937 CAAGTCTTATCCCCCTGAAATTGCAGTGGGGCAGACTAAA
1 -AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
30964977 TAAACAAATC
Statistics
Matches: 285, Mismatches: 78, Indels: 41
0.71 0.19 0.10
Matches are distributed among these distances:
40 43 0.15
41 15 0.05
42 2 0.01
43 22 0.08
44 133 0.47
45 64 0.22
46 6 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAAT
Found at i:30964909 original size:217 final size:218
Alignment explanation
Indices: 30964534--30964973 Score: 693
Period size: 217 Copynumber: 2.0 Consensus size: 218
30964524 GTAATTTAAA
* *
30964534 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTAATAATCCT
1 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
* *
30964599 ATCTCCCTAAAGTCGTAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
66 ATCTCCCTAAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAAA
* * *
30964664 GCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCT-AAGTAAGCAAGCCTTA
131 GCAGATCACATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGCCTTA
* * * *
30964728 TCCTCTTGAAGTTGTAGTGAGGC
196 TCCCCCTGAAATTGCAGTGAGGC
30964751 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
1 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
* * * *
30964816 ATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCACATATCTTATCTCTCTGAAGTTGCAGAAA
66 ATCTCCCTAAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAAA
* * * *
30964881 GCAGATCGCATCGGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATCAAGTCTTA
131 GCAGATCACATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGCCTTA
*
30964946 TCCCCCTGAAATTGCAGTGGGGC
196 TCCCCCTGAAATTGCAGTGAGGC
30964969 AGACT
1 AGACT
30964974 AAATAAACAA
Statistics
Matches: 202, Mismatches: 20, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
217 166 0.82
218 36 0.18
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (218 bp):
AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
ATCTCCCTAAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAAA
GCAGATCACATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGCCTTA
TCCCCCTGAAATTGCAGTGAGGC
Found at i:30964995 original size:217 final size:217
Alignment explanation
Indices: 30964555--30965020 Score: 639
Period size: 217 Copynumber: 2.1 Consensus size: 217
30964545 GGCGAATCTT
* *
30964555 ATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTAATAATCCTATCTCCCTAAAGTCGTAGTGG
1 ATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTAAAGTCGCAGTGG
* *
30964620 AGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACATCTAGTCTTAT
66 AGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAAAGCAGATCACATCGAGTCTTAT
* * * * * *
30964685 CTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAGCCTTATCCTCTTGAAGTTGTAGTGAGG
131 CTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAGCAAGCCTTATCCCCCTGAAATTGCAGTGAGG
** * **
30964750 CAGACTGAAGATGGCGAATCTT
196 CAGACTGAAGATAACAAATCCC
* * *
30964772 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTGG
1 ATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTAAAGTCGCAGTGG
* * * *
30964837 AGTGGATTAAAATCACATATCTTATCTCTCTGAAGTTGCAGAAAGCAGATCGCATCGGGTCTTAT
66 AGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAAAGCAGATCACATCGAGTCTTAT
* * *
30964902 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATCAAGTCTTATCCCCCTGAAATTGCAGTGGG
131 CTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAAGCAAGCCTTATCCCCCTGAAATTGCAGTGAG
30964967 GCAGACT-AA-ATAAACAAATCCC
195 GCAGACTGAAGAT-AACAAATCCC
* * **
30964989 ATCTCCCTAAATTTGTAGTGGAGTGGATTAAA
1 ATCTCCCTGAAGTTGTAGTGGAGCAGATTAAA
30965021 ATCTCTCTAA
Statistics
Matches: 217, Mismatches: 30, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
216 2 0.01
217 179 0.82
218 36 0.17
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (217 bp):
ATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTAAAGTCGCAGTGG
AGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAAAGCAGATCACATCGAGTCTTAT
CTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAGCAAGCCTTATCCCCCTGAAATTGCAGTGAGG
CAGACTGAAGATAACAAATCCC
Found at i:30965534 original size:17 final size:19
Alignment explanation
Indices: 30965512--30966372 Score: 335
Period size: 19 Copynumber: 45.4 Consensus size: 19
30965502 TACGGAAACA
30965512 TAATCTT-CA-AGGATATG
1 TAATCTTACATAGGATATG
* *
30965529 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* *
30965548 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* ** * *
30965567 CAGCCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* *
30965586 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* *
30965605 CAATCTTAGA-A-GATATGTG
1 TAATCTTACATAGGATA--TG
* *
30965624 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* ** * *
30965643 CAGCCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* *
30965662 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* ** * *
30965681 CAGCCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* *
30965700 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* ** * *
30965719 CAGCCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* *
30965738 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* ** * *
30965757 CAGCCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* *
30965776 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* ** * *
30965795 CAGCCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* *
30965814 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* ** * *
30965833 CAGCCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* *
30965852 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* ** * *
30965871 CAGCCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* *
30965890 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* ** * *
30965909 CAGCCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* *
30965928 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* ** * *
30965947 CAGCCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* *
30965966 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* ** * *
30965985 CAGCCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* *
30966004 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* ** * *
30966023 CAGCCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* *
30966042 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* ** * *
30966061 CAGCCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* *
30966080 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* ** * *
30966099 CAGCCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* *
30966118 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* ** * *
30966137 CAGCCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* *
30966156 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* ** * *
30966175 CAGCCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* *
30966194 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* ** * *
30966213 CAGCCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* *
30966232 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* ** * *
30966251 CAGCCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* *
30966270 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* ** * *
30966289 CAGCCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* *
30966308 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* ** * *
30966327 CAGCCTTAGATATGATATG
1 TAATCTTACATAGGATATG
* *
30966346 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
*
30966365 CAATCTTA
1 TAATCTTA
30966373 GAAGATATGA
Statistics
Matches: 713, Mismatches: 125, Indels: 10
0.84 0.15 0.01
Matches are distributed among these distances:
17 11 0.02
18 2 0.00
19 695 0.97
20 1 0.00
21 4 0.01
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.37
Consensus pattern (19 bp):
TAATCTTACATAGGATATG
Found at i:30966374 original size:38 final size:38
Alignment explanation
Indices: 30965533--30966366 Score: 1618
Period size: 38 Copynumber: 21.9 Consensus size: 38
30965523 GATATGTAAT
30965533 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
1 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
**
30965571 CTTAGATATGATATGTAATCTTAGATATGATATGCAAT
1 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
30965609 CTTAGA-A-GATATGTGTAATCTTAGATATGATATGCAGC
1 CTTAGATATGATA--TGTAATCTTAGATATGATATGCAGC
30965647 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
1 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
30965685 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
1 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
30965723 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
1 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
30965761 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
1 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
30965799 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
1 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
30965837 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
1 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
30965875 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
1 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
30965913 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
1 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
30965951 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
1 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
30965989 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
1 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
30966027 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
1 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
30966065 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
1 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
30966103 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
1 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
30966141 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
1 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
30966179 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
1 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
30966217 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
1 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
30966255 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
1 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
30966293 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
1 CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
30966331 CTTAGATATGATATGTAATCTTAGATATGATATGCA
1 CTTAGATATGATATGTAATCTTAGATATGATATGCA
30966367 ATCTTAGAAG
Statistics
Matches: 788, Mismatches: 4, Indels: 8
0.99 0.00 0.01
Matches are distributed among these distances:
36 4 0.01
37 1 0.00
38 778 0.99
39 1 0.00
40 4 0.01
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.37
Consensus pattern (38 bp):
CTTAGATATGATATGTAATCTTAGATATGATATGCAGC
Found at i:30976673 original size:43 final size:43
Alignment explanation
Indices: 30976620--30976749 Score: 161
Period size: 43 Copynumber: 3.0 Consensus size: 43
30976610 TAAAAATCAT
* * *
30976620 TCTTATAGCGGTGTTTGTGGTAGACGCGTCACTAAAGGTTATGA
1 TCTT-TAGCGGCGTTTGTGGTAGAAGCGTCACTAAAGGTCATGA
* *
30976664 TTTTTAGCGGCGTTTGTGGTAGAAGCGTCGCTAAAGGTCATGA
1 TCTTTAGCGGCGTTTGTGGTAGAAGCGTCACTAAAGGTCATGA
* * * * *
30976707 TCTTTAGCGGCGTTTGCGGAAGAAGCGCCGCTAAAGGCCATGA
1 TCTTTAGCGGCGTTTGTGGTAGAAGCGTCACTAAAGGTCATGA
30976750 CTTAGTGGTG
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
43 73 0.96
44 3 0.04
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTGTGGTAGAAGCGTCACTAAAGGTCATGA
Found at i:30977144 original size:56 final size:58
Alignment explanation
Indices: 30977074--30977242 Score: 159
Period size: 56 Copynumber: 3.1 Consensus size: 58
30977064 AGTAAAAAAA
**
30977074 AACTTTGGACCATAACTTATTTAACTTACATAA-TACATAATA-AT-ATATCATATCAT
1 AACTTTGGACCATAACTTACATAACTTACATAACTACATAATACATAATAT-ATATCAT
*
30977130 AACTTTGGATCATAACTTACATAACTTACATAACTTACATAATACATAAATATATATCAT
1 AACTTTGGACCATAACTTACATAACTTACATAAC-TACATAATACAT-AATATATATCAT
* *
30977190 -A---T----CATAACTTACATAACTTACATAACT-TA-AATA-AAAATATTATATCAT
1 AACTTTGGACCATAACTTACATAACTTACATAACTACATAATACATAATA-TATATCAT
30977238 AACTT
1 AACTT
30977243 ATATAAAAAT
Statistics
Matches: 98, Mismatches: 5, Indels: 24
0.77 0.04 0.19
Matches are distributed among these distances:
47 4 0.04
48 9 0.09
49 5 0.05
50 1 0.01
51 1 0.01
52 24 0.24
56 31 0.32
58 9 0.09
59 3 0.03
60 7 0.07
61 4 0.04
ACGTcount: A:0.46, C:0.16, G:0.02, T:0.36
Consensus pattern (58 bp):
AACTTTGGACCATAACTTACATAACTTACATAACTACATAATACATAATATATATCAT
Found at i:30977154 original size:9 final size:9
Alignment explanation
Indices: 30977140--30977223 Score: 93
Period size: 9 Copynumber: 9.6 Consensus size: 9
30977130 AACTTTGGAT
30977140 CATAACTTA
1 CATAACTTA
30977149 CATAACTTA
1 CATAACTTA
30977158 CATAACTTA
1 CATAACTTA
30977167 CATAA--TA
1 CATAACTTA
*
30977174 CATAA-ATA
1 CATAACTTA
* * *
30977182 TATATCATA
1 CATAACTTA
30977191 TCATAACTTA
1 -CATAACTTA
30977201 CATAACTTA
1 CATAACTTA
30977210 CATAACTTA
1 CATAACTTA
*
30977219 AATAA
1 CATAA
30977224 AAATATTATA
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
7 7 0.11
8 5 0.08
9 48 0.73
10 6 0.09
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:30977164 original size:65 final size:61
Alignment explanation
Indices: 30977084--30977223 Score: 201
Period size: 65 Copynumber: 2.2 Consensus size: 61
30977074 AACTTTGGAC
**
30977084 CATAACTTATTTAACTTACATAATACAT-AATAATATATCATATCATAACTTTGGATCATAACTT
1 CATAACTTAAATAACTTACATAATACATAAAT-ATATATCATATCATAAC-TT--A-CATAACTT
30977148 A
61 A
*
30977149 CATAACTTACATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACTTA
1 CATAACTTAAATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACTTA
30977210 CATAACTTAAATAA
1 CATAACTTAAATAA
30977224 AAATATTATA
Statistics
Matches: 71, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
61 22 0.31
62 1 0.01
64 2 0.03
65 43 0.61
66 3 0.04
ACGTcount: A:0.46, C:0.16, G:0.01, T:0.36
Consensus pattern (61 bp):
CATAACTTAAATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACTTA
Found at i:30977202 original size:43 final size:42
Alignment explanation
Indices: 30977149--30977248 Score: 139
Period size: 43 Copynumber: 2.3 Consensus size: 42
30977139 TCATAACTTA
*
30977149 CATAACTTACATAACTTACATAA-TACATAAATATATATCATAT
1 CATAACTTACATAACTTACATAACTAAATAAA-A-ATATCATAT
*
30977192 CATAACTTACATAACTTACATAACTTAAATAAAAATATTATAT
1 CATAACTTACATAACTTACATAAC-TAAATAAAAATATCATAT
*
30977235 CATAACTTATATAA
1 CATAACTTACATAA
30977249 AAATTTGGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
43 44 0.85
44 1 0.02
45 7 0.13
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (42 bp):
CATAACTTACATAACTTACATAACTAAATAAAAATATCATAT
Found at i:30977260 original size:24 final size:25
Alignment explanation
Indices: 30977210--30977274 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
30977200 ACATAACTTA
* *
30977210 CATAACTTAAATAAAAATATTATAT
1 CATAACTTATATAAAAATATTAGAT
*
30977235 CATAACTTATATAAAAAT-TTGGAT
1 CATAACTTATATAAAAATATTAGAT
*
30977259 CA-AA-ATATATAAAAAT
1 CATAACTTATATAAAAAT
30977275 CACATAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 11 0.31
23 2 0.06
24 6 0.17
25 17 0.47
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (25 bp):
CATAACTTATATAAAAATATTAGAT
Found at i:30982895 original size:66 final size:65
Alignment explanation
Indices: 30982783--30982911 Score: 161
Period size: 66 Copynumber: 2.0 Consensus size: 65
30982773 AAAGTGCTCA
* * * * *
30982783 ACTTAAAGCGGAGGCAGCATCGAGAGAAGCAGAGGATCAAAGAAAATATGAAGAACTCTAGCTGC
1 ACTTAAAGCAGAGGCAACAGCGAGAGAAGCAGAGGA-CAAAAAAAATATGAAGAACTCCAGCTGC
30982848 T
65 T
* *
30982849 ACTTAAAGCAGAGGCAACAGCGAGAGAAGTAGAGG-CAAGCAAAAAATATGACGAACTCCAGCT
1 ACTTAAAGCAGAGGCAACAGCGAGAGAAGCAGAGGACAA--AAAAAATATGAAGAACTCCAGCT
30982912 ACAGCTTCAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
64 3 0.06
66 51 0.94
ACGTcount: A:0.43, C:0.18, G:0.26, T:0.13
Consensus pattern (65 bp):
ACTTAAAGCAGAGGCAACAGCGAGAGAAGCAGAGGACAAAAAAAATATGAAGAACTCCAGCTGCT
Found at i:30983301 original size:43 final size:43
Alignment explanation
Indices: 30983210--30983306 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 43
30983200 TTTCCACAAA
* * *
30983210 CGCCGCCAAAGAACATGACTTTTATCGGCGCTTTTAGTAAAAG
1 CGCCGCTAAAGAACATGACATTTAGCGGCGCTTTTAGTAAAAG
* * *
30983253 CGCCGCTAAAGAACATGACATTTAGCTGCGTTTTTGGGT-AAAG
1 CGCCGCTAAAGAACATGACATTTAGCGGCGCTTTT-AGTAAAAG
*
30983296 TGCCGCTAAAG
1 CGCCGCTAAAG
30983307 GTAATGTTCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
43 44 0.96
44 2 0.04
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.26
Consensus pattern (43 bp):
CGCCGCTAAAGAACATGACATTTAGCGGCGCTTTTAGTAAAAG
Found at i:30988937 original size:72 final size:72
Alignment explanation
Indices: 30988820--30988964 Score: 281
Period size: 72 Copynumber: 2.0 Consensus size: 72
30988810 AATAAAATAA
*
30988820 CATATAAAACATATAAAATTAAAAGAATTTAAAACTTAAATCATCCACCATCTTAAGAATGGGTA
1 CATATAAAACATATAAAATTAAAAGAATTTAAAACTTAAATCATCCACCATCCTAAGAATGGGTA
30988885 ATTTATC
66 ATTTATC
30988892 CATATAAAACATATAAAATTAAAAGAATTTAAAACTTAAATCATCCACCATCCTAAGAATGGGTA
1 CATATAAAACATATAAAATTAAAAGAATTTAAAACTTAAATCATCCACCATCCTAAGAATGGGTA
30988957 ATTTATC
66 ATTTATC
30988964 C
1 C
30988965 CTTAAGGCCA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (72 bp):
CATATAAAACATATAAAATTAAAAGAATTTAAAACTTAAATCATCCACCATCCTAAGAATGGGTA
ATTTATC
Found at i:30991895 original size:16 final size:18
Alignment explanation
Indices: 30991860--30991897 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
30991850 GATATTAATA
30991860 ATTCATTCCAAATATTTT
1 ATTCATTCCAAATATTTT
*
30991878 ATTCA-TCCAACT-TTTT
1 ATTCATTCCAAATATTTT
30991894 ATTC
1 ATTC
30991898 TCTCCCTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTCATTCCAAATATTTT
Found at i:30993004 original size:62 final size:62
Alignment explanation
Indices: 30992876--30993004 Score: 204
Period size: 62 Copynumber: 2.1 Consensus size: 62
30992866 TTTTTCATGT
* **
30992876 AAAATTTGCGTGATTTTACTTTATTTACTTGGTCATTGCATACACGGGTTATTTCCCTACNT
1 AAAATTTGCGTGATTTTACTTTATTTACTTGGCCATTGCATACACGGGTTATTTCCCTACAC
* * *
30992938 AAAATTTGCGTGATTTTACTTTATTTACTTGGCCGTTGCATACATGGTTTATTTCCCTACAC
1 AAAATTTGCGTGATTTTACTTTATTTACTTGGCCATTGCATACACGGGTTATTTCCCTACAC
30993000 AAAAT
1 AAAAT
30993005 CTAAAATTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (62 bp):
AAAATTTGCGTGATTTTACTTTATTTACTTGGCCATTGCATACACGGGTTATTTCCCTACAC
Found at i:30993222 original size:20 final size:20
Alignment explanation
Indices: 30993197--30993258 Score: 106
Period size: 20 Copynumber: 3.1 Consensus size: 20
30993187 AGTTTCTAAT
30993197 AATCAATTTTCATTGAGAAC
1 AATCAATTTTCATTGAGAAC
30993217 AATCAATTTTCATTGAGAAC
1 AATCAATTTTCATTGAGAAC
* *
30993237 AATCAATTTTCTTTGAAAAC
1 AATCAATTTTCATTGAGAAC
30993257 AA
1 AA
30993259 GCAACACATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (20 bp):
AATCAATTTTCATTGAGAAC
Found at i:30996652 original size:19 final size:19
Alignment explanation
Indices: 30996628--30996666 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
30996618 ATGTCAAAAT
30996628 TTTCAAGTATCCAAAT-TGA
1 TTTCAAGTAT-CAAATGTGA
*
30996647 TTTCAATTATCAAATGTGA
1 TTTCAAGTATCAAATGTGA
30996666 T
1 T
30996667 AAATCAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (19 bp):
TTTCAAGTATCAAATGTGA
Found at i:30997642 original size:22 final size:21
Alignment explanation
Indices: 30997604--30997644 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
30997594 CGTATTATAA
30997604 AACAAAGAGAAATATAGAATG
1 AACAAAGAGAAATATAGAATG
30997625 AACAAGAGAGACAA-ATAGAA
1 AACAA-AGAGA-AATATAGAA
30997645 AAATTAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 11 0.61
23 2 0.11
ACGTcount: A:0.63, C:0.07, G:0.20, T:0.10
Consensus pattern (21 bp):
AACAAAGAGAAATATAGAATG
Found at i:31000592 original size:20 final size:20
Alignment explanation
Indices: 31000567--31000608 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
31000557 TAGAGAATGA
31000567 ATCAGGCAAACAATCAAAAG
1 ATCAGGCAAACAATCAAAAG
31000587 ATCAGGCAAACAATCAAAAG
1 ATCAGGCAAACAATCAAAAG
31000607 AT
1 AT
31000609 AACCAATGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.19, G:0.14, T:0.12
Consensus pattern (20 bp):
ATCAGGCAAACAATCAAAAG
Found at i:31004669 original size:21 final size:21
Alignment explanation
Indices: 31004643--31004685 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
31004633 CCAGATGCAC
31004643 ATAGTACAAAGCCCGTAGGCT
1 ATAGTACAAAGCCCGTAGGCT
31004664 ATAGTACAAAGCCCGTAGGCT
1 ATAGTACAAAGCCCGTAGGCT
31004685 A
1 A
31004686 AATATTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (21 bp):
ATAGTACAAAGCCCGTAGGCT
Found at i:31004754 original size:113 final size:113
Alignment explanation
Indices: 31004551--31004767 Score: 287
Period size: 113 Copynumber: 1.9 Consensus size: 113
31004541 TCAGATGCAC
*
31004551 ATAGTGCAAAGCCCGTAGGCTAAATAGTCTCCACCAATAACATGCCAGTTAGCTCATAAAAGCTA
1 ATAGTACAAAGCCCGTAGGCTAAATAGTCTCCACCAATAACATGCCAGTTAGCTCATAAAAGCTA
* *
31004616 TTCCAACCGATATGACACCAGATGCACATAGTACAAAGCCCGTAGGCT
66 TTCCAACCGATATAACACCACATGCACATAGTACAAAGCCCGTAGGCT
* * * * *
31004664 ATAGTACAAAGCCCGTAGGCTAAATATTTTCCCCCAATAACACT-TCAGATT-GCTCATAAGAGC
1 ATAGTACAAAGCCCGTAGGCTAAATAGTCTCCACCAATAACA-TGCCAG-TTAGCTCATAAAAGC
* * *
31004727 TATTCCAACTGATA-AATCACTACATGCACATAGTGCAAAGC
64 TATTCCAACCGATATAA-CACCACATGCACATAGTACAAAGC
31004768 AAATAGGCTA
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
112 1 0.01
113 86 0.96
114 3 0.03
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.23
Consensus pattern (113 bp):
ATAGTACAAAGCCCGTAGGCTAAATAGTCTCCACCAATAACATGCCAGTTAGCTCATAAAAGCTA
TTCCAACCGATATAACACCACATGCACATAGTACAAAGCCCGTAGGCT
Found at i:31004932 original size:91 final size:91
Alignment explanation
Indices: 31004664--31004933 Score: 285
Period size: 92 Copynumber: 2.9 Consensus size: 91
31004654 CCCGTAGGCT
* * * * *
31004664 ATAGTACAAAGCCCGTAGGCTAAATATTTTCCCCCAATAACACT-TCAGATTGCTCATAAGAGCT
1 ATAGTACAAAGCACGTAGGCTAAATA-TTTCCCTCGATAACA-TGCCAGTTTGCTCATAAGAGCT
* * * *
31004728 ATTCCAACTGATAAATC-A-CTACATGCAC
64 ATTCCAAC-CA-ATATCAAGCCAAATGCAC
* ** * *
31004756 ATAGTGCAAAGCAAATAGGCTAAATATTCTCCCTCGATAACATGCCAGTTTGCTCGTAAGAGTTA
1 ATAGTACAAAGCACGTAGGCTAAATATT-TCCCTCGATAACATGCCAGTTTGCTCATAAGAGCTA
* * * *
31004821 TTCCAATCGATAACACGCCAAATGCAC
65 TTCCAACCAATATCAAGCCAAATGCAC
* *
31004848 ATAGTACAAAGCTCGTAGGCTAAATATTTCCCTCGATAACATGCCAGTTTGCTCATAATAGCTAT
1 ATAGTACAAAGCACGTAGGCTAAATATTTCCCTCGATAACATGCCAGTTTGCTCATAAGAGCTAT
*
31004913 TCAAACCAATATCAAGCCAAA
66 TCCAACCAATATCAAGCCAAA
31004934 ATCTCCGAAG
Statistics
Matches: 144, Mismatches: 30, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
90 3 0.02
91 53 0.37
92 88 0.61
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (91 bp):
ATAGTACAAAGCACGTAGGCTAAATATTTCCCTCGATAACATGCCAGTTTGCTCATAAGAGCTAT
TCCAACCAATATCAAGCCAAATGCAC
Found at i:31009781 original size:16 final size:16
Alignment explanation
Indices: 31009754--31009812 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
31009744 CTTCTTCTTT
31009754 TTATTT-TTATTTTTC
1 TTATTTCTTATTTTTC
*
31009769 TTATTTCTTATTTCTTT
1 TTATTTCTTATTT-TTC
*
31009786 TTCATTTTCTTTGTTTTTC
1 TT-A-TTTC-TTATTTTTC
31009805 TT-TTTCTT
1 TTATTTCTT
31009813 GACTTTTGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
15 8 0.22
16 10 0.28
17 4 0.11
18 1 0.03
19 8 0.22
20 5 0.14
ACGTcount: A:0.08, C:0.12, G:0.02, T:0.78
Consensus pattern (16 bp):
TTATTTCTTATTTTTC
Found at i:31009787 original size:21 final size:21
Alignment explanation
Indices: 31009745--31009787 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
31009735 TTAATGTTCC
* *
31009745 TTCTTCTTTTTATTTTTATTT
1 TTCTTATTTTTATTTCTATTT
31009766 TTCTTATTTCTTATTTCT-TTT
1 TTCTTATTT-TTATTTCTATTT
31009787 T
1 T
31009788 CATTTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (21 bp):
TTCTTATTTTTATTTCTATTT
Found at i:31009808 original size:6 final size:6
Alignment explanation
Indices: 31009748--31009812 Score: 62
Period size: 6 Copynumber: 10.8 Consensus size: 6
31009738 ATGTTCCTTC
* * *
31009748 TTCTTT TTATTT TTATTT TTCTTAT TTCTTAT TTCTTT TTCATT TTC--T
1 TTCTTT TTCTTT TTCTTT TTCTT-T TTCTT-T TTCTTT TTCTTT TTCTTT
*
31009796 TTGTTT TTCTTT TTCTT
1 TTCTTT TTCTTT TTCTT
31009813 GACTTTTGAT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
4 3 0.06
6 35 0.69
7 13 0.25
ACGTcount: A:0.08, C:0.12, G:0.02, T:0.78
Consensus pattern (6 bp):
TTCTTT
Found at i:31012845 original size:12 final size:12
Alignment explanation
Indices: 31012828--31012867 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 12
31012818 ACGATCATTC
31012828 TTCTTTTTATTT
1 TTCTTTTTATTT
31012840 TTCTTTTTATTAT
1 TTCTTTTTATT-T
31012853 TTCTTCTTTCATTT
1 TTCTT-TTT-ATTT
31012867 T
1 T
31012868 CATTTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 11 0.44
13 6 0.24
14 5 0.20
15 3 0.12
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (12 bp):
TTCTTTTTATTT
Found at i:31012888 original size:15 final size:14
Alignment explanation
Indices: 31012825--31012891 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 14
31012815 TTAACGATCA
31012825 TTCTTCTTTTTATTT
1 TTCTT-TTTTTATTT
31012840 TTCTTTTTATTATTT
1 TTCTTTTT-TTATTT
31012855 CTTCTTTCATTTTCA-TT
1 -TTCTTT--TTTT-ATTT
*
31012872 TTCTTTGTTTTCTTT
1 TTCTTT-TTTTATTT
31012887 TTCTT
1 TTCTT
31012892 GACTTTCAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
14 3 0.07
15 22 0.50
16 12 0.27
17 4 0.09
18 3 0.07
ACGTcount: A:0.07, C:0.15, G:0.01, T:0.76
Consensus pattern (14 bp):
TTCTTTTTTTATTT
Found at i:31017194 original size:91 final size:91
Alignment explanation
Indices: 31017053--31017358 Score: 405
Period size: 92 Copynumber: 3.3 Consensus size: 91
31017043 CTCCAGATTA
* * * *
31017053 CTCATAAGAGTTATTCCCACCAATAACACACCAGATGCACATAGTGCAAAGCCTGTAGGCTAAAT
1 CTCATAAGAGCTATTCCAACCAATAACACGCCAGATGCACATAGTGCAAAGCCCGTAGGCTAAAT
31017118 ATTCTCCCCGGTAACACGTCAGTTTT
66 ATTCTCCCCGGTAACACGTCAGTTTT
* * * *
31017144 CTCATAAGAGCTATTCCAACCAATATCACGCCAGATGCACATAGTACAAAGCCCATAGGATAAAT
1 CTCATAAGAGCTATTCCAACCAATAACACGCCAGATGCACATAGTGCAAAGCCCGTAGGCTAAAT
*** *
31017209 ATTCTCATTTGGTAACACGTCAGTTTG
66 ATTCTC-CCCGGTAACACGTCAGTTTT
* ** *
31017236 CTCATAAGAGCTATTCCAACCGATAACACGTTAGATGCACATAGTGTAAAGCCCGTAGGCTAAAT
1 CTCATAAGAGCTATTCCAACCAATAACACGCCAGATGCACATAGTGCAAAGCCCGTAGGCTAAAT
* * *
31017301 ATTCTCCCCCGATAACACGCCATTTTT
66 ATTCT-CCCCGGTAACACGTCAGTTTT
* *
31017328 CTCATAAGAACTATTCCAACCAATATCACGC
1 CTCATAAGAGCTATTCCAACCAATAACACGC
31017359 TAGAACCTCC
Statistics
Matches: 182, Mismatches: 31, Indels: 3
0.84 0.14 0.01
Matches are distributed among these distances:
91 63 0.35
92 118 0.65
93 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.25
Consensus pattern (91 bp):
CTCATAAGAGCTATTCCAACCAATAACACGCCAGATGCACATAGTGCAAAGCCCGTAGGCTAAAT
ATTCTCCCCGGTAACACGTCAGTTTT
Found at i:31033132 original size:23 final size:20
Alignment explanation
Indices: 31033106--31033157 Score: 50
Period size: 23 Copynumber: 2.4 Consensus size: 20
31033096 AATGTATTTT
31033106 AAATTTTCAAAAATTGAAAACAA
1 AAATTTT-AAAAATT-AAAA-AA
*
31033129 AAATATTTTAAAATTAAAAAA
1 AAAT-TTTAAAAATTAAAAAA
31033150 AAAGTTTT
1 AAA-TTTT
31033158 TAAACACTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 8 0.31
22 5 0.19
23 10 0.38
24 3 0.12
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (20 bp):
AAATTTTAAAAATTAAAAAA
Found at i:31033158 original size:21 final size:23
Alignment explanation
Indices: 31033115--31033161 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 23
31033105 TAAATTTTCA
31033115 AAAATTGAAAACAAAAATATTTT
1 AAAATTGAAAACAAAAATATTTT
31033138 AAAATT-AAAA-AAAAAGT-TTTT
1 AAAATTGAAAACAAAAA-TATTTT
31033159 AAA
1 AAA
31033162 CACTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 12 0.52
22 5 0.22
23 6 0.26
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (23 bp):
AAAATTGAAAACAAAAATATTTT
Found at i:31037439 original size:17 final size:17
Alignment explanation
Indices: 31037417--31037456 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
31037407 AAAATAGGGG
*
31037417 TCACACGGTCGTGTGCC
1 TCACACAGTCGTGTGCC
31037434 TCACACAGTCGTGTGCC
1 TCACACAGTCGTGTGCC
31037451 TCACAC
1 TCACAC
31037457 CCGTGTCTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.17, C:0.38, G:0.23, T:0.23
Consensus pattern (17 bp):
TCACACAGTCGTGTGCC
Found at i:31037945 original size:26 final size:25
Alignment explanation
Indices: 31037916--31037966 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
31037906 TATAGGGGAC
* *
31037916 ACACGCCTGTGTGGTAAGGCCGTGTG
1 ACACGCCCGTGT-CTAAGGCCGTGTG
*
31037942 ACACGCCCGTGTCTTAGGCCGTGTG
1 ACACGCCCGTGTCTAAGGCCGTGTG
31037967 GGCATTCGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.14, C:0.27, G:0.35, T:0.24
Consensus pattern (25 bp):
ACACGCCCGTGTCTAAGGCCGTGTG
Found at i:31040305 original size:20 final size:19
Alignment explanation
Indices: 31040257--31040305 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
31040247 ATTTATGAAA
* *
31040257 ATAACATATGTATATAGAT
1 ATAAAATATGTATATAAAT
*
31040276 ATATAGATATGTATATAAATT
1 ATA-AAATATGTATATAAA-T
31040297 ATAAAATAT
1 ATAAAATAT
31040306 AAAAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 3 0.12
20 18 0.72
21 4 0.16
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (19 bp):
ATAAAATATGTATATAAAT
Found at i:31042105 original size:25 final size:25
Alignment explanation
Indices: 31042074--31042217 Score: 116
Period size: 25 Copynumber: 5.9 Consensus size: 25
31042064 AGCCCTCTTT
31042074 TGAGCCATATAACGGGAAGCTCATG
1 TGAGCCATATAACGGGAAGCTCATG
* * *
31042099 TGAGCCATGTAACGGGAAGCTTATC
1 TGAGCCATATAACGGGAAGCTCATG
* * *
31042124 TGGGCTATATAACGGGAAGCTCATA
1 TGAGCCATATAACGGGAAGCTCATG
* * **
31042149 AGAGCCATAT-TCAAGAAGCTCATG
1 TGAGCCATATAACGGGAAGCTCATG
* * * *
31042173 CGAGCCA-ATAACGCGTAGCTC-CG
1 TGAGCCATATAACGGGAAGCTCATG
*
31042196 AAGAGCCAT-TAACGGGAAGCTC
1 -TGAGCCATATAACGGGAAGCTC
31042218 CGGATAGTCA
Statistics
Matches: 92, Mismatches: 24, Indels: 7
0.75 0.20 0.06
Matches are distributed among these distances:
23 3 0.03
24 40 0.43
25 49 0.53
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.19
Consensus pattern (25 bp):
TGAGCCATATAACGGGAAGCTCATG
Found at i:31042201 original size:24 final size:24
Alignment explanation
Indices: 31042174--31042219 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
31042164 AAGCTCATGC
*
31042174 GAGCCAATAACGCGTAGCTCCGAA
1 GAGCCAATAACGCGAAGCTCCGAA
* *
31042198 GAGCCATTAACGGGAAGCTCCG
1 GAGCCAATAACGCGAAGCTCCG
31042220 GATAGTCATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.13
Consensus pattern (24 bp):
GAGCCAATAACGCGAAGCTCCGAA
Found at i:31042230 original size:72 final size:73
Alignment explanation
Indices: 31042154--31042290 Score: 170
Period size: 72 Copynumber: 1.9 Consensus size: 73
31042144 TCATAAGAGC
* *
31042154 CATAT-TCAAGAAGCTCATGCGAGCCAATAACGCGTAGCTCCGAAGAGCCATTAA-CGGGAAGCT
1 CATATATCAAGAAGCTCAAGCGAGCC-ATAACGCGTAGCTCCGAAGAGCCATTAATCAGGAAGCT
31042217 CCGGATAGT
65 CCGGATAGT
** * * * * *
31042226 CATATATCGGGAAGTTCAAGCGAGCCATATCGGGTAGCTTCGGAGAGCCATTAATCAGGAAGCTC
1 CATATATCAAGAAGCTCAAGCGAGCCATAACGCGTAGCTCCGAAGAGCCATTAATCAGGAAGCTC
31042291 ACAAAAAGCC
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
72 29 0.54
73 25 0.46
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (73 bp):
CATATATCAAGAAGCTCAAGCGAGCCATAACGCGTAGCTCCGAAGAGCCATTAATCAGGAAGCTC
CGGATAGT
Found at i:31042795 original size:5 final size:5
Alignment explanation
Indices: 31042766--31042809 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
31042756 TAAATTTAAC
* *
31042766 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCAAT TCA
31042810 CATATTAGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:31050586 original size:4 final size:4
Alignment explanation
Indices: 31050577--31050632 Score: 62
Period size: 4 Copynumber: 14.0 Consensus size: 4
31050567 AGGAGAATAA
* *
31050577 AAAT AAAT AACAA AAAT AAAT AAAT AAAT AAAT -AA- AAAT AAAC AAAT
1 AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
31050624 AAATT AAAT
1 AAA-T AAAT
31050633 TGAAAAACCA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
3 4 0.09
4 33 0.75
5 7 0.16
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:31050616 original size:22 final size:22
Alignment explanation
Indices: 31050577--31050632 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
31050567 AGGAGAATAA
* *
31050577 AAATAAAT-AACAAAAATAAAT
1 AAATAAATAAATAAAAATAAAC
31050598 AAATAAATAAATAAAAATAAAC
1 AAATAAATAAATAAAAATAAAC
31050620 AAATAAATTAAAT
1 AAATAAA-TAAAT
31050633 TGAAAAACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 8 0.26
22 18 0.58
23 5 0.16
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (22 bp):
AAATAAATAAATAAAAATAAAC
Found at i:31050617 original size:18 final size:18
Alignment explanation
Indices: 31050572--31050627 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
31050562 AATTAAGGAG
31050572 AATAAAAATAAATAACA-A
1 AATAAAAATAAATAA-ATA
*
31050590 AA-ATAAATAAATAAATA
1 AATAAAAATAAATAAATA
*
31050607 AATAAAAATAAACAAATA
1 AATAAAAATAAATAAATA
31050625 AAT
1 AAT
31050628 TAAATTGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 1 0.03
17 14 0.42
18 18 0.55
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.20
Consensus pattern (18 bp):
AATAAAAATAAATAAATA
Found at i:31051129 original size:19 final size:19
Alignment explanation
Indices: 31051086--31051125 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
31051076 GATTAAGGAG
31051086 AATAAAAATAACAAAAATA
1 AATAAAAATAACAAAAATA
*
31051105 AATAAAAATAA-ACAAATA
1 AATAAAAATAACAAAAATA
31051123 AAT
1 AAT
31051126 TAAATCGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (19 bp):
AATAAAAATAACAAAAATA
Found at i:31051313 original size:60 final size:60
Alignment explanation
Indices: 31051220--31051337 Score: 236
Period size: 60 Copynumber: 2.0 Consensus size: 60
31051210 TCGATTAACT
31051220 AATTATTACCTCTCGACCTCAAATTAACGAGTAAATTGGTTGATACTCGCTTATCTCCCA
1 AATTATTACCTCTCGACCTCAAATTAACGAGTAAATTGGTTGATACTCGCTTATCTCCCA
31051280 AATTATTACCTCTCGACCTCAAATTAACGAGTAAATTGGTTGATACTCGCTTATCTCC
1 AATTATTACCTCTCGACCTCAAATTAACGAGTAAATTGGTTGATACTCGCTTATCTCC
31051338 GACCTCAGTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.34
Consensus pattern (60 bp):
AATTATTACCTCTCGACCTCAAATTAACGAGTAAATTGGTTGATACTCGCTTATCTCCCA
Found at i:31056826 original size:24 final size:24
Alignment explanation
Indices: 31056799--31056853 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
31056789 TGTCTGTGGT
*
31056799 TAAATGATTGATTTGCCCGT-GATG
1 TAAATGAATGATTTGCCC-TAGATG
* *
31056823 TAAATAAATGATTTGTCCTAGATG
1 TAAATGAATGATTTGCCCTAGATG
31056847 TAAATGA
1 TAAATGA
31056854 CTATTTTATC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (24 bp):
TAAATGAATGATTTGCCCTAGATG
Found at i:31056927 original size:24 final size:24
Alignment explanation
Indices: 31056847--31056919 Score: 96
Period size: 24 Copynumber: 3.0 Consensus size: 24
31056837 GTCCTAGATG
*
31056847 TAAATGACT-ATTT-TATCTGTAATT
1 TAAATGACTGATTTGT-T-TGTGATT
*
31056871 TAAATAACTGATTTGTTTGTGATT
1 TAAATGACTGATTTGTTTGTGATT
31056895 TAAATGACTGATTTGTTTGTGATT
1 TAAATGACTGATTTGTTTGTGATT
31056919 T
1 T
31056920 GTATGACTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 38 0.86
25 5 0.11
26 1 0.02
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (24 bp):
TAAATGACTGATTTGTTTGTGATT
Found at i:31057033 original size:27 final size:27
Alignment explanation
Indices: 31056995--31057057 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
31056985 ATGGAGAAAG
31056995 TACTG-TACTGGTGGCTCT-GCCACA-A
1 TACTGTTACTGGTGGCT-TGGCCACATA
31057020 TCACTGTTACTGGTGGCTTGGCCACATA
1 T-ACTGTTACTGGTGGCTTGGCCACATA
31057048 TACTGTTACT
1 TACTGTTACT
31057058 AGAAGCTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
25 1 0.03
26 5 0.15
27 26 0.76
28 2 0.06
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.33
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTGGCCACATA
Found at i:31057065 original size:27 final size:27
Alignment explanation
Indices: 31057013--31057065 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
31057003 TGGTGGCTCT
* **
31057013 GCCACAATCACTGTTACTGGTGGCTTG
1 GCCACAATCACTGTTACTAGAAGCTTG
31057040 GCCACATAT-ACTGTTACTAGAAGCTT
1 GCCACA-ATCACTGTTACTAGAAGCTT
31057066 TGCTGCGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (27 bp):
GCCACAATCACTGTTACTAGAAGCTTG
Found at i:31058747 original size:27 final size:27
Alignment explanation
Indices: 31058714--31058780 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
31058704 GCAATATACG
* *
31058714 AAAGGAATGCCTTCATGGCAAACTTTA
1 AAAGGAATGCCTTCATGACAAACTCTA
*
31058741 AAGGGAATGCCTTCATGACAAACTCTA
1 AAAGGAATGCCTTCATGACAAACTCTA
31058768 AAAGGAATGCCTT
1 AAAGGAATGCCTT
31058781 GACGACGTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.24
Consensus pattern (27 bp):
AAAGGAATGCCTTCATGACAAACTCTA
Found at i:31078006 original size:16 final size:16
Alignment explanation
Indices: 31077981--31078011 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31077971 AAAAATTCTC
31077981 TTCTCCGTTTTTCTTA
1 TTCTCCGTTTTTCTTA
*
31077997 TTCTCTGTTTTTCTT
1 TTCTCCGTTTTTCTT
31078012 TTATTGGGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.23, G:0.06, T:0.68
Consensus pattern (16 bp):
TTCTCCGTTTTTCTTA
Found at i:31081416 original size:39 final size:39
Alignment explanation
Indices: 31081361--31081540 Score: 216
Period size: 39 Copynumber: 4.6 Consensus size: 39
31081351 AACATGTTTT
* * *
31081361 TGAGTATTGTGGTATATGTTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * *
31081400 TGAGTATTGTGATATATGCCTGAATGTTATGTGATTGTA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* ** *
31081439 TGAGTATTGTTATATATGCTTAAACATTATGTAATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
31081478 TGAGTATTGTGATATATGCATAAAGGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * * *
31081517 TGTGTAATGTGATACATGTTTAAA
1 TGAGTATTGTGATATATGCTTAAA
31081541 AGTGAATATC
Statistics
Matches: 120, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 120 1.00
ACGTcount: A:0.31, C:0.03, G:0.22, T:0.44
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:31082308 original size:42 final size:42
Alignment explanation
Indices: 31082261--31082355 Score: 154
Period size: 42 Copynumber: 2.3 Consensus size: 42
31082251 TTTCCTAGTG
31082261 GTATCGATACCACTTGAGAGAATTACTGATACCATTGTTATA
1 GTATCGATACCACTTGAGAGAATTACTGATACCATTGTTATA
* * * *
31082303 GTATCGATACGACTTGAGAGAGTTATTGATACCTTTGTTATA
1 GTATCGATACCACTTGAGAGAATTACTGATACCATTGTTATA
31082345 GTATCGATACC
1 GTATCGATACC
31082356 TACATAATTG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.35
Consensus pattern (42 bp):
GTATCGATACCACTTGAGAGAATTACTGATACCATTGTTATA
Found at i:31082355 original size:20 final size:20
Alignment explanation
Indices: 31082288--31082356 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
31082278 GAGAATTACT
*
31082288 GATACCATTGTTATAGTATC
1 GATACCTTTGTTATAGTATC
** * *
31082308 GATACGAC-TTGAGAGAGTTATT
1 GATAC--CTTTGTTATAG-TATC
31082330 GATACCTTTGTTATAGTATC
1 GATACCTTTGTTATAGTATC
31082350 GATACCT
1 GATACCT
31082357 ACATAATTGT
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
20 16 0.43
21 12 0.32
22 9 0.24
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (20 bp):
GATACCTTTGTTATAGTATC
Found at i:31084603 original size:73 final size:73
Alignment explanation
Indices: 31084484--31084630 Score: 251
Period size: 73 Copynumber: 2.0 Consensus size: 73
31084474 TTATATCATG
31084484 AGCAAAGTTTCCTTTCCTAAATACACCACCACACAAGGTTAGTAGGTGTATAGATAAACATATAA
1 AGCAAAGTTTCCTTTCCTAAATACACCACCACACAAGGTTAGTAGGTGTATAGATAAACATATAA
31084549 ATCCAACC
66 ATCCAACC
* * *
31084557 AGCAAAGTTTCCTTTCCTAAATACACCACCATC-CAAGGTTAGTAGGTGTATAGGTAAGCATCTA
1 AGCAAAGTTTCCTTTCCTAAATACACCACCA-CACAAGGTTAGTAGGTGTATAGATAAACATATA
31084621 AATCCAACC
65 AATCCAACC
31084630 A
1 A
31084631 ATTTGTGAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
73 69 0.99
74 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (73 bp):
AGCAAAGTTTCCTTTCCTAAATACACCACCACACAAGGTTAGTAGGTGTATAGATAAACATATAA
ATCCAACC
Found at i:31094493 original size:11 final size:11
Alignment explanation
Indices: 31094477--31094501 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
31094467 AATCCCGTAG
31094477 ATAATAAAATA
1 ATAATAAAATA
31094488 ATAATAAAATA
1 ATAATAAAATA
31094499 ATA
1 ATA
31094502 GTTTACTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAATAAAATA
Found at i:31094674 original size:18 final size:19
Alignment explanation
Indices: 31094640--31094677 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
31094630 AAATCTTGTT
31094640 ATTAAACTTGGTGATGTGA
1 ATTAAACTTGGTGATGTGA
31094659 ATTAAA-TTGGAT-ATGTGA
1 ATTAAACTTGG-TGATGTGA
31094677 A
1 A
31094678 CACTTAACGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.37
Consensus pattern (19 bp):
ATTAAACTTGGTGATGTGA
Found at i:31098943 original size:15 final size:15
Alignment explanation
Indices: 31098923--31098961 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
31098913 ATATATATTT
31098923 TTAATTAAAAATTAA
1 TTAATTAAAAATTAA
* * *
31098938 TTAATTATAGATTAT
1 TTAATTAAAAATTAA
31098953 TTAATTAAA
1 TTAATTAAA
31098962 TATATTTAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (15 bp):
TTAATTAAAAATTAA
Found at i:31102904 original size:18 final size:18
Alignment explanation
Indices: 31102877--31102913 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
31102867 ATTGAGTAAG
31102877 AAAAGCGATTAATTTTAT
1 AAAAGCGATTAATTTTAT
*
31102895 AAAAGTGATTAATTTTAT
1 AAAAGCGATTAATTTTAT
31102913 A
1 A
31102914 TGCTCTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.41
Consensus pattern (18 bp):
AAAAGCGATTAATTTTAT
Found at i:31104993 original size:3 final size:3
Alignment explanation
Indices: 31104985--31105065 Score: 60
Period size: 3 Copynumber: 26.0 Consensus size: 3
31104975 GCATTAATGG
* *
31104985 TAA TAA TAA TAA TAA TAA TAA TAA -AA TGAC TAA AAA TAAA TAGCA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA T-AA TA--A TAA
*
31105033 AAA TAA -AA TAA TAA -AA TAA TAAA TAAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA T-AA TAA TAA
31105066 GAAAGGGCAA
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
2 6 0.09
3 43 0.67
4 12 0.19
5 3 0.05
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (3 bp):
TAA
Found at i:31105023 original size:30 final size:28
Alignment explanation
Indices: 31104989--31105065 Score: 68
Period size: 30 Copynumber: 2.6 Consensus size: 28
31104979 TAATGGTAAT
*
31104989 AATAATAATAATAATAATAAAATGACT-A
1 AATAATAATAATAATAATAAAAT-AATAA
*
31105017 AA-AATAAATAGCATAAAAATAAAATAATAA
1 AATAAT-AATA--ATAATAATAAAATAATAA
31105047 AATAATAAATAAATAATAA
1 AATAAT-AAT-AATAATAA
31105066 GAAAGGGCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
27 3 0.08
28 6 0.15
29 2 0.05
30 21 0.52
31 7 0.17
32 1 0.03
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (28 bp):
AATAATAATAATAATAATAAAATAATAA
Found at i:31105045 original size:19 final size:20
Alignment explanation
Indices: 31104989--31105065 Score: 65
Period size: 19 Copynumber: 4.0 Consensus size: 20
31104979 TAATGGTAAT
31104989 AATAAT-AATAATAATAATAA
1 AATAATAAATAA-AATAATAA
* * *
31105009 AATGACTAAA-AATA-AATAG
1 AAT-AATAAATAAAATAATAA
*
31105028 CATAA-AAATAAAATAATAA
1 AATAATAAATAAAATAATAA
31105047 AATAATAAAT-AAATAATAA
1 AATAATAAATAAAATAATAA
31105066 GAAAGGGCAA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
17 3 0.07
18 4 0.09
19 23 0.52
20 8 0.18
21 4 0.09
22 2 0.05
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (20 bp):
AATAATAAATAAAATAATAA
Found at i:31128247 original size:27 final size:27
Alignment explanation
Indices: 31128207--31128280 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
31128197 AACACGTCAA
*
31128207 GAAAGAAAATCCTTTATGGCGTAATAT
1 GAAAGAAAAGCCTTTATGGCGTAATAT
* *
31128234 GAAAGAAAAGCCTTTTTGGCGTGATAT
1 GAAAGAAAAGCCTTTATGGCGTAATAT
** *
31128261 GAAAGATTAGCCTTTGTGGC
1 GAAAGAAAAGCCTTTATGGC
31128281 AAACTTTGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTATGGCGTAATAT
Found at i:31131468 original size:6 final size:6
Alignment explanation
Indices: 31131452--31131487 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
31131442 AAAGGTACGA
* *
31131452 GTATAT ATATAT GTATAT GTATAT ATATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
31131488 AACGCTCGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:31131475 original size:18 final size:18
Alignment explanation
Indices: 31131452--31131487 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
31131442 AAAGGTACGA
31131452 GTATATATATATGTATAT
1 GTATATATATATGTATAT
31131470 GTATATATATATGTATAT
1 GTATATATATATGTATAT
31131488 AACGCTCGAA
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:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (18 bp):
GTATATATATATGTATAT
Found at i:31132236 original size:8 final size:8
Alignment explanation
Indices: 31132223--31132259 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
31132213 ACCTGTTGAG
31132223 TTTTTTAT
1 TTTTTTAT
31132231 TTTTTTA-
1 TTTTTTAT
31132238 TTTTTTATT
1 TTTTTTA-T
31132247 TTTTTTAT
1 TTTTTTAT
31132255 TTTTT
1 TTTTT
31132260 CTCATTCGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 7 0.26
8 13 0.48
9 7 0.26
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTAT
Found at i:31132249 original size:16 final size:15
Alignment explanation
Indices: 31132223--31132259 Score: 65
Period size: 16 Copynumber: 2.4 Consensus size: 15
31132213 ACCTGTTGAG
31132223 TTTTTTATTTTTTTA
1 TTTTTTATTTTTTTA
31132238 TTTTTTATTTTTTTTA
1 TTTTTTA-TTTTTTTA
31132254 TTTTTT
1 TTTTTT
31132260 CTCATTCGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (15 bp):
TTTTTTATTTTTTTA
Found at i:31132868 original size:22 final size:22
Alignment explanation
Indices: 31132842--31132883 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
31132832 TTTATTTTCA
31132842 TATTTT-TTTAATATATTATACT
1 TATTTTATTT-ATATATTATACT
*
31132864 TATTTTATTTATATTTTATA
1 TATTTTATTTATATATTATA
31132884 AAGTACATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTTTATTTATATATTATACT
Found at i:31144799 original size:45 final size:45
Alignment explanation
Indices: 31144750--31144848 Score: 117
Period size: 45 Copynumber: 2.2 Consensus size: 45
31144740 TAGATACCAT
* * * **
31144750 ATCTTGTCTCCCCGTACAGGCGGTGGAGTAGATCGAAGAAAGCAG
1 ATCTTGTCTCCCCATACAGGCGGCGGAGCAGATAAAAGAAAGCAG
* * * *
31144795 ATCTTGTATTCCCATACTGGTGGCGGAGCAGATAAAAGAAAGCAG
1 ATCTTGTCTCCCCATACAGGCGGCGGAGCAGATAAAAGAAAGCAG
31144840 ATCTTGTCT
1 ATCTTGTCT
31144849 TCATGTATTG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (45 bp):
ATCTTGTCTCCCCATACAGGCGGCGGAGCAGATAAAAGAAAGCAG
Found at i:31145253 original size:44 final size:45
Alignment explanation
Indices: 31145190--31145287 Score: 144
Period size: 44 Copynumber: 2.2 Consensus size: 45
31145180 CAGTAGAATC
** *
31145190 GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTCACATACTGGTCGTGAAGTA
* *
31145234 GATCGAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTCACATACTGGTCGTGAAGTA
31145279 GATCGAAGA
1 GATCGAAGA
31145288 TACAAGTCTT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 31 0.65
45 17 0.35
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.27
Consensus pattern (45 bp):
GATCGAAGAAAGCAGATCTTGTCTTCACATACTGGTCGTGAAGTA
Found at i:31145815 original size:44 final size:44
Alignment explanation
Indices: 31145748--31145835 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
31145738 AAGGCCCAAT
* *
31145748 CGGCCCAAAACAGTTCCTAGTCCAACATTACAAAATTAAACAGA
1 CGGCCCAAAACAGTCCCTAGTCCAACACTACAAAATTAAACAGA
* * * *
31145792 CGGCCCAAAACGGTCCCTGGTCCAACACTACAAAGTTAAGCAGA
1 CGGCCCAAAACAGTCCCTAGTCCAACACTACAAAATTAAACAGA
31145836 AAAACCCTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.39, C:0.30, G:0.16, T:0.16
Consensus pattern (44 bp):
CGGCCCAAAACAGTCCCTAGTCCAACACTACAAAATTAAACAGA
Found at i:31146390 original size:8 final size:8
Alignment explanation
Indices: 31146377--31146406 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
31146367 CTGTTGAGTT
31146377 TTTTTTTA
1 TTTTTTTA
31146385 TTTTTTTA
1 TTTTTTTA
31146393 -TTTTTTA
1 TTTTTTTA
31146400 TTTTTTT
1 TTTTTTT
31146407 CTCATTCGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTA
Found at i:31146398 original size:15 final size:15
Alignment explanation
Indices: 31146378--31146406 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31146368 TGTTGAGTTT
31146378 TTTTTTATTTTTTTA
1 TTTTTTATTTTTTTA
31146393 TTTTTTATTTTTTT
1 TTTTTTATTTTTTT
31146407 CTCATTCGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTTATTTTTTTA
Found at i:31147004 original size:22 final size:22
Alignment explanation
Indices: 31146979--31147020 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
31146969 TTTATTTTCA
31146979 TATTTT-TTTAATATATTATACT
1 TATTTTATTT-ATATATTATACT
*
31147001 TATTTTATTTATATTTTATA
1 TATTTTATTTATATATTATA
31147021 AAGTACATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTTTATTTATATATTATACT
Found at i:31147015 original size:33 final size:33
Alignment explanation
Indices: 31146951--31147017 Score: 86
Period size: 33 Copynumber: 2.0 Consensus size: 33
31146941 TACATGCGCA
31146951 TTTTACATATATATATTATTTATTTTCATATTT
1 TTTTACATATATATATTATTTATTTTCATATTT
31146984 TTTTA-ATATATTATACTTATTT-TATTT-ATATTT
1 TTTTACATATA-TATA-TTATTTAT-TTTCATATTT
31147017 T
1 T
31147018 ATAAAGTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
32 5 0.16
33 17 0.55
34 9 0.29
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (33 bp):
TTTTACATATATATATTATTTATTTTCATATTT
Found at i:31147018 original size:30 final size:34
Alignment explanation
Indices: 31146950--31147018 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 34
31146940 ATACATGCGC
*
31146950 ATTTTACATATATATATTATTTATTTTCATATTT
1 ATTTTACATATATATATTACTTATTTTCATATTT
31146984 -TTTTA-ATATAT-TA-TACTTATTTT-AT-TTAT
1 ATTTTACATATATATATTACTTATTTTCATATT-T
31147013 ATTTTA
1 ATTTTA
31147019 TAAAGTACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
28 2 0.06
29 3 0.09
30 14 0.44
31 2 0.06
32 6 0.19
33 5 0.16
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (34 bp):
ATTTTACATATATATATTACTTATTTTCATATTT
Found at i:31148268 original size:75 final size:75
Alignment explanation
Indices: 31148129--31148269 Score: 169
Period size: 75 Copynumber: 1.9 Consensus size: 75
31148119 GCTTACATAT
* * * * * * *
31148129 ATGTATATGTTCTTTTATTGAATTTAGGAATGACATTTATATAAGTTTTTATGAGATACTATTAT
1 ATGTATATGTTCTTGTAATGAATTTAAGAATGAAATTTATATAAGTGTATATGAGATACGATTAT
31148194 GCCGGTATAC
66 GCCGGTATAC
* *
31148204 ATGTATATGTTCTTGTAATGAATTTAAGTATGAAATTTATAT-A-TGTATATGGAAGATTCGATT
1 ATGTATATGTTCTTGTAATGAATTTAAGAATGAAATTTATATAAGTGTATAT-G-AGATACGATT
31148267 ATG
64 ATG
31148270 TATATATATT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
73 5 0.09
74 2 0.04
75 48 0.87
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.45
Consensus pattern (75 bp):
ATGTATATGTTCTTGTAATGAATTTAAGAATGAAATTTATATAAGTGTATATGAGATACGATTAT
GCCGGTATAC
Done.