Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 171 of 196
Found at i:49866481 original size:16 final size:16
Alignment explanation
Indices: 49866460--49866501 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
49866450 TTATTAAATT
*
49866460 ATATATTTTAATTATA
1 ATATATTTTAATAATA
49866476 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
49866491 AT-TATGTTTAA
1 ATATAT-TTTAA
49866502 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:49866486 original size:15 final size:15
Alignment explanation
Indices: 49866451--49866492 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
49866441 TTAAGAATTT
*
49866451 TATTAAATTAT-ATA
1 TATTTAATTATAATA
49866465 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
49866479 TATTTAATAATAAT
1 TATTTAATTATAAT
49866493 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:49866524 original size:82 final size:82
Alignment explanation
Indices: 49866432--49866681 Score: 202
Period size: 76 Copynumber: 3.1 Consensus size: 82
49866422 CATATAAGAA
*
49866432 TATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG
1 TATTTATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG
49866497 TTTAAATATGATTAAAT
66 TTTAAATATGATTAAAT
* * * * * * * *
49866514 TATTTATTATT--G-ATATTAATAATCTTATTAAAATTTAA--ATAACA-A--TAACAATAATAA
1 TATTTATTATTAAGAATTTTATTAA-ATTA-TATATTTTAATTATAATATATTTAATAATAATTA
* *** *
49866571 TTTACCAA-A--A-CAAAT
64 TGTTTAAATATGATTAAAT
*
49866586 T-TCTGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAAT
1 TAT-T--T-ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAAT
*
49866650 TATGTTTAAATATGATTAAAA
62 TATGTTTAAATATGATTAAAT
*
49866671 CATTTATTATT
1 TATTTATTATT
49866682 GATAATAATA
Statistics
Matches: 119, Mismatches: 30, Indels: 38
0.64 0.16 0.20
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 1 0.01
75 7 0.06
76 22 0.18
77 4 0.03
78 13 0.11
79 14 0.12
80 4 0.03
81 22 0.18
82 17 0.14
83 1 0.01
84 1 0.01
85 4 0.03
86 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (82 bp):
TATTTATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG
TTTAAATATGATTAAAT
Found at i:49866632 original size:18 final size:17
Alignment explanation
Indices: 49866604--49866638 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49866594 ATTATTAAGA
*
49866604 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
49866621 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
49866639 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:49866742 original size:157 final size:157
Alignment explanation
Indices: 49866435--49866751 Score: 580
Period size: 157 Copynumber: 2.0 Consensus size: 157
49866425 ATAAGAATAT
*
49866435 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
** *
49866500 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAACATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
49866565 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
49866592 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
49866657 AAATATGATTAAAACATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAACATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
49866722 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
49866749 TAA
1 TAA
49866752 GGGTATTTTA
Statistics
Matches: 154, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 154 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAACATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:49877622 original size:14 final size:14
Alignment explanation
Indices: 49877605--49877638 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
49877595 GTTAAAAATA
49877605 TATTATTAAATTAG
1 TATTATTAAATTAG
*
49877619 TATTATTAAATTAT
1 TATTATTAAATTAG
49877633 TATTAT
1 TATTAT
49877639 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TATTATTAAATTAG
Found at i:49877633 original size:11 final size:12
Alignment explanation
Indices: 49877600--49877637 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 12
49877590 TATGTGTTAA
49877600 AAATATATTATT
1 AAATATATTATT
49877612 AAATTAGTATTATT
1 AAA-TA-TATTATT
49877626 AAAT-TATTATT
1 AAATATATTATT
49877637 A
1 A
49877638 TATTTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 8 0.33
12 3 0.12
13 3 0.12
14 10 0.42
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (12 bp):
AAATATATTATT
Found at i:49877828 original size:17 final size:18
Alignment explanation
Indices: 49877806--49877844 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
49877796 GGAATAAAAT
*
49877806 AAAAGAATAAA-AGAAAC
1 AAAAGAAGAAATAGAAAC
49877823 AAAAGAAGAAATAGAAAC
1 AAAAGAAGAAATAGAAAC
49877841 AAAA
1 AAAA
49877845 TAGCTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.77, C:0.05, G:0.13, T:0.05
Consensus pattern (18 bp):
AAAAGAAGAAATAGAAAC
Found at i:49889270 original size:42 final size:42
Alignment explanation
Indices: 49889211--49889294 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
49889201 TCACTGGCCC
49889211 TGGTTGAATTATACAACCTTAATTTGAAGACTAGGAGTCTTT
1 TGGTTGAATTATACAACCTTAATTTGAAGACTAGGAGTCTTT
49889253 TGGTTGAATTATACAACCTTAATTTGAAGACTAGGAGTCTTT
1 TGGTTGAATTATACAACCTTAATTTGAAGACTAGGAGTCTTT
49889295 CTATTTCCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (42 bp):
TGGTTGAATTATACAACCTTAATTTGAAGACTAGGAGTCTTT
Found at i:49891001 original size:21 final size:22
Alignment explanation
Indices: 49890954--49891001 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
49890944 TTAATCTTAA
49890954 TTTTATGATATAAGTTATTGAT
1 TTTTATGATATAAGTTATTGAT
* *
49890976 GTTTAT-ATATATATTTA-TGAT
1 TTTTATGATATA-AGTTATTGAT
49890997 TTTTA
1 TTTTA
49891002 ATTAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.58
Consensus pattern (22 bp):
TTTTATGATATAAGTTATTGAT
Found at i:49893474 original size:29 final size:28
Alignment explanation
Indices: 49893401--49893477 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 28
49893391 TATTGGTTCA
*
49893401 TTTAATAAAATAAAATTTGTTTTTAAAAT
1 TTTAATAAAATAAAA-TTCTTTTTAAAAT
* * *
49893430 TTTAAT--AGT-AAATTCTTTTTATATT
1 TTTAATAAAATAAAATTCTTTTTAAAAT
49893455 TTTAATAAAATAAAAGTTCTTTT
1 TTTAATAAAATAAAA-TTCTTTT
49893478 GAATAAGGCA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
25 16 0.41
26 3 0.08
27 4 0.10
28 3 0.08
29 13 0.33
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.52
Consensus pattern (28 bp):
TTTAATAAAATAAAATTCTTTTTAAAAT
Found at i:49898330 original size:126 final size:126
Alignment explanation
Indices: 49898005--49898525 Score: 740
Period size: 126 Copynumber: 4.1 Consensus size: 126
49897995 GGCCAAACAT
* * *
49898005 GAACTAATGTAGAAAAAGAGCCTCGACGTGGGAGCTTTTTTTCA-TCAATTTTGCTGACAGTGCA
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGC-TTTTTTCAGT-AATTTTGCTGACAGTGCA
** * * * *
49898069 TCCTGCTTGAAGTGTTTTTGACACTATTTGTTCAGAGCCGTCTTCTTAAAATTATTTTTGCAA
64 TCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
* * *
49898132 GAACTACTGTA-AAAAAGAGCGTCCACGTGGGAGTTTTTTTCAGTAATTTTACTGACAGTGCATT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * * *
49898196 CTACTTGAAGCATTTTTGACACTATTTGTTCAGAATCATCTTCTCAAACTTATTTTTTCAG
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
* * *
49898257 GAACTACTGTAGAAAAAGAGCGTCCACGTGAGATCTTTTTTTAGTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* *
49898322 CTGCTTGAAGCATTTTTGACACTATTTGTTCATAAACGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
* * *
49898383 AAACTAATGTAGAAAAAGAGAGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* ** * *
49898448 TTGCTTGAAGTGTTTTTGACACTATTTGTTCAGAACCGTATTCTCAAATTTATTTTTTCAG
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
*
49898509 GAACTACTGTGGAAAAA
1 GAACTACTGTAGAAAAA
49898526 AAACAAAATC
Statistics
Matches: 349, Mismatches: 43, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
125 88 0.25
126 251 0.72
127 10 0.03
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
Found at i:49898624 original size:34 final size:34
Alignment explanation
Indices: 49898586--49898690 Score: 142
Period size: 34 Copynumber: 3.1 Consensus size: 34
49898576 CACAATATTA
*
49898586 TTTTTTTAAAA-ACTAAACCCTAATTTAAGTAAT
1 TTTTTTTAAAACACTAAACCCTAATTTAATTAAT
* *
49898619 TTTTTTAAAAACACTAAACACTAATTTAATTAA-
1 TTTTTTTAAAACACTAAACCCTAATTTAATTAAT
* *
49898652 TTTATTTAAAACTCTTAAACCCTAATTTAATTAAT
1 TTTTTTTAAAACAC-TAAACCCTAATTTAATTAAT
49898687 TTTT
1 TTTT
49898691 AGAAAAGAAC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
33 21 0.34
34 37 0.61
35 3 0.05
ACGTcount: A:0.42, C:0.12, G:0.01, T:0.45
Consensus pattern (34 bp):
TTTTTTTAAAACACTAAACCCTAATTTAATTAAT
Found at i:49914404 original size:16 final size:17
Alignment explanation
Indices: 49914372--49914409 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
49914362 AACATAATAC
*
49914372 TTTATAAAAAATTTTAT
1 TTTATAAAAAATATTAT
49914389 TTTATAAAAAA-ATTAT
1 TTTATAAAAAATATTAT
49914405 TTTAT
1 TTTAT
49914410 TCCTTCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTATAAAAAATATTAT
Found at i:49914470 original size:14 final size:15
Alignment explanation
Indices: 49914441--49914475 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
49914431 CCCTTTTAAC
49914441 TTTTGAATTTATTTT
1 TTTTGAATTTATTTT
49914456 TTTTGAATTTATTTT
1 TTTTGAATTTATTTT
49914471 TTTTG
1 TTTTG
49914476 TTGCTGATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (15 bp):
TTTTGAATTTATTTT
Found at i:49915560 original size:45 final size:45
Alignment explanation
Indices: 49915499--49915588 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
49915489 TTATGTATAC
49915499 ATATCATCCATACACATATGGTCGTTAGAAATTTATAATCAGTGT
1 ATATCATCCATACACATATGGTCGTTAGAAATTTATAATCAGTGT
49915544 ATATCATCCATACACATATGGTCGTTAGAAATTTATAATCAGTGT
1 ATATCATCCATACACATATGGTCGTTAGAAATTTATAATCAGTGT
49915589 GTGAAGCATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (45 bp):
ATATCATCCATACACATATGGTCGTTAGAAATTTATAATCAGTGT
Found at i:49917978 original size:5 final size:5
Alignment explanation
Indices: 49917968--49918002 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
49917958 GTGGATAATA
*
49917968 TATAT TATAT TATAT TATAT TATAT TATAT CATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT
49918003 ACGATAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:49918109 original size:33 final size:32
Alignment explanation
Indices: 49918067--49918134 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 32
49918057 TAAATGAACA
*
49918067 TTTTTAAATAATTTAATAATTATTTTATATATT
1 TTTTTAAATAATTTAACAATTATTTTATA-ATT
49918100 TTTTTAAATAATTTAACAATTATTTTATAATT
1 TTTTTAAATAATTTAACAATTATTTTATAATT
49918132 TTT
1 TTT
49918135 AAACAAACCG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (32 bp):
TTTTTAAATAATTTAACAATTATTTTATAATT
Found at i:49919594 original size:6 final size:6
Alignment explanation
Indices: 49919583--49919612 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
49919573 TGGCAGTGTT
49919583 GGTGGC GGTGGC GGTGGC GGTGGC GGTGGC
1 GGTGGC GGTGGC GGTGGC GGTGGC GGTGGC
49919613 AGCGTTGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.67, T:0.17
Consensus pattern (6 bp):
GGTGGC
Found at i:49919594 original size:18 final size:18
Alignment explanation
Indices: 49919571--49919627 Score: 78
Period size: 18 Copynumber: 3.2 Consensus size: 18
49919561 GAATGGCCCT
49919571 GGTGGCAGTGTTGGTGGC
1 GGTGGCAGTGTTGGTGGC
* **
49919589 GGTGGCGGTGGCGGTGGC
1 GGTGGCAGTGTTGGTGGC
*
49919607 GGTGGCAGCGTTGGTGGC
1 GGTGGCAGTGTTGGTGGC
49919625 GGT
1 GGT
49919628 CCTATGGTTG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.04, C:0.14, G:0.60, T:0.23
Consensus pattern (18 bp):
GGTGGCAGTGTTGGTGGC
Found at i:49920906 original size:24 final size:24
Alignment explanation
Indices: 49920879--49920925 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
49920869 CTCTAGAGAT
* * *
49920879 CGTGACCGTGATCGTGATAGGGAA
1 CGTGACCGAGATAGGGATAGGGAA
*
49920903 CGTGATCGAGATAGGGATAGGGA
1 CGTGACCGAGATAGGGATAGGGA
49920926 TCGATATAGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.13, G:0.40, T:0.19
Consensus pattern (24 bp):
CGTGACCGAGATAGGGATAGGGAA
Found at i:49920908 original size:18 final size:18
Alignment explanation
Indices: 49920885--49920938 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
49920875 AGATCGTGAC
*
49920885 CGTGATCGTGATAGGGAA
1 CGTGATCGAGATAGGGAA
49920903 CGTGATCGAGATAGGGATA
1 CGTGATCGAGATAGGGA-A
* *
49920922 -GGGATCGATATAGGGAA
1 CGTGATCGAGATAGGGAA
49920939 GACAGAGACA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 1 0.03
18 30 0.94
19 1 0.03
ACGTcount: A:0.31, C:0.09, G:0.39, T:0.20
Consensus pattern (18 bp):
CGTGATCGAGATAGGGAA
Found at i:49940226 original size:25 final size:25
Alignment explanation
Indices: 49940192--49940241 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
49940182 GAGAGAGAGG
49940192 ATCAGTTCAAAGAAAATCCAATTTC
1 ATCAGTTCAAAGAAAATCCAATTTC
49940217 ATCAGTTCAAAGAAAATCCAATTTC
1 ATCAGTTCAAAGAAAATCCAATTTC
49940242 CTCCAATGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (25 bp):
ATCAGTTCAAAGAAAATCCAATTTC
Found at i:49940774 original size:34 final size:34
Alignment explanation
Indices: 49940660--49940761 Score: 195
Period size: 34 Copynumber: 3.0 Consensus size: 34
49940650 TTGGAGAAGG
49940660 GGTAAATAGTAATCACTGATGGTCATATAAACTT
1 GGTAAATAGTAATCACTGATGGTCATATAAACTT
*
49940694 GGTAAATAGTAATAACTGATGGTCATATAAACTT
1 GGTAAATAGTAATCACTGATGGTCATATAAACTT
49940728 GGTAAATAGTAATCACTGATGGTCATATAAACTT
1 GGTAAATAGTAATCACTGATGGTCATATAAACTT
49940762 CCAAAAAGGT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 66 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (34 bp):
GGTAAATAGTAATCACTGATGGTCATATAAACTT
Found at i:49941891 original size:33 final size:33
Alignment explanation
Indices: 49941839--49941954 Score: 160
Period size: 33 Copynumber: 3.5 Consensus size: 33
49941829 ACCTGGAGGA
* * *
49941839 GGTGGAGGAGCCCCCCGCATAGGAGGTGGGGGC
1 GGTGCAGGTGCCCCACGCATAGGAGGTGGGGGC
*
49941872 GGTGCAGGTGCCCCACGCATAGGAGGGGGGGGC
1 GGTGCAGGTGCCCCACGCATAGGAGGTGGGGGC
* *
49941905 GGTGCAGGTGCTCCACGCATAGGAGGTGGGGGT
1 GGTGCAGGTGCCCCACGCATAGGAGGTGGGGGC
* *
49941938 GGTGCTGGTGCTCCACG
1 GGTGCAGGTGCCCCACG
49941955 AGCAGGTGGA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 75 1.00
ACGTcount: A:0.14, C:0.23, G:0.49, T:0.14
Consensus pattern (33 bp):
GGTGCAGGTGCCCCACGCATAGGAGGTGGGGGC
Found at i:49941969 original size:30 final size:31
Alignment explanation
Indices: 49941862--49941977 Score: 90
Period size: 33 Copynumber: 3.6 Consensus size: 31
49941852 CCCGCATAGG
* * * *
49941862 AGGTGGGGGCGGTGCAGGTGCCCCACGCATAGG
1 AGGTGGAGGTGGTGCAGGTGCTCCACG-A-AGC
* * * *
49941895 AGGGGGGGGCGGTGCAGGTGCTCCACGCATAGG
1 AGGTGGAGGTGGTGCAGGTGCTCCACG-A-AGC
* *
49941928 AGGTGGGGGTGGTGCTGGTGCTCCACG-AGC
1 AGGTGGAGGTGGTGCAGGTGCTCCACGAAGC
*
49941958 AGGTGGAGGTGGTGCGGGTG
1 AGGTGGAGGTGGTGCAGGTG
49941978 GAGCTCCACG
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
30 20 0.27
33 55 0.73
ACGTcount: A:0.13, C:0.19, G:0.53, T:0.16
Consensus pattern (31 bp):
AGGTGGAGGTGGTGCAGGTGCTCCACGAAGC
Found at i:49942109 original size:39 final size:39
Alignment explanation
Indices: 49942054--49942215 Score: 168
Period size: 39 Copynumber: 4.2 Consensus size: 39
49942044 CTCCAAATTT
49942054 TGGAGGTGGGGCACTAGACATCAATGGGGGAGGTGGAGG
1 TGGAGGTGGGGCACTAGACATCAATGGGGGAGGTGGAGG
* * *
49942093 TGGAGGTGGAGG-ACTAGGCA-CAGATGGGAGCA-ATGGAGG
1 TGGAGGTGG-GGCACTAGACATCA-ATGGG-GGAGGTGGAGG
* * * *
49942132 TGGAGGTGGGGCACTAGACATCAATGGCGGTGGAGGGGG
1 TGGAGGTGGGGCACTAGACATCAATGGGGGAGGTGGAGG
* * * * *
49942171 TGGAGGTGGGGCAGTGGACTTCAATGAGGGTGGTGGAGG
1 TGGAGGTGGGGCACTAGACATCAATGGGGGAGGTGGAGG
49942210 TGGAGG
1 TGGAGG
49942216 AGGAGGGGCA
Statistics
Matches: 100, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
38 5 0.05
39 89 0.89
40 6 0.06
ACGTcount: A:0.22, C:0.10, G:0.52, T:0.16
Consensus pattern (39 bp):
TGGAGGTGGGGCACTAGACATCAATGGGGGAGGTGGAGG
Found at i:49942384 original size:3 final size:3
Alignment explanation
Indices: 49942376--49942404 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
49942366 ATGTCTATTA
49942376 GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
49942405 CAAGGGGGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.69, T:0.31
Consensus pattern (3 bp):
GGT
Found at i:49942827 original size:3 final size:3
Alignment explanation
Indices: 49942796--49942847 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
49942786 ATGGAGGGAT
* *
49942796 GGA GGG GGA GG- GGA TGG- GGA GGG GGA GGA GGA GGA GGA GGA GGA
1 GGA GGA GGA GGA GGA -GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA
49942840 GGA GGA GG
1 GGA GGA GG
49942848 TGGTGGTGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
2 4 0.10
3 36 0.86
4 2 0.05
ACGTcount: A:0.25, C:0.00, G:0.73, T:0.02
Consensus pattern (3 bp):
GGA
Found at i:49942852 original size:3 final size:3
Alignment explanation
Indices: 49942846--49942871 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
49942836 AGGAGGAGGA
49942846 GGT GGT GGT GGT GGT GGT GGT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GG
49942872 GGATGGTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.69, T:0.31
Consensus pattern (3 bp):
GGT
Found at i:49958471 original size:26 final size:25
Alignment explanation
Indices: 49958442--49958525 Score: 60
Period size: 26 Copynumber: 3.0 Consensus size: 25
49958432 AATAAATAAT
49958442 TTAATCATATTTTAATATAATTATTA
1 TTAAT-ATATTTTAATATAATTATTA
* * *
49958468 TTAAATATAATTTAATAAAAATATATAA
1 TT-AATATATTTTAAT-ATAAT-TATTA
*
49958496 TTTAATAAAATTCTTAATATAATTACTTA
1 -TTAAT-ATATT-TTAATATAATTA-TTA
49958525 T
1 T
49958526 ATAAATTTAC
Statistics
Matches: 44, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
26 11 0.25
27 7 0.16
28 10 0.23
29 11 0.25
30 5 0.11
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.48
Consensus pattern (25 bp):
TTAATATATTTTAATATAATTATTA
Found at i:49958562 original size:58 final size:56
Alignment explanation
Indices: 49958426--49958563 Score: 127
Period size: 58 Copynumber: 2.4 Consensus size: 56
49958416 GATTATTAAT
* * * * **
49958426 ATAAATAATAAATAATTTAATCATATT-TTAATATAATTATTATTAAATATAATTTA
1 ATAAA-AATATATAATCTAATAAAATTCTTAATATAATTATTATTAAATATAATAAA
* * *
49958482 ATAAAAATATATAATTTAATAAAATTCTTAATATAATTACTTATATAAATTTACTAAA
1 ATAAAAATATATAATCTAATAAAATTCTTAATATAATTA-TTAT-TAAATATAATAAA
* *
49958540 ATCATAATATATAATACT-ATAAAA
1 ATAAAAATATATAAT-CTAATAAAA
49958564 ATAATATATA
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
55 18 0.26
56 17 0.25
57 4 0.06
58 28 0.41
59 1 0.01
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (56 bp):
ATAAAAATATATAATCTAATAAAATTCTTAATATAATTATTATTAAATATAATAAA
Found at i:49960071 original size:6 final size:6
Alignment explanation
Indices: 49960062--49960089 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
49960052 ACAAACAGAC
49960062 ACAAGA ACAAGA ACAAGA ACAAGA ACAA
1 ACAAGA ACAAGA ACAAGA ACAAGA ACAA
49960090 CAAGAACGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.68, C:0.18, G:0.14, T:0.00
Consensus pattern (6 bp):
ACAAGA
Found at i:49960093 original size:15 final size:15
Alignment explanation
Indices: 49960062--49960109 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
49960052 ACAAACAGAC
49960062 ACAAGAACAAG---A
1 ACAAGAACAAGAACA
49960074 ACAAGAACAAGAACA
1 ACAAGAACAAGAACA
*
49960089 ACAAGAACGAGAACA
1 ACAAGAACAAGAACA
49960104 A-AAGAA
1 ACAAGAA
49960110 ACAATCAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 11 0.34
14 5 0.16
15 16 0.50
ACGTcount: A:0.67, C:0.17, G:0.17, T:0.00
Consensus pattern (15 bp):
ACAAGAACAAGAACA
Found at i:49960112 original size:21 final size:21
Alignment explanation
Indices: 49960067--49960113 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
49960057 CAGACACAAG
*
49960067 AACAAGAACAAGAACAAGAAC
1 AACAAGAACAAGAACAAGAAA
*
49960088 AACAAGAACGAGAACAA-AAGA
1 AACAAGAACAAGAACAAGAA-A
49960109 AACAA
1 AACAA
49960114 TCAAAACACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.68, C:0.17, G:0.15, T:0.00
Consensus pattern (21 bp):
AACAAGAACAAGAACAAGAAA
Found at i:49968340 original size:28 final size:28
Alignment explanation
Indices: 49968272--49968341 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
49968262 TTTAAAGATT
** *
49968272 AAATGCAAGGAAAATGTATTAAGATATG
1 AAATGCAAGGAAAATACAGTAAGATATG
*
49968300 AAATG-TAGAGAAAATACAGTAAGATATG
1 AAATGCAAG-GAAAATACAGTAAGATATG
49968328 AAATGCAAGGAAAA
1 AAATGCAAGGAAAA
49968342 AGACTATTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 2 0.06
28 31 0.89
29 2 0.06
ACGTcount: A:0.54, C:0.04, G:0.21, T:0.20
Consensus pattern (28 bp):
AAATGCAAGGAAAATACAGTAAGATATG
Found at i:49973249 original size:15 final size:15
Alignment explanation
Indices: 49973226--49973255 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49973216 TATAATATTC
49973226 TCATAATAAATGCAT
1 TCATAATAAATGCAT
*
49973241 TCATGATAAATGCAT
1 TCATAATAAATGCAT
49973256 CCAATGCATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (15 bp):
TCATAATAAATGCAT
Found at i:49979264 original size:21 final size:21
Alignment explanation
Indices: 49979238--49979277 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
49979228 ATTTAATTTT
49979238 TTTCTT-TTATATTTTTTTAAC
1 TTTCTTGTT-TATTTTTTTAAC
*
49979259 TTTCTTGTTTTTTTTTTTA
1 TTTCTTGTTTATTTTTTTA
49979278 TTTTCCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.12, C:0.07, G:0.03, T:0.78
Consensus pattern (21 bp):
TTTCTTGTTTATTTTTTTAAC
Found at i:49982387 original size:9 final size:9
Alignment explanation
Indices: 49982369--49982417 Score: 80
Period size: 9 Copynumber: 5.4 Consensus size: 9
49982359 GTAGGGATTC
49982369 AATTCGGTT
1 AATTCGGTT
*
49982378 AATTCAGTT
1 AATTCGGTT
*
49982387 AATTCGGGT
1 AATTCGGTT
49982396 AATTCGGTT
1 AATTCGGTT
49982405 AATTCGGTT
1 AATTCGGTT
49982414 AATT
1 AATT
49982418 TTTAACCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:49982548 original size:15 final size:15
Alignment explanation
Indices: 49982525--49982578 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
49982515 TGAAAGGTCG
49982525 GTTAATTCGGTTAAT
1 GTTAATTCGGTTAAT
* * **
49982540 GTTATTTCGGGT-CG
1 GTTAATTCGGTTAAT
49982554 GTTAATTCGGTTAAT
1 GTTAATTCGGTTAAT
*
49982569 GTTATTTCGG
1 GTTAATTCGG
49982579 GTCGGTTAAC
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 10 0.34
15 19 0.66
ACGTcount: A:0.19, C:0.09, G:0.26, T:0.46
Consensus pattern (15 bp):
GTTAATTCGGTTAAT
Found at i:49982556 original size:29 final size:29
Alignment explanation
Indices: 49982520--49982587 Score: 136
Period size: 29 Copynumber: 2.3 Consensus size: 29
49982510 GATTTTGAAA
49982520 GGTCGGTTAATTCGGTTAATGTTATTTCG
1 GGTCGGTTAATTCGGTTAATGTTATTTCG
49982549 GGTCGGTTAATTCGGTTAATGTTATTTCG
1 GGTCGGTTAATTCGGTTAATGTTATTTCG
49982578 GGTCGGTTAA
1 GGTCGGTTAA
49982588 CCGAATGAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.18, C:0.10, G:0.29, T:0.43
Consensus pattern (29 bp):
GGTCGGTTAATTCGGTTAATGTTATTTCG
Found at i:49985372 original size:20 final size:20
Alignment explanation
Indices: 49985347--49985385 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
49985337 AAAATATGTA
49985347 TATAAAT-TTTTGGAATTTTT
1 TATAAATGTTTT-GAATTTTT
49985367 TATAAATGTTTTGAATTTT
1 TATAAATGTTTTGAATTTT
49985386 AAAAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (20 bp):
TATAAATGTTTTGAATTTTT
Found at i:49985422 original size:20 final size:20
Alignment explanation
Indices: 49985375--49985425 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
49985365 TTTATAAATG
*
49985375 TTTTGAA-TTTTAAAAATTA
1 TTTTGAATTTTTAAAAACTA
** *
49985394 TTTAAAATTTTTGAAAACTA
1 TTTTGAATTTTTAAAAACTA
49985414 TTTTGAATTTTT
1 TTTTGAATTTTT
49985426 TGTAATTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (20 bp):
TTTTGAATTTTTAAAAACTA
Found at i:49987339 original size:26 final size:25
Alignment explanation
Indices: 49987271--49987365 Score: 70
Period size: 26 Copynumber: 3.8 Consensus size: 25
49987261 TAAGATATAC
** **
49987271 AAAAATATGTATGTACGTGCAT-AT
1 AAAAATATGTATGTATATAAATAAT
* *
49987295 AAAAATATATATACT-TATAAA-AAT
1 AAAAATATGTAT-GTATATAAATAAT
49987319 AAAAGGATATGTATGTATATAAATTAAT
1 AAAA--ATATGTATGTATATAAA-TAAT
*
49987347 AATAATATGTATGTATATA
1 AAAAATATGTATGTATATA
49987366 CGGATTTATA
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
24 19 0.35
25 2 0.04
26 28 0.51
28 6 0.11
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.36
Consensus pattern (25 bp):
AAAAATATGTATGTATATAAATAAT
Found at i:49987606 original size:3 final size:3
Alignment explanation
Indices: 49987598--49987629 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
49987588 AACAAATAGG
*
49987598 TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
49987630 GGACTAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:49989636 original size:41 final size:41
Alignment explanation
Indices: 49989582--49989695 Score: 174
Period size: 41 Copynumber: 2.8 Consensus size: 41
49989572 TTAATTAAAA
* * *
49989582 CAGATTCAACGGCACATAGCCTGCTAGACTTATAGCCTGATT
1 CAGA-TCACCGGCACGTAGCCTGCTAGACTTATAACCTGATT
**
49989624 CAGATCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACGTAGCCTGCTAGACTTATAACCTGATT
49989665 CAGATCACCGGCACGTAGCCTGCTAGACTTA
1 CAGATCACCGGCACGTAGCCTGCTAGACTTA
49989696 AAGTCTGAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 61 0.94
42 4 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (41 bp):
CAGATCACCGGCACGTAGCCTGCTAGACTTATAACCTGATT
Found at i:49994455 original size:5 final size:5
Alignment explanation
Indices: 49994440--49994469 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
49994430 AGACCATTCT
49994440 TTATAA TTATA TTATA TTATA TTATA TTAT
1 TTAT-A TTATA TTATA TTATA TTATA TTAT
49994470 TAAATATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:49997225 original size:22 final size:22
Alignment explanation
Indices: 49997200--49997242 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
49997190 TATCCAAACA
*
49997200 ATAATAATAAAATAGTAGCAAT
1 ATAATAACAAAATAGTAGCAAT
* *
49997222 ATAATAACGAAATGGTAGCAA
1 ATAATAACAAAATAGTAGCAA
49997243 AACAACAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.07, G:0.14, T:0.23
Consensus pattern (22 bp):
ATAATAACAAAATAGTAGCAAT
Found at i:50001786 original size:18 final size:18
Alignment explanation
Indices: 50001763--50001815 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
50001753 TAAAAATGTT
*
50001763 ATTAAATT-TATTATAAAA
1 ATTAAATTCTA-TAAAAAA
50001781 ATTAAATTCTATAAAAAA
1 ATTAAATTCTATAAAAAA
*
50001799 ATCAAATTC-A-AAAAAA
1 ATTAAATTCTATAAAAAA
50001815 A
1 A
50001816 ACTTTGAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 7 0.22
17 1 0.03
18 22 0.69
19 2 0.06
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (18 bp):
ATTAAATTCTATAAAAAA
Found at i:50005513 original size:132 final size:132
Alignment explanation
Indices: 50005228--50005513 Score: 405
Period size: 132 Copynumber: 2.2 Consensus size: 132
50005218 ACATGAAGAC
** *
50005228 AAGATCTACTTTCTTCGATCGATTCCACTGCTGGCCAGAGGAATAGAATTACTGGCTTCAATATA
1 AAGATCTGTTTTCTTCGATCTATTCCACTGCTGGCCAGAGGAATAGAATTACTGGCTTCAATATA
* * * * *
50005293 CTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATTTTTTATTTGCTCTACTACTGCTTAGGGAG
66 CTCCACTGCAACCTCAAGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
50005358 AT
131 AT
** * * *
50005360 AAGATCTGTAATCTTCAATCTATTCCACTG-TTGCTCAG-GGAGATAGAATTACTGGCTTCAATG
1 AAGATCTGTTTTCTTCGATCTATTCCACTGCTGGC-CAGAGGA-ATAGAATTACTGGCTTCAATA
*
50005423 TACTCCACTGCAACCTTAAGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGG
64 TACTCCACTGCAACCTCAAGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGG
50005488 AGAT
129 AGAT
*
50005492 AAGATCTGTTTTCCTCGATCTA
1 AAGATCTGTTTTCTTCGATCTA
50005514 CTTCGCCACC
Statistics
Matches: 134, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
131 6 0.04
132 128 0.96
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (132 bp):
AAGATCTGTTTTCTTCGATCTATTCCACTGCTGGCCAGAGGAATAGAATTACTGGCTTCAATATA
CTCCACTGCAACCTCAAGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
AT
Found at i:50005778 original size:89 final size:89
Alignment explanation
Indices: 50005592--50006895 Score: 2045
Period size: 89 Copynumber: 14.6 Consensus size: 89
50005582 GGACCTGATG
50005592 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCCTTTGATCTGCTTCGCC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG--TTTT-CTTTGATCTGCTTCGCC
* *
50005657 ACCAGTATGGGAAGGGAAGATCTGTTA
63 ACCAGTATGGGAAGGCAAGATCTGGTA
* * ** *
50005684 CCTTTGATTTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTCGATCTGCTTCGCCACC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACC
*
50005749 AGTATGGGAAGACAAGATCTGGTA
66 AGTATGGGAAGGCAAGATCTGGTA
* * *
50005773 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAAATCTACTTTTTCCTTCGATCTGCTTCGCC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCT--GTTTT-CTTTGATCTGCTTCGCC
*
50005838 ACCAGTATGGGAAGGCAAGATCTGTTA
63 ACCAGTATGGGAAGGCAAGATCTGGTA
* **
50005865 CCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTTGATCTGCTTCGCCACC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACC
50005930 AGTATGGGAAGGCAAGATCTGGTA
66 AGTATGGGAAGGCAAGATCTGGTA
* * *
50005954 TCTTTGATCTATTTCACGCCAGTATATGAAGACAAGATCTTTTTTCTTTGATCTGCTTCGCCACC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACC
50006019 AGTATGGGAAGGCAAGATCTGGTA
66 AGTATGGGAAGGCAAGATCTGGTA
* *
50006043 TCTTTGATCTACTTCACGCCAGTAAATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG--TTTT-CTTTGATCTGCTTCGCC
*
50006108 ACCAGTATGGGAAGGCAAGATCTGTTA
63 ACCAGTATGGGAAGGCAAGATCTGGTA
* * *
50006135 CCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTT-TTTGATCTACTTCGCCAC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCT-GTTTTCTTTGATCTGCTTCGCCAC
** *
50006199 CAAAATGGGAAGGCAAGATCTAGTA
65 CAGTATGGGAAGGCAAGATCTGGTA
* * * *
50006224 TCTTTGATCTACTTTATGCCAGTACATGAAAACAAGATCTGTTTTCTTCGATCTGCTTCGCCACC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACC
*
50006289 AGTATGGGAAGGCAAGGTCTGGTA
66 AGTATGGGAAGGCAAGATCTGGTA
50006313 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACC
50006378 AGTATGGGAAGGCAAGATCTGGTA
66 AGTATGGGAAGGCAAGATCTGGTA
* *
50006402 TCTCTGATCTACTTCACGCCAGTACATGAAGACAATATCTGTTTTCTTTGATCTGCTTCGCCACC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACC
50006467 AGTATGGGAAGGCAAGATCTGGTA
66 AGTATGGGAAGGCAAGATCTGGTA
*
50006491 TCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACC
50006556 AGTATGGGAAGGCAAGATCTGGTA
66 AGTATGGGAAGGCAAGATCTGGTA
* * * *
50006580 TCTCTAATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGTTCTGCTTCGCCACC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACC
*
50006645 AGTATAGGAAGGCAAGATCTGGTA
66 AGTATGGGAAGGCAAGATCTGGTA
*
50006669 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTTGATCTGCTTCGCCACC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACC
*
50006734 AGTATGGGAAGACAAGATCTGGTA
66 AGTATGGGAAGGCAAGATCTGGTA
* * * *
50006758 TCTCTGATATACTTCACGCCAGTACATAAAGACAAGATCCGTTTTCTTTGATCTGCTTCGCCACC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACC
50006823 AGTATGGGAAGGCAAGATCTGGTA
66 AGTATGGGAAGGCAAGATCTGGTA
* * * *
50006847 TATCTGATCTACTTCACGTCAGTACATG-AGAACAAGATCTGTTATCTTT
1 TCTTTGATCTACTTCACGCCAGTACATGAAG-ACAAGATCTGTTTTCTTT
50006896 CAACCTGCTC
Statistics
Matches: 1121, Mismatches: 82, Indels: 21
0.92 0.07 0.02
Matches are distributed among these distances:
88 6 0.01
89 900 0.80
90 6 0.01
91 11 0.01
92 198 0.18
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (89 bp):
TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTGCTTCGCCACC
AGTATGGGAAGGCAAGATCTGGTA
Found at i:50012805 original size:62 final size:62
Alignment explanation
Indices: 50012708--50012833 Score: 243
Period size: 62 Copynumber: 2.0 Consensus size: 62
50012698 TTCCTCCTCC
*
50012708 TTGATTGGTTCATTGACCAACAATTCAGGTTCGATCGTCTTCTTCTTCTTTCCAACCGAAGT
1 TTGATTGGTTCATTGACCAACAATTCAGGTTCGATCGTCTTCTTCTTCTTTCCAACAGAAGT
50012770 TTGATTGGTTCATTGACCAACAATTCAGGTTCGATCGTCTTCTTCTTCTTTCCAACAGAAGT
1 TTGATTGGTTCATTGACCAACAATTCAGGTTCGATCGTCTTCTTCTTCTTTCCAACAGAAGT
50012832 TT
1 TT
50012834 CTTCTCTTAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (62 bp):
TTGATTGGTTCATTGACCAACAATTCAGGTTCGATCGTCTTCTTCTTCTTTCCAACAGAAGT
Found at i:50015005 original size:19 final size:19
Alignment explanation
Indices: 50014981--50015027 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
50014971 AACTATGTTT
*
50014981 AATGCATATG-ATGTAATG
1 AATGCATATGCATGAAATG
*
50014999 AAATGCAAATGCATGAAATG
1 -AATGCATATGCATGAAATG
50015019 AATGCATAT
1 AATGCATAT
50015028 AGAGACATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (19 bp):
AATGCATATGCATGAAATG
Found at i:50023278 original size:22 final size:20
Alignment explanation
Indices: 50023253--50023300 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 20
50023243 ACATTTTCCT
50023253 TTAATTAATTTAGAAAATAT-AA
1 TTAATTAA-TTA-AAAA-ATCAA
50023275 TTAATTAATTAAAAAATCAA
1 TTAATTAATTAAAAAATCAA
50023295 TTAATT
1 TTAATT
50023301 TACTTGGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.08
20 12 0.48
21 3 0.12
22 8 0.32
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
TTAATTAATTAAAAAATCAA
Found at i:50027755 original size:21 final size:20
Alignment explanation
Indices: 50027711--50027755 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
50027701 CAAATTCTTT
*
50027711 TTTCTTTTTCTCACTCTCAT
1 TTTCTTTTTCTCACTCTCAA
* *
50027731 TTTCTTTTTTTCTTCTCTCAA
1 TTTCTTTTTCTC-ACTCTCAA
50027752 TTTC
1 TTTC
50027756 ATTCAAGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.09, C:0.27, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTCTTTTTCTCACTCTCAA
Found at i:50028600 original size:30 final size:30
Alignment explanation
Indices: 50028560--50028631 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 30
50028550 TTTCAATCAC
**
50028560 TCTT-TTTTTTTTTCAATTTTG-ATTTTTTT
1 TCTTCTTTTTTTTT-AATTCCGAATTTTTTT
50028589 TCTTCTTTTTTTTTAATTCCGAATTTTTTT
1 TCTTCTTTTTTTTTAATTCCGAATTTTTTT
50028619 TCTTCTTTTTTTT
1 TCTTCTTTTTTTT
50028632 CTTCAATACT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
29 9 0.23
30 30 0.77
ACGTcount: A:0.10, C:0.11, G:0.03, T:0.76
Consensus pattern (30 bp):
TCTTCTTTTTTTTTAATTCCGAATTTTTTT
Found at i:50028695 original size:14 final size:13
Alignment explanation
Indices: 50028676--50028722 Score: 69
Period size: 14 Copynumber: 3.6 Consensus size: 13
50028666 GAATAAAAAC
50028676 TTTTTTTTT-GAA
1 TTTTTTTTTCGAA
*
50028688 TTTTTTTTTCAAAA
1 TTTTTTTTTC-GAA
50028702 TTTTTTTTTCGAA
1 TTTTTTTTTCGAA
50028715 TTTTTTTT
1 TTTTTTTT
50028723 ATATTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
12 9 0.29
13 10 0.32
14 12 0.39
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.74
Consensus pattern (13 bp):
TTTTTTTTTCGAA
Found at i:50028701 original size:27 final size:27
Alignment explanation
Indices: 50028671--50028722 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
50028661 AAATTGAATA
50028671 AAAACTTTTTTTTT-GAATTTTTTTTTC
1 AAAA-TTTTTTTTTCGAATTTTTTTTTC
50028698 AAAATTTTTTTTTCGAATTTTTTTT
1 AAAATTTTTTTTTCGAATTTTTTTT
50028723 ATATTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.67
Consensus pattern (27 bp):
AAAATTTTTTTTTCGAATTTTTTTTTC
Found at i:50032174 original size:21 final size:20
Alignment explanation
Indices: 50032130--50032174 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
50032120 CAAATTCTTT
*
50032130 TTTCTTTTTCTCACTCTCAT
1 TTTCTTTTTCTCACTCTCAA
* *
50032150 TTTCTTTTTTTCTTCTCTCAA
1 TTTCTTTTTCTC-ACTCTCAA
50032171 TTTC
1 TTTC
50032175 ATTCAAGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.09, C:0.27, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTCTTTTTCTCACTCTCAA
Found at i:50033026 original size:29 final size:31
Alignment explanation
Indices: 50032984--50033057 Score: 116
Period size: 30 Copynumber: 2.4 Consensus size: 31
50032974 CAATCACTCT
*
50032984 TTTTTTTTTCAATTTTG-ATTTTTTTTCTTC
1 TTTTTTTTTCAATTCTGAATTTTTTTTCTTC
50033014 TTTTTTTTT-AATTCTGAATTTTTTTTCTTC
1 TTTTTTTTTCAATTCTGAATTTTTTTTCTTC
50033044 TTTTTTTCTTCAAT
1 TTTTTTT-TTCAAT
50033058 ACTAAATACA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 6 0.15
30 29 0.73
31 2 0.05
32 3 0.08
ACGTcount: A:0.12, C:0.11, G:0.03, T:0.74
Consensus pattern (31 bp):
TTTTTTTTTCAATTCTGAATTTTTTTTCTTC
Found at i:50033150 original size:12 final size:12
Alignment explanation
Indices: 50033095--50033140 Score: 65
Period size: 12 Copynumber: 3.7 Consensus size: 12
50033085 GAATACAAAC
50033095 TTTTTTTTTGAA
1 TTTTTTTTTGAA
*
50033107 TTTTTTTTTCAAAA
1 TTTTTTTTT--GAA
50033121 TTTTTTTTTGAA
1 TTTTTTTTTGAA
50033133 TTTTTTTT
1 TTTTTTTT
50033141 ATATTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 19 0.63
14 11 0.37
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.76
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:50033150 original size:26 final size:26
Alignment explanation
Indices: 50033090--50033140 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
50033080 AAATTGAATA
*
50033090 CAAACTTTTTTTTTGAATTTTTTTTT
1 CAAAATTTTTTTTTGAATTTTTTTTT
50033116 CAAAATTTTTTTTTGAATTTTTTTT
1 CAAAATTTTTTTTTGAATTTTTTTT
50033141 ATATTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.69
Consensus pattern (26 bp):
CAAAATTTTTTTTTGAATTTTTTTTT
Found at i:50035125 original size:3 final size:3
Alignment explanation
Indices: 50035119--50035150 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
50035109 TTCTTCTGTC
50035119 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
50035151 AGGTAAATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:50045897 original size:17 final size:20
Alignment explanation
Indices: 50045863--50045904 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
50045853 TTTTTTCTCG
*
50045863 AAAAATTATTGATGTATT-A
1 AAAAATTATAGATGTATTGA
50045882 AAAAATT-TAGAT-TATTGA
1 AAAAATTATAGATGTATTGA
50045900 AAAAA
1 AAAAA
50045905 AAAGGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 10 0.48
19 7 0.33
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.36
Consensus pattern (20 bp):
AAAAATTATAGATGTATTGA
Found at i:50047577 original size:10 final size:11
Alignment explanation
Indices: 50047564--50047606 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 11
50047554 TAAATTTTGC
50047564 TAAAAATA-AT
1 TAAAAATATAT
50047574 TAAAAATATAT
1 TAAAAATATAT
50047585 T--AAAT-TAT
1 TAAAAATATAT
50047593 TAAAAA-ATAT
1 TAAAAATATAT
50047603 TAAA
1 TAAA
50047607 TTTATCAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
8 4 0.14
9 4 0.14
10 18 0.62
11 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAAAAATATAT
Found at i:50047616 original size:18 final size:19
Alignment explanation
Indices: 50047567--50047608 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
50047557 ATTTTGCTAA
*
50047567 AAATAATTAAAAATATATT
1 AAATTATTAAAAATATATT
50047586 AAATTATTAAAAA-ATATT
1 AAATTATTAAAAATATATT
50047604 AAATT
1 AAATT
50047609 TATCAAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTATTAAAAATATATT
Found at i:50047616 original size:19 final size:19
Alignment explanation
Indices: 50047575--50047616 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
50047565 AAAAATAATT
*
50047575 AAAAATATATTAAATTATT
1 AAAAATATATTAAATTATC
50047594 AAAAA-ATATTAAATTTATC
1 AAAAATATATTAAA-TTATC
50047613 AAAA
1 AAAA
50047617 CTTAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATATATTAAATTATC
Found at i:50047826 original size:19 final size:20
Alignment explanation
Indices: 50047791--50047836 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
50047781 CTTGCAATTC
*
50047791 AAATATTTATTATAATT-TT
1 AAATATTTATTAGAATTCTT
50047810 AAATGATTT-TTAGAATTCTT
1 AAAT-ATTTATTAGAATTCTT
50047830 -AATATTT
1 AAATATTT
50047837 TTTTATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 4 0.17
19 14 0.58
20 6 0.25
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (20 bp):
AAATATTTATTAGAATTCTT
Found at i:50047908 original size:29 final size:28
Alignment explanation
Indices: 50047852--50047910 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
50047842 TAAAATTTTA
50047852 TAATGGTTTGAAAAACTATGTCCAAATT
1 TAATGGTTTGAAAAACTATGTCCAAATT
*
50047880 TAATGGTTTGAAAAACTATGTCCAAAAT
1 TAATGGTTTGAAAAACTATGTCCAAATT
50047908 TAA
1 TAA
50047911 CTTGGATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (28 bp):
TAATGGTTTGAAAAACTATGTCCAAATT
Found at i:50072095 original size:35 final size:35
Alignment explanation
Indices: 50072050--50072126 Score: 106
Period size: 35 Copynumber: 2.2 Consensus size: 35
50072040 TTATTTTTAA
50072050 TATC-AATTTTTATAAACTTGTTACAA-AAAATTTC
1 TATCAAATTTTTATAAACTTGTTA-AAGAAAATTTC
*
50072084 TATCAAATTTTTATAAATTTGTTAAAGAAAATTTC
1 TATCAAATTTTTATAAACTTGTTAAAGAAAATTTC
50072119 -ACTCAAAT
1 TA-TCAAAT
50072127 CATGAGCACG
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
34 7 0.18
35 32 0.82
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (35 bp):
TATCAAATTTTTATAAACTTGTTAAAGAAAATTTC
Found at i:50079181 original size:27 final size:27
Alignment explanation
Indices: 50079146--50079213 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
50079136 TATTACCAGA
*
50079146 AATATGGGAAGTTCACAAGGACTACCT
1 AATATGGGAAGTCCACAAGGACTACCT
* * *
50079173 AATAAGGGAAGTCCATAAGGACTATCT
1 AATATGGGAAGTCCACAAGGACTACCT
*
50079200 AATGTGGGAAGTCC
1 AATATGGGAAGTCC
50079214 GGAGAGACTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (27 bp):
AATATGGGAAGTCCACAAGGACTACCT
Found at i:50079239 original size:54 final size:55
Alignment explanation
Indices: 50079180--50079336 Score: 130
Period size: 54 Copynumber: 2.9 Consensus size: 55
50079170 CCTAATAAGG
50079180 GAAGTCCATAAGGACTATCTAATGTGGGAAGTCCG-GAGAGACT-ATCTAAA-TGTTA
1 GAAGTCCATAAGGACTATCTAATGTGGGAAGTCCGTGA-AGA-TAATCTAAAGTG-TA
* ** * *
50079235 -AAGTCCATCAGGGA-TATAAAATGT-GGAAGTCCGTTAAGATAATCTTAAGTGTA
1 GAAGTCCAT-AAGGACTATCTAATGTGGGAAGTCCGTGAAGATAATCTAAAGTGTA
* * * * * *
50079288 GAAGCCCATTAGGACTATCTAATGT-GGAAATTCGTGAGGATTATCTAAA
1 GAAGTCCATAAGGACTATCTAATGTGGGAAGTCCGTGAAGATAATCTAAA
50079337 ATGGGGAAAG
Statistics
Matches: 80, Mismatches: 16, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
52 1 0.01
53 23 0.29
54 52 0.65
55 4 0.05
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (55 bp):
GAAGTCCATAAGGACTATCTAATGTGGGAAGTCCGTGAAGATAATCTAAAGTGTA
Found at i:50080762 original size:11 final size:11
Alignment explanation
Indices: 50080746--50080771 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
50080736 ATTTTTTTAA
50080746 TTTTAAAATAC
1 TTTTAAAATAC
50080757 TTTTAAAATAC
1 TTTTAAAATAC
50080768 TTTT
1 TTTT
50080772 TTAAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:50080785 original size:40 final size:39
Alignment explanation
Indices: 50080732--50080860 Score: 197
Period size: 40 Copynumber: 3.3 Consensus size: 39
50080722 TAATAAATAC
*
50080732 TTTT-ATTTTTTTAATTTTAAAATACTTTTAAAATACTT
1 TTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTT
* *
50080770 TTTTAAATTTTTTTAATTTTAAAATATTTTTAAGATACAT
1 TTTT-AATTTTTTTAATTTTAAAATATTTTTAAAATACTT
*
50080810 TTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAATTT
1 TTTTAATTTTTTTAATTTTAAAATATTTTTAAAAT-ACTT
50080850 TTTTAATTTTT
1 TTTTAATTTTT
50080861 AAAATAAAAT
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
38 4 0.05
39 30 0.37
40 48 0.59
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (39 bp):
TTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTT
Found at i:50080873 original size:21 final size:21
Alignment explanation
Indices: 50080834--50080873 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
50080824 ATTTTAAAAT
**
50080834 ATTTTTAAAATAATTTTTTTA
1 ATTTTTAAAATAAAATTTTTA
50080855 ATTTTTAAAATAAAATTTT
1 ATTTTTAAAATAAAATTTT
50080874 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTTAAAATAAAATTTTTA
Found at i:50080880 original size:22 final size:20
Alignment explanation
Indices: 50080833--50080880 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
50080823 AATTTTAAAA
**
50080833 TATTTTTAAAATAATTTTTT
1 TATTTTTAAAATAATTTTGG
50080853 TAATTTTTAAAATAAAATTTTGG
1 T-ATTTTTAAAAT--AATTTTGG
50080876 TATTT
1 TATTT
50080881 ATTTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.04
21 11 0.48
22 4 0.17
23 7 0.30
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTGG
Found at i:50082067 original size:19 final size:21
Alignment explanation
Indices: 50082030--50082080 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
50082020 AGGAATAAGC
* *
50082030 AAAAATTTAATTATAATA-TG
1 AAAATTTTAATCATAATATTG
50082050 AAAATTTTAATCAT-ATATTG
1 AAAATTTTAATCATAATATTG
50082070 ATAAATTTTAA
1 A-AAATTTTAA
50082081 AATATGTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 3 0.11
20 15 0.56
21 9 0.33
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (21 bp):
AAAATTTTAATCATAATATTG
Found at i:50086379 original size:18 final size:18
Alignment explanation
Indices: 50086358--50086392 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
50086348 TATAAAATAT
50086358 TTAAAAAAAAATTAAAAG
1 TTAAAAAAAAATTAAAAG
*
50086376 TTAATAAAAAATTAAAA
1 TTAAAAAAAAATTAAAA
50086393 AAATTAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
TTAAAAAAAAATTAAAAG
Found at i:50086394 original size:20 final size:20
Alignment explanation
Indices: 50086343--50086399 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 20
50086333 ACATATATTC
*
50086343 AAAATTATAAAATATTTAAAAA
1 AAAATTA-AAAA-AATTAAAAA
* *
50086365 AAAATT--AAAAGTTAATAA
1 AAAATTAAAAAAATTAAAAA
50086383 AAAATTAAAAAAATTAA
1 AAAATTAAAAAAATTAA
50086400 CATGAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 13 0.43
19 3 0.10
20 8 0.27
22 6 0.20
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (20 bp):
AAAATTAAAAAAATTAAAAA
Found at i:50101188 original size:28 final size:29
Alignment explanation
Indices: 50101156--50101212 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
50101146 TATAAGTAAC
50101156 TTTTAACAAAAATT-TAA-AAATCATAAAA
1 TTTTAA-AAAAATTATAACAAATCATAAAA
* *
50101184 TTTTAAAAATATTATAACAATTCATAAAA
1 TTTTAAAAAAATTATAACAAATCATAAAA
50101213 AAATAAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.24
28 9 0.36
29 10 0.40
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (29 bp):
TTTTAAAAAAATTATAACAAATCATAAAA
Found at i:50101300 original size:21 final size:21
Alignment explanation
Indices: 50101253--50101300 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
50101243 GTGGGTTATC
50101253 ATAATTAAAGATTTAATTAAA
1 ATAATTAAAGATTTAATTAAA
* *
50101274 AAAATTAAAAGA-TTAATTTAA
1 ATAATT-AAAGATTTAATTAAA
*
50101295 CTAATT
1 ATAATT
50101301 TTGATAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (21 bp):
ATAATTAAAGATTTAATTAAA
Found at i:50102512 original size:40 final size:40
Alignment explanation
Indices: 50102457--50102536 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
50102447 ACTCAGTTGA
50102457 TTCATGTTTTACATGATGACATTCAGCAGATCTCGAGTTT
1 TTCATGTTTTACATGATGACATTCAGCAGATCTCGAGTTT
50102497 TTCATGTTTTACATGATGACATTCAGCAGATCTCGAGTTT
1 TTCATGTTTTACATGATGACATTCAGCAGATCTCGAGTTT
50102537 GAATCCCTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.40
Consensus pattern (40 bp):
TTCATGTTTTACATGATGACATTCAGCAGATCTCGAGTTT
Found at i:50109939 original size:22 final size:23
Alignment explanation
Indices: 50109911--50109961 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
50109901 TTTGTTTTAC
*
50109911 TATTTTAAATAT-TATTTGATAAA
1 TATTTTAAAAATAT-TTTGATAAA
50109934 T-TTTTAAAAATATTTTGATAAA
1 TATTTTAAAAATATTTTGATAAA
50109956 TATTTT
1 TATTTT
50109962 TGAAATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (23 bp):
TATTTTAAAAATATTTTGATAAA
Found at i:50109956 original size:12 final size:12
Alignment explanation
Indices: 50109925--50109961 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
50109915 TTAAATATTA
50109925 TTTGATAAAT-T
1 TTTGATAAATAT
*
50109936 TTT-AAAAATAT
1 TTTGATAAATAT
50109947 TTTGATAAATAT
1 TTTGATAAATAT
50109959 TTT
1 TTT
50109962 TGAAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
10 5 0.23
11 7 0.32
12 10 0.45
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (12 bp):
TTTGATAAATAT
Found at i:50110041 original size:23 final size:23
Alignment explanation
Indices: 50109998--50110042 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
50109988 TTAAATTATT
50109998 TTTATTATTTTAAATATAAAATA
1 TTTATTATTTTAAATATAAAATA
50110021 TTTATT-TTTATATAATA-AAAAT
1 TTTATTATTT-TA-AATATAAAAT
50110043 TAAAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 3 0.15
23 13 0.65
24 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTATTATTTTAAATATAAAATA
Found at i:50110777 original size:20 final size:19
Alignment explanation
Indices: 50110754--50110801 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
50110744 TAAAATATCT
*
50110754 TATAATATATTAATATCTTA
1 TATAATATATTAAAAT-TTA
* *
50110774 TATAAAATTTTTAAAATTTA
1 TATAATA-TATTAAAATTTA
50110794 TATAATAT
1 TATAATAT
50110802 TAATTATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.04
20 15 0.65
21 7 0.30
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TATAATATATTAAAATTTA
Found at i:50111157 original size:29 final size:29
Alignment explanation
Indices: 50111093--50111162 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
50111083 GTACTTTCAT
* * * *
50111093 AAAATATCTAATGTGATATCTGTAGTTTG
1 AAAATGTCTATTGTGATATCTGTAATTTC
50111122 AAAATGTCTATTGTGATATCTG-AATTATC
1 AAAATGTCTATTGTGATATCTGTAATT-TC
* *
50111151 AATATGTGTATT
1 AAAATGTCTATT
50111163 ATTATGGTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (29 bp):
AAAATGTCTATTGTGATATCTGTAATTTC
Found at i:50115299 original size:8 final size:7
Alignment explanation
Indices: 50115282--50115358 Score: 57
Period size: 6 Copynumber: 12.3 Consensus size: 7
50115272 AATGTGATGA
50115282 AAATAAT
1 AAATAAT
50115289 AAATAAAT
1 AAAT-AAT
50115297 AAA-AA-
1 AAATAAT
* *
50115302 AAA-GAG
1 AAATAAT
50115308 AAATAAT
1 AAATAAT
50115315 -AATAAT
1 AAATAAT
50115321 -AATAAT
1 AAATAAT
50115327 -AATAAT
1 AAATAAT
50115333 -AATAAT
1 AAATAAT
50115339 -AATAAT
1 AAATAAT
50115345 -AATAAT
1 AAATAAT
50115351 -AATAAT
1 AAATAAT
50115357 AA
1 AA
50115359 TAAACTAATT
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
5 4 0.06
6 47 0.75
7 6 0.10
8 6 0.10
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (7 bp):
AAATAAT
Found at i:50115381 original size:3 final size:3
Alignment explanation
Indices: 50115309--50115361 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
50115299 AAAAAAGAGA
50115309 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
50115357 AAT AA
1 AAT AA
50115362 ACTAATTAGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:50116818 original size:7 final size:7
Alignment explanation
Indices: 50116806--50116832 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
50116796 GAATTTAAAT
50116806 TTCAAAA
1 TTCAAAA
50116813 TTCAAAA
1 TTCAAAA
50116820 TTCAAAA
1 TTCAAAA
50116827 TTCAAA
1 TTCAAA
50116833 GAAAAATTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (7 bp):
TTCAAAA
Found at i:50122037 original size:107 final size:110
Alignment explanation
Indices: 50121841--50122138 Score: 482
Period size: 107 Copynumber: 2.8 Consensus size: 110
50121831 AAAATTTTTA
50121841 TAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
1 TAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
50121906 TTTTCTCGTTCAACCAAATAGCTTAATATCC-TTTTAAAAATTT-
66 TTTTCTCGTTCAACCAAATAGCTTAATATCCTTTTTAAAAATTTC
* *
50121949 TAAAT-AGGTAATGTTTTGCGTTTGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
1 TAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
50122013 TTTTCTCGTTCAACCAAATAGCTTAATATCCTTTTTAAAAATTTC
66 TTTTCTCGTTCAACCAAATAGCTTAATATCCTTTTTAAAAATTTC
* ** * *
50122058 AAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GGACGTGCCCTAAGGTGCTGGGTTTCGA-
1 TAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
*
50122121 -TTTCTCGTTTAACCAAAT
66 TTTTCTCGTTCAACCAAAT
50122139 TGCCAAATAT
Statistics
Matches: 177, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
107 105 0.59
108 17 0.10
109 28 0.16
110 27 0.15
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (110 bp):
TAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGAT
TTTTCTCGTTCAACCAAATAGCTTAATATCCTTTTTAAAAATTTC
Found at i:50126199 original size:89 final size:89
Alignment explanation
Indices: 50126083--50126269 Score: 365
Period size: 89 Copynumber: 2.1 Consensus size: 89
50126073 ATCGAATATG
*
50126083 CAATATTATACATAAACTTTGATTTGGTGTAATTTTATATATAAAATTTTTAATATTCATAAATC
1 CAATTTTATACATAAACTTTGATTTGGTGTAATTTTATATATAAAATTTTTAATATTCATAAATC
50126148 ACTAACAACATTACTGAATTAACA
66 ACTAACAACATTACTGAATTAACA
50126172 CAATTTTATACATAAACTTTGATTTGGTGTAATTTTATATATAAAATTTTTAATATTCATAAATC
1 CAATTTTATACATAAACTTTGATTTGGTGTAATTTTATATATAAAATTTTTAATATTCATAAATC
50126237 ACTAACAACATTACTGAATTAACA
66 ACTAACAACATTACTGAATTAACA
50126261 CAATTTTAT
1 CAATTTTAT
50126270 GTTGATATAT
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 97 1.00
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (89 bp):
CAATTTTATACATAAACTTTGATTTGGTGTAATTTTATATATAAAATTTTTAATATTCATAAATC
ACTAACAACATTACTGAATTAACA
Found at i:50127759 original size:103 final size:102
Alignment explanation
Indices: 50127642--50127831 Score: 274
Period size: 103 Copynumber: 1.9 Consensus size: 102
50127632 ATGAATTTCG
* * * * * * *
50127642 ACTACCCATTCAATTCTACACTCTACATAATTCTAAGGTATCTTTATTTTTATTTAAGA-TAATT
1 ACTACCCATCCAATTATACACTCTACATAATCCTAAGGTACCATTATTTATATCTAAGATTAA-T
50127706 AAATATATATATATTCATGTATTTATCAATGAATTTATT
65 AAA-ATATATATATTCATGTATTTATCAATGAATTTATT
* *
50127745 ACTACCCATCCAATTATACGCTCTACATAATCCTAAGGTACCATTATTTATATCTAAGATTAATC
1 ACTACCCATCCAATTATACACTCTACATAATCCTAAGGTACCATTATTTATATCTAAGATTAATA
50127810 AAATATATATATTCATGTATTT
66 AAATATATATATTCATGTATTT
50127832 GGATCATGTT
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
102 20 0.26
103 54 0.70
104 3 0.04
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.42
Consensus pattern (102 bp):
ACTACCCATCCAATTATACACTCTACATAATCCTAAGGTACCATTATTTATATCTAAGATTAATA
AAATATATATATTCATGTATTTATCAATGAATTTATT
Found at i:50128020 original size:14 final size:15
Alignment explanation
Indices: 50127998--50128027 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
50127988 TCATATACAT
50127998 TAAGTTATATTTTTA
1 TAAGTTATATTTTTA
50128013 TAAG-TATATTTTTA
1 TAAGTTATATTTTTA
50128027 T
1 T
50128028 TTTTATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (15 bp):
TAAGTTATATTTTTA
Found at i:50129102 original size:15 final size:15
Alignment explanation
Indices: 50129057--50129102 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
50129047 ATTTAATAAA
50129057 AATAATATTTTAT-T
1 AATAATATTTTATGT
*
50129071 AATATATATAATT-TGT
1 AATA-ATAT-TTTATGT
50129087 AATAATATTTTATGT
1 AATAATATTTTATGT
50129102 A
1 A
50129103 TTGCTAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
14 6 0.23
15 13 0.50
16 7 0.27
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (15 bp):
AATAATATTTTATGT
Found at i:50129412 original size:18 final size:18
Alignment explanation
Indices: 50129386--50129425 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
50129376 GCCTTTCTAC
*
50129386 TATATTATATAAATAGTA
1 TATAATATATAAATAGTA
* *
50129404 TATAATATATTAATAGTT
1 TATAATATATAAATAGTA
50129422 TATA
1 TATA
50129426 TGTATACATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (18 bp):
TATAATATATAAATAGTA
Found at i:50134257 original size:18 final size:18
Alignment explanation
Indices: 50134215--50134257 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
50134205 ATATAAAAAT
*
50134215 ATTTTTAAAATAAATTTT
1 ATTTTTAAAATAAATTTG
**
50134233 AGATTTAAAATAAATTTG
1 ATTTTTAAAATAAATTTG
50134251 ATTTTTA
1 ATTTTTA
50134258 TTACTTAAGT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
ATTTTTAAAATAAATTTG
Found at i:50134772 original size:51 final size:51
Alignment explanation
Indices: 50134688--50134785 Score: 119
Period size: 51 Copynumber: 1.9 Consensus size: 51
50134678 AATTATTTTT
50134688 TCAATTTCCTCTCAATTTCCTTCCAAATCTCTCTCAAA-CCCATATTTAATC
1 TCAATTTCCTCTCAATTTCCTTCCAAATCTCTCTCAAATCCC-TATTTAATC
* * * * *
50134739 TCAATTTGCTCTCAGTTTCC-TCTTAAATTTCTCTTAAATCCCTATTT
1 TCAATTTCCTCTCAATTTCCTTC-CAAATCTCTCTCAAATCCCTATTT
50134786 TTAATTATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 2 0.05
51 35 0.88
52 3 0.08
ACGTcount: A:0.24, C:0.30, G:0.02, T:0.44
Consensus pattern (51 bp):
TCAATTTCCTCTCAATTTCCTTCCAAATCTCTCTCAAATCCCTATTTAATC
Found at i:50136430 original size:30 final size:30
Alignment explanation
Indices: 50136364--50136431 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
50136354 GACAACGACG
50136364 CAGGCCCATCAACGAGGCCCAAAAATTCAC
1 CAGGCCCATCAACGAGGCCCAAAAATTCAC
* * * * *
50136394 CCGGCCCATCATC-AGCGCCCATAACTTCAT
1 CAGGCCCATCAACGAG-GCCCAAAAATTCAC
50136424 CAGGCCCA
1 CAGGCCCA
50136432 GCAAATGTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
29 2 0.06
30 29 0.94
ACGTcount: A:0.29, C:0.41, G:0.16, T:0.13
Consensus pattern (30 bp):
CAGGCCCATCAACGAGGCCCAAAAATTCAC
Found at i:50136538 original size:18 final size:18
Alignment explanation
Indices: 50136515--50136557 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
50136505 TGTCAGGTGC
* *
50136515 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
50136533 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
50136551 GTTTCCT
1 GTATCCT
50136558 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:50140317 original size:124 final size:124
Alignment explanation
Indices: 50140097--50140382 Score: 482
Period size: 124 Copynumber: 2.3 Consensus size: 124
50140087 CCCAAACATG
* *
50140097 CTACTGTAGCAAAAGCCCGTCCACGTGGGAGCGATTTAAAAAATTCTTCTGATAAAGCATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTAC
* * *
50140162 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGATATTATTTTTTCAAGAC
66 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTACTTTTTCAAGAC
*
50140221 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTAC
* *
50140286 TTGAAGCTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTACTTTTTCAGGAC
66 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTACTTTTTCAAGAC
* *
50140345 CTACTGTATCAAAAACGCGTCCACGTGGGAGCGATTTC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
50140383 CTTAATAAAT
Statistics
Matches: 152, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
124 152 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTAC
TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTACTTTTTCAAGAC
Found at i:50146907 original size:68 final size:68
Alignment explanation
Indices: 50146798--50146937 Score: 280
Period size: 68 Copynumber: 2.1 Consensus size: 68
50146788 TGTAATTGAG
50146798 ATCTATATATTCAGATTCTATCCAAGTGATGATATAAATATGTATTGAATAATCATACTTTTATA
1 ATCTATATATTCAGATTCTATCCAAGTGATGATATAAATATGTATTGAATAATCATACTTTTATA
50146863 CTC
66 CTC
50146866 ATCTATATATTCAGATTCTATCCAAGTGATGATATAAATATGTATTGAATAATCATACTTTTATA
1 ATCTATATATTCAGATTCTATCCAAGTGATGATATAAATATGTATTGAATAATCATACTTTTATA
50146931 CTC
66 CTC
50146934 ATCT
1 ATCT
50146938 CACTCCTCAA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 72 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (68 bp):
ATCTATATATTCAGATTCTATCCAAGTGATGATATAAATATGTATTGAATAATCATACTTTTATA
CTC
Found at i:50148946 original size:16 final size:17
Alignment explanation
Indices: 50148922--50148954 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
50148912 GGATTTATAT
*
50148922 AATTTTAAA-ATTTTAA
1 AATTATAAATATTTTAA
50148938 AATTATAAATATTTTAA
1 AATTATAAATATTTTAA
50148955 TTTTAGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTATAAATATTTTAA
Found at i:50153753 original size:57 final size:59
Alignment explanation
Indices: 50153642--50153789 Score: 194
Period size: 57 Copynumber: 2.5 Consensus size: 59
50153632 AATTGACGGT
*
50153642 AAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTG
1 AAAAA-GATCTAGCCTGGACGGGTGATCC-AT-CTGATATAGCCCTCCCGAAGAATATGTG-G
50153705 AAAAAGATCTAGCCTGGACGGGTGAT-C-T-TGATATAGCCCTCCCGAAGAATATGTGG
1 AAAAAGATCTAGCCTGGACGGGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGG
* * *
50153761 AAAATGAATTTAGCCTGGACGGGTAATCC
1 AAAAAG-ATCTAGCCTGGACGGGTGATCC
50153790 GAATTAGGGT
Statistics
Matches: 79, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
56 6 0.08
57 45 0.57
58 1 0.01
59 1 0.01
61 1 0.01
62 20 0.25
63 5 0.06
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (59 bp):
AAAAAGATCTAGCCTGGACGGGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGG
Found at i:50154017 original size:66 final size:66
Alignment explanation
Indices: 50153911--50154036 Score: 252
Period size: 66 Copynumber: 1.9 Consensus size: 66
50153901 GTTTATATTA
50153911 CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGGATGAGGTTCGCGGGAGTGTGCTATCTT
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGGATGAGGTTCGCGGGAGTGTGCTATCTT
50153976 G
66 G
50153977 CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGGATGAGGTTCGCGGGAGTGTGCT
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGGATGAGGTTCGCGGGAGTGTGCT
50154037 CTCTGAAATG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.18, C:0.18, G:0.37, T:0.26
Consensus pattern (66 bp):
CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGGATGAGGTTCGCGGGAGTGTGCTATCTT
G
Found at i:50160029 original size:6 final size:6
Alignment explanation
Indices: 50160015--50160047 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
50160005 AAGACAGTAA
*
50160015 AAGAAG AAGATG AAGATG AAGATG AAGA-G AAGA
1 AAGATG AAGATG AAGATG AAGATG AAGATG AAGA
50160048 GGAGGAGGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.58, C:0.00, G:0.33, T:0.09
Consensus pattern (6 bp):
AAGATG
Found at i:50169280 original size:38 final size:38
Alignment explanation
Indices: 50169236--50169312 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
50169226 TTGAACTATC
50169236 TCACTTAGTTCTTTTTGCTCAAAATCTATCTCACTTAG
1 TCACTTAGTTCTTTTTGCTCAAAATCTATCTCACTTAG
50169274 TCACTTAGTTCTTTTTGCTCAAAATCTATCTCACTTAG
1 TCACTTAGTTCTTTTTGCTCAAAATCTATCTCACTTAG
50169312 T
1 T
50169313 TACCCGGCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.45
Consensus pattern (38 bp):
TCACTTAGTTCTTTTTGCTCAAAATCTATCTCACTTAG
Found at i:50170586 original size:31 final size:31
Alignment explanation
Indices: 50170522--50170587 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
50170512 AAAAAATATT
* *
50170522 AATTTAACTCTTTCTAAAACATTAATAGTTA
1 AATTCAACTCTTTCTAAAACATTAATAGCTA
* *
50170553 AATTCAACTCTTTTTAAAATATTGAATA-CTA
1 AATTCAACTCTTTCTAAAACATT-AATAGCTA
50170584 AATT
1 AATT
50170588 TAGCTAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 26 0.87
32 4 0.13
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (31 bp):
AATTCAACTCTTTCTAAAACATTAATAGCTA
Found at i:50170914 original size:27 final size:27
Alignment explanation
Indices: 50170884--50170956 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
50170874 GACTAGTTGC
50170884 GCCTATCTCGA-AGGCGCCAATGGTGGA
1 GCCTAT-TCGACAGGCGCCAATGGTGGA
*
50170911 GCCTATTTGACAGGCGCCAATGGTGGA
1 GCCTATTCGACAGGCGCCAATGGTGGA
* *
50170938 GCCTATTTGACAGGTGCCA
1 GCCTATTCGACAGGCGCCA
50170957 CTGCTGCTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
26 3 0.07
27 40 0.93
ACGTcount: A:0.22, C:0.25, G:0.32, T:0.22
Consensus pattern (27 bp):
GCCTATTCGACAGGCGCCAATGGTGGA
Found at i:50171166 original size:12 final size:12
Alignment explanation
Indices: 50171149--50171173 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50171139 GGTGTTCATT
50171149 CGGTTAACCGAC
1 CGGTTAACCGAC
50171161 CGGTTAACCGAC
1 CGGTTAACCGAC
50171173 C
1 C
50171174 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:50171358 original size:9 final size:9
Alignment explanation
Indices: 50171304--50171359 Score: 58
Period size: 9 Copynumber: 6.1 Consensus size: 9
50171294 TTTGGTTAAA
50171304 AATTACCCG
1 AATTACCCG
*
50171313 AATTAACCG
1 AATTACCCG
*
50171322 AATTAACCG
1 AATTACCCG
**
50171331 AATTACCAAA
1 AATTACC-CG
*
50171341 AAATACCCG
1 AATTACCCG
50171350 AATTACCCG
1 AATTACCCG
50171359 A
1 A
50171360 TTTTTTTATT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
9 32 0.84
10 6 0.16
ACGTcount: A:0.45, C:0.27, G:0.09, T:0.20
Consensus pattern (9 bp):
AATTACCCG
Found at i:50172909 original size:3 final size:3
Alignment explanation
Indices: 50172903--50172932 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
50172893 CATTACCTTT
50172903 TTC TTC TTC TTC TTC TTC TTC -TC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
50172933 CCTTTCTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:50172929 original size:17 final size:17
Alignment explanation
Indices: 50172902--50172949 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
50172892 ACATTACCTT
50172902 TTTCT-TCTTCTTCTTC
1 TTTCTCTCTTCTTCTTC
*
50172918 -TTCTTCTCTTCTTCTCC
1 TTTC-TCTCTTCTTCTTC
50172935 TTTCTCTCTT-TTCTT
1 TTTCTCTCTTCTTCTT
50172950 TCTCTCTTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 3 0.11
16 5 0.19
17 16 0.59
18 3 0.11
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTCTCTCTTCTTCTTC
Found at i:50177804 original size:10 final size:10
Alignment explanation
Indices: 50177789--50177813 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
50177779 GTTGATTGGC
50177789 TGATTGACTG
1 TGATTGACTG
50177799 TGATTGACTG
1 TGATTGACTG
50177809 TGATT
1 TGATT
50177814 CCTTTGTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.08, G:0.28, T:0.44
Consensus pattern (10 bp):
TGATTGACTG
Found at i:50178085 original size:18 final size:19
Alignment explanation
Indices: 50178062--50178102 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
50178052 TAATGGACTT
50178062 TATAGGATAA-TTTATTGG
1 TATAGGATAATTTTATTGG
50178080 TATAGGATAATTTTTATTGG
1 TATAGGATAA-TTTTATTGG
50178100 TAT
1 TAT
50178103 TTTTATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.48
20 11 0.52
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.49
Consensus pattern (19 bp):
TATAGGATAATTTTATTGG
Found at i:50182320 original size:108 final size:109
Alignment explanation
Indices: 50182199--50182451 Score: 336
Period size: 115 Copynumber: 2.3 Consensus size: 109
50182189 AAATAAATTA
50182199 TAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATGA-TT-TTAG
1 TAAATTATATTTAATAATAATTATTTAAATTATA-TTT-TAGTA-T-TATATTATGATTTATTAG
*
50182262 TAAATTCATATAAG-A-A-TAAGAATTTTATTAAATTATATATTTTAT
62 TAAATTCATATAAGAATATTAACAATTTTATTAAATTATATATTTTAT
*
50182307 TAAATTATATTTAATAATTATTATTTTAAATTATATTTTAGTATTATATTATGATTTTATTAGTA
1 TAAATTATATTTAATAATAATTA-TTTAAATTATATTTTAGTATTATATTATGA-TTTATTAGTA
50182372 AATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
64 AATTCATATAAG-A-A--TATTAACAATTTTATTAAATTATATATTTTAT
* *
50182422 TAAATTATATTTTATAACAATTATGTTAAA
1 TAAATTATATTTAATAATAATTAT-TTAAA
50182452 ATATGATTAA
Statistics
Matches: 128, Mismatches: 5, Indels: 17
0.85 0.03 0.11
Matches are distributed among these distances:
105 10 0.08
106 1 0.01
107 7 0.05
108 43 0.34
109 11 0.09
111 1 0.01
114 2 0.02
115 53 0.41
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (109 bp):
TAAATTATATTTAATAATAATTATTTAAATTATATTTTAGTATTATATTATGATTTATTAGTAAA
TTCATATAAGAATATTAACAATTTTATTAAATTATATATTTTAT
Found at i:50182434 original size:15 final size:17
Alignment explanation
Indices: 50182283--50182431 Score: 77
Period size: 17 Copynumber: 9.0 Consensus size: 17
50182273 AAGAATAAGA
50182283 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
50182300 ATTTTATTAAA-T-TAT
1 ATTTTATTAAATTATAT
*
50182315 A-TTTAAT-AATTAT-T
1 ATTTTATTAAATTATAT
50182329 A--TT-TTAAATTATAT
1 ATTTTATTAAATTATAT
*
50182343 -TTTAGTATTATATTATGAT
1 ATTT--TATTAAATTAT-AT
* *
50182362 TTTATTAGTAAATTCATAT
1 ATT-TTATTAAATT-ATAT
*** * *
50182381 AAGAATATT-TATTA-ACA
1 -ATTTTATTAAATTATA-T
50182398 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
50182415 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
50182432 TTTATAACAA
Statistics
Matches: 98, Mismatches: 17, Indels: 34
0.66 0.11 0.23
Matches are distributed among these distances:
12 1 0.01
13 10 0.10
14 9 0.09
15 6 0.06
16 7 0.07
17 34 0.35
18 12 0.12
19 14 0.14
20 4 0.04
21 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:50182445 original size:16 final size:15
Alignment explanation
Indices: 50182398--50182445 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
50182388 TTTATTAACA
*
50182398 ATTTTATTAAATTATAT
1 ATTTTA-TAAAAT-TAT
*
50182415 ATTTTATTAAATTAT
1 ATTTTATAAAATTAT
50182430 ATTTTATAACAATTAT
1 ATTTTATAA-AATTAT
50182446 GTTAAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.41
16 10 0.37
17 6 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTATAAAATTAT
Found at i:50182512 original size:115 final size:115
Alignment explanation
Indices: 50182269--50182485 Score: 262
Period size: 115 Copynumber: 1.9 Consensus size: 115
50182259 TAGTAAATTC
* * ** *
50182269 ATATAAGAATAAGAATTTTATTAAATTATATATTTTATTAAATTATATTTAATAATTATTATTTT
1 ATATAACAATAACAATTTTATTAAATTATATATTTTATTAAATTATATTTAATAACAATTATGTT
* * *
50182334 AAATTATATTTTAGTATTATATTATGATTTTATTAGTAAATTCATATAAGA
66 AAA-TATATATTAGAATTATATTATGATTTTATTAATAAATTCATATAAGA
** * *
50182385 ATAT-TTATTAACAATTTTATTAAATTATATATTTTATTAAATTATATTTTATAACAATTATGTT
1 ATATAACAATAACAATTTTATTAAATTATATATTTTATTAAATTATATTTAATAACAATTATGTT
*
50182449 AAA-ATATGATTA-AATTAT-TTATTATTTATATTAATAA
66 AAATATAT-ATTAGAATTATATTATGATTT-TATTAATAA
50182486 TCTTATTAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
112 8 0.09
113 17 0.20
114 3 0.03
115 55 0.63
116 4 0.05
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (115 bp):
ATATAACAATAACAATTTTATTAAATTATATATTTTATTAAATTATATTTAATAACAATTATGTT
AAATATATATTAGAATTATATTATGATTTTATTAATAAATTCATATAAGA
Found at i:50182632 original size:39 final size:43
Alignment explanation
Indices: 50182586--50182679 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 43
50182576 TGCTATTATA
*
50182586 CCTCTATTC-A-ATTCAACCAAACACAAGAA-TA-CTATTACG
1 CCTCTATTCTACATTCAACCAAACAAAAGAATTACCTATTACG
50182625 CCTCTATTCCATTACATTCAACCAAACAAAAGAATTACCTATTACG
1 CCTCTATT-C--TACATTCAACCAAACAAAAGAATTACCTATTACG
50182671 CCTCTATTC
1 CCTCTATTC
50182680 CATTACGCCT
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
39 8 0.17
40 1 0.02
43 1 0.02
44 18 0.38
45 3 0.06
46 16 0.34
ACGTcount: A:0.37, C:0.30, G:0.04, T:0.29
Consensus pattern (43 bp):
CCTCTATTCTACATTCAACCAAACAAAAGAATTACCTATTACG
Done.