Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 101 of 295
Found at i:29866524 original size:7 final size:7
Alignment explanation
Indices: 29866500--29866544 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
29866490 CCATAACACA
29866500 TAACCCC
1 TAACCCC
* *
29866507 TAACACA
1 TAACCCC
29866514 TAACCCC
1 TAACCCC
29866521 TAACCCC
1 TAACCCC
29866528 TAACCCC
1 TAACCCC
*
29866535 TAACACC
1 TAACCCC
29866542 TAA
1 TAA
29866545 ACCTTAAACC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.38, C:0.47, G:0.00, T:0.16
Consensus pattern (7 bp):
TAACCCC
Found at i:29866543 original size:21 final size:21
Alignment explanation
Indices: 29866478--29866544 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
29866468 TCATACAACA
* *
29866478 TAACCCTTAAACCCATAACACA
1 TAACCCCT-AACCCATAACACC
* *
29866500 TAACCCCTAACACATAACCCC
1 TAACCCCTAACCCATAACACC
*
29866521 TAACCCCTAACCCCTAACACC
1 TAACCCCTAACCCATAACACC
29866542 TAA
1 TAA
29866545 ACCTTAAACC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 31 0.82
22 7 0.18
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.16
Consensus pattern (21 bp):
TAACCCCTAACCCATAACACC
Found at i:29866544 original size:14 final size:14
Alignment explanation
Indices: 29866487--29866540 Score: 81
Period size: 14 Copynumber: 3.9 Consensus size: 14
29866477 ATAACCCTTA
*
29866487 AACCCATAACACAT
1 AACCCCTAACACAT
29866501 AACCCCTAACACAT
1 AACCCCTAACACAT
* *
29866515 AACCCCTAACCCCT
1 AACCCCTAACACAT
29866529 AACCCCTAACAC
1 AACCCCTAACAC
29866541 CTAAACCTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.41, C:0.46, G:0.00, T:0.13
Consensus pattern (14 bp):
AACCCCTAACACAT
Found at i:29866560 original size:28 final size:29
Alignment explanation
Indices: 29866500--29866582 Score: 84
Period size: 28 Copynumber: 2.9 Consensus size: 29
29866490 CCATAACACA
* * *
29866500 TAACCCCTAACACATAACCCCT-AACCCC
1 TAACCCCTAACACCTAAACCTTAAACCCC
29866528 TAACCCCTAACACCTAAACCTTAAACCCC
1 TAACCCCTAACACCTAAACCTTAAACCCC
*
29866557 -AACCCTTAA-ACCATAAA-CTGTAAACC
1 TAACCCCTAACACC-TAAACCT-TAAACC
29866583 ATAATCCATA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.10
28 37 0.77
29 6 0.12
ACGTcount: A:0.40, C:0.42, G:0.01, T:0.17
Consensus pattern (29 bp):
TAACCCCTAACACCTAAACCTTAAACCCC
Found at i:29866568 original size:21 final size:22
Alignment explanation
Indices: 29866529--29866574 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
29866519 CCTAACCCCT
*
29866529 AACCCCTAACACCTAAACCTTA
1 AACCCCTAACACCTAAACCATA
29866551 AACCCC-AAC-CCTTAAACCATA
1 AACCCCTAACACC-TAAACCATA
29866572 AAC
1 AAC
29866575 TGTAAACCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 2 0.09
21 14 0.64
22 6 0.27
ACGTcount: A:0.43, C:0.41, G:0.00, T:0.15
Consensus pattern (22 bp):
AACCCCTAACACCTAAACCATA
Found at i:29866573 original size:7 final size:7
Alignment explanation
Indices: 29866563--29866623 Score: 59
Period size: 7 Copynumber: 8.6 Consensus size: 7
29866553 CCCCAACCCT
29866563 TAAACCA
1 TAAACCA
**
29866570 TAAACTG
1 TAAACCA
29866577 TAAACCA
1 TAAACCA
*
29866584 TAATCCA
1 TAAACCA
29866591 TAAACCCA
1 TAAA-CCA
*
29866599 TAATCCA
1 TAAACCA
*
29866606 TAATCCA
1 TAAACCA
*
29866613 TAAACCT
1 TAAACCA
29866620 TAAA
1 TAAA
29866624 ATAGTAACTC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 38 0.86
8 6 0.14
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (7 bp):
TAAACCA
Found at i:29866935 original size:24 final size:24
Alignment explanation
Indices: 29866907--29866955 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
29866897 CCAAAATAAC
*
29866907 AATTAATTTTTATATAGACTTTTA
1 AATTAATTTTTATATAAACTTTTA
29866931 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
29866955 A
1 A
29866956 TAAATATACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:29867677 original size:81 final size:81
Alignment explanation
Indices: 29867578--29867774 Score: 233
Period size: 81 Copynumber: 2.5 Consensus size: 81
29867568 TTTTAGTGGT
* * *
29867578 GTTTTACCAAAAGCGCCGCTAATACTCTGTCTTTTAGCGACGCTTTTGGT-AAAACGCCGCTAAT
1 GTTTTACCAAAAGCGCCGCTAATACTCTGTCTTTTACCGACG-TTTT-ATAAAAACGCCGCTAAA
*
29867642 GCTCTGTCTTTTAGC-GC
64 GCTCTATCTTTTAGCAGC
* * *
29867659 GTTTTACCAAAAGTGCCGCTACTGCTCTGTCTTTTACCGACGTTTTATCAAAAACGCCGCTAAAG
1 GTTTTACCAAAAGCGCCGCTAATACTCTGTCTTTTACCGACGTTTTAT-AAAAACGCCGCTAAAG
29867724 CTCTATCTTTTAGCAGC
65 CTCTATCTTTTAGCAGC
* * * *
29867741 G-TTT--CAAAAACGCCGCTATTGCTCTGTGTTTTAC
1 GTTTTACCAAAAGCGCCGCTAATACTCTGTCTTTTAC
29867775 AATTTTTGCA
Statistics
Matches: 102, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
79 27 0.26
80 4 0.04
81 68 0.67
82 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (81 bp):
GTTTTACCAAAAGCGCCGCTAATACTCTGTCTTTTACCGACGTTTTATAAAAACGCCGCTAAAGC
TCTATCTTTTAGCAGC
Found at i:29867688 original size:40 final size:41
Alignment explanation
Indices: 29867578--29867773 Score: 206
Period size: 41 Copynumber: 4.9 Consensus size: 41
29867568 TTTTAGTGGT
* *
29867578 GTTTTACCAAAAGCGCCGCTAATACTCTGTCTTTTAGCGAC
1 GTTTTACCAAAAACGCCGCTAATGCTCTGTCTTTTAGCGAC
***
29867619 GCTTTT-GGTAAAACGCCGCTAATGCTCTGTCTTTTAGCG-C
1 G-TTTTACCAAAAACGCCGCTAATGCTCTGTCTTTTAGCGAC
** * *
29867659 GTTTTACCAAAAGTGCCGCTACTGCTCTGTCTTTTACCGAC
1 GTTTTACCAAAAACGCCGCTAATGCTCTGTCTTTTAGCGAC
* * *
29867700 GTTTTATCAAAAACGCCGCTAAAGCTCTATCTTTTAGC-AGC
1 GTTTTACCAAAAACGCCGCTAATGCTCTGTCTTTTAGCGA-C
* *
29867741 G-TTT--CAAAAACGCCGCTATTGCTCTGTGTTTTA
1 GTTTTACCAAAAACGCCGCTAATGCTCTGTCTTTTA
29867774 CAATTTTTGC
Statistics
Matches: 128, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
38 25 0.20
39 4 0.03
40 32 0.25
41 63 0.49
42 4 0.03
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (41 bp):
GTTTTACCAAAAACGCCGCTAATGCTCTGTCTTTTAGCGAC
Found at i:29870110 original size:19 final size:19
Alignment explanation
Indices: 29870083--29870121 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
29870073 TAGTTTCTTG
29870083 TATCCTATGATACTTCATA
1 TATCCTATGATACTTCATA
* *
29870102 TATCTTATGATATTTCATA
1 TATCCTATGATACTTCATA
29870121 T
1 T
29870122 TAATATGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (19 bp):
TATCCTATGATACTTCATA
Found at i:29872448 original size:40 final size:40
Alignment explanation
Indices: 29872388--29872584 Score: 209
Period size: 40 Copynumber: 4.9 Consensus size: 40
29872378 TGCTCTTGAT
* * *
29872388 AGTACTTTCATACTCCTGATAGCACTATGGTGTTCCTAAC
1 AGTACTTTCATACTCTTGATAGCACTACGGTGCTCCTAAC
* * *
29872428 AGTACTTTCATACTCTTGATAGCACTACTGTGCTTCTAAG
1 AGTACTTTCATACTCTTGATAGCACTACGGTGCTCCTAAC
* * *
29872468 AGTATTTTCCTACT-TCTGATAACACTACGGTGCTCCTAAC
1 AGTACTTTCATACTCT-TGATAGCACTACGGTGCTCCTAAC
* ***
29872508 AGTACTTTCCTACTCTT-ATTAGCACTACGGTGCTCCTGGT
1 AGTACTTTCATACTCTTGA-TAGCACTACGGTGCTCCTAAC
* * **
29872548 AGTACTTTCGTACTCTTGTTAGCACTACAATGCTCCT
1 AGTACTTTCATACTCTTGATAGCACTACGGTGCTCCT
29872585 GATAGCATAT
Statistics
Matches: 132, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 129 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.37
Consensus pattern (40 bp):
AGTACTTTCATACTCTTGATAGCACTACGGTGCTCCTAAC
Found at i:29876461 original size:42 final size:42
Alignment explanation
Indices: 29876414--29876531 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 42
29876404 CAACGTTTCA
* * * *
29876414 ATGCCATATCCCCGATATGGTCTTACATGAAAT-ATCTTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCA-CATACCG
* * * *
29876456 ATGCCATGTCCCTGACATGGTCTTATACGAAATCACATACCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCACATACCG
* * *
29876498 AGGCCATATCCCAGATATGGTCTTATACGGAATC
1 ATGCCATATCCCAGATATGGTCTTACACGAAATC
29876532 TTAATAACCT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
42 62 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCACATACCG
Found at i:29878040 original size:52 final size:52
Alignment explanation
Indices: 29877979--29878094 Score: 153
Period size: 52 Copynumber: 2.2 Consensus size: 52
29877969 TGGAAAAGAA
*
29877979 GTGATATGTGCACCCGTATAAAACCATAAG-TGGGCTATGGCATCGGTGCAAT
1 GTGATATGTGCACCCGTATAAAACCAT-AGCAGGGCTATGGCATCGGTGCAAT
* * * **
29878031 GTGATATGTGCTCCCGTATAAGACCATAGCAGGGTTATGGCATCGGTGTGAT
1 GTGATATGTGCACCCGTATAAAACCATAGCAGGGCTATGGCATCGGTGCAAT
29878083 GTGATAATGTGC
1 GTGAT-ATGTGC
29878095 TTTCGTATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
51 2 0.04
52 48 0.86
53 6 0.11
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (52 bp):
GTGATATGTGCACCCGTATAAAACCATAGCAGGGCTATGGCATCGGTGCAAT
Found at i:29878157 original size:47 final size:46
Alignment explanation
Indices: 29878098--29878204 Score: 124
Period size: 47 Copynumber: 2.3 Consensus size: 46
29878088 AATGTGCTTT
* * * *
29878098 CGTATAATACCATGTCTTGGACATGGTATCGGTATAATATGAGCCTC
1 CGTATAAGACCATGTCTGGGACATGGCATCGGTATAATATGAG-ATC
* * * *
29878145 CGTATAAGACCATATCTGGGATATGGCATCGGTATGATATGTGATC
1 CGTATAAGACCATGTCTGGGACATGGCATCGGTATAATATGAGATC
*
29878191 CGTGTAAGACCATG
1 CGTATAAGACCATG
29878205 GCTAGACTAT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
46 14 0.28
47 36 0.72
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATGTCTGGGACATGGCATCGGTATAATATGAGATC
Found at i:29886360 original size:6 final size:6
Alignment explanation
Indices: 29886355--29886403 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
29886345 GGGTGATTAT
* * **
29886355 TTTTATA TTTTTA TTTCTA TTTCTA TTTCAA TTTTTA TTTTTA TTTTTA
1 TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
29886404 GTTTGGACGT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
6 34 0.89
7 4 0.11
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.73
Consensus pattern (6 bp):
TTTTTA
Found at i:29886381 original size:12 final size:12
Alignment explanation
Indices: 29886360--29886403 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
29886350 ATTATTTTTA
29886360 TATTTTTATTTC
1 TATTTTTATTTC
*
29886372 TATTTCTATTTC
1 TATTTTTATTTC
* *
29886384 AATTTTTATTTT
1 TATTTTTATTTC
29886396 TATTTTTA
1 TATTTTTA
29886404 GTTTGGACGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (12 bp):
TATTTTTATTTC
Found at i:29888674 original size:28 final size:28
Alignment explanation
Indices: 29888598--29888674 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 28
29888588 TATATATATA
* *
29888598 TATGGCACTTAGTGTGAAAAATATTAAG
1 TATGGCACTTAGTGTGAGAGATATTAAG
* * * *
29888626 AATGGCACTTGGTGTGTGAGATATTGAG
1 TATGGCACTTAGTGTGAGAGATATTAAG
* *
29888654 TATGACACTTAGTGTGCGAGA
1 TATGGCACTTAGTGTGAGAGA
29888675 CATCGAAGAT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (28 bp):
TATGGCACTTAGTGTGAGAGATATTAAG
Found at i:29891383 original size:37 final size:36
Alignment explanation
Indices: 29891305--29891425 Score: 127
Period size: 37 Copynumber: 3.3 Consensus size: 36
29891295 ATGTGGTACG
* * * * *
29891305 TGTATGACCATATCTGGGCTATAGCATCGT-AGTAGCG
1 TGTAAGACCATAGCTCGGCTATGGCATCGTGA-TA-CA
29891342 TGTAAGACCATAGCTCGGCTATGGCATCGTGATGACA
1 TGTAAGACCATAGCTCGGCTATGGCATCGTGAT-ACA
* * * *
29891379 TGTAAAACCATAGCTGGGCTATGGCATTGTGATACG
1 TGTAAGACCATAGCTCGGCTATGGCATCGTGATACA
29891415 TGTAAGACCAT
1 TGTAAGACCAT
29891426 GTCTAGGACA
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
36 12 0.17
37 58 0.81
38 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (36 bp):
TGTAAGACCATAGCTCGGCTATGGCATCGTGATACA
Found at i:29891459 original size:42 final size:42
Alignment explanation
Indices: 29891411--29891610 Score: 163
Period size: 42 Copynumber: 4.8 Consensus size: 42
29891401 GGCATTGTGA
*
29891411 TACGTGTAAGACCATGTCTAGGACATGACATCGATATGAGAT
1 TACGTGTAAGACCATGTCTAGGACATGGCATCGATATGAGAT
* * * * * * *
29891453 CACGTGTAAGACCATATCTGGGATATGGCTTTGGTATGAGAT
1 TACGTGTAAGACCATGTCTAGGACATGGCATCGATATGAGAT
** * * ** *
29891495 TTTGTGTAAGACCGTGTCTGGGATGTGGCATCGATATGTGAT
1 TACGTGTAAGACCATGTCTAGGACATGGCATCGATATGAGAT
** * * *
29891537 TTTGTATAAGACCATGTCTAGGACATGGCAACGATGTGAGACT
1 TACGTGTAAGACCATGTCTAGGACATGGCATCGATATGAGA-T
*
29891580 T-TGTGTAAGACCATAGT-T-GGACTATGGCATC
1 TACGTGTAAGACCAT-GTCTAGGAC-ATGGCATC
29891611 AAGTAAACGA
Statistics
Matches: 127, Mismatches: 28, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
41 4 0.03
42 119 0.94
43 4 0.03
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (42 bp):
TACGTGTAAGACCATGTCTAGGACATGGCATCGATATGAGAT
Found at i:29897200 original size:31 final size:31
Alignment explanation
Indices: 29897164--29897240 Score: 145
Period size: 31 Copynumber: 2.5 Consensus size: 31
29897154 GTGTCCCAAG
29897164 CCACACGGGCGTGTGTGACCACACGACCCCA
1 CCACACGGGCGTGTGTGACCACACGACCCCA
29897195 CCACACGGGCGTGTGTGACCACACGACCCCA
1 CCACACGGGCGTGTGTGACCACACGACCCCA
*
29897226 CCACACGAGCGTGTG
1 CCACACGGGCGTGTG
29897241 ACACTTCAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.22, C:0.40, G:0.27, T:0.10
Consensus pattern (31 bp):
CCACACGGGCGTGTGTGACCACACGACCCCA
Found at i:29898163 original size:28 final size:28
Alignment explanation
Indices: 29898089--29898164 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 28
29898079 ATATATGTAC
* *
29898089 ATGGCACTTAGTGTGCAAAATATTAAGA
1 ATGGCACTTAGTGTGCGAGATATTAAGA
* * * *
29898117 ATGGCACTTTGTGTCCGAGATATTGAGT
1 ATGGCACTTAGTGTGCGAGATATTAAGA
*
29898145 ATGGAACTTAGTGTGCGAGA
1 ATGGCACTTAGTGTGCGAGA
29898165 CATCGAAGAT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAGATATTAAGA
Found at i:29900953 original size:18 final size:18
Alignment explanation
Indices: 29900910--29900944 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
29900900 TGAGAATTTT
*
29900910 TGATACCGTGACTGAATA
1 TGATACTGTGACTGAATA
29900928 TGATACTGTGACTGAAT
1 TGATACTGTGACTGAAT
29900945 GTGTTACTGA
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:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (18 bp):
TGATACTGTGACTGAATA
Found at i:29913403 original size:64 final size:63
Alignment explanation
Indices: 29913248--29913563 Score: 269
Period size: 64 Copynumber: 4.9 Consensus size: 63
29913238 TATAGATGGT
* * * * *
29913248 ATGTAGCTAGGTCACATGTGTAATACGA-GATGTATACCATGT-GTATAAGAGAGCTACGAGACA
1 ATGTAGCTAGGTCACATGGGTGATACTATG-TGTACACCATGTAG-ACAAGAGAGCTACGAG--A
29913311 TTA
62 -TA
* * *
29913314 TGAGGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATATAGACAAGAGAGCTACGGGATA
1 --ATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * *
29913379 TATGTATCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTATGAGATAA
1 -ATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGAT-A
** * * * * * * *
29913444 ATGTAGCTAGGTTGCATGTGTGGTTCCAAGTGAAGGACACCATGTAAACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCACATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
29913509 A
63 A
* * * * *
29913510 AAGTGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
29913564 CAAAATTATG
Statistics
Matches: 203, Mismatches: 38, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
63 19 0.09
64 75 0.37
65 11 0.05
66 20 0.10
67 28 0.14
68 48 0.24
69 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (63 bp):
ATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:29921401 original size:18 final size:18
Alignment explanation
Indices: 29921380--29921414 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29921370 AGTTTAATTT
*
29921380 TGTTTTTTATTTATTTTA
1 TGTTATTTATTTATTTTA
*
29921398 TGTTATTTGTTTATTTT
1 TGTTATTTATTTATTTT
29921415 CCATATTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.09, T:0.77
Consensus pattern (18 bp):
TGTTATTTATTTATTTTA
Found at i:29922936 original size:93 final size:92
Alignment explanation
Indices: 29922773--29922945 Score: 228
Period size: 93 Copynumber: 1.9 Consensus size: 92
29922763 TTAATTGTGT
*
29922773 GCTAGTGTAAGACATGTGTGGGACATGCATCAGCTACATTACGAGAGCCAGTGTAAGACCATTCT
1 GCTAGTGTAAGACATGTGTGGGACATGCATCAGCTACATGACGAGAGCCAGTGTAAGACCATTCT
29922838 AGGACATGGCATCGGCATTGAAATGAGA
66 AGGACAT-GCATCGGCATTGAAATGAGA
* * *
29922866 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCT-CGA-GATGTA-AGCCAGTGTAAGA-CAT
1 GCTAGTGTAAGACATGTGTGGGACATGCATCAG-CTAC-ATGACG-AGAGCCAGTGTAAGACCAT
*
29922927 GTCTGGGACATGCATCGGC
63 -TCTAGGACATGCATCGGC
29922946 TACAAGATGT
Statistics
Matches: 71, Mismatches: 5, Indels: 9
0.84 0.06 0.11
Matches are distributed among these distances:
92 11 0.15
93 56 0.79
94 4 0.06
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTGTGGGACATGCATCAGCTACATGACGAGAGCCAGTGTAAGACCATTCT
AGGACATGCATCGGCATTGAAATGAGA
Found at i:29922955 original size:46 final size:46
Alignment explanation
Indices: 29922776--29922954 Score: 186
Period size: 46 Copynumber: 3.9 Consensus size: 46
29922766 ATTGTGTGCT
* * ** *
29922776 AGTGTAAGACATGTGTGGGACATGCATCAGCTACATTACGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAGAGCC
* ** *
29922822 AGTGTAAGACCAT-TCTAGGACATGGCATCGGCATTGAA-ATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACAAGATGAGAGCC
* *
29922869 AGTGTAAGACATGTTTGGGACATGCATCGGCCT-CGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGATG-AGAGCC
29922915 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATG
29922955 TGTCAGTGTA
Statistics
Matches: 110, Mismatches: 15, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
45 3 0.03
46 69 0.63
47 36 0.33
48 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAGAGCC
Found at i:29924167 original size:21 final size:22
Alignment explanation
Indices: 29924128--29924168 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
29924118 TCGAATTGGT
29924128 CACACGAGCGTGTTGCCCCTCC
1 CACACGAGCGTGTTGCCCCTCC
*
29924150 CACACGGGCGTG-TGCCCCT
1 CACACGAGCGTGTTGCCCCT
29924169 GTGTCTAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.44, G:0.27, T:0.17
Consensus pattern (22 bp):
CACACGAGCGTGTTGCCCCTCC
Found at i:29928018 original size:18 final size:18
Alignment explanation
Indices: 29927995--29928032 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
29927985 CATAAAGAGT
29927995 GGCTCCGAGACTTGGCGA
1 GGCTCCGAGACTTGGCGA
29928013 GGCTCCGAGACTTGGCGA
1 GGCTCCGAGACTTGGCGA
29928031 GG
1 GG
29928033 TTTCGGACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.16, C:0.26, G:0.42, T:0.16
Consensus pattern (18 bp):
GGCTCCGAGACTTGGCGA
Found at i:29931512 original size:4 final size:4
Alignment explanation
Indices: 29931503--29931530 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
29931493 GAAAGTTCGT
29931503 GGAG GGAG GGAG GGAG GGAG GGAG GGAG
1 GGAG GGAG GGAG GGAG GGAG GGAG GGAG
29931531 TTGTTAGTGA
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:0.75, T:0.00
Consensus pattern (4 bp):
GGAG
Found at i:29931871 original size:21 final size:19
Alignment explanation
Indices: 29931834--29931873 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
29931824 TTTTTAAACC
29931834 TAAAATAAAAAATAATTTA
1 TAAAATAAAAAATAATTTA
*
29931853 TAAAATATAAATATAAATTTA
1 TAAAATA-AAAAAT-AATTTA
29931874 GAATGATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAAATAAAAAATAATTTA
Found at i:29933305 original size:16 final size:16
Alignment explanation
Indices: 29933268--29933317 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
29933258 AAATTTAAAG
* *
29933268 AAAAA-AAAAGGAAGG
1 AAAAAGAAAAGGGAGA
*
29933283 AAGAAGAAAAGGGAGA
1 AAAAAGAAAAGGGAGA
29933299 AAAAAGAAGAAGGGA-A
1 AAAAAGAA-AAGGGAGA
29933315 AAA
1 AAA
29933318 GAATTCTTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 4 0.14
16 19 0.66
17 6 0.21
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAGGGAGA
Found at i:29936174 original size:26 final size:26
Alignment explanation
Indices: 29936121--29936178 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
29936111 TTACTAGGGA
* * *
29936121 TAAAATCGTCAAAATTTTATTGGGGG
1 TAAAATCGTCAAAATTTTACTCGAGG
29936147 TAAAATCGTCAAAATTTTACTCGAGG
1 TAAAATCGTCAAAATTTTACTCGAGG
29936173 TAAAAT
1 TAAAAT
29936179 AGGGATAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (26 bp):
TAAAATCGTCAAAATTTTACTCGAGG
Found at i:29943693 original size:31 final size:31
Alignment explanation
Indices: 29943655--29943802 Score: 244
Period size: 31 Copynumber: 4.8 Consensus size: 31
29943645 ACAAATGACA
*
29943655 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
29943686 AGTGAAAAGTGGTAG-TTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
29943716 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
29943747 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
29943778 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
29943803 AAGTGACAAG
Statistics
Matches: 110, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
30 29 0.26
31 81 0.74
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:29943750 original size:61 final size:62
Alignment explanation
Indices: 29943655--29943802 Score: 244
Period size: 61 Copynumber: 2.4 Consensus size: 62
29943645 ACAAATGACA
* * *
29943655 AGTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAG-TTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGAAAAATGGTAGCTCCGGCTACCTGATC
*
29943716 AGTGAAAAGTGGTAGCTCCGGCTACCTGATCAGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGAAAAATGGTAGCTCCGGCTACCTGATC
*
29943778 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
29943803 AAGTGACAAG
Statistics
Matches: 80, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
61 43 0.54
62 37 0.46
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (62 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGAAAAATGGTAGCTCCGGCTACCTGATC
Found at i:29943929 original size:42 final size:43
Alignment explanation
Indices: 29943874--29943988 Score: 155
Period size: 42 Copynumber: 2.7 Consensus size: 43
29943864 TATGTGATTC
* *
29943874 GTGTAAGAGCATAGCTGAGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGAGCTATGGCATCGATTATATGAAGAT
*
29943916 GTGTAAGACCATAGCTTG-GCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGC-TGAGCTATGGCATCGATTATATGAAGAT
* *
29943958 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGAGCTATGGCATCGA
29943989 GAAAACGAAG
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
41 3 0.05
42 58 0.91
43 3 0.05
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGAGCTATGGCATCGATTATATGAAGAT
Found at i:29947487 original size:23 final size:22
Alignment explanation
Indices: 29947454--29947496 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
29947444 ATTTATAGGA
29947454 AAAAAAATTTACCGTTAGCCATT
1 AAAAAAATTTACCGTT-GCCATT
*
29947477 AAAAAATTTTACCGTTGCCA
1 AAAAAAATTTACCGTTGCCA
29947497 ATGTTCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (22 bp):
AAAAAAATTTACCGTTGCCATT
Found at i:29947949 original size:31 final size:31
Alignment explanation
Indices: 29947911--29947981 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
29947901 GTGGGACTAG
*
29947911 TAAGTTTATAATTTGGTCACTCAATTATAAA
1 TAAGTTTATAAATTGGTCACTCAATTATAAA
* * * *
29947942 TAAGTTTACAAATTGGTTACTTAATTTTAAA
1 TAAGTTTATAAATTGGTCACTCAATTATAAA
29947973 -AAG-TTATAA
1 TAAGTTTATAA
29947982 GTTAATCATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 5 0.15
30 3 0.09
31 26 0.76
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
TAAGTTTATAAATTGGTCACTCAATTATAAA
Found at i:29950027 original size:12 final size:12
Alignment explanation
Indices: 29950010--29950037 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
29950000 AAATTAATTA
29950010 ATATGTTATAAT
1 ATATGTTATAAT
29950022 ATATGTTATAAT
1 ATATGTTATAAT
29950034 ATAT
1 ATAT
29950038 ATATCATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (12 bp):
ATATGTTATAAT
Found at i:29955260 original size:42 final size:42
Alignment explanation
Indices: 29955197--29955318 Score: 158
Period size: 42 Copynumber: 2.9 Consensus size: 42
29955187 TGATATTTTG
*
29955197 GGGCTTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATC
1 GGGCTTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATATC
* *
29955239 GGGCTTTATTGCCTAGTAGGCTTTATGCCGGTGTATTATGTC
1 GGGCTTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATATC
* * * *
29955281 AGGC-CTATTACCTAGCAGG-TTCTATTCCGGTGTATTAT
1 GGGCTTTATTGCCTAGCAGGCTT-TATGCCGGTGTATTAT
29955319 GCTAGGCTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
40 2 0.03
41 27 0.38
42 42 0.59
ACGTcount: A:0.16, C:0.19, G:0.26, T:0.39
Consensus pattern (42 bp):
GGGCTTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATATC
Found at i:29955336 original size:41 final size:41
Alignment explanation
Indices: 29955202--29955338 Score: 161
Period size: 41 Copynumber: 3.3 Consensus size: 41
29955192 TTTTGGGGCT
* * *
29955202 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCGGGC
1 TTATTGCCTAGCAGGCTTTATGCCGGTGTATTATGTCAGGC
*
29955243 TTTATTGCCTAGTAGGCTTTATGCCGGTGTATTATGTCAGGC
1 -TTATTGCCTAGCAGGCTTTATGCCGGTGTATTATGTCAGGC
* * *
29955285 CTATTACCTAGCAGG-TTCTATTCCGGTGTATTATG-CTAGGC
1 TTATTGCCTAGCAGGCTT-TATGCCGGTGTATTATGTC-AGGC
*
29955326 TTATCGCCTAGCA
1 TTATTGCCTAGCA
29955339 AATTTTATGT
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
40 3 0.04
41 42 0.51
42 37 0.45
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTTTATGCCGGTGTATTATGTCAGGC
Found at i:29957409 original size:27 final size:28
Alignment explanation
Indices: 29957351--29957445 Score: 122
Period size: 27 Copynumber: 3.4 Consensus size: 28
29957341 AGGAAGCGTC
* * * *
29957351 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTACCACATATTATCTGTT
29957379 CTGGTGGCTCTACCACATA-TATCTGTT
1 CTGGTGGCTCTACCACATATTATCTGTT
29957406 CTGGTGGCTCTACCACA-ATTATCTGTAT
1 CTGGTGGCTCTACCACATATTATCTGT-T
*
29957434 CTGGTGACTCTA
1 CTGGTGGCTCTA
29957446 TTACATTATA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
26 1 0.02
27 31 0.52
28 28 0.47
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (28 bp):
CTGGTGGCTCTACCACATATTATCTGTT
Found at i:29957436 original size:55 final size:54
Alignment explanation
Indices: 29957351--29957463 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 54
29957341 AGGAAGCGTC
* * *
29957351 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATACCACAAATTATCTGATCTGGTGACTCTACCACAT-TATATGTT
* **
29957406 CTGGTGGCTCTACCAC-AATTATCTGTATCTGGTGACTCTATTACATTATATGTT
1 CTGGTGGCTATACCACAAATTATCTG-ATCTGGTGACTCTACCACATTATATGTT
29957460 CTGG
1 CTGG
29957464 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 20 0.39
55 31 0.61
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATACCACAAATTATCTGATCTGGTGACTCTACCACATTATATGTT
Found at i:29957453 original size:27 final size:26
Alignment explanation
Indices: 29957351--29957463 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
29957341 AGGAAGCGTC
* * *
29957351 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTACCAC--ATTATCTGTT
29957379 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTACCACAT-TATCTGTT
29957406 CTGGTGGCTCTACCACAATTATCTGTAT
1 CTGGTGGCTCTACCAC-ATTATCTGT-T
* ** *
29957434 CTGGTGACTCTATTACATTATATGTT
1 CTGGTGGCTCTACCACATTATCTGTT
29957460 CTGG
1 CTGG
29957464 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
26 7 0.09
27 38 0.51
28 30 0.40
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTACCACATTATCTGTT
Found at i:29965226 original size:27 final size:28
Alignment explanation
Indices: 29965168--29965262 Score: 122
Period size: 27 Copynumber: 3.4 Consensus size: 28
29965158 AGGAAGCGTC
* * * *
29965168 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTACCACATATTATCTGTT
29965196 CTGGTGGCTCTACCACATA-TATCTGTT
1 CTGGTGGCTCTACCACATATTATCTGTT
29965223 CTGGTGGCTCTACCACA-ATTATCTGTAT
1 CTGGTGGCTCTACCACATATTATCTGT-T
*
29965251 CTGGTGACTCTA
1 CTGGTGGCTCTA
29965263 TTACATTATA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
26 1 0.02
27 31 0.52
28 28 0.47
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (28 bp):
CTGGTGGCTCTACCACATATTATCTGTT
Found at i:29965253 original size:55 final size:54
Alignment explanation
Indices: 29965168--29965280 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 54
29965158 AGGAAGCGTC
* * *
29965168 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATACCACAAATTATCTGATCTGGTGACTCTACCACAT-TATATGTT
* **
29965223 CTGGTGGCTCTACCAC-AATTATCTGTATCTGGTGACTCTATTACATTATATGTT
1 CTGGTGGCTATACCACAAATTATCTG-ATCTGGTGACTCTACCACATTATATGTT
29965277 CTGG
1 CTGG
29965281 CAACCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 20 0.39
55 31 0.61
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATACCACAAATTATCTGATCTGGTGACTCTACCACATTATATGTT
Found at i:29965270 original size:27 final size:26
Alignment explanation
Indices: 29965168--29965280 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
29965158 AGGAAGCGTC
* * *
29965168 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTACCAC--ATTATCTGTT
29965196 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTACCACAT-TATCTGTT
29965223 CTGGTGGCTCTACCACAATTATCTGTAT
1 CTGGTGGCTCTACCAC-ATTATCTGT-T
* ** *
29965251 CTGGTGACTCTATTACATTATATGTT
1 CTGGTGGCTCTACCACATTATCTGTT
29965277 CTGG
1 CTGG
29965281 CAACCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
26 7 0.09
27 38 0.51
28 30 0.40
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTACCACATTATCTGTT
Found at i:29972085 original size:12 final size:12
Alignment explanation
Indices: 29972068--29972093 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
29972058 AAATTAAATA
29972068 ATATGTTATAAT
1 ATATGTTATAAT
29972080 ATATGTTATAAT
1 ATATGTTATAAT
29972092 AT
1 AT
29972094 TTATATCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
ATATGTTATAAT
Found at i:29973135 original size:84 final size:84
Alignment explanation
Indices: 29972994--29973160 Score: 289
Period size: 84 Copynumber: 2.0 Consensus size: 84
29972984 ATAGTGATAT
* * *
29972994 TCGGGCTTTATTGCCTAGTAGGCTTTGTGCCAGTGTATTATATCGGGCATTATTGCCTAGCAGGC
1 TCGGGCTTTAATGCCTAGAAGGCTTTGTGCCAGTGTATTATATCGGGCATTATTGCCTAGCAAGC
*
29973059 TTTGTGCCGATGTATTATA
66 TTTATGCCGATGTATTATA
*
29973078 TCGGGCTTTAATGCCTAGAAGGCTTTGTGCCAGTGTATTATATCGGGCTTTATTGCCTAGCAAGC
1 TCGGGCTTTAATGCCTAGAAGGCTTTGTGCCAGTGTATTATATCGGGCATTATTGCCTAGCAAGC
29973143 TTTATGCCGATGTATTAT
66 TTTATGCCGATGTATTAT
29973161 GTCAGGCCTA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 78 1.00
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (84 bp):
TCGGGCTTTAATGCCTAGAAGGCTTTGTGCCAGTGTATTATATCGGGCATTATTGCCTAGCAAGC
TTTATGCCGATGTATTATA
Found at i:29973221 original size:41 final size:42
Alignment explanation
Indices: 29972994--29973202 Score: 260
Period size: 42 Copynumber: 5.0 Consensus size: 42
29972984 ATAGTGATAT
* * *
29972994 TCGGGCTTTATTGCCTAGTAGGCTTTGTGCCAGTGTATTATA
1 TCGGGCTTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATA
* * *
29973036 TCGGGCATTATTGCCTAGCAGGCTTTGTGCCGATGTATTATA
1 TCGGGCTTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATA
* * * *
29973078 TCGGGCTTTAATGCCTAGAAGGCTTTGTGCCAGTGTATTATA
1 TCGGGCTTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATA
* * *
29973120 TCGGGCTTTATTGCCTAGCAAGCTTTATGCCGATGTATTATG
1 TCGGGCTTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATA
* *
29973162 TCAGGC-CTATTGCCTAGCAGG-TTCTATGCCGGTGTATTATA
1 TCGGGCTTTATTGCCTAGCAGGCTT-TATGCCGGTGTATTATA
29973203 CTAGGCTTAA
Statistics
Matches: 145, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
40 2 0.01
41 28 0.19
42 115 0.79
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (42 bp):
TCGGGCTTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATA
Found at i:29975012 original size:24 final size:24
Alignment explanation
Indices: 29974985--29975036 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
29974975 TTAGTAAGTC
*
29974985 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
29975009 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
29975033 AAAT
1 AAAT
29975037 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:29976982 original size:24 final size:24
Alignment explanation
Indices: 29976955--29977006 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
29976945 TTAGTAAGTC
*
29976955 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
29976979 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
29977003 AAAT
1 AAAT
29977007 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:29983002 original size:46 final size:46
Alignment explanation
Indices: 29982942--29983118 Score: 266
Period size: 46 Copynumber: 3.8 Consensus size: 46
29982932 TTTGACATGA
* * * * *
29982942 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCACGC
*
29982988 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGC
*
29983034 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGC
*
29983080 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
29983119 ATCAGGTTTC
Statistics
Matches: 122, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 4 0.03
46 118 0.97
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGC
Found at i:29983142 original size:27 final size:27
Alignment explanation
Indices: 29983104--29983158 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
29983094 TCAACCATGG
*
29983104 TCTTACACATTTCATATCAGGTTTCCA
1 TCTTACACATTTCATATCAGGTTGCCA
29983131 TCTTACACATTTCATATCAGGTTGCCA
1 TCTTACACATTTCATATCAGGTTGCCA
29983158 T
1 T
29983159 GGTATCTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.25, G:0.09, T:0.40
Consensus pattern (27 bp):
TCTTACACATTTCATATCAGGTTGCCA
Found at i:29986485 original size:24 final size:24
Alignment explanation
Indices: 29986458--29986503 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
29986448 CATAAAACAC
29986458 ATAAAAATGGTCATTTTATTCATT
1 ATAAAAATGGTCATTTTATTCATT
29986482 ATAAAAATGGTCATTTTATTCA
1 ATAAAAATGGTCATTTTATTCA
29986504 CAATGTCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (24 bp):
ATAAAAATGGTCATTTTATTCATT
Found at i:29991902 original size:25 final size:25
Alignment explanation
Indices: 29991868--29991918 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
29991858 TGTGCTGGAG
29991868 TTCTTCACTTTGCTTATTGTTTCTT
1 TTCTTCACTTTGCTTATTGTTTCTT
29991893 TTCTTCACTTTGCTTATTGTTTCTT
1 TTCTTCACTTTGCTTATTGTTTCTT
29991918 T
1 T
29991919 CTAATTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.08, C:0.20, G:0.08, T:0.65
Consensus pattern (25 bp):
TTCTTCACTTTGCTTATTGTTTCTT
Found at i:30007184 original size:17 final size:17
Alignment explanation
Indices: 30007162--30007230 Score: 101
Period size: 17 Copynumber: 4.3 Consensus size: 17
30007152 ACTAAACCGA
30007162 CCACTAACTCCATCACC
1 CCACTAACTCCATCACC
30007179 CCACTAACTCCATCACC
1 CCACTAACTCCATCACC
30007196 CCACTAA----ATCACC
1 CCACTAACTCCATCACC
*
30007209 CCACTAACTCCACCACC
1 CCACTAACTCCATCACC
30007226 CCACT
1 CCACT
30007231 TGCCACTAAC
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
13 13 0.28
17 34 0.72
ACGTcount: A:0.30, C:0.54, G:0.00, T:0.16
Consensus pattern (17 bp):
CCACTAACTCCATCACC
Found at i:30007208 original size:13 final size:13
Alignment explanation
Indices: 30007190--30007215 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30007180 CACTAACTCC
30007190 ATCACCCCACTAA
1 ATCACCCCACTAA
30007203 ATCACCCCACTAA
1 ATCACCCCACTAA
30007216 CTCCACCACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (13 bp):
ATCACCCCACTAA
Found at i:30007209 original size:30 final size:30
Alignment explanation
Indices: 30007173--30007313 Score: 152
Period size: 30 Copynumber: 4.9 Consensus size: 30
30007163 CACTAACTCC
30007173 ATCACCCCACTAACTCCATCACCCCACTAA
1 ATCACCCCACTAACTCCATCACCCCACTAA
*
30007203 ATCACCCCACTAACTCCACCACCCCACT--
1 ATCACCCCACTAACTCCATCACCCCACTAA
* *
30007231 -T---GCCACTAACTCTATCACCCCACTAA
1 ATCACCCCACTAACTCCATCACCCCACTAA
*** * *
30007257 A-CTTGCAACTAACTTCATCACCCCACTAA
1 ATCACCCCACTAACTCCATCACCCCACTAA
*
30007286 ATCACCCCACTAACTCCATTACCCCACT
1 ATCACCCCACTAACTCCATCACCCCACT
30007314 TGCCTGCAAA
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
24 20 0.22
27 1 0.01
29 23 0.25
30 47 0.52
ACGTcount: A:0.31, C:0.48, G:0.01, T:0.20
Consensus pattern (30 bp):
ATCACCCCACTAACTCCATCACCCCACTAA
Found at i:30007236 original size:24 final size:24
Alignment explanation
Indices: 30007209--30007254 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
30007199 CTAAATCACC
30007209 CCACTAACTCCACCACCCCACTTG
1 CCACTAACTCCACCACCCCACTTG
* *
30007233 CCACTAACTCTATCACCCCACT
1 CCACTAACTCCACCACCCCACT
30007255 AAACTTGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.52, G:0.02, T:0.20
Consensus pattern (24 bp):
CCACTAACTCCACCACCCCACTTG
Found at i:30007291 original size:13 final size:13
Alignment explanation
Indices: 30007273--30007298 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30007263 AACTAACTTC
30007273 ATCACCCCACTAA
1 ATCACCCCACTAA
30007286 ATCACCCCACTAA
1 ATCACCCCACTAA
30007299 CTCCATTACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (13 bp):
ATCACCCCACTAA
Found at i:30007873 original size:21 final size:21
Alignment explanation
Indices: 30007826--30007873 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
30007816 TCTTTTATGA
30007826 ATATTTTTTAAATATTATATT
1 ATATTTTTTAAATATTATATT
*
30007847 ATTATTTTTGTATATATTAT-TT
1 A-TATTTTT-TAAATATTATATT
30007869 ATATT
1 ATATT
30007874 AAGCTATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 5 0.21
22 10 0.42
23 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
ATATTTTTTAAATATTATATT
Found at i:30008941 original size:13 final size:13
Alignment explanation
Indices: 30008923--30008948 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30008913 ATTTTATTCT
30008923 TTCTGAAAGAAAG
1 TTCTGAAAGAAAG
30008936 TTCTGAAAGAAAG
1 TTCTGAAAGAAAG
30008949 AATCTCAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (13 bp):
TTCTGAAAGAAAG
Found at i:30034257 original size:29 final size:30
Alignment explanation
Indices: 30034211--30034298 Score: 90
Period size: 31 Copynumber: 2.9 Consensus size: 30
30034201 TAATTTAATG
**
30034211 TGTAATTGCATATATG-AATTTTAATTTGA
1 TGTAATTATATATATGAAATTTTAATTTGA
* *
30034240 TGTAATTATATATGTGAAATTCTAATTGTGA
1 TGTAATTATATATATGAAATTTTAATT-TGA
* *
30034271 T-TCAAATATATATTTGAAATTTTAATTT
1 TGT-AATTATATATATGAAATTTTAATTT
30034299 TGATTTATTC
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
29 13 0.27
30 11 0.22
31 25 0.51
ACGTcount: A:0.36, C:0.03, G:0.11, T:0.49
Consensus pattern (30 bp):
TGTAATTATATATATGAAATTTTAATTTGA
Found at i:30034492 original size:29 final size:30
Alignment explanation
Indices: 30034435--30034493 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
30034425 GAATTGAATC
*
30034435 AAATCAAAATTTAATGTATAAAATCACACA
1 AAATCAAAATTTAATATATAAAATCACACA
* *
30034465 AAATCAAAATTT-ATATATACAATTACACA
1 AAATCAAAATTTAATATATAAAATCACACA
30034494 TTACACCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.56, C:0.14, G:0.02, T:0.29
Consensus pattern (30 bp):
AAATCAAAATTTAATATATAAAATCACACA
Found at i:30036639 original size:34 final size:34
Alignment explanation
Indices: 30036596--30036663 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
30036586 ATCCATTCAC
* *
30036596 TAAGTCATACAAAACTTTGTCATCTATTTCCTTA
1 TAAGTCATACAAAACATTGTCATCAATTTCCTTA
*
30036630 TAAGTCATACAAAGCATTGTCATCAATTTCCTTA
1 TAAGTCATACAAAACATTGTCATCAATTTCCTTA
30036664 CACACCTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (34 bp):
TAAGTCATACAAAACATTGTCATCAATTTCCTTA
Found at i:30058685 original size:44 final size:44
Alignment explanation
Indices: 30058622--30058711 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
30058612 TCACGTTGTG
30058622 TTGTCGCAACATCAGGTTGATTCTTATCATAACGTTGTAGCAAT
1 TTGTCGCAACATCAGGTTGATTCTTATCATAACGTTGTAGCAAT
30058666 TTGTCGCAACATCAGGTTGATTCTTATCATAACGTTGTAGCAAT
1 TTGTCGCAACATCAGGTTGATTCTTATCATAACGTTGTAGCAAT
30058710 TT
1 TT
30058712 TAAATTTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (44 bp):
TTGTCGCAACATCAGGTTGATTCTTATCATAACGTTGTAGCAAT
Found at i:30061426 original size:16 final size:16
Alignment explanation
Indices: 30061405--30061435 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30061395 TTTATTTTTG
30061405 AAAAAAAGTTGAATTA
1 AAAAAAAGTTGAATTA
*
30061421 AAAAAAAGTTTAATT
1 AAAAAAAGTTGAATT
30061436 TTTTATGTGG
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:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (16 bp):
AAAAAAAGTTGAATTA
Found at i:30063331 original size:11 final size:11
Alignment explanation
Indices: 30063306--30063338 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
30063296 ATTCAAAAAA
30063306 AAAAGAAAATT
1 AAAAGAAAATT
30063317 -AAAGAAAATT
1 AAAAGAAAATT
30063327 AAAAGATAAATT
1 AAAAGA-AAATT
30063339 GAGTTTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 5 0.25
12 5 0.25
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (11 bp):
AAAAGAAAATT
Found at i:30063566 original size:26 final size:27
Alignment explanation
Indices: 30063518--30063580 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
30063508 ACTCCAATAT
*
30063518 TTTTTATTAAAAAAAAACCTAAAATGAA
1 TTTTTAATAAAAAAAAA-CTAAAATGAA
*
30063546 -TTTTAATAAAAAAAGAA-TAAAATTAA
1 TTTTTAATAAAAAAA-AACTAAAATGAA
30063572 TTTTTAATA
1 TTTTTAATA
30063581 TATAAAATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 8 0.26
27 21 0.68
28 2 0.06
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (27 bp):
TTTTTAATAAAAAAAAACTAAAATGAA
Found at i:30065081 original size:55 final size:55
Alignment explanation
Indices: 30064997--30065167 Score: 236
Period size: 55 Copynumber: 3.1 Consensus size: 55
30064987 TTGAGCTTTA
* * *
30064997 CGATAAGGGTTTTAGTGCTCTTTTATTTTGCCGACAAAAATTCAGGTTCTCTATT
1 CGATAAGGGTTTTAGTGTTCTTTTATTTTGCTGACAAAAATTCAGGATCTCTATT
*
30065052 CGATAAGGGTTTTAGTGTTCTTCTATTTTGCTGACAAAAATTCAGGATCTCTATT
1 CGATAAGGGTTTTAGTGTTCTTTTATTTTGCTGACAAAAATTCAGGATCTCTATT
* * * *
30065107 AGATAAGGGTTTTAGTGTTTTTTTTTATTTTGCTGA-AAACAATTTAGGCTCTCTATT
1 CGATAAGGGTTTTAGTG--TTCTTTTATTTTGCTGACAAA-AATTCAGGATCTCTATT
30065164 CGAT
1 CGAT
30065168 TGAAAAGCTA
Statistics
Matches: 103, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
55 67 0.65
56 3 0.03
57 33 0.32
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (55 bp):
CGATAAGGGTTTTAGTGTTCTTTTATTTTGCTGACAAAAATTCAGGATCTCTATT
Found at i:30068425 original size:28 final size:29
Alignment explanation
Indices: 30068370--30068426 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
30068360 TACAAGGGTT
*
30068370 TTCACATGGCCAAGCACATGCCCGTGTCC
1 TTCACACGGCCAAGCACATGCCCGTGTCC
* * *
30068399 TTCACACGGCCTAG-ACATGTCTGTGTCC
1 TTCACACGGCCAAGCACATGCCCGTGTCC
30068427 CTGGCCCATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.19, C:0.35, G:0.21, T:0.25
Consensus pattern (29 bp):
TTCACACGGCCAAGCACATGCCCGTGTCC
Found at i:30071174 original size:11 final size:11
Alignment explanation
Indices: 30071160--30071186 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
30071150 ATTTTGTATA
30071160 ATATTTAATTT
1 ATATTTAATTT
30071171 ATATTTAATTT
1 ATATTTAATTT
30071182 ATATT
1 ATATT
30071187 AATACATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
ATATTTAATTT
Found at i:30071701 original size:21 final size:22
Alignment explanation
Indices: 30071666--30071707 Score: 68
Period size: 21 Copynumber: 1.9 Consensus size: 22
30071656 TAGTTTTCAA
30071666 ATTGTTTCCATATTGTTTTGTAT
1 ATTGTTT-CATATTGTTTTGTAT
30071689 ATTGTTT-ATATTGTTTTGT
1 ATTGTTTCATATTGTTTTGT
30071708 TATAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.63
23 7 0.37
ACGTcount: A:0.17, C:0.05, G:0.14, T:0.64
Consensus pattern (22 bp):
ATTGTTTCATATTGTTTTGTAT
Found at i:30071717 original size:21 final size:21
Alignment explanation
Indices: 30071675--30071718 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
30071665 AATTGTTTCC
**
30071675 ATATTGTTTTGTATATTGTTT
1 ATATTGTTTTGTATATAATTT
30071696 ATATTGTTTTGT-TATAAATTT
1 ATATTGTTTTGTATAT-AATTT
30071717 AT
1 AT
30071719 TTTCATACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.25, C:0.00, G:0.11, T:0.64
Consensus pattern (21 bp):
ATATTGTTTTGTATATAATTT
Found at i:30072766 original size:132 final size:132
Alignment explanation
Indices: 30072529--30072807 Score: 299
Period size: 132 Copynumber: 2.1 Consensus size: 132
30072519 ATTTCCTTTA
* * ** * ** *
30072529 AAACGAAGGCAATATTCGATACTTGGTAATTCGTGGAATCGTGCCCTAATGTGTTGGGTTGCAAT
1 AAACGAAGGCAATATGCGATACTTGGGAATTCACGGAATCGTACCCTAACATGCTGGGTTGCAAT
* ** * * *
30072594 TCCTCGTTTGCTCAAAGTAATCGAAGGTCCCTTTAGAATTTCACCCACGGCTATTAAAAAATCCC
66 TCCTCGTCTGCTCAAAACAATCAAAGATCCCTTTAAAATTTCACCCACGGCTATTAAAAAATCCC
30072659 TT
131 TT
*
30072661 AAACGAAGGTC-ATATGCGATATTTGGGAATTCACGGAATCGTACCCTAACATGCTGGGTTGCAA
1 AAACGAAGG-CAATATGCGATACTTGGGAATTCACGGAATCGTACCCTAACATGCTGGGTTGCAA
* * * * * *** * *
30072725 TTTCTTGTCTGCTTAAAACAATCAAATATCCCTTTAAAATTTCACTCATATCTTTTTAAAAATCC
65 TTCCTCGTCTGCTCAAAACAATCAAAGATCCCTTTAAAATTTCACCCACGGCTATTAAAAAATCC
*
30072790 TTT
130 CTT
30072793 AAAACGAAGGCAATA
1 -AAACGAAGGCAATA
30072808 CTCGGGGTTT
Statistics
Matches: 118, Mismatches: 26, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
132 105 0.89
133 13 0.11
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (132 bp):
AAACGAAGGCAATATGCGATACTTGGGAATTCACGGAATCGTACCCTAACATGCTGGGTTGCAAT
TCCTCGTCTGCTCAAAACAATCAAAGATCCCTTTAAAATTTCACCCACGGCTATTAAAAAATCCC
TT
Found at i:30072875 original size:132 final size:131
Alignment explanation
Indices: 30072739--30073046 Score: 307
Period size: 132 Copynumber: 2.3 Consensus size: 131
30072729 TTGTCTGCTT
* *
30072739 AAAACAATCAAATATCCCTTTAAAATTTCACTCATATCTTTTTAAAAATCCTTT-AAAACGAAGG
1 AAAACAATCGAATATCCCTTTAGAATTTCACTCATAT-TTTTTAAAAA-CCTTTCAAAACGAAGG
* * * * *
30072803 CAATACTCGGGGTTTGACAATTCGGGAATCATGCCCTATCGTGTTGGGTTGTGA-TTTCTT-ATT
64 CAATACTAGAGGTTTGACAATTCGAGAATCATGCCCTATCGTGCTGGGTTG-CACTTT-TTCATT
30072866 TGTTC
127 TGTTC
* * ** * * *
30072871 AAAACAATTGAATATTCCTTTAGGTTTTTTACTCATGTTTATTAAAAACCTTTCAAAACGAAGGC
1 AAAACAATCGAATATCCCTTTA-GAATTTCACTCATATTTTTTAAAAACCTTTCAAAACGAAGGC
* ** * * * **
30072936 GATTTTAGATGTTTGGCAATTTGAGAATTGTGCCCTATCGTGCTGGGTTGCACTTTTTCATTTGT
65 AATACTAGAGGTTTGACAATTCGAGAATCATGCCCTATCGTGCTGGGTTGCACTTTTTCATTTGT
30073001 TC
130 TC
* * ** *
30073003 AAGACAATCGAAGATCCCTTCGGAATTTCACTCTTATTTTTTAA
1 AAAACAATCGAATATCCCTTTAGAATTTCACTCATATTTTTTAA
30073047 GGCGAGGTAA
Statistics
Matches: 138, Mismatches: 34, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
131 24 0.17
132 104 0.75
133 10 0.07
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (131 bp):
AAAACAATCGAATATCCCTTTAGAATTTCACTCATATTTTTTAAAAACCTTTCAAAACGAAGGCA
ATACTAGAGGTTTGACAATTCGAGAATCATGCCCTATCGTGCTGGGTTGCACTTTTTCATTTGTT
C
Found at i:30077270 original size:22 final size:22
Alignment explanation
Indices: 30077242--30077324 Score: 122
Period size: 22 Copynumber: 4.0 Consensus size: 22
30077232 GAATCTGAAG
30077242 ACAAAAGGGGAAATGGCTATCT
1 ACAAAAGGGGAAATGGCTATCT
*
30077264 ACAAAAGGGGAAATGG-----G
1 ACAAAAGGGGAAATGGCTATCT
30077281 ACAAAAGGGGAAATGGCTATCT
1 ACAAAAGGGGAAATGGCTATCT
30077303 ACAAAAGGGGAAATGGCTATCT
1 ACAAAAGGGGAAATGGCTATCT
30077325 CTATTTGAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
17 16 0.30
22 38 0.70
ACGTcount: A:0.42, C:0.12, G:0.30, T:0.16
Consensus pattern (22 bp):
ACAAAAGGGGAAATGGCTATCT
Found at i:30077286 original size:17 final size:17
Alignment explanation
Indices: 30077264--30077296 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
30077254 ATGGCTATCT
30077264 ACAAAAGGGGAAATGGG
1 ACAAAAGGGGAAATGGG
30077281 ACAAAAGGGGAAATGG
1 ACAAAAGGGGAAATGG
30077297 CTATCTACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.39, T:0.06
Consensus pattern (17 bp):
ACAAAAGGGGAAATGGG
Found at i:30077295 original size:39 final size:39
Alignment explanation
Indices: 30077241--30077318 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
30077231 AGAATCTGAA
30077241 GACAAAAGGGGAAATGGCTATCTACAAAAGGGGAAATGG
1 GACAAAAGGGGAAATGGCTATCTACAAAAGGGGAAATGG
30077280 GACAAAAGGGGAAATGGCTATCTACAAAAGGGGAAATGG
1 GACAAAAGGGGAAATGGCTATCTACAAAAGGGGAAATGG
30077319 CTATCTCTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.44, C:0.10, G:0.33, T:0.13
Consensus pattern (39 bp):
GACAAAAGGGGAAATGGCTATCTACAAAAGGGGAAATGG
Found at i:30088617 original size:39 final size:39
Alignment explanation
Indices: 30088574--30088652 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
30088564 TGAAATCGTG
30088574 GTAAGATAGTAAATGCAAATGTAACATGAATGTCTTGGT
1 GTAAGATAGTAAATGCAAATGTAACATGAATGTCTTGGT
*
30088613 GTAAGATAGTAAATGCAAATTTAACATGAATGTCTTGGT
1 GTAAGATAGTAAATGCAAATGTAACATGAATGTCTTGGT
30088652 G
1 G
30088653 ATAGTTATAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.32
Consensus pattern (39 bp):
GTAAGATAGTAAATGCAAATGTAACATGAATGTCTTGGT
Found at i:30090393 original size:15 final size:17
Alignment explanation
Indices: 30090375--30090406 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
30090365 TAGCATAATT
30090375 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
30090390 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
30090407 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:30092962 original size:146 final size:147
Alignment explanation
Indices: 30092697--30092986 Score: 546
Period size: 146 Copynumber: 2.0 Consensus size: 147
30092687 TAAGGGTCTA
30092697 AGCCATTGGAAGATGATCAAGGTAAGGAAAGTACGGTTTTGATGGAAGCCAATCCGAGAGACTAT
1 AGCCATTGGAAGATGATCAAGGTAAGGAAAGTACGGTTTTGATGGAAGCCAATCCGAGAGACTAT
*
30092762 GTTCAACTAGCACAATTTGAACAATTGGAGTTAGAAGCTTGAGAATACGCACAACCAAAGTTGTC
66 GTTCAACTAGCACAATTTGAAAAATTGGAGTTAGAAGCTTGAGAATACGCACAACCAAAGTTGTC
*
30092827 AATCGATGAACCATATG
131 AATCGAGGAACCATATG
*
30092844 AGCCATTGGAAGATGATCAAGGTAAGGAAAGTATGGTTTTGATGGAAG-CAATCCGAGAGACTAT
1 AGCCATTGGAAGATGATCAAGGTAAGGAAAGTACGGTTTTGATGGAAGCCAATCCGAGAGACTAT
30092908 GTTCAACTAGCACAATTTGAAAAATTGGAGTTAGAAGCTTGAGAATACGCACAACCAAAGTTGTC
66 GTTCAACTAGCACAATTTGAAAAATTGGAGTTAGAAGCTTGAGAATACGCACAACCAAAGTTGTC
30092973 AATCGAGGAACCAT
131 AATCGAGGAACCAT
30092987 CCAAACTTGA
Statistics
Matches: 140, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
146 93 0.66
147 47 0.34
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (147 bp):
AGCCATTGGAAGATGATCAAGGTAAGGAAAGTACGGTTTTGATGGAAGCCAATCCGAGAGACTAT
GTTCAACTAGCACAATTTGAAAAATTGGAGTTAGAAGCTTGAGAATACGCACAACCAAAGTTGTC
AATCGAGGAACCATATG
Found at i:30094522 original size:28 final size:28
Alignment explanation
Indices: 30094488--30094544 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
30094478 ATTGCTTACG
30094488 AAGAATGCATGATGAAATTTAATGTAGC
1 AAGAATGCATGATGAAATTTAATGTAGC
30094516 AAGAATGCATGATGAAATTTAATGTAGC
1 AAGAATGCATGATGAAATTTAATGTAGC
30094544 A
1 A
30094545 GAGTCCTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.28
Consensus pattern (28 bp):
AAGAATGCATGATGAAATTTAATGTAGC
Found at i:30094669 original size:48 final size:48
Alignment explanation
Indices: 30094611--30094976 Score: 386
Period size: 48 Copynumber: 7.6 Consensus size: 48
30094601 TATGTGTGCT
30094611 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCC
* * *
30094659 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATG-TAATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGAT-ATGAGAGCC
* * * * * *
30094707 AGTGTAAGACTATGTTTGGGACATTG-ATC-GACATTGATATGTGCA-CT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-TGATATGAG-AGCC
*
30094754 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCC
* * * *
30094802 AGTGTAAGACCATGTTTGGAACATGGCATCAGACATG-TAATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGAT-ATGAGAGCC
* * * * * *
30094850 AGTGTAAGACAATGTCTGAGACATGGCATTGG-TATTGATATGTGCA-CT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-TGATATGAG-AGCC
* * * *
30094898 AGTGTAAAACCATGTCTGGGACATGGCATTGGCCAGGATATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCC
* * *
30094946 AGTGTAAGACTATGTTTGGAACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
30094977 ACAATTCACC
Statistics
Matches: 263, Mismatches: 42, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
46 2 0.01
47 38 0.14
48 217 0.83
49 6 0.02
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCC
Found at i:30094856 original size:143 final size:143
Alignment explanation
Indices: 30094598--30094979 Score: 595
Period size: 143 Copynumber: 2.7 Consensus size: 143
30094588 GACATTTGGG
** *
30094598 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCCAGTG
1 TGATATGTGCACTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
* * * *
30094663 TAAGACCATGTTTGGAACATGGCATCGGCAATGTAATGAGAGCCAGTGTAAGACTATGTTTGGGA
66 TAAGACCATGTTTGGAACATGGCATCGAC-ATGTAATGAGAGCCAGTGTAAGACAATGTCTGAGA
*
30094728 CATTG-ATCGACAT
130 CATGGCATCGACAT
30094741 TGATATGTGCACTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
1 TGATATGTGCACTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
30094806 TAAGACCATGTTTGGAACATGGCATCAGACATGTAATGAGAGCCAGTGTAAGACAATGTCTGAGA
66 TAAGACCATGTTTGGAACATGGCATC-GACATGTAATGAGAGCCAGTGTAAGACAATGTCTGAGA
* **
30094871 CATGGCATTGGTAT
130 CATGGCATCGACAT
* * * *
30094885 TGATATGTGCACTAGTGTAAAACCATGTCTGGGACATGGCATTGGCCAGGATATGAGAGCTAGTG
1 TGATATGTGCACTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
*
30094950 TAAGACTATGTTTGGAACATGGCATCGACA
66 TAAGACCATGTTTGGAACATGGCATCGACA
30094980 ATTCACCCTC
Statistics
Matches: 221, Mismatches: 16, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
143 128 0.58
144 93 0.42
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (143 bp):
TGATATGTGCACTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
TAAGACCATGTTTGGAACATGGCATCGACATGTAATGAGAGCCAGTGTAAGACAATGTCTGAGAC
ATGGCATCGACAT
Found at i:30096328 original size:10 final size:10
Alignment explanation
Indices: 30096313--30096343 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
30096303 CGATTCTTTT
*
30096313 TATTTTATTA
1 TATTTTGTTA
30096323 TATTTTGTTA
1 TATTTTGTTA
30096333 TATTTTGTTA
1 TATTTTGTTA
30096343 T
1 T
30096344 CATATGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (10 bp):
TATTTTGTTA
Found at i:30101081 original size:9 final size:9
Alignment explanation
Indices: 30101067--30101103 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
30101057 GACTTCGACG
30101067 GAGTTAAAA
1 GAGTTAAAA
*
30101076 GAGTTAAAG
1 GAGTTAAAA
*
30101085 GAGTTAAAG
1 GAGTTAAAA
30101094 GAGTTAAAA
1 GAGTTAAAA
30101103 G
1 G
30101104 TACAGTTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.30, T:0.22
Consensus pattern (9 bp):
GAGTTAAAA
Found at i:30101089 original size:18 final size:18
Alignment explanation
Indices: 30101066--30101101 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
30101056 TGACTTCGAC
30101066 GGAGTTAAAAGAGTTAAA
1 GGAGTTAAAAGAGTTAAA
*
30101084 GGAGTTAAAGGAGTTAAA
1 GGAGTTAAAAGAGTTAAA
30101102 AGTACAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.31, T:0.22
Consensus pattern (18 bp):
GGAGTTAAAAGAGTTAAA
Found at i:30102806 original size:26 final size:26
Alignment explanation
Indices: 30102775--30102827 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
30102765 TGGAAGAAAG
30102775 TCCTTAGATTTGGTAGGAAAGAAAAA
1 TCCTTAGATTTGGTAGGAAAGAAAAA
*
30102801 TCCTTATATTTGGTAGGAAAGAAAAA
1 TCCTTAGATTTGGTAGGAAAGAAAAA
30102827 T
1 T
30102828 TAAGTTCAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.30
Consensus pattern (26 bp):
TCCTTAGATTTGGTAGGAAAGAAAAA
Found at i:30104483 original size:48 final size:48
Alignment explanation
Indices: 30104411--30104740 Score: 382
Period size: 48 Copynumber: 6.9 Consensus size: 48
30104401 GACATTTGGG
* * * *
30104411 TGATATGTGTGCTAGCGTAAGACCATGTCTGGGACATGGCATCGGCCA
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCCA
* * * *
30104459 CGATATGAGAGCTAGTGTAAGACCATGTTTGGAACATGACATCGGCAA
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCCA
* *
30104507 TG-TAATGAGAG-TCAGTGTAAGACCATGTCTGGAACATTGCATCGG-TA
1 TGAT-ATGAGAGCT-AGTGTAAGACCATGTCTGGAACATGGCATCGGCCA
* * *
30104554 TTGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
1 -TGATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCCA
* * * * *
30104603 TGATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGAATCGACAA
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCCA
* * *
30104651 TG-TAATGAGAGAC-AGTGTAAGACCATGTCTGGGACATGGCATCGACCT
1 TGAT-ATGAGAG-CTAGTGTAAGACCATGTCTGGAACATGGCATCGGCCA
*
30104699 TGATATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCAT
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCAT
30104741 TGGCAATTCA
Statistics
Matches: 239, Mismatches: 33, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
47 5 0.02
48 229 0.96
49 5 0.02
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (48 bp):
TGATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCCA
Found at i:30104671 original size:144 final size:144
Alignment explanation
Indices: 30104411--30104740 Score: 509
Period size: 144 Copynumber: 2.3 Consensus size: 144
30104401 GACATTTGGG
* * *
30104411 TGATATGTGTGCTAGCGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCTAGTG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
* *
30104476 TAAGACCATGTTTGGAACATGACATCGGCAATGTAATGAGAGTCAGTGTAAGACCATGTCTGGAA
66 TAAGACCATGTTTGGAACATGACATCGACAATGTAATGAGAGACAGTGTAAGACCATGTCTGGAA
* **
30104541 CATTGCATCGGTAT
131 CATGGCATCGACAT
* *
30104555 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCCAGTG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
*
30104620 TAAGACCATGTTTGGAACATGGA-ATCGACAATGTAATGAGAGACAGTGTAAGACCATGTCTGGG
66 TAAGACCATGTTTGGAACAT-GACATCGACAATGTAATGAGAGACAGTGTAAGACCATGTCTGGA
*
30104684 ACATGGCATCGACCT
130 ACATGGCATCGACAT
* * *
30104699 TGATATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCAT
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
30104741 TGGCAATTCA
Statistics
Matches: 170, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
144 168 0.99
145 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (144 bp):
TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
TAAGACCATGTTTGGAACATGACATCGACAATGTAATGAGAGACAGTGTAAGACCATGTCTGGAA
CATGGCATCGACAT
Found at i:30111446 original size:9 final size:9
Alignment explanation
Indices: 30111432--30111457 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
30111422 CCAAGTATTA
30111432 CATCAAATT
1 CATCAAATT
30111441 CATCAAATT
1 CATCAAATT
30111450 CATCAAAT
1 CATCAAAT
30111458 GGTAACAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (9 bp):
CATCAAATT
Found at i:30118409 original size:23 final size:22
Alignment explanation
Indices: 30118368--30118410 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
30118358 CTTTAGCCAT
*
30118368 TTTTATTTTTATTGCAATTTAA
1 TTTTATTTTTATTACAATTTAA
*
30118390 TTTTGTTTTTATTACTAATTT
1 TTTTATTTTTATTAC-AATTT
30118411 TCCTTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (22 bp):
TTTTATTTTTATTACAATTTAA
Found at i:30123639 original size:3 final size:3
Alignment explanation
Indices: 30123616--30123669 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
30123606 ATTCCTTTAC
* * *
30123616 ATT ATT -TT AATT ATT -TT ATT ATT ACT ATT ATT ATT CTT ATT ATC
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
30123660 ATT ATT ATT A
1 ATT ATT ATT A
30123670 ATCTTATTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 4 0.10
3 36 0.86
4 2 0.05
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:30123761 original size:37 final size:37
Alignment explanation
Indices: 30123719--30123791 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
30123709 GATTGACATA
30123719 TTGTTATTATTATTGCTTTAATGATGTTGGTTCTTAT
1 TTGTTATTATTATTGCTTTAATGATGTTGGTTCTTAT
30123756 TTGTTATTATTATTGCTTTAATGATGTTGGTTCTTA
1 TTGTTATTATTATTGCTTTAATGATGTTGGTTCTTA
30123792 CTCAGTTACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.19, C:0.05, G:0.16, T:0.59
Consensus pattern (37 bp):
TTGTTATTATTATTGCTTTAATGATGTTGGTTCTTAT
Found at i:30131214 original size:49 final size:49
Alignment explanation
Indices: 30131100--30131365 Score: 204
Period size: 47 Copynumber: 5.6 Consensus size: 49
30131090 GGTAGAATGC
* * *
30131100 CGATGTCATGTCTCAGACATGGTCTTACACTGGCTCAT-ATC-TCA-A-GT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCAT-ATAGGT
*
30131147 CGATGCCATATCCCAGACATGGTCTTACACTGACTATCATCATATAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCATATAGGT
* * * *
30131196 CGACGCCATGTCCCAGACATGGTCTTACACT-AGCTCTCA-CATACTCGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTATCATCATA-TAG-GT
* * *
30131246 CGATGCCATGTCCCAGACATGGTCTTACACTAAC-AT-ATC-TCGTA-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCAT-ATAGGT
* * **
30131292 CGATG-CATGTCTCAGACAT-GTCTTACACT-AGCT-TACGTC-TCGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTAT-CATCATATAGGT
*
30131338 CAATG-CATGTCCCAGACATGGTCTTACA
1 CGATGCCATGTCCCAGACATGGTCTTACA
30131366 TTGGCTCATA
Statistics
Matches: 183, Mismatches: 20, Indels: 32
0.78 0.09 0.14
Matches are distributed among these distances:
43 1 0.01
44 12 0.07
45 14 0.08
46 30 0.16
47 43 0.23
48 10 0.05
49 40 0.22
50 32 0.17
51 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCATATAGGT
Found at i:30131274 original size:99 final size:94
Alignment explanation
Indices: 30131106--30131365 Score: 291
Period size: 99 Copynumber: 2.8 Consensus size: 94
30131096 ATGCCGATGT
* * * *
30131106 CATGTCTCAGACATGGTCTTACACT-G-GCTCATATCTCAAGTCGATGCCATATCCCAGACATGG
1 CATGTCTCAGACATGGTCTTACACTAGCTCTCACATCTCGAGTCGATGCCATGTCCCAGACATGG
* *
30131169 TCTTACACTGAC-TATCATCATATAGGTCGACG
66 TCTTACACTAACATATC-TC--ATA-GCCGACG
* * *
30131201 CCATGTCCCAGACATGGTCTTACACTAGCTCTCACATACTCGTGCCGATGCCATGTCCCAGACAT
1 -CATGTCTCAGACATGGTCTTACACTAGCTCTCACAT-CTCGAGTCGATGCCATGTCCCAGACAT
* *
30131266 GGTCTTACACTAACATATCTCGTAGCCGATG
64 GGTCTTACACTAACATATCTCATAGCCGACG
* *
30131297 CATGTCTCAGACAT-GTCTTACACTAGCT-T-ACGTCTCGAGGTCAATG-CATGTCCCAGACATG
1 CATGTCTCAGACATGGTCTTACACTAGCTCTCACATCTCGA-GTCGATGCCATGTCCCAGACATG
30131358 GTCTTACA
65 GTCTTACA
30131366 TTGGCTCATA
Statistics
Matches: 143, Mismatches: 16, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
91 27 0.19
92 8 0.06
93 1 0.01
94 14 0.10
95 13 0.09
96 29 0.20
97 3 0.02
98 6 0.04
99 38 0.27
100 4 0.03
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (94 bp):
CATGTCTCAGACATGGTCTTACACTAGCTCTCACATCTCGAGTCGATGCCATGTCCCAGACATGG
TCTTACACTAACATATCTCATAGCCGACG
Found at i:30136341 original size:37 final size:37
Alignment explanation
Indices: 30136280--30136358 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
30136270 TTATTACGAA
* * *
30136280 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
* *
30136317 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
30136354 GTCTT
1 GTCTT
30136359 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:30136555 original size:47 final size:47
Alignment explanation
Indices: 30136477--30137246 Score: 1209
Period size: 47 Copynumber: 16.1 Consensus size: 47
30136467 CCCTTCGGGA
* * * * * *
30136477 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30136524 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30136571 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30136617 CTCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30136665 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30136716 CTTATCACATATATACACTTTCACATTCATCCCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30136763 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30136810 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30136857 CTTATCACATATATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATA--CACTTTCACATTCATCACATCGGCCATTAGGC
*
30136908 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30136955 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30137002 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30137049 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30137100 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30137147 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30137194 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30137243 CTTA
1 CTTA
30137247 CTATCATTTC
Statistics
Matches: 681, Mismatches: 26, Indels: 30
0.92 0.04 0.04
Matches are distributed among these distances:
46 2 0.00
47 491 0.72
48 2 0.00
49 54 0.08
51 132 0.19
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30136738 original size:145 final size:141
Alignment explanation
Indices: 30136477--30137246 Score: 1209
Period size: 145 Copynumber: 5.4 Consensus size: 141
30136467 CCCTTCGGGA
* * * * * * * * *
30136477 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
30136542 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
30136607 GGCCATTAGG-
131 GGCCATTAGGC
30136617 CTCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CT-TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC----ATATA
30136682 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
61 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
*
30136747 CCATCGGCCATTAGGC
126 ACATCGGCCATTAGGC
* * *
30136763 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACGTATATACAC
1 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
30136828 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATGCACTTTCACATTCATCA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATA--CACTTTCACATTCATCA
30136893 CATCGGCCATTAGGC
127 CATCGGCCATTAGGC
* *
30136908 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACGTATATACAC
1 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
30136973 TTTCACATTCATCACATCGGCCATTAGGCCCTATCACGTATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
30137038 GGCCATTAGGC
131 GGCCATTAGGC
*
30137049 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 CTTATCAC----GTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
* *
30137114 ACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACGTATATACACTTTCACATTCATCA
62 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
30137179 CATCGGCCATTAGGC
127 CATCGGCCATTAGGC
*
30137194 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CTTATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
30137247 CTATCATTTC
Statistics
Matches: 596, Mismatches: 20, Indels: 25
0.93 0.03 0.04
Matches are distributed among these distances:
140 2 0.00
141 130 0.22
143 58 0.10
145 405 0.68
146 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (141 bp):
CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:30136817 original size:192 final size:192
Alignment explanation
Indices: 30136488--30137246 Score: 1365
Period size: 192 Copynumber: 3.9 Consensus size: 192
30136478 TTATCACATT
* * * * * * *
30136488 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
* *
30136553 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66 TCACATCGGCCATTAGGCCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30136618 TCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
131 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
30136680 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
*
30136745 TCCCATCGGCCATTAGGCCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
66 TCACATCGGCCATTAGGCCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
30136810 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
131 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
* *
30136872 TATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
30136937 TCACATCGGCCATTAGGCCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
66 TCACATCGGCCATTAGGCCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
30137002 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
131 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
30137064 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
30137129 TCACATCGGCCATTAGGCCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
66 TCACATCGGCCATTAGGCCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30137194 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
131 CCTATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
30137247 CTATCATTTC
Statistics
Matches: 547, Mismatches: 18, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
192 505 0.92
194 42 0.08
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.31
Consensus pattern (192 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
TCACATCGGCCATTAGGCCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:30138662 original size:40 final size:40
Alignment explanation
Indices: 30138617--30138854 Score: 191
Period size: 40 Copynumber: 6.0 Consensus size: 40
30138607 CGAATACACG
* * * *
30138617 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* * * * *
30138657 ACACCAGCACGAATGCTCTTTGGAACATAGCCCGGAAACA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* * * *
30138697 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* *
30138737 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATTTA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* * *
30138777 GTAACTC-GCACCAATGC-CTTCGG-GCTTAGCCCGGA-ATTA
1 -TCAC-CAGCACGAATGCTCTTCGGAACTTAGCCCGGATA-TA
* * * *
30138816 GTAACTC-GCACAAATGC-CTTCGGATCTTAGTCCGGATAT
1 -TCAC-CAGCACGAATGCTCTTCGGAACTTAGCCCGGATAT
30138855 GGTCACTTAG
Statistics
Matches: 164, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
39 35 0.21
40 116 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
Found at i:30138755 original size:80 final size:80
Alignment explanation
Indices: 30138617--30138772 Score: 240
Period size: 80 Copynumber: 1.9 Consensus size: 80
30138607 CGAATACACG
* *
30138617 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGAA
1 TCACCAGCATGAATGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGAA
30138682 CATAGCCCGGAAACA
66 CATAGCCCGGAAACA
* * * * *
30138697 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATATCACTAGCACGAATGCTCTTCGGAA
1 TCACCAGCATGAATGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGAA
*
30138762 CTTAGCCCGGA
66 CATAGCCCGGA
30138773 TTTAGTAACT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (80 bp):
TCACCAGCATGAATGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGAA
CATAGCCCGGAAACA
Found at i:30138798 original size:80 final size:78
Alignment explanation
Indices: 30138634--30138887 Score: 246
Period size: 80 Copynumber: 3.2 Consensus size: 78
30138624 CATGATTGCT
* * * * * * *
30138634 CTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGAACATAGCCCGGAAACA-T
1 CTTCGGGACTTAGCCCGGTTAT-ACACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAGT
*
30138698 CACTAGCATGAATGC
65 CACTAGCA-CAATGC
*
30138713 TCTTCGGGACTTAGCCCGGTTATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATTTAG
1 -CTTCGGGACTTAGCCCGGTTATA-CACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAG
* *
30138778 TAACTCGCACCAATGC
64 TCACTAGCA-CAATGC
* * * * *
30138794 CTTCGGG-CTTAGCCCGGAATTAGTA-ACTCGCACAAATGC-CTTCGGATCTTAGTCCGGATATG
1 CTTCGGGACTTAGCCCGG--TTA-TACACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
*
30138856 GTCACTTAGCACAAAGC
63 GTCAC-TAGCACAATGC
30138873 CTTCGGGACTTAGCC
1 CTTCGGGACTTAGCC
30138888 TGGACATCAT
Statistics
Matches: 146, Mismatches: 21, Indels: 14
0.81 0.12 0.08
Matches are distributed among these distances:
79 46 0.32
80 83 0.57
81 15 0.10
82 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (78 bp):
CTTCGGGACTTAGCCCGGTTATACACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATAGTC
ACTAGCACAATGC
Found at i:30138885 original size:40 final size:39
Alignment explanation
Indices: 30138714--30138887 Score: 158
Period size: 40 Copynumber: 4.4 Consensus size: 39
30138704 CATGAATGCT
* * *
30138714 CTTCGGGACTTAGCCCGGTTATA-TCACTAGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCAC-AAAGC
* * * *
30138753 TCTTCGGAACTTAGCCCGGATTTAGTAACTCGCACCAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTAGCA-CAAAGC
*
30138794 CTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAA-GC
* * *
30138833 CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCACAAAGC
30138873 CTTCGGGACTTAGCC
1 CTTCGGGACTTAGCC
30138888 TGGACATCAT
Statistics
Matches: 112, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
38 5 0.04
39 29 0.26
40 53 0.47
41 24 0.21
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAAGC
Found at i:30139233 original size:29 final size:29
Alignment explanation
Indices: 30139194--30139272 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
30139184 CTTAATAATC
*
30139194 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
30139224 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
30139253 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
30139273 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:30141229 original size:37 final size:37
Alignment explanation
Indices: 30141168--30141246 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
30141158 TTATTACAAA
* * *
30141168 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
* *
30141205 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
30141242 GTCTT
1 GTCTT
30141247 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:30141443 original size:47 final size:47
Alignment explanation
Indices: 30141367--30142029 Score: 1092
Period size: 47 Copynumber: 14.0 Consensus size: 47
30141357 CTTCGGGACT
* * * * * *
30141367 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
30141414 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
30141461 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
30141508 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
30141555 TATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
30141606 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
30141653 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
30141700 TATCACGTATATTCACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
30141747 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
30141794 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
30141841 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
30141888 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * *
30141935 TATCACGTATATACACTTTCACATTCATCACATCAGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
30141982 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
30142030 TTACTATCAT
Statistics
Matches: 587, Mismatches: 23, Indels: 10
0.95 0.04 0.02
Matches are distributed among these distances:
47 503 0.86
49 38 0.06
51 46 0.08
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:30146508 original size:27 final size:26
Alignment explanation
Indices: 30146464--30146514 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
30146454 CTCGCTGCAA
*
30146464 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
30146491 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
30146515 GGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:30149881 original size:39 final size:40
Alignment explanation
Indices: 30149786--30150008 Score: 246
Period size: 39 Copynumber: 5.7 Consensus size: 40
30149776 TTGAATGATG
*
30149786 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
30149824 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
30149865 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGATATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
30149904 TCCGGGCTAAG-CCCGAAGGCATTTGTGCTAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
30149943 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
30149982 AACCGGGCTATGTCCCAAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
30150009 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
39 90 0.56
40 59 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:30150030 original size:79 final size:79
Alignment explanation
Indices: 30149786--30150041 Score: 190
Period size: 79 Copynumber: 3.3 Consensus size: 79
30149776 TTGAATGATG
* * * * *
30149786 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGATA-T-ACTAATA-CCGGGCTAAG-CCCAAAGGCA
** *
30149847 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* * *
30149865 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGATATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGATATACTAATACCGGGCTAAGCCCAAAGGCATTTG
** * *
30149929 TGCTAGTTACTAAA
66 AACGAGTGACTAAA
*
30149943 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGT-TACT-ATAACCGGGCTATGTCCCAAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-TATACTAAT-ACCGGGCTAAG-CCCAAAGGCAT
*
30150006 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
30150023 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
30150042 TACGTGATTT
Statistics
Matches: 150, Mismatches: 17, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
77 1 0.01
78 44 0.29
79 69 0.46
80 35 0.23
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGATATACTAATACCGGGCTAAGCCCAAAGGCATTTG
AACGAGTGACTAAA
Found at i:30154540 original size:3 final size:3
Alignment explanation
Indices: 30154532--30154570 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
30154522 TTTAATTCTT
* * *
30154532 TTA TTA TTA CTA TTA TTA TTC TTA TTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30154571 ATCTTATTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:30156633 original size:29 final size:29
Alignment explanation
Indices: 30156600--30156661 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
30156590 ATTGAGGACA
30156600 ATGTACATCTTAAGTGTGGGGAGGTTATG
1 ATGTACATCTTAAGTGTGGGGAGGTTATG
30156629 ATGTACATCTTAAGTGTGGGGAGGTTATG
1 ATGTACATCTTAAGTGTGGGGAGGTTATG
30156658 ATGT
1 ATGT
30156662 TATGATAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.24, C:0.06, G:0.34, T:0.35
Consensus pattern (29 bp):
ATGTACATCTTAAGTGTGGGGAGGTTATG
Found at i:30162258 original size:46 final size:48
Alignment explanation
Indices: 30162008--30162322 Score: 251
Period size: 46 Copynumber: 6.6 Consensus size: 48
30161998 AGAATGCCGA
* *
30162008 GCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTC-AAGTTGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTTATATCTCGAAGCTGAT
* * * * * *
30162055 GCCATATCCCAGACATGGTCTTACA-TTGATTATCATCATCGAGGCGGAC
1 GCCATGTCCCAGACATGGTCTTACACTGGCTTAT-ATC-TCGAAGCTGAT
* * * * *
30162104 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATACTTG-TGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCT-T-ATAT-CTCGAAGCTGAT
* *
30162154 GCCATGTCCCAGACATGGTCTTACTCTGAC--ATATCTC-ATAG-TCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTTATATCTCGA-AGCT-GAT
*
30162200 G-CATGTCCCAGACAT-GTCTTACACTGGCTTATGTCTCGAAGCTGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTTATATCTCGAAGCTGAT
* * * **
30162246 G-CATATCCCAGACAT-GTCTTACACTAGCTCT-CATCTC-AATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCT-TATATCTCGAA-GCTGAT
* *
30162292 GCCATGTCCCAGACAAGGTCTTATACTGGCT
1 GCCATGTCCCAGACATGGTCTTACACTGGCT
30162323 CATAATAGCC
Statistics
Matches: 214, Mismatches: 36, Indels: 35
0.75 0.13 0.12
Matches are distributed among these distances:
44 11 0.05
45 18 0.08
46 60 0.28
47 42 0.20
48 14 0.07
49 28 0.13
50 34 0.16
51 5 0.02
52 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTTATATCTCGAAGCTGAT
Found at i:30163661 original size:23 final size:23
Alignment explanation
Indices: 30163635--30163679 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
30163625 CCTAGAGCTA
*
30163635 TAATTAGTGATGAAGGATCTATT
1 TAATTAGTAATGAAGGATCTATT
30163658 TAATTAGTAATGAAGGATCTAT
1 TAATTAGTAATGAAGGATCTAT
30163680 CTTTGTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (23 bp):
TAATTAGTAATGAAGGATCTATT
Found at i:30178133 original size:56 final size:54
Alignment explanation
Indices: 30178066--30178203 Score: 170
Period size: 56 Copynumber: 2.5 Consensus size: 54
30178056 CATGACATAG
*
30178066 CACGCCTCTCAACAGGGCTACATATGAGCACCCGGACCTAGCATGCATCAC-ATTA
1 CACGCCTCTCAACAGGGCTACATA--AGCACCCGGACCTAGCATGCACCACAATTA
* * * *
30178121 CCACGCCTCTCAACAGGGCTACATAAGCTCTCGGACCTAGCGTGTACCACATAATTA
1 -CACGCCTCTCAACAGGGCTACATAAGCACCCGGACCTAGCATGCACCAC--AATTA
*
30178178 CATGCCTCTCAACAGGGCTACATAAG
1 CACGCCTCTCAACAGGGCTACATAAG
30178204 ATCTTAGACC
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
54 20 0.27
56 49 0.67
57 4 0.05
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (54 bp):
CACGCCTCTCAACAGGGCTACATAAGCACCCGGACCTAGCATGCACCACAATTA
Found at i:30178370 original size:15 final size:15
Alignment explanation
Indices: 30178350--30178379 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30178340 CTTGGAATGT
30178350 TGGCCTTATAACATA
1 TGGCCTTATAACATA
*
30178365 TGGCCTTATCACATA
1 TGGCCTTATAACATA
30178380 CAAATGCTAA
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:0.30, C:0.23, G:0.13, T:0.33
Consensus pattern (15 bp):
TGGCCTTATAACATA
Found at i:30184356 original size:18 final size:18
Alignment explanation
Indices: 30184335--30184369 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30184325 AAAATAAAAA
30184335 ATTTCAAAAAAGAATCAT
1 ATTTCAAAAAAGAATCAT
* *
30184353 ATTTTAAAAAATAATCA
1 ATTTCAAAAAAGAATCA
30184370 AAATGCGCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (18 bp):
ATTTCAAAAAAGAATCAT
Found at i:30192748 original size:28 final size:28
Alignment explanation
Indices: 30192716--30192800 Score: 143
Period size: 28 Copynumber: 3.0 Consensus size: 28
30192706 GGAAAGAAAT
*
30192716 TTCAATTAATCAACCTAGAGTCAGTTGC
1 TTCAATTAATCAACCTAGAGTTAGTTGC
* *
30192744 TTCAATTAATCATCCTAGAGTTAATTGC
1 TTCAATTAATCAACCTAGAGTTAGTTGC
30192772 TTCAATTAATCAACCTAGAGTTAGTTGC
1 TTCAATTAATCAACCTAGAGTTAGTTGC
30192800 T
1 T
30192801 CTTACTCTCG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (28 bp):
TTCAATTAATCAACCTAGAGTTAGTTGC
Found at i:30192877 original size:42 final size:42
Alignment explanation
Indices: 30192818--30192902 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
30192808 TCGTAAGAGA
* *
30192818 TATTACAATAATTTAGGGATTTTAACGTGTCAAGATACCAAG
1 TATTACAATAATTTAGGGATTTTAACATATCAAGATACCAAG
30192860 TATTACAATAATTTAGGGATTTTAACATATCAAGATACCAAG
1 TATTACAATAATTTAGGGATTTTAACATATCAAGATACCAAG
30192902 T
1 T
30192903 GAATAAATCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (42 bp):
TATTACAATAATTTAGGGATTTTAACATATCAAGATACCAAG
Done.