Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 53 of 295
Found at i:15254965 original size:24 final size:25
Alignment explanation
Indices: 15254911--15254966 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
15254901 CTTCCCAATA
* *
15254911 AATGGCTATTCGGAGCTTCTCGATT
1 AATGGCTATTCGGAGCTACTCCATT
*
15254936 AATGGCTCTTCGGAGCTAC-CCATT
1 AATGGCTATTCGGAGCTACTCCATT
*
15254960 ATTGGCT
1 AATGGCT
15254967 TGGATGAGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 10 0.37
25 17 0.63
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (25 bp):
AATGGCTATTCGGAGCTACTCCATT
Found at i:15255025 original size:25 final size:25
Alignment explanation
Indices: 15254997--15255053 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
15254987 TACTCTTATG
* * *
15254997 AGCTTTCCGTTATAAAGCTCAGATA
1 AGCTTCCCGTTACAAAGCTCACATA
* *
15255022 AGCTTCCCGTTACATAGCTCACATG
1 AGCTTCCCGTTACAAAGCTCACATA
15255047 AGCTTCC
1 AGCTTCC
15255054 TATTATATGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (25 bp):
AGCTTCCCGTTACAAAGCTCACATA
Found at i:15256267 original size:54 final size:54
Alignment explanation
Indices: 15256153--15256267 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 54
15256143 TGTGACTTGG
* * *
15256153 CCGTGTGACTGAAGTCAGAGAGTTACACGGGTACAAAGACGAGCTGGGGCAAGA
1 CCGTGTGACTCAAGTCAGAGAGTTACACGGGTACAAACACGAGCTGGGACAAGA
* * * * *
15256207 CCGTGTGACTCAAGTCAGAGAGTTACACGGGTATAGACACGGGCTTGGACACGA
1 CCGTGTGACTCAAGTCAGAGAGTTACACGGGTACAAACACGAGCTGGGACAAGA
*
15256261 CTGTGTG
1 CCGTGTG
15256268 CCCTATTTTG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.28, C:0.20, G:0.34, T:0.18
Consensus pattern (54 bp):
CCGTGTGACTCAAGTCAGAGAGTTACACGGGTACAAACACGAGCTGGGACAAGA
Found at i:15257159 original size:20 final size:19
Alignment explanation
Indices: 15257120--15257163 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
15257110 TGACCCCTGC
15257120 AGTTT-TGAAAATTTTATA
1 AGTTTCTGAAAATTTTATA
*
15257138 AGTTTCTGAAATATTTTCTA
1 AGTTTCTGAAA-ATTTTATA
15257158 AGTTTC
1 AGTTTC
15257164 CAATTTAGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.22
19 5 0.22
20 13 0.57
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.50
Consensus pattern (19 bp):
AGTTTCTGAAAATTTTATA
Found at i:15260789 original size:10 final size:11
Alignment explanation
Indices: 15260764--15260800 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
15260754 TGTATACATG
*
15260764 TATTTTTTTAT
1 TATTTTATTAT
15260775 T-TTTTATT-T
1 TATTTTATTAT
15260784 TATTTTATTAT
1 TATTTTATTAT
15260795 TATTTT
1 TATTTT
15260801 TAAGAACAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
9 2 0.09
10 13 0.57
11 8 0.35
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TATTTTATTAT
Found at i:15266661 original size:20 final size:20
Alignment explanation
Indices: 15266630--15266675 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
15266620 ACTGTTTTGT
*
15266630 TATGGG-CCAACTGTGTTGAA
1 TATGGGCCCAACTATGTT-AA
15266650 -ATGGGCCCAACTATGTTAA
1 TATGGGCCCAACTATGTTAA
15266669 TATGGGC
1 TATGGGC
15266676 AAGGCCCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (20 bp):
TATGGGCCCAACTATGTTAA
Found at i:15266742 original size:60 final size:60
Alignment explanation
Indices: 15266668--15266804 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 60
15266658 AACTATGTTA
* * *
15266668 ATATGGGCAAGGCCCAACATA-TCTCA-ACTTGTAATAGGGCTACGGCCTAGATTGAGACTG
1 ATATGGGCTAGGCCCAACATACTCTCATAC-TGTAA-AGGGCTACGGCCCAGATTAAGACTG
** * * * * *
15266728 ATATGGGCTAGGCCCAGTATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAACATACTCTCATACTGTAAAGGGCTACGGCCCAGATTAAGACTG
15266788 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
15266805 GTTAACTCTG
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
60 46 0.72
61 16 0.25
62 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (60 bp):
ATATGGGCTAGGCCCAACATACTCTCATACTGTAAAGGGCTACGGCCCAGATTAAGACTG
Found at i:15269194 original size:66 final size:66
Alignment explanation
Indices: 15269066--15269194 Score: 152
Period size: 67 Copynumber: 1.9 Consensus size: 66
15269056 TACTATGTGT
* * * * *
15269066 ACACCATGTAGAAAAGAGAACTATGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
1 ACACCATGTAGAAAAGAGAACTACGAGATAAATG-AGCTAGGTCACATGCGTGGTACCAAGTGAA
15269131 GG
65 GG
* * * *
15269133 ACACCATGTAGACAAGAGAGCTACGAGATAAACTG-GCTAGGTCACATGGGTGGTACTAAGTG
1 ACACCATGTAGAAAAGAGAACTACGAGATAAA-TGAGCTAGGTCACATGCGTGGTACCAAGTG
15269195 TTCACCATGT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
66 23 0.44
67 27 0.52
68 2 0.04
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.21
Consensus pattern (66 bp):
ACACCATGTAGAAAAGAGAACTACGAGATAAATGAGCTAGGTCACATGCGTGGTACCAAGTGAAG
G
Found at i:15276408 original size:37 final size:37
Alignment explanation
Indices: 15276344--15276452 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
15276334 AGCTCAGATG
* * *
15276344 AAATCTCCACACGAAGTTATCGAGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
15276381 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
15276418 TAATCTCCACATGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
15276453 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:15276650 original size:48 final size:48
Alignment explanation
Indices: 15276592--15277028 Score: 721
Period size: 48 Copynumber: 9.0 Consensus size: 48
15276582 ATATACACAC
* *
15276592 ATCTCCTACATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
15276640 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
15276688 ATCTCATCCATATTTCACATTAGCCATTCGGCTTTACTACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
15276736 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
15276784 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATTTACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
15276832 ATCTCATACATACTTCACATTAGCCATTCGGCTTTACCACATTTACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
15276880 ATCTCATACATACTTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATA-TTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
15276929 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* **
15276979 ATCTCATACATATTTCACATTAGCCGTTTAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
15277027 AT
1 AT
15277029 ATTTATCTTG
Statistics
Matches: 368, Mismatches: 18, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
48 282 0.77
49 39 0.11
50 41 0.11
51 6 0.02
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:15281512 original size:43 final size:41
Alignment explanation
Indices: 15281425--15281515 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 41
15281415 TGTTTACTAC
* * * *
15281425 CATGCCCATAGGGACTGACTGTGTGTCACACAGTCGTACAA
1 CATGCCCATAGGGACTAACCGTGTGTCACACAGGCCTACAA
*
15281466 CATGCCCATAGGGACTAACCGTGTGTCACACACGGCCTAGACA
1 CATGCCCATAGGGACTAACCGTGTGTCACACA-GGCCTACA-A
15281509 CATGCCC
1 CATGCCC
15281516 GTGTGTCTAC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
41 30 0.70
42 5 0.12
43 8 0.19
ACGTcount: A:0.26, C:0.32, G:0.23, T:0.19
Consensus pattern (41 bp):
CATGCCCATAGGGACTAACCGTGTGTCACACAGGCCTACAA
Found at i:15293662 original size:52 final size:52
Alignment explanation
Indices: 15293604--15293753 Score: 135
Period size: 52 Copynumber: 2.9 Consensus size: 52
15293594 GACGGAAAAG
* *
15293604 ATGTGATATGTTCTTCCGTATAAGACCATAGTTGGGCTATGGCATTGGTACA
1 ATGTGATATGTTCTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* ***
15293656 ATGTGAT-TCGAGTTC--CCGTATAAAACCATAGCTGGGCTATGGCATCGGTGTG
1 ATGTGATAT---GTTCTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
** * * * *
15293708 ATGTGATAATGTGATTCTGTATAAGACCATATCTAGGATATGGCAT
1 ATGTGAT-ATGTTCTTCCGTATAAGACCATAGCTGGGCTATGGCAT
15293754 TAGTATGTTA
Statistics
Matches: 78, Mismatches: 13, Indels: 13
0.75 0.12 0.12
Matches are distributed among these distances:
51 3 0.04
52 45 0.58
53 25 0.32
54 5 0.06
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (52 bp):
ATGTGATATGTTCTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
Found at i:15300517 original size:53 final size:50
Alignment explanation
Indices: 15300438--15300580 Score: 152
Period size: 53 Copynumber: 2.9 Consensus size: 50
15300428 TGACGGAAAA
* *
15300438 GATGTGATATGTGCTTCCGTATAAGACCATAGCTGGACTATGGCATCAGTGT
1 GATGTGATATGTGATTTCGTATAAGACCATAGCTGGACTATGGCATC-G-GT
*
15300490 GATGTGATAATGTGATTTCGTATAAGACCATATCTAGGA-TATGGCATCGGT
1 GATGTGAT-ATGTGATTTCGTATAAGACCATAGCT-GGACTATGGCATCGGT
* * * *
15300541 -ATGT--TATGTGA-TTCGTGTAAGACCATGGCAGGGCTATGGC
1 GATGTGATATGTGATTTCGTATAAGACCATAGCTGGACTATGGC
15300581 TTCGCTGTGT
Statistics
Matches: 80, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
45 2 0.03
46 21 0.26
47 6 0.08
48 1 0.01
50 4 0.05
51 2 0.03
52 9 0.11
53 32 0.40
54 3 0.04
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (50 bp):
GATGTGATATGTGATTTCGTATAAGACCATAGCTGGACTATGGCATCGGT
Found at i:15302924 original size:29 final size:30
Alignment explanation
Indices: 15302858--15302936 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
15302848 ATTTAAATAA
* *
15302858 ATATATATAAA-A-TAAAAAGTTCTAAAAT
1 ATATATATAAATATTAAAAAATTCTAAAAG
* *
15302886 ATGTATATAAATTTTAAAAAATTCTAAAAG
1 ATATATATAAATATTAAAAAATTCTAAAAG
15302916 A-ATATATAAATATTAAAAAAT
1 ATATATATAAATATTAAAAAAT
15302937 AAGAGATATT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
28 10 0.23
29 18 0.42
30 15 0.35
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (30 bp):
ATATATATAAATATTAAAAAATTCTAAAAG
Found at i:15303044 original size:25 final size:25
Alignment explanation
Indices: 15303006--15303062 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
15302996 TTTTTGGAAA
* *
15303006 TAAAAATATATAAATATATAATTTTT
1 TAAAAAAATATAAAAATAT-ATTTTT
15303032 TAAAAAAAT-TAAAAATATATTTTT
1 TAAAAAAATATAAAAATATATTTTT
*
15303056 CAAAAAA
1 TAAAAAA
15303063 TGAAAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 12 0.43
25 8 0.29
26 8 0.29
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (25 bp):
TAAAAAAATATAAAAATATATTTTT
Found at i:15303114 original size:18 final size:18
Alignment explanation
Indices: 15303074--15303116 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
15303064 GAAAATATTT
* *
15303074 AAAAATATATTTAATTTC
1 AAAAAAATATTTAAATTC
* *
15303092 TAAAAAATATTTAAATTG
1 AAAAAAATATTTAAATTC
15303110 AAAAAAA
1 AAAAAAA
15303117 AATTAGAAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (18 bp):
AAAAAAATATTTAAATTC
Found at i:15303695 original size:9 final size:9
Alignment explanation
Indices: 15303676--15303708 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
15303666 AGAATTCGTG
15303676 AAAAAGAATA
1 AAAAAG-ATA
15303686 AAAAAGATA
1 AAAAAGATA
15303695 AAAAAGATA
1 AAAAAGATA
15303704 AAAAA
1 AAAAA
15303709 AAATTGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (9 bp):
AAAAAGATA
Found at i:15307518 original size:39 final size:40
Alignment explanation
Indices: 15307464--15307640 Score: 218
Period size: 40 Copynumber: 4.5 Consensus size: 40
15307454 AAACCAAGTA
* * * *
15307464 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
15307503 CCTTCGGGACTTAGCCCAGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
15307543 CCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
15307583 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
15307622 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
15307641 TTATCATCCG
Statistics
Matches: 122, Mismatches: 12, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
38 1 0.01
39 46 0.38
40 75 0.61
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:15307541 original size:40 final size:40
Alignment explanation
Indices: 15307497--15307644 Score: 228
Period size: 40 Copynumber: 3.7 Consensus size: 40
15307487 GCTACTTGCT
*
15307497 CAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
15307537 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
15307577 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
15307616 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
15307645 CATCCGAATA
Statistics
Matches: 98, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
38 1 0.01
39 33 0.34
40 63 0.64
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:15307596 original size:79 final size:80
Alignment explanation
Indices: 15307497--15307644 Score: 237
Period size: 79 Copynumber: 1.9 Consensus size: 80
15307487 GCTACTTGCT
* * *
15307497 CAAATGCCTTCGGGACTTAGCCCAG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCG
15307561 GTTATAGTAACTCACA
65 GTTATAGTAACTCACA
*
15307577 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
15307641 TTAT
66 TTAT
15307645 CATCCGAATA
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
79 48 0.76
80 15 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
TTATAGTAACTCACA
Found at i:15316496 original size:15 final size:17
Alignment explanation
Indices: 15316466--15316497 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
15316456 TTGATACTTT
15316466 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
15316483 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
15316498 AATTATGCTA
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:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:15317959 original size:49 final size:49
Alignment explanation
Indices: 15317875--15317969 Score: 138
Period size: 49 Copynumber: 1.9 Consensus size: 49
15317865 CCAAAAACAA
*
15317875 AATATTGTGATCAAGCCACCAGATAAAGCAAATATACTGCTAGATATAG
1 AATATTGTGATCAAGCCACCAGATAAAGCAAATATACTGCCAGATATAG
* * *
15317924 AATATTGTGATCAAGCCACTAGATAATA-CATATATATTGCCAGATA
1 AATATTGTGATCAAGCCACCAGATAA-AGCAAATATACTGCCAGATA
15317970 CTTCCTCTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 40 0.98
50 1 0.02
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (49 bp):
AATATTGTGATCAAGCCACCAGATAAAGCAAATATACTGCCAGATATAG
Found at i:15318174 original size:36 final size:36
Alignment explanation
Indices: 15318080--15318176 Score: 158
Period size: 36 Copynumber: 2.7 Consensus size: 36
15318070 TTTATCACAG
* *
15318080 TGGCATGCTTAATATGCAAATAAGAATAAGAAATAA
1 TGGCATGCTTAACATGCAAATCAGAATAAGAAATAA
15318116 TGGCATGCTTAACATGCAAATCAGAATAAGAAATAA
1 TGGCATGCTTAACATGCAAATCAGAATAAGAAATAA
* *
15318152 TGGTATGCTTAACATGCGAATCAGA
1 TGGCATGCTTAACATGCAAATCAGA
15318177 GTATCAGAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (36 bp):
TGGCATGCTTAACATGCAAATCAGAATAAGAAATAA
Found at i:15335703 original size:46 final size:46
Alignment explanation
Indices: 15335652--15335746 Score: 111
Period size: 46 Copynumber: 2.1 Consensus size: 46
15335642 ATAACTAAAA
** * *
15335652 GTTTGTTTCAAAAAGCATA-TTTGTTTTTCCAATATAGTACTAAGAC
1 GTTTGTTTCAAAAAGCA-AGTTTGCATTTCAAATACAGTACTAAGAC
* **
15335698 GTTTGTTTTAAACCGCAAGTTTGCATTTCAAATACAGTACTAAGAC
1 GTTTGTTTCAAAAAGCAAGTTTGCATTTCAAATACAGTACTAAGAC
15335744 GTT
1 GTT
15335747 GGCATCAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
45 1 0.02
46 40 0.98
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (46 bp):
GTTTGTTTCAAAAAGCAAGTTTGCATTTCAAATACAGTACTAAGAC
Found at i:15336928 original size:68 final size:68
Alignment explanation
Indices: 15336855--15336987 Score: 158
Period size: 68 Copynumber: 2.0 Consensus size: 68
15336845 AGCTAACCTT
** ***
15336855 TATAATATCAACTGTGAACATAGGTCAGTGAGTTGTTTAGCAGTTGCAATCTTAAATCAACTAAC
1 TATAATATCAACTGCAAACATAGGTCAACCAGTTGTTTAGCAGTTGCAATCTTAAATCAACTAAC
15336920 ATG
66 ATG
* * * * ** *
15336923 TATAATATTAGCTGCAAATATAGGTCAACCAGTTGTTTAGGAGTTGTGATCTTAAATCAGCTAAC
1 TATAATATCAACTGCAAACATAGGTCAACCAGTTGTTTAGCAGTTGCAATCTTAAATCAACTAAC
15336988 TCAAATAAGC
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
68 53 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (68 bp):
TATAATATCAACTGCAAACATAGGTCAACCAGTTGTTTAGCAGTTGCAATCTTAAATCAACTAAC
ATG
Found at i:15337225 original size:105 final size:105
Alignment explanation
Indices: 15336897--15337287 Score: 491
Period size: 105 Copynumber: 3.8 Consensus size: 105
15336887 TTGTTTAGCA
* * * * * * * * *
15336897 GTTGCAATCTTAAATCAACTAACATGTATAATATTAGCTGCAAATATAGGTCAACCAGTTGTTTA
1 GTTGCGATCTTAAATCAACTAACCTTTATAATATCAGCTGCGAACATAGGTCAGCAAGCTGTTTA
* *
15336962 GGAGTTGTGATCTTAAATCAGCTAACTCAAATAAGCTTAG
66 GAAGTTGTGATCTTAAATCAGCTAACTCAAATAAACTTAG
* * ** *
15337002 GTTGCGATCTTAAATCAACTAACCTTTATAATATCAGTTGTGAATGTAGGTTAG--AGCTGTTTA
1 GTTGCGATCTTAAATCAACTAACCTTTATAATATCAGCTGCGAACATAGGTCAGCAAGCTGTTTA
* *
15337065 GAAGTTGTGATCTTAAATCAACTAACTTAAATAAACTTAG
66 GAAGTTGTGATCTTAAATCAGCTAACTCAAATAAACTTAG
* * * * * *
15337105 GTTGCAATATTAAATCAACTAACCTTTATAATATCAGCTACGAACGTAGGTTAGCAAGTTGTTTA
1 GTTGCGATCTTAAATCAACTAACCTTTATAATATCAGCTGCGAACATAGGTCAGCAAGCTGTTTA
* *
15337170 GGAGTTGCGATCTTAAATCAGCTAACTCAAATAAACTTAG
66 GAAGTTGTGATCTTAAATCAGCTAACTCAAATAAACTTAG
* * * *
15337210 GCTGCGATCTCAAATCACCTAACCTTTATAATATCAGCTGTGAACATAGGTCA-CAAGCTGTTTA
1 GTTGCGATCTTAAATCAACTAACCTTTATAATATCAGCTGCGAACATAGGTCAGCAAGCTGTTTA
15337274 GAAGTTGTGATCTT
66 GAAGTTGTGATCTT
15337288 CATGTATCAC
Statistics
Matches: 246, Mismatches: 38, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
103 92 0.37
104 22 0.09
105 132 0.54
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Consensus pattern (105 bp):
GTTGCGATCTTAAATCAACTAACCTTTATAATATCAGCTGCGAACATAGGTCAGCAAGCTGTTTA
GAAGTTGTGATCTTAAATCAGCTAACTCAAATAAACTTAG
Found at i:15338103 original size:27 final size:27
Alignment explanation
Indices: 15338035--15338113 Score: 108
Period size: 26 Copynumber: 3.0 Consensus size: 27
15338025 ACTAACCTAT
*
15338035 TAATTTAAAATCCTAATTATCTTAACTA
1 TAATTTAAACTCCTAATTATCTTAA-TA
* *
15338063 -AATTAAAACT-CTAATTATCATAATA
1 TAATTTAAACTCCTAATTATCTTAATA
15338088 TAATTTAAACTCCTAATTATCTTAAT
1 TAATTTAAACTCCTAATTATCTTAAT
15338114 CTACACAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
25 2 0.05
26 21 0.48
27 21 0.48
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (27 bp):
TAATTTAAACTCCTAATTATCTTAATA
Found at i:15339013 original size:44 final size:44
Alignment explanation
Indices: 15338963--15339053 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
15338953 AACTTTGTTT
* * * *
15338963 TTAGTTTCTCATTTAAACTCTGATTAGTATAAGTTATTTTAATA
1 TTAGTTTCCCACTTAAACCCTGATTAGTATAAGCTATTTTAATA
* *
15339007 TTAGTTTCCCACTTAAACCCTGATTAGTGTAGGCTATTTTAATA
1 TTAGTTTCCCACTTAAACCCTGATTAGTATAAGCTATTTTAATA
15339051 TTA
1 TTA
15339054 TTTGATCTAC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAACCCTGATTAGTATAAGCTATTTTAATA
Found at i:15342826 original size:26 final size:26
Alignment explanation
Indices: 15342797--15342850 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
15342787 TCATTTGGTA
* *
15342797 TTAAATAAAACGATGTGTTTTTATGT
1 TTAAATAAAACGATGCGTTTTAATGT
* * *
15342823 TTAAGTAAAATGGTGCGTTTTAATGT
1 TTAAATAAAACGATGCGTTTTAATGT
15342849 TT
1 TT
15342851 TTAAGTTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.04, G:0.19, T:0.46
Consensus pattern (26 bp):
TTAAATAAAACGATGCGTTTTAATGT
Found at i:15347216 original size:263 final size:263
Alignment explanation
Indices: 15346749--15347276 Score: 923
Period size: 263 Copynumber: 2.0 Consensus size: 263
15346739 ACCTGTTTTC
* *
15346749 ATGGCCATCCTATGTTCACCATCTAAAAGAGCGTTCTGGCTCTAGTACTATAATAGTCCAGTTTA
1 ATGGCCATCCTATGCTCACCATCTAAAAGAGCGTTCTGGCTCTAGTACTATAACAGTCCAGTTTA
* *
15346814 GACCCTAGTTGAAATAGTGGTTTCAGGACCACAAATCTGAGTCAAAAAATATTTTAATATTATTT
66 GACCCTAGTTGAAATAGTGGTTTCAAGACCACAAATCTAAGTCAAAAAATATTTTAATATTATTT
* *
15346879 TTCGTGCTTATGAAATGTGAATTAGCATGTTTGAAAGTTTCGTATGAAAATTTAATCGTTTGCGT
131 TCCATGCTTATGAAATGTGAATTAGCATGTTTGAAAGTTTCGTATGAAAATTTAATCGTTTGCGT
15346944 GCTCAATTTGATAAAAGGACCTAATAGCGTAAAATGTAAAAGTTGTCTGCTGCTTGTTAAAGTGC
196 GCTCAATTTGATAAAAGGACCTAATAGCGTAAAATGTAAAAGTTGTCTGCTGCTTGTTAAAGTGC
15347009 TTA
261 TTA
* *
15347012 ATGGCCATCCTATGCTCACCATCTGAAAGAGCGTTCTGGCTCTAGTACTATAACAGTCCGGTTTA
1 ATGGCCATCCTATGCTCACCATCTAAAAGAGCGTTCTGGCTCTAGTACTATAACAGTCCAGTTTA
*
15347077 GACCCTAGTTGAAATAGTGGTTTCAAGATCA-AAATTCTAAGTCAAAAAATATTTTAATATTATT
66 GACCCTAGTTGAAATAGTGGTTTCAAGACCACAAA-TCTAAGTCAAAAAATATTTTAATATTATT
* *
15347141 TTCCATGCTTATGATATGTGAATTAGCATGTTTGAAAGTTTCGTATGAAAATTTAATCGTTTGTG
130 TTCCATGCTTATGAAATGTGAATTAGCATGTTTGAAAGTTTCGTATGAAAATTTAATCGTTTGCG
* *
15347206 TGCTCAATTTGATAAAAGGACCTAATCGTGTAAAATGTAAAAGTTGTCTGCTGCTTGTTAAAGTG
195 TGCTCAATTTGATAAAAGGACCTAATAGCGTAAAATGTAAAAGTTGTCTGCTGCTTGTTAAAGTG
15347271 CTTA
260 CTTA
15347275 AT
1 AT
15347277 TGATTTGTCT
Statistics
Matches: 251, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
262 3 0.01
263 248 0.99
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.35
Consensus pattern (263 bp):
ATGGCCATCCTATGCTCACCATCTAAAAGAGCGTTCTGGCTCTAGTACTATAACAGTCCAGTTTA
GACCCTAGTTGAAATAGTGGTTTCAAGACCACAAATCTAAGTCAAAAAATATTTTAATATTATTT
TCCATGCTTATGAAATGTGAATTAGCATGTTTGAAAGTTTCGTATGAAAATTTAATCGTTTGCGT
GCTCAATTTGATAAAAGGACCTAATAGCGTAAAATGTAAAAGTTGTCTGCTGCTTGTTAAAGTGC
TTA
Found at i:15348448 original size:43 final size:43
Alignment explanation
Indices: 15348292--15348448 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
15348282 TGTGTTATAG
* ** *
15348292 TGTAAGACCACGTCTGGGACATTGGCATCGACT-TAAGATTTATA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTACA
* * *
15348336 TGTAAGACCACGTCTGGGACGTTAGCATCG-TACTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
* *
15348378 TGTAAGACTC-TGTCTGAGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGAC-CACGTCTGGGAC-GTTGGCATCGATATTTGATTACA
* *
15348421 TGTAAGACCACGCCTGGGACGTGGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
15348449 TGTACGAGCT
Statistics
Matches: 91, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
42 29 0.32
43 34 0.37
44 28 0.31
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:15357348 original size:18 final size:20
Alignment explanation
Indices: 15357310--15357352 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
15357300 GGGCTGATGG
15357310 CACGGGCGTGTCCTAAACCA
1 CACGGGCGTGTCCTAAACCA
*
15357330 CACGGGCGTGT-GT-AACCA
1 CACGGGCGTGTCCTAAACCA
15357348 CACGG
1 CACGG
15357353 CCCCACCCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
19 1 0.05
20 11 0.50
ACGTcount: A:0.23, C:0.33, G:0.30, T:0.14
Consensus pattern (20 bp):
CACGGGCGTGTCCTAAACCA
Found at i:15361399 original size:13 final size:13
Alignment explanation
Indices: 15361381--15361407 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15361371 GCTCGGCAGG
15361381 GACACGCCCGTGT
1 GACACGCCCGTGT
15361394 GACACGCCCGTGT
1 GACACGCCCGTGT
15361407 G
1 G
15361408 CGATTGCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:15366770 original size:46 final size:46
Alignment explanation
Indices: 15366720--15366892 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
15366710 TGGTTGAGCA
15366720 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * *
15366766 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* * *
15366811 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * *
15366859 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
15366893 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.56
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:15366876 original size:93 final size:93
Alignment explanation
Indices: 15366717--15366887 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
15366707 GGATGGTTGA
* * *
15366717 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
15366782 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
15366810 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
15366875 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
15366888 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:15367154 original size:19 final size:20
Alignment explanation
Indices: 15367117--15367154 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
15367107 ATAAGGTGGT
15367117 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
15367137 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
15367155 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:15376015 original size:40 final size:40
Alignment explanation
Indices: 15375959--15376143 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
15375949 CATTTGAATG
* *
15375959 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTATT
* * * *
15375999 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTATT
* *
15376039 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTT-ATT
* **
15376079 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTATT
* *
15376119 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
15376144 ATTGTGCTTG
Statistics
Matches: 133, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
40 132 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTATT
Found at i:15376162 original size:80 final size:80
Alignment explanation
Indices: 15375963--15376170 Score: 249
Period size: 80 Copynumber: 2.6 Consensus size: 80
15375953 TGAATGATAT
* * * * *
15375963 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTTATTTTATCCGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTA
* * * *
15376028 TGCTAGTGATTTTAT
66 TGCGAGTGACTATAC
* * *
15376043 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTA
15376108 TGCGAGTTG-CTATAC
66 TGCGAG-TGACTATAC
* * * *
15376123 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
15376171 ATTCCGAAGA
Statistics
Matches: 109, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
79 6 0.06
80 101 0.93
81 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTA
TGCGAGTGACTATAC
Found at i:15408145 original size:31 final size:31
Alignment explanation
Indices: 15408110--15408174 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
15408100 CCATTCTGTG
*
15408110 TATGAACATGAGCTGCATGATGTTCAACTTT
1 TATGAACATGAGCTACATGATGTTCAACTTT
15408141 TATGAACATGAGCTACATGATGTTCAACTTT
1 TATGAACATGAGCTACATGATGTTCAACTTT
15408172 TAT
1 TAT
15408175 CCTAATTGAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (31 bp):
TATGAACATGAGCTACATGATGTTCAACTTT
Found at i:15408795 original size:35 final size:35
Alignment explanation
Indices: 15408754--15408824 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
15408744 TCTTTCCACA
15408754 TTTTACATTTGTAATATATAGATATTCAATATTTT
1 TTTTACATTTGTAATATATAGATATTCAATATTTT
*
15408789 TTTTACATTTGTAATATATAGATATTTAATATTTT
1 TTTTACATTTGTAATATATAGATATTCAATATTTT
15408824 T
1 T
15408825 CTCATTCATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (35 bp):
TTTTACATTTGTAATATATAGATATTCAATATTTT
Found at i:15413452 original size:176 final size:176
Alignment explanation
Indices: 15413162--15413514 Score: 706
Period size: 176 Copynumber: 2.0 Consensus size: 176
15413152 ATGGCGTTAG
15413162 TATTCCAGGTTTTATGTCTTCAATGCTTTGGTTTTCCAAGGCTGATGATGCCTTCATCTCTCTCT
1 TATTCCAGGTTTTATGTCTTCAATGCTTTGGTTTTCCAAGGCTGATGATGCCTTCATCTCTCTCT
15413227 GTCGGTTTGTGCTGCCCCCACGGCACTATATTGAACCTTTTTTTCTCTCTCTAATATATTTGAAC
66 GTCGGTTTGTGCTGCCCCCACGGCACTATATTGAACCTTTTTTTCTCTCTCTAATATATTTGAAC
15413292 CAAACTGGATTTTATTCCAAAAATGTATTATAGATAAATAAACTAA
131 CAAACTGGATTTTATTCCAAAAATGTATTATAGATAAATAAACTAA
15413338 TATTCCAGGTTTTATGTCTTCAATGCTTTGGTTTTCCAAGGCTGATGATGCCTTCATCTCTCTCT
1 TATTCCAGGTTTTATGTCTTCAATGCTTTGGTTTTCCAAGGCTGATGATGCCTTCATCTCTCTCT
15413403 GTCGGTTTGTGCTGCCCCCACGGCACTATATTGAACCTTTTTTTCTCTCTCTAATATATTTGAAC
66 GTCGGTTTGTGCTGCCCCCACGGCACTATATTGAACCTTTTTTTCTCTCTCTAATATATTTGAAC
15413468 CAAACTGGATTTTATTCCAAAAATGTATTATAGATAAATAAACTAA
131 CAAACTGGATTTTATTCCAAAAATGTATTATAGATAAATAAACTAA
15413514 T
1 T
15413515 GGAAATGATT
Statistics
Matches: 177, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
176 177 1.00
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (176 bp):
TATTCCAGGTTTTATGTCTTCAATGCTTTGGTTTTCCAAGGCTGATGATGCCTTCATCTCTCTCT
GTCGGTTTGTGCTGCCCCCACGGCACTATATTGAACCTTTTTTTCTCTCTCTAATATATTTGAAC
CAAACTGGATTTTATTCCAAAAATGTATTATAGATAAATAAACTAA
Found at i:15414422 original size:12 final size:12
Alignment explanation
Indices: 15414405--15414435 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
15414395 TTCAAGAAGA
15414405 TTTTCTCTTTAT
1 TTTTCTCTTTAT
15414417 TTTTCTCTTTAT
1 TTTTCTCTTTAT
15414429 TTTTCTC
1 TTTTCTC
15414436 AAGAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTCTCTTTAT
Found at i:15416970 original size:22 final size:22
Alignment explanation
Indices: 15416932--15416997 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
15416922 TCAACTGTTG
15416932 TTTGTTGTTG-TTTGTTGCCAT
1 TTTGTTGTTGTTTTGTTGCCAT
15416953 TTTGTTGTTGTTTTGTTGCCAT
1 TTTGTTGTTGTTTTGTTGCCAT
* * *
15416975 TGTGCTGTTGTTTTGTTGTCAT
1 TTTGTTGTTGTTTTGTTGCCAT
15416997 T
1 T
15416998 GTTTGGATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 10 0.24
22 31 0.76
ACGTcount: A:0.05, C:0.09, G:0.24, T:0.62
Consensus pattern (22 bp):
TTTGTTGTTGTTTTGTTGCCAT
Found at i:15419756 original size:12 final size:12
Alignment explanation
Indices: 15419739--15419763 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15419729 TTACTGCATC
15419739 AATAAAATAATA
1 AATAAAATAATA
15419751 AATAAAATAATA
1 AATAAAATAATA
15419763 A
1 A
15419764 TGTTTCGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AATAAAATAATA
Found at i:15419970 original size:26 final size:28
Alignment explanation
Indices: 15419915--15419973 Score: 104
Period size: 26 Copynumber: 2.2 Consensus size: 28
15419905 GGTTTAACTA
15419915 AAATAATATTGAATTAGAGAAATATATT
1 AAATAATATTGAATTAGAGAAATATATT
15419943 AAATAA-ATTGAATTAGA-AAATATATT
1 AAATAATATTGAATTAGAGAAATATATT
15419969 AAATA
1 AAATA
15419974 TGAATGAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 14 0.45
27 11 0.35
28 6 0.19
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (28 bp):
AAATAATATTGAATTAGAGAAATATATT
Found at i:15419996 original size:17 final size:17
Alignment explanation
Indices: 15419970--15420012 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
15419960 AAATATATTA
*
15419970 AATATGAATGAATGTAC
1 AATATTAATGAATGTAC
15419987 AATATTAATGAATGTAC
1 AATATTAATGAATGTAC
15420004 AATATTAAT
1 AATATTAAT
15420013 TTATCTCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.35
Consensus pattern (17 bp):
AATATTAATGAATGTAC
Found at i:15444112 original size:42 final size:43
Alignment explanation
Indices: 15444024--15444114 Score: 105
Period size: 42 Copynumber: 2.1 Consensus size: 43
15444014 GCCAAACGTA
* * * * *
15444024 GTCTTACATGCAATCAAACATCGATGCCACTGTCCTAGATAGG
1 GTCTTACACGAAATCAAACATCGATGCCACTGTCCCAGACAAG
*
15444067 GTCTTACACGAAATCAAATA-CGATGCCGA-TGTCCCAGACAAG
1 GTCTTACACGAAATCAAACATCGATGCC-ACTGTCCCAGACAAG
15444109 GTCTTA
1 GTCTTA
15444115 ACGTAAAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 23 0.56
43 18 0.44
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (43 bp):
GTCTTACACGAAATCAAACATCGATGCCACTGTCCCAGACAAG
Found at i:15452658 original size:20 final size:20
Alignment explanation
Indices: 15452635--15452680 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
15452625 CGGACAAGGG
15452635 ACACGGGCGTGTCCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
* *
15452655 ACACGAGTGTGTCCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
15452675 ACACGG
1 ACACGG
15452681 CCTAATCACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.24, C:0.37, G:0.28, T:0.11
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAGCC
Found at i:15455386 original size:30 final size:29
Alignment explanation
Indices: 15455350--15455410 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
15455340 AAACGGAAGT
15455350 TTTGGCACTAAGTGTGCGATCTAAACTAGC
1 TTTGGCACTAAGTGTGCGAT-TAAACTAGC
*
15455380 TTTGGCACTAAGTGTGCGATTTAACTAGC
1 TTTGGCACTAAGTGTGCGATTAAACTAGC
15455409 TT
1 TT
15455411 CGGCTACTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTAAACTAGC
Found at i:15456803 original size:49 final size:49
Alignment explanation
Indices: 15456727--15456832 Score: 149
Period size: 49 Copynumber: 2.2 Consensus size: 49
15456717 TAACGCCGTG
*
15456727 AGCTTTAGTGGCACTAGCGACACTTTTTGAAAAACACCACTATAGATCA
1 AGCTTTAGTAGCACTAGCGACACTTTTTGAAAAACACCACTATAGATCA
* ** * * *
15456776 AGCTTTAGTAGCATTAGCGACGTTTTTTGAAAAACGCCGCTATAGATCG
1 AGCTTTAGTAGCACTAGCGACACTTTTTGAAAAACACCACTATAGATCA
15456825 AGCTTTAG
1 AGCTTTAG
15456833 CGGCGCTTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (49 bp):
AGCTTTAGTAGCACTAGCGACACTTTTTGAAAAACACCACTATAGATCA
Found at i:15457181 original size:14 final size:14
Alignment explanation
Indices: 15457164--15457269 Score: 72
Period size: 14 Copynumber: 7.5 Consensus size: 14
15457154 TCATTATAGG
15457164 TTAGGGTTTATGGT
1 TTAGGGTTTATGGT
* *
15457178 TTAGAGTATATGGT
1 TTAGGGTTTATGGT
*
15457192 TTAGGGTTTAAGGT
1 TTAGGGTTTATGGT
*
15457206 TTAGAGTTACTAT--T
1 TTAGGGTT--TATGGT
* *
15457220 TTAAGGTTTATGGA
1 TTAGGGTTTATGGT
* * *
15457234 TTATGGTTTAAGGG
1 TTAGGGTTTATGGT
* *
15457248 TTGGGGTTTAAGGT
1 TTAGGGTTTATGGT
15457262 TTAAGGGT
1 TT-AGGGT
15457270 CAGGGGTCAA
Statistics
Matches: 70, Mismatches: 17, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
12 3 0.04
14 61 0.87
15 4 0.06
16 2 0.03
ACGTcount: A:0.23, C:0.01, G:0.32, T:0.44
Consensus pattern (14 bp):
TTAGGGTTTATGGT
Found at i:15457222 original size:28 final size:27
Alignment explanation
Indices: 15457164--15457229 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
15457154 TCATTATAGG
*
15457164 TTAGGGTTTATGGTTTAGAGTATATGGT
1 TTAGGGTTTAAGGTTTAGAGTATAT-GT
15457192 TTAGGGTTTAAGGTTTAGAGTTACTAT-T
1 TTAGGGTTTAAGGTTTAGAG-TA-TATGT
*
15457220 TTAAGGTTTA
1 TTAGGGTTTA
15457230 TGGATTATGG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 29 0.85
29 2 0.06
30 3 0.09
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.47
Consensus pattern (27 bp):
TTAGGGTTTAAGGTTTAGAGTATATGT
Found at i:15457243 original size:21 final size:21
Alignment explanation
Indices: 15457171--15457246 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 21
15457161 AGGTTAGGGT
* *
15457171 TTATGGTTT-AGAGTATATGGT
1 TTATGGTTTAAG-GTTTATGGA
*
15457192 TTAGGGTTTAAGGTTTA--GA
1 TTATGGTTTAAGGTTTATGGA
**
15457211 GTTACTATTTTAAGGTTTATGGA
1 -TTA-TGGTTTAAGGTTTATGGA
15457234 TTATGGTTTAAGG
1 TTATGGTTTAAGG
15457247 GTTGGGGTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 31 0.74
22 5 0.12
23 2 0.05
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (21 bp):
TTATGGTTTAAGGTTTATGGA
Found at i:15457281 original size:21 final size:22
Alignment explanation
Indices: 15457238--15457298 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 22
15457228 TATGGATTAT
* *
15457238 GGTTTAAGGGT-TGGGGTTTAA
1 GGTTTAAGGGTCAGGGGTTCAA
15457259 GGTTTAAGGGTCAGGGG-TCAA
1 GGTTTAAGGGTCAGGGGTTCAA
* *
15457280 GGGTTAAGGGTCAGTGGTT
1 GGTTTAAGGGTCAGGGGTT
15457299 AGGGGTTTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 29 0.85
22 5 0.15
ACGTcount: A:0.20, C:0.05, G:0.44, T:0.31
Consensus pattern (22 bp):
GGTTTAAGGGTCAGGGGTTCAA
Found at i:15457304 original size:21 final size:21
Alignment explanation
Indices: 15457257--15457311 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
15457247 GTTGGGGTTT
*
15457257 AAGGTTTAAGGGTCAGGGGTC
1 AAGGGTTAAGGGTCAGGGGTC
* *
15457278 AAGGGTTAAGGGTCAGTGGTT
1 AAGGGTTAAGGGTCAGGGGTC
* *
15457299 AGGGGTTTAGGGT
1 AAGGGTTAAGGGT
15457312 TTAGATTAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.22, C:0.05, G:0.45, T:0.27
Consensus pattern (21 bp):
AAGGGTTAAGGGTCAGGGGTC
Found at i:15458279 original size:114 final size:115
Alignment explanation
Indices: 15458117--15458334 Score: 264
Period size: 114 Copynumber: 1.9 Consensus size: 115
15458107 GGTGTCGTTC
* * * *
15458117 TATTGGATTTCTTAATGGCATTTTTGGTGAAACACCGCAATATGTCGGG-TTCTAGCGGTGCTA-
1 TATTGGATTTCTTAATGGAATTTTTGGTAAAACACCGCAATAGGTCGGGCTT-TAGCGGCGCTAG
*
15458180 GTCAAAAAACGTAGCAAAAAT-TTATTATGTTTTAATCAAAACGACACTGTTT
65 GT-AAAAAACGCAGC-AAAATGTTATTATGTTTTAATCAAAACGACACTGTTT
* * * *
15458232 TATTTGATTT-TTAGTGGAATTTTTGTTAAAACGCCGCAATAGGTCGGGCTTTAGCGGCGCTAGG
1 TATTGGATTTCTTAATGGAATTTTTGGTAAAACACCGCAATAGGTCGGGCTTTAGCGGCGCTAGG
* * * *
15458296 TGAAAAATGCCGCAAAATGTTATTTTGTTTTAATCAAAA
66 TAAAAAACGCAGCAAAATGTTATTATGTTTTAATCAAAA
15458335 TGGCGCCTTT
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
113 5 0.06
114 69 0.79
115 13 0.15
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (115 bp):
TATTGGATTTCTTAATGGAATTTTTGGTAAAACACCGCAATAGGTCGGGCTTTAGCGGCGCTAGG
TAAAAAACGCAGCAAAATGTTATTATGTTTTAATCAAAACGACACTGTTT
Found at i:15462690 original size:50 final size:51
Alignment explanation
Indices: 15462613--15462741 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
15462603 GACCATGGCA
15462613 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
15462664 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
15462714 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
15462742 CTAATCAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:15462755 original size:31 final size:31
Alignment explanation
Indices: 15462717--15462896 Score: 247
Period size: 31 Copynumber: 5.8 Consensus size: 31
15462707 ACAAATGACA
* *
15462717 AGTGAAAAGTGGTAGCTTCAGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
15462748 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
15462779 AATGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
*
15462810 AGAGAAAAGTGGTAGC-TCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* * *
15462841 AGTGAAAAATGGTAGCTCCGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
15462872 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
15462897 AAGTGACAAG
Statistics
Matches: 132, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
30 3 0.02
31 128 0.97
32 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:15463032 original size:46 final size:42
Alignment explanation
Indices: 15462965--15463120 Score: 152
Period size: 42 Copynumber: 3.6 Consensus size: 42
15462955 TGCTACTGTA
* * * *
15462965 TAAGACCATATCTAGGATATGGCATCAATGAGGTATGTAAT-TCGTG
1 TAAGACCATAGCTGGGCTATGGCATCAAT-A--TATG-AATAT-GTC
*
15463011 TAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGTC
1 TAAGACCATAGCTGGGCTATGGCATCAATATATGAATATGTC
* * * *
15463053 TAAGACCATAGCTGGGCTATGGCATCATTATGTGAAGATGTG
1 TAAGACCATAGCTGGGCTATGGCATCAATATATGAATATGTC
* **
15463095 TAAGACCATAGTTGAACTATGGCATC
1 TAAGACCATAGCTGGGCTATGGCATC
15463121 GAGAAAACGA
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
42 65 0.68
43 5 0.05
45 1 0.01
46 25 0.26
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.29
Consensus pattern (42 bp):
TAAGACCATAGCTGGGCTATGGCATCAATATATGAATATGTC
Found at i:15463066 original size:42 final size:43
Alignment explanation
Indices: 15463011--15463122 Score: 156
Period size: 42 Copynumber: 2.7 Consensus size: 43
15463001 GTAATTCGTG
*
15463011 TAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATGTC
1 TAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATGTC
* *
15463053 TAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATGTC
* **
15463095 TAAGACCATAGTTGAACTATGGCATCGA
1 TAAGACCATAGCTGGGCTATGGCATCGA
15463123 GAAAACGAAG
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
41 1 0.02
42 60 0.97
43 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (43 bp):
TAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATGTC
Found at i:15466210 original size:12 final size:12
Alignment explanation
Indices: 15466141--15466210 Score: 52
Period size: 12 Copynumber: 5.6 Consensus size: 12
15466131 TGATATCTCT
*
15466141 ATATTTAATTTA
1 ATATTTATTTTA
*
15466153 ATATTTATTATTT
1 ATATTTATT-TTA
*
15466166 AT-TTTATTTTTG
1 ATATTTA-TTTTA
*
15466178 ATATCTATATTTTT
1 ATAT-T-TATTTTA
*
15466192 ATTTTTATTTTA
1 ATATTTATTTTA
15466204 ATATTTA
1 ATATTTA
15466211 AGATAACTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
12 28 0.61
13 8 0.17
14 8 0.17
15 2 0.04
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (12 bp):
ATATTTATTTTA
Found at i:15466521 original size:43 final size:42
Alignment explanation
Indices: 15466410--15466681 Score: 278
Period size: 43 Copynumber: 6.4 Consensus size: 42
15466400 TTTAAACGTC
15466410 ATGTTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGG-T
1 ATGTTCTTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTT
* * * *
15466452 CTGTT-TTATAGCAGCGTTTGTGGGAAATGCGCCACTAAAGGTT
1 ATGTTCTT-TAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTT
15466495 ATGTTCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTT
1 ATGTTCTTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTT
* ** * *
15466538 ATGCTCTTTAGCGATGTTTGTGGGAAAAGCGTCGCTAAAGGTA
1 ATGTTCTTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTT
* * * * * ** *
15466581 ACGTTCTATAGCTGTGTTTGTAGAAAAAGCGCTACTAAAGGTC
1 ATGTTCTTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTT
* * *
15466624 ATGTTCTATAGAGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTC
1 ATGTTCTTTAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGGTT
*
15466667 ATGTTCTATAGCGGC
1 ATGTTCTTTAGCGGC
15466682 CTATTTTTAC
Statistics
Matches: 191, Mismatches: 34, Indels: 9
0.82 0.15 0.04
Matches are distributed among these distances:
41 2 0.01
42 33 0.17
43 154 0.81
44 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (42 bp):
ATGTTCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTT
Found at i:15466643 original size:129 final size:128
Alignment explanation
Indices: 15466402--15466679 Score: 344
Period size: 129 Copynumber: 2.2 Consensus size: 128
15466392 TAAAATTTTT
* * * *
15466402 TAAACGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTGTTTTATAGCAGC
1 TAAAGGTCATGCTCTTTAGCGACGTTTGTGAGAAAAGCGCCGCTAAAGGTCTGTTCTATAGCAGC
* * * * * *
15466467 GTTTGTGGGAAATGCGCCACTAAAGGTTATGTTCTTTAGCGGCGTTTGTAGG-AAAAGCGCCGC
66 GTTTGTAGAAAAAGCGCCACTAAAGGTCATGTTCTATAGAGGCGTTTGT-GGAAAAAGCGCCGC
* * * * *
15466530 TAAAGGTTATGCTCTTTAGCGATGTTTGTGGGAAAAGCGTCGCTAAAGGTAAC-GTTCTATAGCT
1 TAAAGGTCATGCTCTTTAGCGACGTTTGTGAGAAAAGCGCCGCTAAAGGT--CTGTTCTATAGCA
* *
15466594 GTGTTTGTAGAAAAAGCGCTACTAAAGGTCATGTTCTATAGAGGCGTTTGTGGAAAAAGCGCCGC
64 GCGTTTGTAGAAAAAGCGCCACTAAAGGTCATGTTCTATAGAGGCGTTTGTGGAAAAAGCGCCGC
* *
15466659 TAAAGGTCATGTTCTATAGCG
1 TAAAGGTCATGCTCTTTAGCG
15466680 GCCTATTTTT
Statistics
Matches: 127, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
128 45 0.35
129 81 0.64
130 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (128 bp):
TAAAGGTCATGCTCTTTAGCGACGTTTGTGAGAAAAGCGCCGCTAAAGGTCTGTTCTATAGCAGC
GTTTGTAGAAAAAGCGCCACTAAAGGTCATGTTCTATAGAGGCGTTTGTGGAAAAAGCGCCGC
Found at i:15471480 original size:21 final size:21
Alignment explanation
Indices: 15471451--15471493 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
15471441 AATAAGAAAG
*
15471451 AATAAAAGGGAGCAATATCCA
1 AATAAAAGGGAGCAATAGCCA
*
15471472 AATAGAAGGGAGCAATAGCCA
1 AATAAAAGGGAGCAATAGCCA
15471493 A
1 A
15471494 GAGCTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.14, G:0.23, T:0.12
Consensus pattern (21 bp):
AATAAAAGGGAGCAATAGCCA
Found at i:15471726 original size:16 final size:16
Alignment explanation
Indices: 15471705--15471735 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
15471695 AAAGGACTAA
15471705 ATAGTGAGGTTAAGTC
1 ATAGTGAGGTTAAGTC
15471721 ATAGTGAGGTTAAGT
1 ATAGTGAGGTTAAGT
15471736 ATTCATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.32
Consensus pattern (16 bp):
ATAGTGAGGTTAAGTC
Found at i:15475570 original size:12 final size:12
Alignment explanation
Indices: 15475553--15475577 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15475543 ACTTAAAGTA
15475553 AACTCATAATAT
1 AACTCATAATAT
15475565 AACTCATAATAT
1 AACTCATAATAT
15475577 A
1 A
15475578 CCTAATTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
AACTCATAATAT
Found at i:15478421 original size:7 final size:7
Alignment explanation
Indices: 15478397--15478435 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
15478387 AGGTAAGTTC
15478397 AAATGGTT
1 AAAT-GTT
15478405 AAAT-TT
1 AAATGTT
15478411 AAATGTT
1 AAATGTT
15478418 AAATGTT
1 AAATGTT
15478425 AAATGTT
1 AAATGTT
15478432 AAAT
1 AAAT
15478436 TGATGAATGG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.20
7 20 0.67
8 4 0.13
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (7 bp):
AAATGTT
Found at i:15478682 original size:21 final size:21
Alignment explanation
Indices: 15478657--15478805 Score: 138
Period size: 21 Copynumber: 7.1 Consensus size: 21
15478647 TGAGCTTCAG
*
15478657 TTAACTCATATGAGTTTTTGT
1 TTAACTCTTATGAGTTTTTGT
*
15478678 TTAACCCTTATGAGTTTTTGT
1 TTAACTCTTATGAGTTTTTGT
* * * **
15478699 TTAGCTCTCATGAGCTTCAG-
1 TTAACTCTTATGAGTTTTTGT
*
15478719 TTAACTCATATGAGTTTTTGT
1 TTAACTCTTATGAGTTTTTGT
*
15478740 TTAACCCTTATGAGTTTTTGT
1 TTAACTCTTATGAGTTTTTGT
* * * *
15478761 TTAGCTCTTATGTGCTTCTGT
1 TTAACTCTTATGAGTTTTTGT
* * * *
15478782 TCAACCCTTATGGGTTTCTGT
1 TTAACTCTTATGAGTTTTTGT
15478803 TTA
1 TTA
15478806 GAACTCATGT
Statistics
Matches: 100, Mismatches: 27, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
20 14 0.14
21 86 0.86
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (21 bp):
TTAACTCTTATGAGTTTTTGT
Found at i:15478708 original size:62 final size:62
Alignment explanation
Indices: 15478630--15478805 Score: 271
Period size: 62 Copynumber: 2.8 Consensus size: 62
15478620 TCATGTTTAC
*
15478630 TTTTTGCTTAGCTCTCATGAGCTTCAGTTAACTCATATGAGTTTTTGTTTAACCCTTATGAG
1 TTTTTGTTTAGCTCTCATGAGCTTCAGTTAACTCATATGAGTTTTTGTTTAACCCTTATGAG
15478692 TTTTTGTTTAGCTCTCATGAGCTTCAGTTAACTCATATGAGTTTTTGTTTAACCCTTATGAG
1 TTTTTGTTTAGCTCTCATGAGCTTCAGTTAACTCATATGAGTTTTTGTTTAACCCTTATGAG
* * * * * * *
15478754 TTTTTGTTTAGCTCTTATGTGCTTCTGTTCAACCCTTATGGGTTTCTGTTTA
1 TTTTTGTTTAGCTCTCATGAGCTTCAGTT-AACTCATATGAGTTTTTGTTTA
15478806 GAACTCATGT
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
62 87 0.83
63 18 0.17
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.48
Consensus pattern (62 bp):
TTTTTGTTTAGCTCTCATGAGCTTCAGTTAACTCATATGAGTTTTTGTTTAACCCTTATGAG
Found at i:15478816 original size:42 final size:42
Alignment explanation
Indices: 15478737--15478818 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
15478727 TATGAGTTTT
* * ** *
15478737 TGTTTAACCCTTATGAGTTTTTGTTTAGCTCTTATGTGCTTC
1 TGTTCAACCCTTATGAGTTTCTGTTTAGAACTCATGTGCTTC
*
15478779 TGTTCAACCCTTATGGGTTTCTGTTTAGAACTCATGTGCT
1 TGTTCAACCCTTATGAGTTTCTGTTTAGAACTCATGTGCT
15478819 CCTATACAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.48
Consensus pattern (42 bp):
TGTTCAACCCTTATGAGTTTCTGTTTAGAACTCATGTGCTTC
Found at i:15478829 original size:42 final size:42
Alignment explanation
Indices: 15478742--15478829 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
15478732 GTTTTTGTTT
* ** * * * *
15478742 AACCCTTATGAGTTTTTGTTTAGCTCTTATGTGCTTCTGTTC
1 AACCCTTATGAGTTTCTGTTTAGAACTCATGTGCTCCTATAC
*
15478784 AACCCTTATGGGTTTCTGTTTAGAACTCATGTGCTCCTATAC
1 AACCCTTATGAGTTTCTGTTTAGAACTCATGTGCTCCTATAC
15478826 AACC
1 AACC
15478830 TTCAAGCTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (42 bp):
AACCCTTATGAGTTTCTGTTTAGAACTCATGTGCTCCTATAC
Found at i:15489979 original size:42 final size:42
Alignment explanation
Indices: 15489858--15489979 Score: 129
Period size: 43 Copynumber: 2.9 Consensus size: 42
15489848 TACCGTACCA
* * *
15489858 ATGCCATATCCCAGATACGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATTCCAGATATGGTCTTACATGTAATCTCATATCG
* * **
15489900 ATGCCAATAGTCCAGCTATGGTCTTACA-CAAAGTCTCATATCG
1 ATGCC-ATATTCCAGATATGGTCTTACATGTAA-TCTCATATCG
* * *
15489943 ATGTCATATTCCAGATATGGTTTTACATGTTATCTCA
1 ATGCCATATTCCAGATATGGTCTTACATGTAATCTCA
15489980 GTAACCCTAA
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
42 31 0.49
43 32 0.51
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.34
Consensus pattern (42 bp):
ATGCCATATTCCAGATATGGTCTTACATGTAATCTCATATCG
Found at i:15490236 original size:135 final size:135
Alignment explanation
Indices: 15489994--15490265 Score: 422
Period size: 135 Copynumber: 2.0 Consensus size: 135
15489984 CCCTAATGTC
* * * *
15489994 ATGACATTTGTATCCTATCTATTCTTACGGTTCAACCAAGACTTTCCTTGTATCAAAACTCTATC
1 ATGACATCTGTAACCTATCTATTCCTAAGGTTCAACCAAGACTTTCCTTGTATCAAAACTCTATC
*
15490059 GATCATTTACGTAGTATCATACTCAATAGCATTCACATTTCATTTCAATAATATAGCATTTACCA
66 GATCATTTACGTAGTATCATAATCAATAGCATTCACATTTCATTTCAATAATATAGCATTTACCA
15490124 CAATT
131 CAATT
* **
15490129 ATGACATCTGTAACCTATCTATTCCTAAGGTTCAA-TAAGGACTTTCGC-TGTATTGAAACTCTA
1 ATGACATCTGTAACCTATCTATTCCTAAGGTTCAACCAA-GACTTTC-CTTGTATCAAAACTCTA
* *
15490192 TCGGTCATTTTCGTAGTATCATAATCAATAGCATTCACATTTCATTTCAATAATATAGCATTTAC
64 TCGATCATTTACGTAGTATCATAATCAATAGCATTCACATTTCATTTCAATAATATAGCATTTAC
15490257 CACAATT
129 CACAATT
15490264 AT
1 AT
15490266 ATCAATTAAG
Statistics
Matches: 125, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
134 2 0.02
135 122 0.98
136 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.38
Consensus pattern (135 bp):
ATGACATCTGTAACCTATCTATTCCTAAGGTTCAACCAAGACTTTCCTTGTATCAAAACTCTATC
GATCATTTACGTAGTATCATAATCAATAGCATTCACATTTCATTTCAATAATATAGCATTTACCA
CAATT
Found at i:15492195 original size:67 final size:67
Alignment explanation
Indices: 15492044--15492689 Score: 649
Period size: 67 Copynumber: 9.7 Consensus size: 67
15492034 AAAAAGTCCA
* * * * ** * *
15492044 TATGCTGCCATAATCGAGCTAT-GTCTTACACGTCATAAACCATG-TTAATGTCCTGACAGACTC
1 TATGTTGCCATAGTCGAGCTATGGTCTTACACATTATACCCCATGTTTAATGTCCTGGCGGACTC
15492107 TC
66 TC
** * * * * *
15492109 TACCTTTCTATA-ACTGAGCTATGGTCTTACACATTATATCCCATGTTTAATGTCTTGGCGGACT
1 TATGTTGCCATAGTC-GAGCTATGGTCTTACACATTATACCCCATGTTTAATGTCCTGGCGGACT
*
15492173 CTT
65 CTC
* * * ** ***
15492176 TATTTTGCCATAGTCGAGCTATGGCCTTACACATTAAACCTTATGTTTAATGTCCTAATGGACTC
1 TATGTTGCCATAGTCGAGCTATGGTCTTACACATTATACCCCATGTTTAATGTCCTGGCGGACTC
15492241 TC
66 TC
* * * **
15492243 TATATTGCCATAGTCGAGCTATTG-CTTTACACATTATACCCCATGTTTAATGTCTTGGCAAACT
1 TATGTTGCCATAGTCGAGCTATGGTC-TTACACATTATACCCCATGTTTAATGTCCTGGCGGACT
15492307 CTC
65 CTC
* * * * * * * * *
15492310 TATGTTTCCATAGTCAAGTTATGGTGTCACACATTATGCCCCATGTTTAATATCCTGACAGACTC
1 TATGTTGCCATAGTCGAGCTATGGTCTTACACATTATACCCCATGTTTAATGTCCTGGCGGACTC
15492375 TC
66 TC
* * * * * * *
15492377 TATATTGCAATTA-TTGAACTATGGTTTTACACATTATACCCCATGTTTAATGTCCTAGTGGACT
1 TATGTTGCCA-TAGTCGAGCTATGGTCTTACACATTATACCCCATGTTTAATGTCCTGGCGGACT
* *
15492441 TTT
65 CTC
* * *
15492444 TATGTTGCCATAGTCCAGCTATGGTCTTACACATTATACCCCATGTTTAATGTCCTGGCAGACTT
1 TATGTTGCCATAGTCGAGCTATGGTCTTACACATTATACCCCATGTTTAATGTCCTGGCGGACTC
15492509 TC
66 TC
* * * *
15492511 TATTTTTTCCATAGTCGAGCTATGTTCTTACACATTATACCCCATGTTTAATGT-CTCGACGGAC
1 TA-TGTTGCCATAGTCGAGCTATGGTCTTACACATTATACCCCATGTTTAATGTCCT-GGCGGAC
15492575 TCTC
64 TCTC
* *
15492579 TATGTTGCCATAGTCAAGCTATGGTCTTACACATTATACCCCATGTTTAATG-CCTTGGTGGACT
1 TATGTTGCCATAGTCGAGCTATGGTCTTACACATTATACCCCATGTTTAATGTCC-TGGCGGACT
15492643 CTC
65 CTC
* * **
15492646 TATGTTGCCATAGTCAAACTATAATCTTACACATTATACCCCAT
1 TATGTTGCCATAGTCGAGCTATGGTCTTACACATTATACCCCAT
15492690 TACAGCCCAT
Statistics
Matches: 474, Mismatches: 95, Indels: 22
0.80 0.16 0.04
Matches are distributed among these distances:
64 1 0.00
65 14 0.03
66 21 0.04
67 377 0.80
68 61 0.13
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.37
Consensus pattern (67 bp):
TATGTTGCCATAGTCGAGCTATGGTCTTACACATTATACCCCATGTTTAATGTCCTGGCGGACTC
TC
Found at i:15498007 original size:54 final size:54
Alignment explanation
Indices: 15497924--15498114 Score: 269
Period size: 54 Copynumber: 3.6 Consensus size: 54
15497914 CCTACAGCTG
* * *
15497924 GATTACTAGTCCAAGCTAAATCCCCCGTAATATAAACTCATAGAATGTCATCGG
1 GATTACCAGTCCAAGTTAAATCCCCCGTAATATAAACTCATAGAATGTCATCGA
* *
15497978 GATTACCAGTCCAAGTTAAATCCCTCGTAATATAAACTCATAGAATGT-AGTCAA
1 GATTACCAGTCCAAGTTAAATCCCCCGTAATATAAACTCATAGAATGTCA-TCGA
* * *
15498032 AATTACCAATCCAGGTTAAATCCCCCGTAATATAAACTCATAGAATGTCATCGA
1 GATTACCAGTCCAAGTTAAATCCCCCGTAATATAAACTCATAGAATGTCATCGA
* *
15498086 GA-TACCAGTCCAGGTTAAATCCCCTGTAA
1 GATTACCAGTCCAAGTTAAATCCCCCGTAA
15498115 CGACATATGG
Statistics
Matches: 122, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
53 26 0.21
54 95 0.78
55 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.26
Consensus pattern (54 bp):
GATTACCAGTCCAAGTTAAATCCCCCGTAATATAAACTCATAGAATGTCATCGA
Found at i:15500463 original size:22 final size:22
Alignment explanation
Indices: 15500437--15500510 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 22
15500427 TTAATTGTTT
15500437 AATTAAGGTTTAAGGGTTATTA
1 AATTAAGGTTTAAGGGTTATTA
* *
15500459 AATTAGGGTTTAA-TGTT-TT-
1 AATTAAGGTTTAAGGGTTATTA
* *
15500478 AATTACA-GTTTATGGTTTATTA
1 AATTA-AGGTTTAAGGGTTATTA
*
15500500 AATTAGGGTTT
1 AATTAAGGTTT
15500511 TAGTGTTTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
19 10 0.25
20 4 0.10
21 5 0.12
22 21 0.52
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.47
Consensus pattern (22 bp):
AATTAAGGTTTAAGGGTTATTA
Found at i:15500479 original size:41 final size:42
Alignment explanation
Indices: 15500419--15500524 Score: 146
Period size: 41 Copynumber: 2.5 Consensus size: 42
15500409 TTCCCCTTTT
15500419 TTAGGGTTTTAAT-TGTTTAATTA-AGGTTTAAGGGTTATTAAA
1 TTAGGGTTTTAATGT-TTTAATTACA-GTTTAAGGGTTATTAAA
* *
15500461 TTAGGG-TTTAATGTTTTAATTACAGTTTATGGTTTATTAAA
1 TTAGGGTTTTAATGTTTTAATTACAGTTTAAGGGTTATTAAA
*
15500502 TTAGGGTTTTAGTGTTTTAATTA
1 TTAGGGTTTTAATGTTTTAATTA
15500525 GGATTTTAGT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
41 35 0.60
42 23 0.40
ACGTcount: A:0.28, C:0.01, G:0.20, T:0.51
Consensus pattern (42 bp):
TTAGGGTTTTAATGTTTTAATTACAGTTTAAGGGTTATTAAA
Found at i:15504951 original size:41 final size:41
Alignment explanation
Indices: 15504894--15504977 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
15504884 TCTGGAATGA
15504894 TAATAGGTTCACGAGTAGGTAAAAAATCATACATATTGTTC
1 TAATAGGTTCACGAGTAGGTAAAAAATCATACATATTGTTC
15504935 TAATAGGTTCACGAGTAGGTAAAAAATCATACATATTGTTC
1 TAATAGGTTCACGAGTAGGTAAAAAATCATACATATTGTTC
15504976 TA
1 TA
15504978 CATGTTGATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (41 bp):
TAATAGGTTCACGAGTAGGTAAAAAATCATACATATTGTTC
Found at i:15506380 original size:18 final size:18
Alignment explanation
Indices: 15506328--15506488 Score: 65
Period size: 18 Copynumber: 8.5 Consensus size: 18
15506318 TCATTAACAA
* *
15506328 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAATTAT
* * * *
15506345 TCAGTAATAGTTAGTTAT
1 TCAGTAACAATCAATTAT
*
15506363 TCGGTAACAATCAATTAT
1 TCAGTAACAATCAATTAT
* * *
15506381 TCAATAATAATCAATTGT
1 TCAGTAACAATCAATTAT
*
15506399 TCAGTATCAATCAACTGATCGGTTAT
1 TCAGTAACAATC-A---A----TTAT
* *
15506425 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATTAT
*
15506443 TCAGTAAAAATCAGA-TAT
1 TCAGTAACAATCA-ATTAT
* * *
15506461 ACAATAACAATTAAATTAT
1 TCAGTAACAA-TCAATTAT
15506480 TCAGTAACA
1 TCAGTAACA
15506489 GTCGATCTTT
Statistics
Matches: 104, Mismatches: 28, Indels: 22
0.68 0.18 0.14
Matches are distributed among these distances:
17 4 0.04
18 71 0.68
19 14 0.13
22 2 0.02
25 1 0.01
26 12 0.12
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (18 bp):
TCAGTAACAATCAATTAT
Found at i:15506696 original size:53 final size:53
Alignment explanation
Indices: 15506613--15506729 Score: 173
Period size: 53 Copynumber: 2.2 Consensus size: 53
15506603 GAATAGTAAC
* * *
15506613 AGTAACAGTAGCAGTA-GGTACACAGAGTACCTCATCAGAATAAATCCGAAAT
1 AGTAACAGTAACATTACGGTACACAGAGTACCTCATCAGAACAAATCCGAAAT
* * *
15506665 AGTAATAGTAACATTACGGTACACAGAGTACCTCATCGGAACAAATTCGAAAT
1 AGTAACAGTAACATTACGGTACACAGAGTACCTCATCAGAACAAATCCGAAAT
15506718 AGTAACAGTAAC
1 AGTAACAGTAAC
15506730 GGTAACAGTA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
52 13 0.23
53 44 0.77
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.21
Consensus pattern (53 bp):
AGTAACAGTAACATTACGGTACACAGAGTACCTCATCAGAACAAATCCGAAAT
Found at i:15508454 original size:2 final size:2
Alignment explanation
Indices: 15508447--15508487 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
15508437 CCTTTTACTT
*
15508447 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15508488 ATAACTTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:15510020 original size:75 final size:76
Alignment explanation
Indices: 15509937--15510076 Score: 264
Period size: 75 Copynumber: 1.9 Consensus size: 76
15509927 AGAGAATTGT
*
15509937 GAGAAATGTGAGTGAGAAGAAGGTGTTGGGGGTTTATATTTTTTA-TTTTTTTATCGTTGGGGGG
1 GAGAAATGTGAGTGAGAAGAAGGTGTTGAGGGTTTATATTTTTTATTTTTTTTATCGTTGGGGGG
15510001 GCAACGACTAC
66 GCAACGACTAC
15510012 GAGAAATGTGAGTGAGAAGAAGGTGTTGAGGGTTTATATTTTTTATTTTTTTTATCGTTGGGGGG
1 GAGAAATGTGAGTGAGAAGAAGGTGTTGAGGGTTTATATTTTTTATTTTTTTTATCGTTGGGGGG
15510077 AGAGAGAATG
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
75 44 0.70
76 19 0.30
ACGTcount: A:0.24, C:0.04, G:0.34, T:0.39
Consensus pattern (76 bp):
GAGAAATGTGAGTGAGAAGAAGGTGTTGAGGGTTTATATTTTTTATTTTTTTTATCGTTGGGGGG
GCAACGACTAC
Found at i:15510562 original size:22 final size:22
Alignment explanation
Indices: 15510513--15510555 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15510503 ATAAAAATAA
* *
15510513 ATTTATTTTTATTTTATGATAT
1 ATTTATTTTTATTTTATCAAAT
15510535 ATTTATTTTTATTTT-TCAAAT
1 ATTTATTTTTATTTTATCAAAT
15510556 TTTTTATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
ATTTATTTTTATTTTATCAAAT
Found at i:15517099 original size:18 final size:18
Alignment explanation
Indices: 15517059--15517096 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
15517049 TCAATGTTTC
*
15517059 AAATTAACATTTAATTCG
1 AAATTAACATTGAATTCG
*
15517077 AAATTAA-ATTGAATTTG
1 AAATTAACATTGAATTCG
15517094 AAA
1 AAA
15517097 ATTTTTCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (18 bp):
AAATTAACATTGAATTCG
Found at i:15518259 original size:19 final size:18
Alignment explanation
Indices: 15518235--15518274 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
15518225 GATTAAATCC
15518235 TAATTAATTAAGATTTAAT
1 TAATTAATTAAG-TTTAAT
*
15518254 TAATTAATTATGTTTAAT
1 TAATTAATTAAGTTTAAT
15518272 TAA
1 TAA
15518275 AAGTTAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
TAATTAATTAAGTTTAAT
Found at i:15523119 original size:79 final size:81
Alignment explanation
Indices: 15523010--15523192 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
15523000 TACTCGTTCA
* *
15523010 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
15523073 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
15523090 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
15523153 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
15523169 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
15523193 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:15523192 original size:40 final size:40
Alignment explanation
Indices: 15522989--15523192 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
15522979 CGAAATTTAA
** *
15522989 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
15523029 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
15523069 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
15523108 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
15523148 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
15523188 CCGGA
1 CCGGA
15523193 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:15524485 original size:85 final size:85
Alignment explanation
Indices: 15524356--15524534 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
15524346 TATTTTATTG
*
15524356 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATACACTACCCCAACATGTTTATGACATGTTTT
15524421 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
15524441 CCCATGCTCTTTATTTTATTAATCCTTACATAATACACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATACACTACCCCAACATGTTTATGACATGTTTT
15524506 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
15524526 CCCATGCTC
1 CCCATGCTC
15524535 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATACACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:15531070 original size:79 final size:81
Alignment explanation
Indices: 15530957--15531139 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
15530947 TACTCGTTCA
* *
15530957 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
15531020 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
15531037 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
15531100 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
15531116 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
15531140 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:15531139 original size:40 final size:40
Alignment explanation
Indices: 15530936--15531139 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
15530926 TTCAATTTAA
** *
15530936 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
15530976 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
15531016 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
15531055 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
15531095 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
15531135 CCGGA
1 CCGGA
15531140 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:15532429 original size:85 final size:85
Alignment explanation
Indices: 15532300--15532478 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
15532290 TATTTTATTG
15532300 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
15532365 TAGCCATAACATATTGTCCA
66 TAGCCATAACATATTGTCCA
15532385 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
*
15532450 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATATTGTCCA
15532470 CCCATGCTC
1 CCCATGCTC
15532479 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATATTGTCCA
Found at i:15536835 original size:21 final size:20
Alignment explanation
Indices: 15536790--15536835 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
15536780 TTGTTGGAAT
15536790 GGTT-AATTTAATCATATTA
1 GGTTGAATTTAATCATATTA
* *
15536809 GCTTGAATTTAATTCATATTG
1 GGTTGAATTTAA-TCATATTA
15536830 GGTTGA
1 GGTTGA
15536836 TTGCATTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 3 0.14
20 7 0.32
21 12 0.55
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCATATTA
Found at i:15548274 original size:43 final size:42
Alignment explanation
Indices: 15548068--15548279 Score: 187
Period size: 41 Copynumber: 5.0 Consensus size: 42
15548058 ATATTGTACA
** * *
15548068 ATGCCAACGTCCCAGATGTGGTCTTACATGTAATCACATATCG
1 ATGCCAATATCCCAGACGTGGTCTTACACG-AATCACATATCG
* * *
15548111 ATGACACTATCCCAGACAG-GGTCTTACACGAATCAAATA-CG
1 ATGCCAATATCCCAGAC-GTGGTCTTACACGAATCACATATCG
* * * * ** *
15548152 ATGTCGATATCTCAGACATGGTGATACACGAATCAAATA-CG
1 ATGCCAATATCCCAGACGTGGTCTTACACGAATCACATATCG
* * *
15548193 ATGCCGATATCTCAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAATATCCCAGACGTGGTCTTACACG-AATCACATATCG
* * *
15548236 ATGCCAAAATCCCAGATGTGGTCTTACACGAGAACACATATCG
1 ATGCCAATATCCCAGACGTGGTCTTACACGA-ATCACATATCG
15548279 A
1 A
15548280 AAATACTATG
Statistics
Matches: 140, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
41 62 0.44
42 17 0.12
43 60 0.43
44 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAATATCCCAGACGTGGTCTTACACGAATCACATATCG
Found at i:15548803 original size:30 final size:29
Alignment explanation
Indices: 15548769--15548832 Score: 69
Period size: 31 Copynumber: 2.2 Consensus size: 29
15548759 TGTTCATAAA
15548769 AGTCCAT-AAATT-TCATTTATTTCACATTTT
1 AGTCCATCAAATTATCATTT-TTTCA-A-TTT
* *
15548799 AGTCCCTCAATTTATCATTTTTTCAATTT
1 AGTCCATCAAATTATCATTTTTTCAATTT
15548828 AGTCC
1 AGTCC
15548833 TAGTTACTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
29 8 0.27
30 7 0.23
31 9 0.30
32 6 0.20
ACGTcount: A:0.27, C:0.20, G:0.05, T:0.48
Consensus pattern (29 bp):
AGTCCATCAAATTATCATTTTTTCAATTT
Found at i:15549104 original size:32 final size:32
Alignment explanation
Indices: 15549068--15549130 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
15549058 GCTCAACAAT
15549068 GGCCAAATACCCTAAGCTTTAATTT-CTTTCTG
1 GGCCAAATACCCTAAGCTTT-ATTTCCTTTCTG
15549100 GGCCAAATACCCTAAGCTTTATTTCCTTTCT
1 GGCCAAATACCCTAAGCTTTATTTCCTTTCT
15549131 TTCTCTCTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 4 0.13
32 26 0.87
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.38
Consensus pattern (32 bp):
GGCCAAATACCCTAAGCTTTATTTCCTTTCTG
Found at i:15553740 original size:29 final size:27
Alignment explanation
Indices: 15553722--15553791 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
15553712 ATATTAAGTC
15553722 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
15553749 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
15553777 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
15553792 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:15553785 original size:28 final size:28
Alignment explanation
Indices: 15553722--15553819 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
15553712 ATATTAAGTC
*
15553722 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
15553749 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
15553777 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
15553806 CGCACACTTAGTGC
1 CGCACACTTAGTGC
15553820 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:15555686 original size:13 final size:14
Alignment explanation
Indices: 15555665--15555693 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
15555655 TGAAAAATGG
15555665 ATTAGAAAATATTT
1 ATTAGAAAATATTT
15555679 ATTA-AAAATATTT
1 ATTAGAAAATATTT
15555692 AT
1 AT
15555694 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:15557079 original size:15 final size:15
Alignment explanation
Indices: 15557056--15557103 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
15557046 TATCAAATTT
15557056 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
15557071 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
15557086 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
15557100 ATAT
1 ATAT
15557104 AATATATATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:15557732 original size:21 final size:21
Alignment explanation
Indices: 15557683--15557735 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
15557673 TATGTGTCAT
*
15557683 ATTTCAGGCACCTTGTGTGTC
1 ATTTCAGGCACCTCGTGTGTC
***
15557704 ACAGCAGGCACCTCGTGTGTC
1 ATTTCAGGCACCTCGTGTGTC
*
15557725 GTTTCAGGCAC
1 ATTTCAGGCAC
15557736 TTATGTGTCG
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.28, G:0.26, T:0.28
Consensus pattern (21 bp):
ATTTCAGGCACCTCGTGTGTC
Found at i:15565125 original size:43 final size:42
Alignment explanation
Indices: 15565069--15565223 Score: 147
Period size: 43 Copynumber: 3.7 Consensus size: 42
15565059 ATATCGTACA
*
15565069 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCACATATTG
1 ATGCC-ACTGTCCCAGACGTGGTCTTACATG-AATCACATATCG
* * *
15565112 ATGCCACTATCCCAGAC-TGGGTCTTACATGAATCA-AAAACG
1 ATGCCACTGTCCCAGACGT-GGTCTTACATGAATCACATATCG
** * * **
15565153 ATGCCGGTGTCTCAGACATGGTCTTACACAAAATCACATATCG
1 ATGCCACTGTCCCAGACGTGGTCTTACA-TGAATCACATATCG
15565196 ATGCCAAC-GTCCCAGACGTGGTCTTACA
1 ATGCC-ACTGTCCCAGACGTGGTCTTACA
15565224 CGAGAACACA
Statistics
Matches: 90, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
41 25 0.28
42 14 0.16
43 51 0.57
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACGTGGTCTTACATGAATCACATATCG
Found at i:15575140 original size:46 final size:45
Alignment explanation
Indices: 15575078--15575249 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 45
15575068 ATCTCGTAGC
*
15575078 CGATGCATGTCTCAGACATGTCTTACACTGGCT-TATGTCACAAGG
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCT-TGTCACAAGG
* * * * *
15575123 TCGGTGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATG
1 -CGATGCATGTCCCAGACATGTCTTACACTGGCTCTTGTCACAAGG
* * * ***
15575169 CTGATGCCATGTCCCAGAGATGGTCTTACACTGGCTCCCT-TAATGTGG
1 C-GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-CTTGTCACAAGG
15575217 CCGATGCATGTCCCAGACATGTCTTACACTGGC
1 -CGATGCATGTCCCAGACATGTCTTACACTGGC
15575250 ACACAAATAA
Statistics
Matches: 102, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
45 1 0.01
46 53 0.52
47 27 0.26
48 19 0.19
49 2 0.02
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTTGTCACAAGG
Found at i:15576632 original size:28 final size:28
Alignment explanation
Indices: 15576601--15576684 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
15576591 GTTACCATAT
* * **
15576601 ACAGATAATTGTGGCAGGGCCATTAGAA
1 ACAGATATTTGTGGCAGAGCCACCAGAA
15576629 ACAGATATTTGTGGCAGAGCCACCAGAA
1 ACAGATATTTGTGGCAGAGCCACCAGAA
*
15576657 ACAAATATTTGTGGCAGAGCCACCAGAA
1 ACAGATATTTGTGGCAGAGCCACCAGAA
15576685 CGCTTCCTCC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (28 bp):
ACAGATATTTGTGGCAGAGCCACCAGAA
Found at i:15577945 original size:18 final size:18
Alignment explanation
Indices: 15577889--15577945 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
15577879 GGCTATAAAG
15577889 GAAAAGAAGAAGAAGAGAA
1 GAAAAGAAGAAG-AGAGAA
* * *
15577908 -AATAGATGAAGAGAGGA
1 GAAAAGAAGAAGAGAGAA
*
15577925 GAAAAGAAGAAGAGAAAA
1 GAAAAGAAGAAGAGAGAA
15577943 GAA
1 GAA
15577946 TTGTCAGAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
17 5 0.17
18 25 0.83
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.04
Consensus pattern (18 bp):
GAAAAGAAGAAGAGAGAA
Found at i:15578971 original size:3 final size:3
Alignment explanation
Indices: 15578963--15578997 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
15578953 AAACCTACAA
* *
15578963 AAT AAT AAT AAT AAT AAA AAT AAT AAT AAC AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
15578998 CATCCAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:15585121 original size:28 final size:28
Alignment explanation
Indices: 15585088--15585152 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
15585078 ACGGCCTGAC
*
15585088 ACATGCCCGAGGGCCTCACACAGCCATG
1 ACATGCCCGAGGCCCTCACACAGCCATG
* * **
15585116 ACATGCCCGTGTCCCTCACATGGCCATG
1 ACATGCCCGAGGCCCTCACACAGCCATG
15585144 ACATGCCCG
1 ACATGCCCG
15585153 TGTCCTAGCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.22, C:0.40, G:0.23, T:0.15
Consensus pattern (28 bp):
ACATGCCCGAGGCCCTCACACAGCCATG
Found at i:15585153 original size:28 final size:28
Alignment explanation
Indices: 15585101--15585157 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
15585091 TGCCCGAGGG
15585101 CCTCACACAGCCATGACATGCCCGTGTC
1 CCTCACACAGCCATGACATGCCCGTGTC
**
15585129 CCTCACATGGCCATGACATGCCCGTGTC
1 CCTCACACAGCCATGACATGCCCGTGTC
15585157 C
1 C
15585158 TAGCCCGTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.19, C:0.42, G:0.19, T:0.19
Consensus pattern (28 bp):
CCTCACACAGCCATGACATGCCCGTGTC
Found at i:15586228 original size:50 final size:50
Alignment explanation
Indices: 15586117--15586335 Score: 185
Period size: 47 Copynumber: 4.6 Consensus size: 50
15586107 CCGATACCAC
* * * *
15586117 GTCCCAGACATGGTCTTACACTGGCTTATC-CA--T-CAAGTCGATGCCAT
1 GTCCCAGACATGGTCTTACACTAGC-TCTCACATCTCCATGTTGATGCCAT
*
15586164 GTCCCAGACATGGTCTTACACTAGCTCTCACATATCCATGTTGATGCCAT
1 GTCCCAGACATGGTCTTACACTAGCTCTCACATCTCCATGTTGATGCCAT
* * * *
15586214 GTCCTAGACATGGTCTTACACT-G---ACACATCT-CGTAGCTGATG-CAT
1 GTCCCAGACATGGTCTTACACTAGCTCTCACATCTCCAT-GTTGATGCCAT
* * * *
15586259 GTCCCAGACAT-GTGTTACACTAGCTCT--CGTCTCAATGTCGATGCCAT
1 GTCCCAGACATGGTCTTACACTAGCTCTCACATCTCCATGTTGATGCCAT
* * *
15586306 GTCCTAGACATGGTCTTACATTGGCTCTCA
1 GTCCCAGACATGGTCTTACACTAGCTCTCA
15586336 TAATGTGGTC
Statistics
Matches: 137, Mismatches: 21, Indels: 25
0.75 0.11 0.14
Matches are distributed among these distances:
44 9 0.07
45 16 0.12
46 24 0.18
47 40 0.29
48 13 0.09
49 2 0.01
50 33 0.24
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (50 bp):
GTCCCAGACATGGTCTTACACTAGCTCTCACATCTCCATGTTGATGCCAT
Found at i:15586359 original size:94 final size:93
Alignment explanation
Indices: 15586103--15586373 Score: 271
Period size: 94 Copynumber: 2.9 Consensus size: 93
15586093 CATAAGGTGT
* * * * * ** *
15586103 AATGCCGATACCACGTCCCAGACATGGTCTTACACTGGCTTATCCATC-AAGTCGATGCCATGTC
1 AATGTCGATGCCATGTCCTAGACATGGTCTTACACTGACACAT-C-TCGTAGTCGATG-CATGTC
15586167 CCAGACATGGTCTTACACTAGCTCTCACATATC
63 CCAGACAT-GTCTTACACTAGCTCT-ACATATC
* *
15586200 CATGTTGATGCCATGTCCTAGACATGGTCTTACACTGACACATCTCGTAG-CTGATGCATGTCCC
1 AATGTCGATGCCATGTCCTAGACATGGTCTTACACTGACACATCTCGTAGTC-GATGCATGTCCC
* * *
15586264 AGACATGTGTTACACTAGCTCT-CGTCTC
65 AGACATGTCTTACACTAGCTCTACATATC
* * * * *
15586292 AATGTCGATGCCATGTCCTAGACATGGTCTTACATTGGCTC-TCATAATGTGGTCGATGCATGTC
1 AATGTCGATGCCATGTCCTAGACATGGTCTTACACTGACACATC-T--CGTAGTCGATGCATGTC
15586356 CCAGACATGTCTTACACT
63 CCAGACATGTCTTACACT
15586374 GGCACACAAA
Statistics
Matches: 147, Mismatches: 21, Indels: 15
0.80 0.11 0.08
Matches are distributed among these distances:
91 2 0.01
92 41 0.28
94 45 0.31
95 18 0.12
96 7 0.05
97 34 0.23
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (93 bp):
AATGTCGATGCCATGTCCTAGACATGGTCTTACACTGACACATCTCGTAGTCGATGCATGTCCCA
GACATGTCTTACACTAGCTCTACATATC
Found at i:15589629 original size:17 final size:17
Alignment explanation
Indices: 15589591--15589630 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
15589581 AAAATTTATT
15589591 AATT-TTTTATGAAAAA
1 AATTATTTTATGAAAAA
**
15589607 TTTTATTTTATGAAAAA
1 AATTATTTTATGAAAAA
15589624 AATTATT
1 AATTATT
15589631 AAAATTTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (17 bp):
AATTATTTTATGAAAAA
Found at i:15601252 original size:18 final size:18
Alignment explanation
Indices: 15601229--15601264 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
15601219 GATTTTAGTC
15601229 TGGCTATCAATTGTTGTT
1 TGGCTATCAATTGTTGTT
15601247 TGGCTATCAATTGTTGTT
1 TGGCTATCAATTGTTGTT
15601265 ATCTAGTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.22, T:0.50
Consensus pattern (18 bp):
TGGCTATCAATTGTTGTT
Found at i:15601486 original size:19 final size:19
Alignment explanation
Indices: 15601438--15601489 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
15601428 ATTGAAAAAG
*
15601438 AAAAGAAAAGGAAAAAAGAA
1 AAAAGAAAA-TAAAAAAGAA
*
15601458 ATACAG-AAATAAAAAAGAA
1 A-AAAGAAAATAAAAAAGAA
15601477 AAAAGAAAATAAA
1 AAAAGAAAATAAA
15601490 TATTTTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 3 0.11
19 17 0.63
20 4 0.15
21 3 0.11
ACGTcount: A:0.79, C:0.02, G:0.13, T:0.06
Consensus pattern (19 bp):
AAAAGAAAATAAAAAAGAA
Found at i:15601942 original size:2 final size:2
Alignment explanation
Indices: 15601929--15601969 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
15601919 TTAAAATTCT
*
15601929 TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
15601970 TCATTCTACT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:15604068 original size:21 final size:21
Alignment explanation
Indices: 15604034--15604094 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
15604024 CTCTTGAAGC
*
15604034 AGGGC-ACACACCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
15604054 AGGGCAACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
15604075 AGGGCAGCACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
15604095 TCATTATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 5 0.13
21 33 0.87
ACGTcount: A:0.21, C:0.30, G:0.39, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:15605440 original size:48 final size:46
Alignment explanation
Indices: 15605384--15605598 Score: 216
Period size: 46 Copynumber: 4.6 Consensus size: 46
15605374 AAGCTGACGC
* * * *
15605384 CATGTCCCAGACAGGTCTTACACTAGCTTTTATATCGCGAGGTCAATG
1 CATGTCCCAGACATGTCTTACACTAGC-TTT-TATCGCAAGGCCGATG
* * * *
15605432 CATGTCCCAGACATGTCTTACACTAGCTCTTGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTTTATCGCAAGGCCGATG
* * * *
15605478 CATGTCCCAGACAAGTCTTACACTGGCTTAAATATCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT--TTATCGCAAGGCCGATG
* * * ** *
15605526 CGTGTCCCAAACATGTCTTACACTAGCTTTCAT-GCTGTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTTTATCGC-AAGGCCGATG
15605572 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
15605599 ACACATATCA
Statistics
Matches: 138, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
45 1 0.01
46 70 0.51
47 2 0.01
48 65 0.47
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTTTTATCGCAAGGCCGATG
Found at i:15605497 original size:94 final size:94
Alignment explanation
Indices: 15605384--15605598 Score: 256
Period size: 94 Copynumber: 2.3 Consensus size: 94
15605374 AAGCTGACGC
* ** * * *
15605384 CATGTCCCAGACAGGTCTTACACTAGCTTTTATATCGCGAGGTCAATGCATGTCCCAGACATGTC
1 CATGTCCCAGACAAGTCTTACACTAGCTTAAATATCGCAAGGCCAATGCATGTCCCAAACATGTC
15605449 TTACACTAGCTCTTGTC-T-CAAT-GCCGATG
66 TTACACTAG--CTT-TCATGCAATGGCCGATG
* * * *
15605478 CATGTCCCAGACAAGTCTTACACTGGCTTAAATATCTCAAGGCCGATGCGTGTCCCAAACATGTC
1 CATGTCCCAGACAAGTCTTACACTAGCTTAAATATCGCAAGGCCAATGCATGTCCCAAACATGTC
** *
15605543 TTACACTAGCTTTCATGCTGTGGCTGATG
66 TTACACTAGCTTTCATGCAATGGCCGATG
*
15605572 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACAAGTCTTACACTAGC
15605599 ACACATATCA
Statistics
Matches: 103, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
91 2 0.02
92 4 0.04
93 2 0.02
94 95 0.92
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (94 bp):
CATGTCCCAGACAAGTCTTACACTAGCTTAAATATCGCAAGGCCAATGCATGTCCCAAACATGTC
TTACACTAGCTTTCATGCAATGGCCGATG
Found at i:15613030 original size:49 final size:49
Alignment explanation
Indices: 15612953--15613072 Score: 179
Period size: 49 Copynumber: 2.4 Consensus size: 49
15612943 ATGTCGACGT
15612953 CATGTCCCAGACATGGTCTTACACTGGCTTTCATATAGCGAG-GCCGATGC
1 CATGTCCCAGACA-GGTCTTACACTGGCTTTCATATAGCG-GTGCCGATGC
* * * *
15613003 CATGTCCCAGACAGGTCTTACATTGGCTTTCATCTATCGGTGTCGATGC
1 CATGTCCCAGACAGGTCTTACACTGGCTTTCATATAGCGGTGCCGATGC
15613052 CATGTCCCAGACAGGTCTTAC
1 CATGTCCCAGACAGGTCTTAC
15613073 TCTGACACAC
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
48 1 0.02
49 51 0.78
50 13 0.20
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (49 bp):
CATGTCCCAGACAGGTCTTACACTGGCTTTCATATAGCGGTGCCGATGC
Found at i:15613204 original size:46 final size:46
Alignment explanation
Indices: 15613138--15613262 Score: 144
Period size: 46 Copynumber: 2.7 Consensus size: 46
15613128 TATCGCGAGG
* * **
15613138 CTGATGCATGTCCCAGACATGTCTTACACTAGCTCTGGTCTCAATGA
1 CTGATGCATGTCTCAGACATGTCTTACACTAGCCCTCATCT-AATGA
* * * ** *
15613185 C-GATGCATGTCTTAGACATGTCTTACACTGGCCCTCATGTTGTGG
1 CTGATGCATGTCTCAGACATGTCTTACACTAGCCCTCATCTAATGA
15613230 CTGATGCATGTCTCAGACATGTCTTACACTAGC
1 CTGATGCATGTCTCAGACATGTCTTACACTAGC
15613263 ACACATATCA
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
45 3 0.05
46 61 0.94
47 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (46 bp):
CTGATGCATGTCTCAGACATGTCTTACACTAGCCCTCATCTAATGA
Found at i:15615517 original size:21 final size:22
Alignment explanation
Indices: 15615491--15615531 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
15615481 CACTTGACAT
*
15615491 AGGGGC-ATACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
15615512 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
15615532 ACCAATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.27, G:0.44, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:15616724 original size:47 final size:50
Alignment explanation
Indices: 15616653--15616779 Score: 163
Period size: 49 Copynumber: 2.6 Consensus size: 50
15616643 AATGCTGACA
* * * *
15616653 CCATGTCCCAGACATGGTCTTACACTGGCTCA-TGTC-TC-AAGTTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCATTGTCACCGAAGTCGACG
* * *
15616700 CTATGTCCCAGACATGGTCTTACACTAACT-ATTGTCACCGAGGTCGACG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCATTGTCACCGAAGTCGACG
15616749 CCATGTCCCAGACATGGTCTTACACTAGCTC
1 CCATGTCCCAGACATGGTCTTACACTAGCTC
15616780 TCGCATATAT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.01
47 31 0.46
48 1 0.01
49 34 0.51
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCATTGTCACCGAAGTCGACG
Done.