Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 124 of 332
Found at i:40330803 original size:54 final size:53
Alignment explanation
Indices: 40330721--40331212 Score: 275
Period size: 54 Copynumber: 9.1 Consensus size: 53
40330711 CTAGTTTACC
* *
40330721 AAATTACCAAAATACCCTTAGTTTGTAAAATTAACAAAATATCCCT-AATTTGTA
1 AAATTA-CAAAATACCCCTAGTTTGTAAAATTAACAAAATA-CCCTCGATTTGTA
* *
40330775 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC-CTGATTTGTG
1 AAATTA-CAAAATACCCCTAGTTTGTAAAATTAACAAAATACCCTC-GATTTGTA
* *** *** *
40330829 AAATTACTGAAATA-CCCTCAACCTGTAAAATTATTGAAATACCCTCGACTTGTA
1 AAATTAC-AAAATACCCCT-AGTTTGTAAAATTAACAAAATACCCTCGATTTGTA
* * * * * *
40330883 AAATTACCAAAGTACCCCT-GATTTATAAAATTACCTAAATATCCTCGATTTATA
1 AAATTA-CAAAATACCCCTAG-TTTGTAAAATTAACAAAATACCCTCGATTTGTA
*
40330937 AAATTATCAAAATA-CCCTCAGTTTGCAAAATT-ACTAAAATACCCTCGATTTGTA
1 AAATTA-CAAAATACCCCT-AGTTTGTAAAATTAAC-AAAATACCCTCGATTTGTA
* ** * * *** **
40330991 AAATTACTAAAATACTCCT-GTAAGATAGAATTACCATTTTACCCTCGATTTACA
1 AAATTAC-AAAATACCCCTAGTTTG-TAAAATTAACAAAATACCCTCGATTTGTA
* **** * * * * *** **
40331045 GAATTACCGTTTTA-CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACA
1 AAATTA-CAAAATACCCCT-AGTTTGTAAAATTAACAAAATACCCTCGATTTGTA
* * ** * ***
40331099 AAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAATA
1 AAATTAC-AAAATACCCCTAGTTTGTAAAATTAACAAAATACCCTCGATTTGTA
*
40331153 AAATTACCAAAATACCCCTAGTTTGTAAAATT-ACTAAAATACCC-CTGATTTGTG
1 AAATTA-CAAAATACCCCTAGTTTGTAAAATTAAC-AAAATACCCTC-GATTTGTA
40331207 AAATTA
1 AAATTA
40331213 ATGAAATACC
Statistics
Matches: 335, Mismatches: 80, Indels: 46
0.73 0.17 0.10
Matches are distributed among these distances:
53 23 0.07
54 295 0.88
55 17 0.05
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (53 bp):
AAATTACAAAATACCCCTAGTTTGTAAAATTAACAAAATACCCTCGATTTGTA
Found at i:40330856 original size:81 final size:79
Alignment explanation
Indices: 40330721--40331005 Score: 315
Period size: 81 Copynumber: 3.5 Consensus size: 79
40330711 CTAGTTTACC
*
40330721 AAATTACCAAAATACCCTTAGTTTGTAAAATTAAC-AAAATATCCCT-AATTTGTAAAATTATCA
1 AAATTACCAAAATACCCTGA-TTTGTAAAATT-ACTAAAATA-CCCTCAATTTGTAAAATTATCA
40330784 AAATACCCCTAGTTTGTA
63 AAATA-CCCTAGTTTGTA
* * ** **
40330802 AAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCCTCAACCTGTAAAATTATTGAA
1 AAATTACCAAAATA-CCCTGATTTGTAAAATTACTAAAATACCCTCAATTTGTAAAATTATCAAA
* *
40330867 ATACCCTCGACTTGTA
65 ATACCCTAG-TTTGTA
* * * * *
40330883 AAATTACCAAAGTACCCCTGATTTATAAAATTACCT-AAATATCCTCGATTTATAAAATTATCAA
1 AAATTACCAAAATA-CCCTGATTTGTAAAATTA-CTAAAATACCCTCAATTTGTAAAATTATCAA
*
40330947 AATACCCTCAGTTTGCA
64 AATACCCT-AGTTTGTA
*
40330964 AAATTACTAAAATACCCTCGATTTGTAAAATTACTAAAATAC
1 AAATTACCAAAATACCCT-GATTTGTAAAATTACTAAAATAC
40331006 TCCTGTAAGA
Statistics
Matches: 170, Mismatches: 26, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
80 17 0.10
81 145 0.85
82 8 0.05
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.32
Consensus pattern (79 bp):
AAATTACCAAAATACCCTGATTTGTAAAATTACTAAAATACCCTCAATTTGTAAAATTATCAAAA
TACCCTAGTTTGTA
Found at i:40331197 original size:27 final size:27
Alignment explanation
Indices: 40330721--40331223 Score: 194
Period size: 27 Copynumber: 18.6 Consensus size: 27
40330711 CTAGTTTACC
* * *
40330721 AAATTACCAAAATA-CCCTTAGTTTGTA
1 AAATTACTAAAATACCCCTGA-TTTATA
* * *
40330748 AAATTAAC-AAAATATCCCTAATTTGTA
1 AAATT-ACTAAAATACCCCTGATTTATA
*
40330775 AAATTA-TCAAAATACCCCT-AGTTTGTA
1 AAATTACT-AAAATACCCCTGA-TTTATA
* * *
40330802 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACTAAAATACCCCTGATTTATA
* * ** *
40330829 AAATTACTGAAATA-CCCTCAACCTGTA
1 AAATTACTAAAATACCCCT-GATTTATA
* * * *
40330856 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACTAAAATACCCCT-GATTTATA
* *
40330883 AAATTACCAAAGTACCCCTGATTTATA
1 AAATTACTAAAATACCCCTGATTTATA
*
40330910 AAATTACCT-AAATA-TCCTCGATTTATA
1 AAATTA-CTAAAATACCCCT-GATTTATA
* **
40330937 AAATTA-TCAAAATA-CCCTCAGTTTGCA
1 AAATTACT-AAAATACCCCTGA-TTTATA
*
40330964 AAATTACTAAAATA-CCCTCGATTTGTA
1 AAATTACTAAAATACCCCT-GATTTATA
* **
40330991 AAATTACTAAAATACTCCTG-TAAGATA
1 AAATTACTAAAATACCCCTGAT-TTATA
* * *** *
40331018 GAATTACCATTTTA-CCCTCGATTTACA
1 AAATTACTAAAATACCCCT-GATTTATA
* ***** *
40331045 GAATTACCGTTTTA-CCCTCAATTTATA
1 AAATTACTAAAATACCCCT-GATTTATA
* * *** *
40331072 GAATTACCATTTTA-CCCTCGATTTACA
1 AAATTACTAAAATACCCCT-GATTTATA
* * *
40331099 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACTAAAATACCCCTGATTTATA
* **
40331126 AAATTACCAAAATA-CCCTCGATCAATA
1 AAATTACTAAAATACCCCT-GATTTATA
* *
40331153 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACTAAAATACCCCTGA-TTTATA
* *
40331180 AAATTACTAAAATACCCCTGATTTGTG
1 AAATTACTAAAATACCCCTGATTTATA
* *
40331207 AAATTAATGAAATACCC
1 AAATTACTAAAATACCC
40331224 TTGTAGGGTA
Statistics
Matches: 384, Mismatches: 67, Indels: 50
0.77 0.13 0.10
Matches are distributed among these distances:
25 1 0.00
26 18 0.05
27 338 0.88
28 27 0.07
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (27 bp):
AAATTACTAAAATACCCCTGATTTATA
Found at i:40331239 original size:54 final size:53
Alignment explanation
Indices: 40331181--40331362 Score: 185
Period size: 54 Copynumber: 3.4 Consensus size: 53
40331171 TAGTTTGTAA
* **
40331181 AATTACTAAAATACCCCTGATTTGTGAAATTAATGAAATACCCTTGTAGGGTAG
1 AATTACTAAAATACCCCTG-TTAGTGAAATTACCGAAATACCCTTGTAGGGTAG
* *
40331235 AATTA-TCGAAATACCCCTG-TAGGGTAAAATTACCGAAATACCAC-TGTAGGGTAG
1 AATTACT-AAAATACCCCTGTTA--GTGAAATTACCGAAATACC-CTTGTAGGGTAG
* * *
40331289 AATTACTGAAATACCCCTG-TAGGGTAGAATTACCGAAATA-CTTCTGTAGGGTAG
1 AATTACTAAAATACCCCTGTTAGTG-A-AATTACCGAAATACCCT-TGTAGGGTAG
40331343 AATTACTAAAATACCCCTGT
1 AATTACTAAAATACCCCTGT
40331363 AGGGTGGAAT
Statistics
Matches: 109, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
52 2 0.02
53 3 0.03
54 102 0.94
55 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (53 bp):
AATTACTAAAATACCCCTGTTAGTGAAATTACCGAAATACCCTTGTAGGGTAG
Found at i:40331375 original size:81 final size:81
Alignment explanation
Indices: 40331154--40331378 Score: 274
Period size: 81 Copynumber: 2.8 Consensus size: 81
40331144 CGATCAATAA
* ** ** * *
40331154 AATTACCAAAATACCCCTAGT-TTGTAAAATTACTAAAATACCCCTG-ATTTGTGAAATTAATGA
1 AATTACCGAAATACCCCT-GTAGGGTAAAATTACTAAAATACCCCTGTA-GGGTGGAATTACTGA
*
40331217 AATACCCTTGTAGGGTAG
64 AATACCCCTGTAGGGTAG
* ** * *
40331235 AATTATCGAAATACCCCTGTAGGGTAAAATTACCGAAATACCACTGTAGGGTAGAATTACTGAAA
1 AATTACCGAAATACCCCTGTAGGGTAAAATTACTAAAATACCCCTGTAGGGTGGAATTACTGAAA
40331300 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
** *
40331316 AATTACCGAAATACTTCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTGGAATTACTGA
1 AATTACCGAAATACCCCTGTAGGGTAAAATTACTAAAATACCCCTGTAGGGTGGAATTACTGA
40331379 GGTACCTTCT
Statistics
Matches: 121, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
80 2 0.02
81 118 0.98
82 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (81 bp):
AATTACCGAAATACCCCTGTAGGGTAAAATTACTAAAATACCCCTGTAGGGTGGAATTACTGAAA
TACCCCTGTAGGGTAG
Found at i:40331384 original size:27 final size:27
Alignment explanation
Indices: 40331208--40331378 Score: 236
Period size: 27 Copynumber: 6.3 Consensus size: 27
40331198 TGATTTGTGA
* *
40331208 AATTAATGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
40331235 AATTA-TCGAAATACCCCTGTAGGGTAA
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
40331262 AATTACCGAAATACCACTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
40331289 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* **
40331316 AATTACCGAAATACTTCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
40331343 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACTGAAATACCCCTGTAGGGTAG
40331370 AATTACTGA
1 AATTACTGA
40331379 GGTACCTTCT
Statistics
Matches: 126, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 1 0.01
27 125 0.99
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:40331881 original size:22 final size:22
Alignment explanation
Indices: 40331829--40331893 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
40331819 TTAAAGCCTT
* *
40331829 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTATGTGCCAAC
* * *
40331851 CT-ACATATGGCTCTATGCCAAC
1 CTGA-TTATGGCTATGTGCCAAC
40331873 CTGATTATGGCTATGTGCCAA
1 CTGATTATGGCTATGTGCCAA
40331894 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTATGTGCCAAC
Found at i:40332082 original size:27 final size:27
Alignment explanation
Indices: 40332052--40332126 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
40332042 ATTCTGTTAA
* * *
40332052 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
40332079 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* * *
40332106 GTGACTCTGTCTCAATATCTG
1 GTGGCTCTGCCACAATATCTG
40332127 ATAACTGAGC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.39
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:40332301 original size:6 final size:6
Alignment explanation
Indices: 40332286--40332373 Score: 72
Period size: 6 Copynumber: 14.3 Consensus size: 6
40332276 ATTCTGTTAC
* * *
40332286 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * *
40332335 CTGATT CTG-TCAC CTAATT CTGATT CTAATT CTGATT CT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CT
40332374 AGTTCTAATA
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
5 3 0.05
6 55 0.85
7 5 0.08
8 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:40332314 original size:31 final size:31
Alignment explanation
Indices: 40332276--40332373 Score: 151
Period size: 31 Copynumber: 3.2 Consensus size: 31
40332266 CTGATTTTTT
*
40332276 ATTCTGTTACCTGATACTGATTCTGATTTTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
40332307 ATTCTGTTACCTGATACTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
* * * *
40332338 ATTCTGTCACCTAATTCTGATTCTAATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
40332369 ATTCT
1 ATTCT
40332374 AGTTCTAATA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.47
Consensus pattern (31 bp):
ATTCTGTTACCTGATACTGATTCTGATTCTG
Found at i:40332374 original size:12 final size:12
Alignment explanation
Indices: 40332326--40332379 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
40332316 CCTGATACTG
*
40332326 ATTCTGATTCTG
1 ATTCTGATTCTA
*
40332338 ATTCTG-TCACCTA
1 ATTCTGAT--TCTA
40332351 ATTCTGATTCTA
1 ATTCTGATTCTA
40332363 ATTCTGATTCTA
1 ATTCTGATTCTA
*
40332375 GTTCT
1 ATTCT
40332380 AATAATGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
11 1 0.03
12 25 0.71
13 8 0.23
14 1 0.03
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.48
Consensus pattern (12 bp):
ATTCTGATTCTA
Found at i:40336608 original size:21 final size:20
Alignment explanation
Indices: 40336582--40336621 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
40336572 GTCATAGTGG
*
40336582 CCACACGGGCGTGTTGCCCTT
1 CCACACAGGCGTG-TGCCCTT
40336603 CCACACAGGCGTGTGCCCT
1 CCACACAGGCGTGTGCCCT
40336622 GTTTCAAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (20 bp):
CCACACAGGCGTGTGCCCTT
Found at i:40348549 original size:10 final size:10
Alignment explanation
Indices: 40348534--40348585 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
40348524 TTTTCCAAGA
40348534 CAATAGTCAC
1 CAATAGTCAC
40348544 CAATAGTCAC
1 CAATAGTCAC
*
40348554 TC-ATATTCAAGC
1 -CAATAGTC-A-C
40348566 CAATAGTCAC
1 CAATAGTCAC
*
40348576 CCATAGTCAC
1 CAATAGTCAC
40348586 TCATACATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 25 0.71
11 4 0.11
12 6 0.17
ACGTcount: A:0.37, C:0.31, G:0.10, T:0.23
Consensus pattern (10 bp):
CAATAGTCAC
Found at i:40348570 original size:32 final size:32
Alignment explanation
Indices: 40348529--40348590 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
40348519 GGCTATTTTC
40348529 CAAGACAATAGTCACCAATAGTCACTCATATT
1 CAAGACAATAGTCACCAATAGTCACTCATATT
* *
40348561 CAAGCCAATAGTCACCCATAGTCACTCATA
1 CAAGACAATAGTCACCAATAGTCACTCATA
40348591 CATTCAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.39, C:0.29, G:0.10, T:0.23
Consensus pattern (32 bp):
CAAGACAATAGTCACCAATAGTCACTCATATT
Found at i:40358513 original size:40 final size:40
Alignment explanation
Indices: 40358434--40358648 Score: 217
Period size: 40 Copynumber: 5.4 Consensus size: 40
40358424 AAACCAAGTA
* * * ** * *
40358434 CCTTCGGGATTTA-ACCGGATATAGCCACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
** *
40358473 CCTTCGGGACTTAGCTCC-GATATAGTAGTTCTCACAAATG
1 CCTTCGGGACTTAGC-CCAGATATAGTAACTCGCACAAATG
*
40358513 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-AATG
1 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
40358552 CCTTCGGGACTTAGCCCAGA-ATTAGTAACTCGCA-ACAATG
1 CCTTCGGGACTTAGCCCAGATA-TAGTAACTCGCACA-AATG
** * *
40358592 CCTTCGGGACTTAGCCTGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCAGATA-TAGTAACTCGCACAAATG
40358632 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
40358649 GGTTATCATC
Statistics
Matches: 151, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
38 1 0.01
39 49 0.32
40 98 0.65
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
Found at i:40358565 original size:79 final size:80
Alignment explanation
Indices: 40358434--40358648 Score: 253
Period size: 79 Copynumber: 2.7 Consensus size: 80
40358424 AAACCAAGTA
* * * * *
40358434 CCTTCGGGATTTA-ACCGGATATAGCCACTCGCTCGAATGCCTTCGGGACTTAGCTCC-G-ATAT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC-CCAGAAT-T
** *
40358496 AGTAGTTCTC-ACAAATG
64 AGTAACTCGCAAC-AATG
*
40358513 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-AATGCCTTCGGGACTTAGCCCAGAATTAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAG
40358577 TAACTCGCAACAATG
66 TAACTCGCAACAATG
* *
40358592 CCTTCGGGACTTAGCCTGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGCCTTCGGGACTTAGCCC
40358649 GGTTATCATC
Statistics
Matches: 119, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
78 3 0.03
79 74 0.62
80 42 0.35
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAG
TAACTCGCAACAATG
Found at i:40360740 original size:43 final size:43
Alignment explanation
Indices: 40360670--40360760 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
40360660 GTTACATGAA
* * * * *
40360670 TCACATCCATTATGAATTTGGAACTCTCAATGAGTTCAGATGC
1 TCACATCCATAATGAAATCGGAACTCTCAACGAGCTCAGATGC
* *
40360713 TCACATCCATAATGAAATCGGACCTCTCAACGAGCTCGGATGC
1 TCACATCCATAATGAAATCGGAACTCTCAACGAGCTCAGATGC
40360756 -CACAT
1 TCACAT
40360761 ATCTTACAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 5 0.12
43 36 0.88
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
TCACATCCATAATGAAATCGGAACTCTCAACGAGCTCAGATGC
Found at i:40364643 original size:19 final size:19
Alignment explanation
Indices: 40364606--40364644 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
40364596 TTATTGCCAT
*
40364606 TTTGTTATTTATCTATTTA
1 TTTGTTATATATCTATTTA
40364625 TTTGTATATATATCT-TTTA
1 TTTGT-TATATATCTATTTA
40364644 T
1 T
40364645 ATACTTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTGTTATATATCTATTTA
Found at i:40364674 original size:15 final size:15
Alignment explanation
Indices: 40364657--40364688 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
40364647 ACTTTCAAAA
40364657 TTTATATTATTATTAT
1 TTTA-ATTATTATTAT
40364673 TTTAATTATTATTAT
1 TTTAATTATTATTAT
40364688 T
1 T
40364689 ACCTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTAATTATTATTAT
Found at i:40364696 original size:21 final size:17
Alignment explanation
Indices: 40364657--40364710 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
40364647 ACTTTCAAAA
40364657 TTTA-TATTATTATTAT
1 TTTATTATTATTATTAT
40364673 TTTAATTATTATTATTACCTT
1 TTT-ATTATTATTATTA---T
40364694 TTTATT-TTATT-TTAT
1 TTTATTATTATTATTAT
40364709 TT
1 TT
40364711 AATGTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
15 3 0.09
16 3 0.09
17 1 0.03
18 14 0.42
19 5 0.15
20 3 0.09
21 4 0.12
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTATTATTATTATTAT
Found at i:40364824 original size:4 final size:4
Alignment explanation
Indices: 40364815--40364856 Score: 75
Period size: 4 Copynumber: 10.2 Consensus size: 4
40364805 ATTAGCTTGA
40364815 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT CTTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT T
40364857 GATTATTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 33 0.89
5 4 0.11
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:40367526 original size:24 final size:25
Alignment explanation
Indices: 40367498--40367561 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
40367488 TCAACCAAAT
* * *
40367498 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCCATACTAAAC
40367522 TCGCACACATAGTGCCATACTAAAC
1 TCGCACACATAGTGCCATACTAAAC
40367547 -CGCACACATAGTGCC
1 TCGCACACATAGTGCC
40367562 TGAAATTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (25 bp):
TCGCACACATAGTGCCATACTAAAC
Found at i:40367612 original size:24 final size:24
Alignment explanation
Indices: 40367585--40367634 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
40367575 CATGCATCAA
*
40367585 CATTCAAATCTGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
* *
40367609 CATTTAATTCCGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
40367633 CA
1 CA
40367635 ATGTTAACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.26
Consensus pattern (24 bp):
CATTCAAATCCGCACACATAGTGC
Found at i:40367707 original size:94 final size:94
Alignment explanation
Indices: 40367590--40367965 Score: 680
Period size: 94 Copynumber: 4.0 Consensus size: 94
40367580 ATCAACATTC
* * *
40367590 AAATCTGCACACATAGTGCCATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAGTAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
40367655 GGCATTTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
*
40367684 AAATCTGCACACAAAGTGACATTTAATTCGGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
40367749 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
40367778 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
40367843 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
* *
40367872 AAATCTGCACACAAAGTGACATTTAATTCTGCACACATAGTGCCAATGTTAACTCATTATAATAT
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
40367937 GGCAACTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
40367966 CGGTCACATT
Statistics
Matches: 273, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 273 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (94 bp):
AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
GGCAATTTACTTAATTCAAATAGCATATA
Found at i:40371550 original size:19 final size:20
Alignment explanation
Indices: 40371513--40371552 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
40371503 TTTTTCTACA
* *
40371513 TTCATCTCATGCATTTGCAT
1 TTCATCGCATGCATATGCAT
40371533 TTCATCGCAT-CATATGCAT
1 TTCATCGCATGCATATGCAT
40371552 T
1 T
40371553 AAATGTCACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.23, C:0.25, G:0.10, T:0.42
Consensus pattern (20 bp):
TTCATCGCATGCATATGCAT
Found at i:40373842 original size:19 final size:19
Alignment explanation
Indices: 40373805--40373843 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
40373795 TTATTGCCAT
*
40373805 TTTGTTATTTATCTATTTA
1 TTTGTTATATATCTATTTA
40373824 TTTGTATATATATCT-TTTA
1 TTTGT-TATATATCTATTTA
40373843 T
1 T
40373844 ATACTTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTGTTATATATCTATTTA
Found at i:40373868 original size:3 final size:3
Alignment explanation
Indices: 40373860--40373897 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
40373850 TCAAAATTTA
40373860 TAT TAT TAT TAT T-T TAAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TA
40373898 CCTTTTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 29 0.88
4 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:40374096 original size:18 final size:17
Alignment explanation
Indices: 40374073--40374107 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
40374063 TTATTTATTG
40374073 TTATTTATATTATCGCAT
1 TTATTTATATTAT-GCAT
*
40374091 TTATTTATGTTATGCAT
1 TTATTTATATTATGCAT
40374108 ACTAGCACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.57
Consensus pattern (17 bp):
TTATTTATATTATGCAT
Found at i:40388782 original size:16 final size:16
Alignment explanation
Indices: 40388730--40388782 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
40388720 CGGCAAATCC
*
40388730 CGAAATGCCGAAAAGT
1 CGAAATGCTGAAAAGT
* * *
40388746 CAAAATGTTGAAAAAT
1 CGAAATGCTGAAAAGT
*
40388762 TGAAATGCTGAAAAGT
1 CGAAATGCTGAAAAGT
40388778 CGAAA
1 CGAAA
40388783 GTTTGGCAAT
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.49, C:0.11, G:0.21, T:0.19
Consensus pattern (16 bp):
CGAAATGCTGAAAAGT
Found at i:40389834 original size:27 final size:28
Alignment explanation
Indices: 40389750--40389847 Score: 153
Period size: 27 Copynumber: 3.5 Consensus size: 28
40389740 CATGAGATTG
* * *
40389750 GCACTAAGTGTGCGGGTTTAAATTGTATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
40389779 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
40389807 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
40389834 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
40389848 GACTTAATAT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
27 25 0.38
28 23 0.35
29 18 0.27
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:40389858 original size:27 final size:27
Alignment explanation
Indices: 40389750--40389860 Score: 116
Period size: 27 Copynumber: 4.0 Consensus size: 27
40389740 CATGAGATTG
* * *
40389750 GCACTAAGTGTGCGGGTTTAAATTGTATA
1 GCACTAAGTGTGC-GATTTGAA-TATATA
*
40389779 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-TTTGAATATATA
* *
40389807 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGAATATATA
*
40389834 GCACTAAGTGTGCGGACTT-AATATATA
1 GCACTAAGTGTGC-GATTTGAATATATA
40389861 TTTTTGAATC
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
27 31 0.42
28 25 0.34
29 17 0.23
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGAATATATA
Found at i:40389861 original size:29 final size:27
Alignment explanation
Indices: 40389750--40389861 Score: 125
Period size: 28 Copynumber: 4.0 Consensus size: 27
40389740 CATGAGATTG
* *
40389750 GCACTAAGTGTGCGGGTTTAAATTGTATA
1 GCACTAAGTGTGC-GATTT-AATTATATA
*
40389779 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-TTTAATTATATA
* *
40389807 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTAATTATATA
*
40389834 GCACTAAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GATTTAAT-TATAT
40389862 TTTTGAATCA
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
27 24 0.32
28 29 0.39
29 21 0.28
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTAATTATATA
Found at i:40394724 original size:15 final size:16
Alignment explanation
Indices: 40394706--40394735 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40394696 AATTGTTTTA
40394706 TTACA-AATTTCACTC
1 TTACATAATTTCACTC
40394721 TTACATAATTTCACT
1 TTACATAATTTCACT
40394736 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (16 bp):
TTACATAATTTCACTC
Found at i:40395164 original size:50 final size:50
Alignment explanation
Indices: 40394893--40395227 Score: 282
Period size: 50 Copynumber: 6.6 Consensus size: 50
40394883 AATAACAAAT
* * * * * * *
40394893 ACATAGTTGCCTGCACATATTACTACCCTTGTAACCGAAGCTATCTGGTAC
1 ACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CTATCTGGTAC
* * *
40394944 GCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAAT-TGGGTAC
1 ACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCT-GGTAC
** * * * * *
40394993 ATGTTGTAACCTGTACTTAGTACTACACATGTGACCTAACCATCTGATAC
1 ACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTGGTAC
* * ** * * * *
40395043 ACGTAGTAGCTTGCACTTAGTACTACACACATGATCGAAGT-TGTTGGGTAC
1 ACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTAT-CT-GGTAC
* * *
40395094 GCATAGTAGCTTGCACTTAGTACTACACATGCGACCTAACTATCTGGTAC
1 ACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTGGTAC
* ***
40395144 ACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCT-TCTTAAAC
1 ACATAGTAGCCTGCACTTAGTACTACACATGTGACCT--AA-CTATCTGGTAC
*
40395196 ACATAGTAGCCTGCACATAGTACTACACATGT
1 ACATAGTAGCCTGCACTTAGTACTACACATGT
40395228 CTTCTCACAA
Statistics
Matches: 226, Mismatches: 49, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
48 1 0.00
49 38 0.17
50 80 0.35
51 67 0.30
52 38 0.17
53 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
ACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTGGTAC
Found at i:40402133 original size:35 final size:35
Alignment explanation
Indices: 40402087--40402155 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
40402077 CTCACAAAAA
40402087 TTCAAATATCTCATAATATGAAATTCTTTTGCTTT
1 TTCAAATATCTCATAATATGAAATTCTTTTGCTTT
40402122 TTCAAATATCTCATAATATGAAATTCTTTTGCTT
1 TTCAAATATCTCATAATATGAAATTCTTTTGCTT
40402156 ACACCATTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.32, C:0.14, G:0.06, T:0.48
Consensus pattern (35 bp):
TTCAAATATCTCATAATATGAAATTCTTTTGCTTT
Found at i:40402312 original size:16 final size:15
Alignment explanation
Indices: 40402288--40402317 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
40402278 AACTATTTTA
40402288 TTACAAATTTCACTC
1 TTACAAATTTCACTC
40402303 TTACATAATTTCACT
1 TTACA-AATTTCACT
40402318 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:40402636 original size:50 final size:50
Alignment explanation
Indices: 40402529--40402764 Score: 235
Period size: 50 Copynumber: 4.7 Consensus size: 50
40402519 TTGGTACGCA
* * * * * *
40402529 TAGTAGCCTACACTTAATACTACACATGTAACC-AACAATC-CAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGA-TACACG
*
40402578 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACG
* * * * * * ** *
40402628 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CTATCTGATACACG
* * * *
40402679 TAGTGGCCTGCA-TTATGTACTACACATGCGACCTAACTATCTGGTACACG
1 TAGTAGCCTGCACTTA-GTACTACACACGTGACCTAACTATCTGATACACG
*
40402729 TAGTAGCCTGCACTTAATACTACACACGTGACCTAA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
40402765 AAACTTGTTA
Statistics
Matches: 151, Mismatches: 31, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
49 29 0.19
50 85 0.56
51 37 0.25
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACG
Found at i:40402714 original size:101 final size:101
Alignment explanation
Indices: 40402578--40402759 Score: 294
Period size: 101 Copynumber: 1.8 Consensus size: 101
40402568 CCAGTACACG
*
40402578 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
*
40402643 AGTACTACACACGTGATCGAAGTTGTCGGGTATGCA
66 AATACTACACACGTGATCGAAGTTGTCGGGTATGCA
* * * *
40402679 TAGTGGCCTGCA-TTATGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGCCTGCACT
1 TAGTAGCCTGCACTTA-GTACTACACACGCGACCTAACCATCTGATACACGTAGTAGCCTGCACT
40402743 TAATACTACACACGTGA
65 TAATACTACACACGTGA
40402760 CCTAAAAACT
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
100 3 0.04
101 71 0.96
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
AATACTACACACGTGATCGAAGTTGTCGGGTATGCA
Found at i:40406359 original size:32 final size:32
Alignment explanation
Indices: 40406313--40406374 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
40406303 ACAAATTCAA
* *
40406313 GTGAAAACTCTAATATTTTTTTTCTCTAACAG
1 GTGAAAACTCTAATAGTTATTTTCTCTAACAG
*
40406345 GTGAAAACTTTAATAGTTATTTTCTCTAAC
1 GTGAAAACTCTAATAGTTATTTTCTCTAAC
40406375 TTTTTTCCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.44
Consensus pattern (32 bp):
GTGAAAACTCTAATAGTTATTTTCTCTAACAG
Found at i:40430068 original size:48 final size:48
Alignment explanation
Indices: 40429965--40430174 Score: 227
Period size: 48 Copynumber: 4.5 Consensus size: 48
40429955 TGTGTGCTAA
* *
40429965 TGTAAGACATGT-TGGGGACATGCATC-GGC-C-ACAT-TACGAGAGCCAG
1 TGTAAGACATGTCT-GGGACATGCATCAGCCTCAAGATATAC-A-AGCCAG
*
40430011 TGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATATACAAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATATACAAGCCAG
* * * * * ** *
40430059 TGTAAGACATGTCCGGGACATGTATCAACATTAAGA-CGA-AAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATATACAAGCCAG
* *
40430105 TGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATATACAAGCCAG
40430153 TGTAAGACATGTCTGGGACATG
1 TGTAAGACATGTCTGGGACATG
40430175 GCGTCAGCTT
Statistics
Matches: 138, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
46 60 0.43
47 5 0.04
48 66 0.48
49 4 0.03
50 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (48 bp):
TGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATATACAAGCCAG
Found at i:40430112 original size:94 final size:94
Alignment explanation
Indices: 40430000--40430174 Score: 296
Period size: 94 Copynumber: 1.9 Consensus size: 94
40429990 CGGCCACATT
* *
40430000 ACGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATATACAAGCCAGTGTAAG
1 ACGAAAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATATACAAGCCAGTGTAAG
40430065 ACATGTCCGGGACATGTATCAACATTAAG
66 ACATGTCCGGGACATGTATCAACATTAAG
* * *
40430094 ACGAAAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAAGCTAGTGTAAG
1 ACGAAAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATATACAAGCCAGTGTAAG
*
40430159 ACATGTCTGGGACATG
66 ACATGTCCGGGACATG
40430175 GCGTCAGCTT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 75 1.00
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (94 bp):
ACGAAAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATATACAAGCCAGTGTAAG
ACATGTCCGGGACATGTATCAACATTAAG
Found at i:40430257 original size:49 final size:49
Alignment explanation
Indices: 40430197--40430324 Score: 159
Period size: 49 Copynumber: 2.6 Consensus size: 49
40430187 TGTGTGTCAT
* * * *
40430197 TGTAAGACCTGTTTGGGACATGGCATCGACAC-CGATAGATGAGAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGAC-CTCAATACATGAAAGCCAG
* * **
40430246 TGTAAAACCTGTCTGGGACATGGCATCGGCCTCAATACATGAAAGTTAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACCTCAATACATGAAAGCCAG
*
40430295 TGTAAGACCTGTCTGGCACATGGCATCGAC
1 TGTAAGACCTGTCTGGGACATGGCATCGAC
40430325 TTTGACGTAC
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
48 1 0.01
49 66 0.99
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACCTCAATACATGAAAGCCAG
Found at i:40431695 original size:21 final size:21
Alignment explanation
Indices: 40431671--40431726 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
40431661 GTCAAAATGG
40431671 CCACACGGGTGTGTCGCCTTT
1 CCACACGGGTGTGTCGCCTTT
*
40431692 CCACACGGGCGTGTCGCCTTT
1 CCACACGGGTGTGTCGCCTTT
*
40431713 CCATACGGGTGTGT
1 CCACACGGGTGTGT
40431727 GCCCCTGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.11, C:0.32, G:0.30, T:0.27
Consensus pattern (21 bp):
CCACACGGGTGTGTCGCCTTT
Found at i:40438709 original size:16 final size:17
Alignment explanation
Indices: 40438677--40438709 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
40438667 TTTAATTTAA
*
40438677 TTTTATTAAATTTTTTG
1 TTTTATTAAACTTTTTG
40438694 TTTTATT-AACTTTTTG
1 TTTTATTAAACTTTTTG
40438710 CATAATGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.70
Consensus pattern (17 bp):
TTTTATTAAACTTTTTG
Found at i:40439569 original size:26 final size:24
Alignment explanation
Indices: 40439540--40439588 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
40439530 ATAAAAAAAG
*
40439540 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
40439566 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
40439589 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:40439608 original size:21 final size:20
Alignment explanation
Indices: 40439567--40439614 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
40439557 TCAAATATAT
* *
40439567 TTAAAAACATAAAAACAAATA
1 TTAAAAAAATAAAAA-TAATA
40439588 TTAAAACAAATAAAAATAATA
1 TTAAAA-AAATAAAAATAATA
*
40439609 CTAAAA
1 TTAAAA
40439615 TAATTCTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAAAAATAAAAATAATA
Found at i:40439652 original size:35 final size:33
Alignment explanation
Indices: 40439588--40439652 Score: 78
Period size: 35 Copynumber: 1.9 Consensus size: 33
40439578 AAAACAAATA
*
40439588 TTAAAACAAATAAAAATAATACTAAAATAATTC
1 TTAAAACAAATAAAAATAATAATAAAATAATTC
*
40439621 TTAAAAC-AATACACAAATTAATAATATAATAA
1 TTAAAACAAATA-A-AAA-TAATAATAAAATAA
40439653 AAAATGGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 4 0.15
33 8 0.30
34 3 0.11
35 12 0.44
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (33 bp):
TTAAAACAAATAAAAATAATAATAAAATAATTC
Found at i:40439694 original size:15 final size:16
Alignment explanation
Indices: 40439664--40439696 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
40439654 AAATGGTTAT
40439664 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
40439681 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
40439696 A
1 A
40439697 ATATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:40440138 original size:15 final size:15
Alignment explanation
Indices: 40440103--40440141 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
40440093 TCAAAAACAC
* *
40440103 TTATAAATTTTAAAT
1 TTATAAAATTAAAAT
40440118 TT-TAAAATTAAAAT
1 TTATAAAATTAAAAT
40440132 TTATAAAATT
1 TTATAAAATT
40440142 GTCATCTAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TTATAAAATTAAAAT
Found at i:40445432 original size:23 final size:22
Alignment explanation
Indices: 40445397--40445442 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
40445387 TTTGATAATA
*
40445397 TGTTTTGATATAACAAATTAAAG
1 TGTTTTGAAATAA-AAATTAAAG
* *
40445420 TGTTTTTAAATAAAAGTTAAAG
1 TGTTTTGAAATAAAAATTAAAG
40445442 T
1 T
40445443 TGAACAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.43, C:0.02, G:0.13, T:0.41
Consensus pattern (22 bp):
TGTTTTGAAATAAAAATTAAAG
Found at i:40455017 original size:25 final size:25
Alignment explanation
Indices: 40454989--40455036 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
40454979 AATGATGGTA
*
40454989 CATGATATAT-TGATATATTGAAATG
1 CATGATATATGT-ATATAATGAAATG
40455014 CATGATATATGTATATAATGAAA
1 CATGATATATGTATATAATGAAA
40455037 CGGTAAGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.44, C:0.04, G:0.15, T:0.38
Consensus pattern (25 bp):
CATGATATATGTATATAATGAAATG
Found at i:40457415 original size:33 final size:33
Alignment explanation
Indices: 40457376--40457441 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
40457366 AAAGTAAAAC
40457376 ACAATTATACATTTGTAAATAATCTTGATTAAA
1 ACAATTATACATTTGTAAATAATCTTGATTAAA
40457409 ACAATTATACATTTGTAAATAATCTTGATTAAA
1 ACAATTATACATTTGTAAATAATCTTGATTAAA
40457442 CTAGATGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (33 bp):
ACAATTATACATTTGTAAATAATCTTGATTAAA
Found at i:40463374 original size:88 final size:88
Alignment explanation
Indices: 40463225--40463403 Score: 313
Period size: 88 Copynumber: 2.0 Consensus size: 88
40463215 TTCTTTTATG
* *
40463225 GAATTACGAACTCGTTTAGATTATCTACTGACGTAAGTTGTCCTTCTCACAATGTAAATGTTCTT
1 GAATTACGAACTCGTTTAGATTATCTACTGACATAAGTTATCCTTCTCACAATGTAAATGTTCTT
*
40463290 ACGATGGCACTTATCATCAGTTT
66 ACGATGCCACTTATCATCAGTTT
* *
40463313 GAATTACGAACTCGTTTAGATTATTTACTGCCATAAGTTATCCTTCTCACAATGTAAATGTTCTT
1 GAATTACGAACTCGTTTAGATTATCTACTGACATAAGTTATCCTTCTCACAATGTAAATGTTCTT
40463378 ACGATGCCACTTATCATCAGTTT
66 ACGATGCCACTTATCATCAGTTT
40463401 GAA
1 GAA
40463404 CTTATACAAT
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 86 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (88 bp):
GAATTACGAACTCGTTTAGATTATCTACTGACATAAGTTATCCTTCTCACAATGTAAATGTTCTT
ACGATGCCACTTATCATCAGTTT
Found at i:40467016 original size:68 final size:68
Alignment explanation
Indices: 40466869--40467024 Score: 158
Period size: 68 Copynumber: 2.2 Consensus size: 68
40466859 AGCCGATTTG
* * * *
40466869 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTCGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
40466934 TATC
65 TATA
* *
40466938 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
40467000 ATATAGTA
62 ATATA-TA
40467008 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
40467025 ACACATGATG
Statistics
Matches: 74, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
67 1 0.01
68 34 0.46
69 7 0.09
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:40470432 original size:39 final size:40
Alignment explanation
Indices: 40470347--40470447 Score: 154
Period size: 39 Copynumber: 2.5 Consensus size: 40
40470337 ACTACTTGCT
40470347 CAAATGCCTTCGGGACTT-GACCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAG-CCCGGTTATAGTAACTCGCA
40470387 CAAATGCCTTCGGGACTTAGCCCGGTTCA-A-TAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTT-ATAGTAACTCGCA
*
40470426 CCAATGCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
40470448 TGTGACAGCC
Statistics
Matches: 58, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
39 30 0.52
40 26 0.45
41 2 0.03
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:40472858 original size:49 final size:47
Alignment explanation
Indices: 40472798--40473251 Score: 721
Period size: 47 Copynumber: 9.6 Consensus size: 47
40472788 GATAATTGTG
* *
40472798 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
40472845 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40472892 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40472941 ATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40472990 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
40473039 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40473086 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40473133 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
40473180 ATGTGAAAGTGTATATATGTGA-CAGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
40473226 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
40473252 TCCCGAAGGG
Statistics
Matches: 385, Mismatches: 19, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
46 39 0.10
47 205 0.53
49 141 0.37
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:40492294 original size:68 final size:68
Alignment explanation
Indices: 40492147--40492302 Score: 158
Period size: 68 Copynumber: 2.2 Consensus size: 68
40492137 AGCCGATTTG
* * * *
40492147 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTCGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
40492212 TATC
65 TATA
* *
40492216 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
40492278 ATATAGTA
62 ATATA-TA
40492286 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
40492303 ACACATGATG
Statistics
Matches: 74, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
67 1 0.01
68 34 0.46
69 7 0.09
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:40496661 original size:26 final size:26
Alignment explanation
Indices: 40496631--40496738 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
40496621 TGAAATTCCC
40496631 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
40496657 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
*
40496683 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
40496709 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
40496735 ATCA
1 ATCA
40496739 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:40498512 original size:39 final size:39
Alignment explanation
Indices: 40498460--40498546 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
40498450 GACTTAATGT
* *
40498460 CTAGTAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAAGTCAGGTTTATAC
*
40498499 CTAGCAGGCCTCGTGCCGGTGATAAGGTCAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAAGTCAGGTTTATAC
40498538 CTAGCAGGC
1 CTAGCAGGC
40498547 TAATTACTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (39 bp):
CTAGCAGGCCTCGTGCCGGTGATAAAGTCAGGTTTATAC
Found at i:40505924 original size:47 final size:47
Alignment explanation
Indices: 40505846--40506203 Score: 581
Period size: 47 Copynumber: 7.6 Consensus size: 47
40505836 CCCTTCGAGA
* * * * * *
40505846 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
40505893 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40505940 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
40505987 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
40506034 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40506081 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
40506128 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40506177 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
40506204 TATTCAAATA
Statistics
Matches: 293, Mismatches: 16, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 248 0.85
49 45 0.15
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:40507909 original size:13 final size:13
Alignment explanation
Indices: 40507891--40507915 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40507881 TACTAAATTT
40507891 TCATGGATTCAAA
1 TCATGGATTCAAA
40507904 TCATGGATTCAA
1 TCATGGATTCAA
40507916 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:40512487 original size:27 final size:26
Alignment explanation
Indices: 40512457--40512515 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
40512447 GCCACCTATA
40512457 AGCCAAAAAGAACAGTCACTTGAAGGG
1 AGCCAAAAA-AACAGTCACTTGAAGGG
* *
40512484 AGCCAACAAAATAGTCACTTGAAGGG
1 AGCCAAAAAAACAGTCACTTGAAGGG
40512510 AGCCAA
1 AGCCAA
40512516 CAAACACCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 22 0.73
27 8 0.27
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.12
Consensus pattern (26 bp):
AGCCAAAAAAACAGTCACTTGAAGGG
Found at i:40512501 original size:26 final size:26
Alignment explanation
Indices: 40512470--40512519 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
40512460 CAAAAAGAAC
40512470 AGTCACTTGAAGGGAGCCAACAAAAT
1 AGTCACTTGAAGGGAGCCAACAAAAT
40512496 AGTCACTTGAAGGGAGCCAACAAA
1 AGTCACTTGAAGGGAGCCAACAAA
40512520 CACCACACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.14
Consensus pattern (26 bp):
AGTCACTTGAAGGGAGCCAACAAAAT
Found at i:40515578 original size:50 final size:48
Alignment explanation
Indices: 40515447--40515770 Score: 312
Period size: 45 Copynumber: 6.8 Consensus size: 48
40515437 CTAGGGAGAT
* * *
40515447 ATGAGAGCTAGTGCAAGACCATGTCTGGGACATGGCATCGGCTTGAT-
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGATA
* * *
40515494 AT--GTGTCAATGTAAGACCATGTCTGGGACATGGCATCGGCATCGATA
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TCGATA
* *
40515541 GATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGA
1 -ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGATA
*
40515591 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCT---TA
1 -ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGATA
* * *
40515637 AT-ATGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAT-
1 ATGA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGATA
* * * *
40515684 AT--GTGTCAGTGTAAGACCAT-TTTGGGACATGGCATCCG-TACTGATA
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-C-GATA
* * * *
40515730 GATGAGAGCCAATGTAAGACCATTTTTGGGACATAGCATCG
1 -ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
40515771 ACTTTAGTGT
Statistics
Matches: 234, Mismatches: 26, Indels: 31
0.80 0.09 0.11
Matches are distributed among these distances:
43 1 0.00
44 17 0.07
45 92 0.39
46 5 0.02
47 6 0.03
48 3 0.01
49 17 0.07
50 92 0.39
51 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGATA
Found at i:40515729 original size:45 final size:45
Alignment explanation
Indices: 40515456--40515719 Score: 332
Period size: 45 Copynumber: 5.7 Consensus size: 45
40515446 TATGAGAGCT
*
40515456 AGTGCAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTC
* * * *
40515501 AATGTAAGACCATGTCTGGGACATGGCATCGGCATCGATAGATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAT--AT--GTGTC
* * * *
40515551 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGATATGAGAGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CT--TGATATGTG-TC
*
40515600 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTAATATGTGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTC
40515646 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTC
*
40515691 AGTGTAAGACCAT-TTTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
40515720 CGTACTGATA
Statistics
Matches: 193, Mismatches: 16, Indels: 21
0.84 0.07 0.09
Matches are distributed among these distances:
44 15 0.08
45 88 0.46
46 5 0.03
47 6 0.03
48 5 0.03
49 3 0.02
50 67 0.35
51 1 0.01
52 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTC
Found at i:40515797 original size:48 final size:50
Alignment explanation
Indices: 40515694--40515800 Score: 132
Period size: 48 Copynumber: 2.2 Consensus size: 50
40515684 ATGTGTCAGT
* *
40515694 GTAAGACCA-TTTTGGGACATGGCATCCGTACTGATAGATGAGAGCCAAT
1 GTAAGACCATTTTTGGGACATAGCATCCGTACTGATAGATGAGAGCCAAC
* * *
40515743 GTAAGACCATTTTTGGGACATAGCAT-CG-ACT-TTAGTGTGTGAGCCAAC
1 GTAAGACCATTTTTGGGACATAGCATCCGTACTGATAG-ATGAGAGCCAAC
40515791 GTAAGACCAT
1 GTAAGACCAT
40515801 GTCCGGGACA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
47 3 0.06
48 22 0.43
49 11 0.22
50 15 0.29
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (50 bp):
GTAAGACCATTTTTGGGACATAGCATCCGTACTGATAGATGAGAGCCAAC
Found at i:40517227 original size:54 final size:54
Alignment explanation
Indices: 40517169--40517276 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
40517159 ATTATGATAT
40517169 GTGTTAACATGATTAGCCAAATGTATTGGCCTATATTAAGTTATTTGTATATGG
1 GTGTTAACATGATTAGCCAAATGTATTGGCCTATATTAAGTTATTTGTATATGG
*
40517223 GTGTTAACATGATTAGCCAAATGTATTGGCCTATATTGAGTTATTTGTATATGG
1 GTGTTAACATGATTAGCCAAATGTATTGGCCTATATTAAGTTATTTGTATATGG
40517277 CCATGAAGGG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (54 bp):
GTGTTAACATGATTAGCCAAATGTATTGGCCTATATTAAGTTATTTGTATATGG
Found at i:40517985 original size:34 final size:34
Alignment explanation
Indices: 40517947--40518020 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
40517937 TTAGCCCCTC
40517947 TTTCAGCAGCAGTAACAGTCTGGGCCT-AAGCCCA
1 TTTCAGCAGCAGTAACAGTCTGGGCCTCAA-CCCA
* * **
40517981 TTTCAGTATCAGTGGCAGTCTGGGCCTCAACCCA
1 TTTCAGCAGCAGTAACAGTCTGGGCCTCAACCCA
40518015 TTTCAG
1 TTTCAG
40518021 AATGGTATGC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 33 0.94
35 2 0.06
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (34 bp):
TTTCAGCAGCAGTAACAGTCTGGGCCTCAACCCA
Found at i:40520360 original size:39 final size:39
Alignment explanation
Indices: 40520308--40520428 Score: 179
Period size: 39 Copynumber: 3.1 Consensus size: 39
40520298 AATTATATTA
* *
40520308 CCAGCACAAAGCCTGCAGGACTTTAGCCTGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCTGGATACATTT
* * *
40520347 CCTGCACGAAGCCTGTGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCTGGATACATTT
* *
40520386 CCAGCACGAAGCCTGCGGGATTTTAGCCTAGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCTGGATACATTT
40520425 CCAG
1 CCAG
40520429 TATCTTGCAT
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 72 1.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCTGGATACATTT
Found at i:40522132 original size:20 final size:19
Alignment explanation
Indices: 40522102--40522143 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
40522092 AGGCAAGTGG
* *
40522102 TTTTATTTTATTCCTTTTA
1 TTTTATTTTATTACTTTCA
40522121 TTTTATTTTTATTACTTTCA
1 TTTTA-TTTTATTACTTTCA
40522141 TTT
1 TTT
40522144 CATATAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTATTTTATTACTTTCA
Found at i:40538592 original size:72 final size:72
Alignment explanation
Indices: 40538477--40538628 Score: 216
Period size: 72 Copynumber: 2.1 Consensus size: 72
40538467 TCAGTACAAC
* * * * *
40538477 TGAAGTGAGATGTGTGCCCAACACTGATCGAAAAGTCTAAAGTAATATGCGCCTAACGCTCATCA
1 TGAAGTAAAATGTGTGCCCAACACTCATCGAAAAGCCTAAAGTAATATGCGCCCAACGCTCATCA
40538542 ATATAAT
66 ATATAAT
* *
40538549 TGAAGTAAAATGTGTGCCCAACAGTCATC-AAAACGCCTGAAGTAATATGCGCCCAACGCTCATC
1 TGAAGTAAAATGTGTGCCCAACACTCATCGAAAA-GCCTAAAGTAATATGCGCCCAACGCTCATC
*
40538613 GATATAAT
65 AATATAAT
40538621 TGAAGTAA
1 TGAAGTAA
40538629 TTTGTTACTC
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
71 4 0.06
72 67 0.94
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (72 bp):
TGAAGTAAAATGTGTGCCCAACACTCATCGAAAAGCCTAAAGTAATATGCGCCCAACGCTCATCA
ATATAAT
Found at i:40538612 original size:35 final size:35
Alignment explanation
Indices: 40538516--40538612 Score: 88
Period size: 37 Copynumber: 2.7 Consensus size: 35
40538506 GAAAAGTCTA
* * * *
40538516 AAGTAATATGCGCCTAACGCTCATCAATATAATTG
1 AAGTAATATGCGCCCAACGCTCATCAAAACAACTG
* * **
40538551 AAGTAAAATGTGTGCCCAACAG-TCATCAAAACGCCTG
1 AAGT--AATATGCGCCCAAC-GCTCATCAAAACAACTG
40538588 AAGTAATATGCGCCCAACGCTCATC
1 AAGTAATATGCGCCCAACGCTCATC
40538613 GATATAATTG
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
34 1 0.02
35 21 0.44
37 25 0.52
38 1 0.02
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (35 bp):
AAGTAATATGCGCCCAACGCTCATCAAAACAACTG
Found at i:40538625 original size:35 final size:35
Alignment explanation
Indices: 40538516--40538629 Score: 113
Period size: 35 Copynumber: 3.2 Consensus size: 35
40538506 GAAAAGTCTA
*
40538516 AAGTAATATGCGCCTAACGCTCATCAATATAATTG
1 AAGTAATATGCGCCCAACGCTCATCAATATAATTG
* * * ****
40538551 AAGTAAAATGTGTGCCCAACAG-TCATCAAAACGCCTG
1 AAGT--AATATGCGCCCAAC-GCTCATCAATATAATTG
*
40538588 AAGTAATATGCGCCCAACGCTCATCGATATAATTG
1 AAGTAATATGCGCCCAACGCTCATCAATATAATTG
40538623 AAGTAAT
1 AAGTAAT
40538630 TTGTTACTCA
Statistics
Matches: 59, Mismatches: 16, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
34 1 0.02
35 32 0.54
37 25 0.42
38 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.25
Consensus pattern (35 bp):
AAGTAATATGCGCCCAACGCTCATCAATATAATTG
Found at i:40545587 original size:31 final size:32
Alignment explanation
Indices: 40545520--40545597 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 32
40545510 TGATATTGAA
* *
40545520 ATGGGCCAGGCCCAACTGATACTGGTTCTAAT
1 ATGGGCTAGGCCCAACTGATACTGGTTCTAAG
*
40545552 ATGGGCTAGGCCCAACTGATA-TTGTTCTAAG
1 ATGGGCTAGGCCCAACTGATACTGGTTCTAAG
40545583 ATGGGCTAGGCCCAA
1 ATGGGCTAGGCCCAA
40545598 TTAAGACTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
31 23 0.53
32 20 0.47
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (32 bp):
ATGGGCTAGGCCCAACTGATACTGGTTCTAAG
Found at i:40553254 original size:43 final size:41
Alignment explanation
Indices: 40553156--40553319 Score: 118
Period size: 43 Copynumber: 3.9 Consensus size: 41
40553146 TATCGAGATG
* ** *
40553156 TGATTACATGTAAGACCATGTCTGGGACATCAGCATTGTAT
1 TGATTTCATGTAAGACCATGTCTGGGACATTGGCATCGTAT
*
40553197 TGAGATTAT-GTGTAAGACCATGTCTGGGACATTGGCATCGTTAAT
1 T--GATT-TCATGTAAGACCATGTCTGGGACATTGGCATCG-T-AT
* *
40553242 TGATTTCATGTAAGA-CATTGTCTAGGACAGTGGCATCGATAT
1 TGATTTCATGTAAGACCA-TGTCTGGGACATTGGCATCG-TAT
* *** * *
40553284 GTTACAACATGTAAGACCATATCTGGGA-AATGGCAT
1 -TGATTTCATGTAAGACCATGTCTGGGACATTGGCAT
40553320 TGTACGAGCT
Statistics
Matches: 98, Mismatches: 16, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
41 1 0.01
42 12 0.12
43 79 0.81
44 3 0.03
45 3 0.03
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (41 bp):
TGATTTCATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:40563614 original size:79 final size:81
Alignment explanation
Indices: 40563505--40563687 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
40563495 TACTCGTTCA
* *
40563505 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
40563568 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
40563585 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
40563648 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
40563664 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
40563688 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:40563687 original size:40 final size:40
Alignment explanation
Indices: 40563484--40563687 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
40563474 CGGAATTTAA
** *
40563484 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
40563524 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
40563564 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
40563603 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
40563643 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
40563683 CCGGA
1 CCGGA
40563688 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:40571780 original size:79 final size:81
Alignment explanation
Indices: 40571671--40571853 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
40571661 TACTCGTTCA
* *
40571671 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
40571734 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
40571751 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
40571814 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
40571830 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
40571854 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:40571853 original size:40 final size:40
Alignment explanation
Indices: 40571650--40571853 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
40571640 CGGAATTTAA
** *
40571650 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
40571690 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
40571730 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
40571769 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
40571809 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
40571849 CCGGA
1 CCGGA
40571854 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:40578217 original size:28 final size:28
Alignment explanation
Indices: 40578154--40578250 Score: 124
Period size: 27 Copynumber: 3.5 Consensus size: 28
40578144 ATATTAAGTC
*
40578154 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
40578181 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * * *
40578209 CACACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
40578238 CGCACACTTAGTG
1 CGCACACTTAGTG
40578251 TCAATCTCAT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 22 0.36
28 22 0.36
29 17 0.28
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:40578717 original size:12 final size:12
Alignment explanation
Indices: 40578700--40578726 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
40578690 TGGGCATACT
40578700 TATGTATATATA
1 TATGTATATATA
40578712 TATGTATATATA
1 TATGTATATATA
40578724 TAT
1 TAT
40578727 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:40583369 original size:14 final size:14
Alignment explanation
Indices: 40583350--40583376 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
40583340 TTAACATTCA
40583350 GATCTATAATTTCG
1 GATCTATAATTTCG
40583364 GATCTATAATTTC
1 GATCTATAATTTC
40583377 TCACACATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (14 bp):
GATCTATAATTTCG
Found at i:40586701 original size:21 final size:20
Alignment explanation
Indices: 40586673--40586711 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
40586663 CAAAACTTGT
40586673 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
40586693 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
40586712 CAAAATACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:40588111 original size:67 final size:67
Alignment explanation
Indices: 40587972--40588107 Score: 175
Period size: 69 Copynumber: 2.0 Consensus size: 67
40587962 ATTTCATCAT
* ** * *
40587972 CAATTTGGATAGTTTAAATTTCTTTCACACCACCGAACAGCAGCCATTTTAGAAATAAATTTGTC
1 CAATTTGGACAGTTTAAATGCCTTTCACACAACCGAACAGCAGCCATTTTAGAAATAAAATTGTC
40588037 AA
66 AA
* *
40588039 CAATTTGGACAGTTTAAATGCCTTTCAGACACAACTGAACAGTAGCCATTTTA-ACAATAAAATT
1 CAATTTGGACAGTTTAAATGCCTTTC--ACACAACCGAACAGCAGCCATTTTAGA-AATAAAATT
40588103 GTCAA
63 GTCAA
40588108 ATTTCAAACA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
67 23 0.39
68 1 0.02
69 35 0.59
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (67 bp):
CAATTTGGACAGTTTAAATGCCTTTCACACAACCGAACAGCAGCCATTTTAGAAATAAAATTGTC
AA
Found at i:40600091 original size:8 final size:8
Alignment explanation
Indices: 40600078--40600102 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
40600068 TTATCAGCTC
40600078 TTATTATT
1 TTATTATT
40600086 TTATTATT
1 TTATTATT
40600094 TTATTATT
1 TTATTATT
40600102 T
1 T
40600103 CAAATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTATTATT
Found at i:40604149 original size:8 final size:8
Alignment explanation
Indices: 40604136--40604167 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
40604126 TTATCAGCTC
40604136 TTATTATT
1 TTATTATT
40604144 TTATTATT
1 TTATTATT
40604152 TTATTATT
1 TTATTATT
40604160 TTATTATT
1 TTATTATT
40604168 CCAAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTATTATT
Found at i:40608630 original size:16 final size:17
Alignment explanation
Indices: 40608609--40608642 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
40608599 AATATTAGGG
*
40608609 GCAAAAGT-TTAATTTT
1 GCAAAAGTATGAATTTT
40608625 GCAAAAGTATGAATTTT
1 GCAAAAGTATGAATTTT
40608642 G
1 G
40608643 GAATGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (17 bp):
GCAAAAGTATGAATTTT
Found at i:40609570 original size:20 final size:20
Alignment explanation
Indices: 40609532--40609570 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
40609522 TATGACACCT
**
40609532 ATCCATATAAACAGTATTTC
1 ATCCATATAAACAACATTTC
40609552 ATCCATATAAACAACATTT
1 ATCCATATAAACAACATTT
40609571 ATGCCTGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.33
Consensus pattern (20 bp):
ATCCATATAAACAACATTTC
Found at i:40609789 original size:24 final size:23
Alignment explanation
Indices: 40609719--40609820 Score: 105
Period size: 23 Copynumber: 4.3 Consensus size: 23
40609709 AAGCTTTATT
* *
40609719 GAGCTGAAACGGTAAGCTCTAAC
1 GAGCTGAAACAGTAAGCTCTTAC
* *
40609742 GAGCTAAAACAGTAAGCTCATAC
1 GAGCTGAAACAGTAAGCTCTTAC
*
40609765 GAGCTGAGAACAGTAAACTCTTAC
1 GAGCTGA-AACAGTAAGCTCTTAC
* *
40609789 GAGCTGATATATCGGTAAGCTCATAC
1 GAGCTGA-A-A-CAGTAAGCTCTTAC
40609815 GAGCTG
1 GAGCTG
40609821 TGGTGAGTCC
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
23 25 0.38
24 22 0.34
25 1 0.02
26 17 0.26
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCTTAC
Found at i:40609815 original size:26 final size:24
Alignment explanation
Indices: 40609719--40609820 Score: 102
Period size: 24 Copynumber: 4.2 Consensus size: 24
40609709 AAGCTTTATT
*
40609719 GAGCTGA-AACGGTAAGCTC-TAAC
1 GAGCTGAGAACAGTAAGCTCAT-AC
*
40609742 GAGCT-AAAACAGTAAGCTCATAC
1 GAGCTGAGAACAGTAAGCTCATAC
* *
40609765 GAGCTGAGAACAGTAAACTCTTAC
1 GAGCTGAGAACAGTAAGCTCATAC
* *
40609789 GAGCTGATATATCGGTAAGCTCATAC
1 GAGCTGAGA-A-CAGTAAGCTCATAC
40609815 GAGCTG
1 GAGCTG
40609821 TGGTGAGTCC
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
22 1 0.02
23 23 0.35
24 24 0.36
25 1 0.02
26 17 0.26
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (24 bp):
GAGCTGAGAACAGTAAGCTCATAC
Found at i:40612252 original size:15 final size:14
Alignment explanation
Indices: 40612234--40612347 Score: 56
Period size: 15 Copynumber: 7.7 Consensus size: 14
40612224 AACCGTGTGT
40612234 GACACGTGGCCATGC
1 GACA-GTGGCCATGC
* *
40612249 GACA-TGGCCGTGTGT
1 GACAGTGGCC--ATGC
40612264 GACATGTGGCCATGC
1 GACA-GTGGCCATGC
* *
40612279 GACA-TGGCCGTGTGT
1 GACAGTGGCC--ATGC
40612294 GACACGTGGCCATGC
1 GACA-GTGGCCATGC
* *
40612309 GACA-TGGCCGTGTAT
1 GACAGTGGCCATG--C
40612324 GACACGTGGCCATGC
1 GACA-GTGGCCATGC
40612339 GACA-TGGCC
1 GACAGTGGCC
40612348 GTGTGTCCCC
Statistics
Matches: 75, Mismatches: 12, Indels: 26
0.66 0.11 0.23
Matches are distributed among these distances:
13 22 0.29
15 36 0.48
17 17 0.23
ACGTcount: A:0.18, C:0.27, G:0.35, T:0.19
Consensus pattern (14 bp):
GACAGTGGCCATGC
Found at i:40612262 original size:30 final size:30
Alignment explanation
Indices: 40612226--40612353 Score: 238
Period size: 30 Copynumber: 4.3 Consensus size: 30
40612216 TGTGACTCAA
40612226 CCGTGTGTGACACGTGGCCATGCGACATGG
1 CCGTGTGTGACACGTGGCCATGCGACATGG
*
40612256 CCGTGTGTGACATGTGGCCATGCGACATGG
1 CCGTGTGTGACACGTGGCCATGCGACATGG
40612286 CCGTGTGTGACACGTGGCCATGCGACATGG
1 CCGTGTGTGACACGTGGCCATGCGACATGG
*
40612316 CCGTGTATGACACGTGGCCATGCGACATGG
1 CCGTGTGTGACACGTGGCCATGCGACATGG
40612346 CCGTGTGT
1 CCGTGTGT
40612354 CCCCTGTAGG
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 94 1.00
ACGTcount: A:0.16, C:0.26, G:0.36, T:0.22
Consensus pattern (30 bp):
CCGTGTGTGACACGTGGCCATGCGACATGG
Found at i:40614587 original size:40 final size:40
Alignment explanation
Indices: 40614532--40614613 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
40614522 GCTACGAATT
* * *
40614532 AACATAAATACACCAAATGATCAATGAACAATCACTTTCA
1 AACATAAATAAACCAAATGATCAATAAAAAATCACTTTCA
40614572 AACATAAATAAACCAAATGATCAATAAAAAATCACTTTCA
1 AACATAAATAAACCAAATGATCAATAAAAAATCACTTTCA
40614612 AA
1 AA
40614614 TTCAACTTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.55, C:0.20, G:0.04, T:0.22
Consensus pattern (40 bp):
AACATAAATAAACCAAATGATCAATAAAAAATCACTTTCA
Found at i:40615136 original size:14 final size:15
Alignment explanation
Indices: 40615101--40615140 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
40615091 ACTTTCTCTT
40615101 TCTTTTCATTACTTAA
1 TCTTTT-ATTACTTAA
40615117 TCTTTTATTAC-TAA
1 TCTTTTATTACTTAA
*
40615131 TGTTTTATTA
1 TCTTTTATTA
40615141 TACTTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.52
15 5 0.22
16 6 0.26
ACGTcount: A:0.25, C:0.12, G:0.03, T:0.60
Consensus pattern (15 bp):
TCTTTTATTACTTAA
Found at i:40615538 original size:27 final size:27
Alignment explanation
Indices: 40615508--40615563 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
40615498 ACCTTATCGC
40615508 AAAGAAAGACACCTACGAAACAAAGCA
1 AAAGAAAGACACCTACGAAACAAAGCA
40615535 AAAGAAAGACACCTACGAAACAAAGCA
1 AAAGAAAGACACCTACGAAACAAAGCA
40615562 AA
1 AA
40615564 TGCTTGAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.61, C:0.21, G:0.14, T:0.04
Consensus pattern (27 bp):
AAAGAAAGACACCTACGAAACAAAGCA
Found at i:40615588 original size:23 final size:23
Alignment explanation
Indices: 40615558--40615605 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
40615548 TACGAAACAA
40615558 AGCAAATGCTTGAACAATTTTTT
1 AGCAAATGCTTGAACAATTTTTT
40615581 AGCAAATGCTTGAACAATTTTTT
1 AGCAAATGCTTGAACAATTTTTT
40615604 AG
1 AG
40615606 ATTGAGAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (23 bp):
AGCAAATGCTTGAACAATTTTTT
Found at i:40620447 original size:15 final size:14
Alignment explanation
Indices: 40620422--40620453 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
40620412 TAGTGCAAAA
40620422 TTGATTTTTCTCTT
1 TTGATTTTTCTCTT
40620436 TTGATCTTTTCTCTT
1 TTGAT-TTTTCTCTT
40620451 TTG
1 TTG
40620454 TTAAACCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.06, C:0.16, G:0.09, T:0.69
Consensus pattern (14 bp):
TTGATTTTTCTCTT
Found at i:40621077 original size:20 final size:19
Alignment explanation
Indices: 40621030--40621094 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
40621020 GTAATAAAAT
*
40621030 AAAATAAAAATAGA-TTAG
1 AAAATAAAAATAAATTTAG
40621048 AAAATGTAAAAATAAATTTAAG
1 AAAA--TAAAAATAAATTT-AG
40621070 AAAAT-AAAATAAA-TTAG
1 AAAATAAAAATAAATTTAG
*
40621087 TAAATAAA
1 AAAATAAA
40621095 CTTTTTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
17 6 0.15
18 8 0.20
19 8 0.20
20 10 0.25
21 2 0.05
22 6 0.15
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.25
Consensus pattern (19 bp):
AAAATAAAAATAAATTTAG
Found at i:40621959 original size:13 final size:13
Alignment explanation
Indices: 40621941--40621983 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
40621931 TAGATTTTTC
40621941 CTAAATATTATCA
1 CTAAATATTATCA
*
40621954 CTAAATA--AT-T
1 CTAAATATTATCA
40621964 CTAAATATTATCA
1 CTAAATATTATCA
40621977 CTAAATA
1 CTAAATA
40621984 ATTCTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:40621971 original size:23 final size:23
Alignment explanation
Indices: 40621941--40621992 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
40621931 TAGATTTTTC
40621941 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
40621964 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
40621987 CTAAAT
1 CTAAAT
40621993 TTAAAAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.38
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:40622005 original size:23 final size:23
Alignment explanation
Indices: 40621941--40621998 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
40621931 TAGATTTTTC
**
40621941 CTAAATATTATCACTAAATAATT
1 CTAAATATTAAAACTAAATAATT
**
40621964 CTAAATATTATCACTAAATAATT
1 CTAAATATTAAAACTAAATAATT
40621987 CTAAAT-TTAAAA
1 CTAAATATTAAAA
40621999 ATTAAATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
22 4 0.12
23 29 0.88
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (23 bp):
CTAAATATTAAAACTAAATAATT
Found at i:40629840 original size:10 final size:10
Alignment explanation
Indices: 40629825--40629863 Score: 51
Period size: 10 Copynumber: 3.6 Consensus size: 10
40629815 AATATTATCA
40629825 CTAAATAATT
1 CTAAATAATT
40629835 CTAAATATTATAT
1 CTAAATA--AT-T
40629848 CTAAATAATT
1 CTAAATAATT
40629858 CTAAAT
1 CTAAAT
40629864 TTAAAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 14 0.54
11 2 0.08
12 2 0.08
13 8 0.31
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (10 bp):
CTAAATAATT
Found at i:40629842 original size:23 final size:23
Alignment explanation
Indices: 40629812--40629863 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
40629802 TAGATTTTTC
40629812 CTAAATATTATCA-CTAAATAATT
1 CTAAATATTAT-ATCTAAATAATT
40629835 CTAAATATTATATCTAAATAATT
1 CTAAATATTATATCTAAATAATT
40629858 CTAAAT
1 CTAAAT
40629864 TTAAAAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 1 0.04
23 27 0.96
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (23 bp):
CTAAATATTATATCTAAATAATT
Found at i:40641678 original size:484 final size:486
Alignment explanation
Indices: 40640993--40641971 Score: 1563
Period size: 484 Copynumber: 2.0 Consensus size: 486
40640983 AGTAATTTTG
*
40640993 AAAACTAAGTCTAATTTTATTAAAAACTTGTTTATCAAATTTACATATAAGAACCACAACGAAAA
1 AAAACTAAGTCTAATTTTATTAAAAACTTGTTTATCAAATTTACAGATAAGAACCACAACGAAAA
* *
40641058 TTTTTACTAAGACCATATTTTGTTAAAAATCAATATTTCATGTAAATTCGATAAAACATCAATAG
66 TTTTTACTAAAACCATATTTTGTTAAAAATCAATATTTCATATAAATTCGATAAAACATCAATAG
* **
40641123 ACAATTTAAAACCTAAAAAATCAAGTCATATTTTTATCTAAAACTCATTTCCATTGTTTAAGCAG
131 ACAATTTAAAACCTAAAAAATCAAATCATATTTTTATCTAAAACTCATTTCCATTGTCGAAGCAG
*
40641188 AAAATAGTGATTTTGTCAAGTTTTAAAAGAAACCAAGTTTCATGCGTATTCTTATCAAATACTAA
196 AAAATAGCGATTTTGTCAAGTTTTAAAAGAAACCAAGTTTCATGCGTATTCTTATCAAATACTAA
* *
40641253 TTTATGCAGTTTTTAAAACTTAATGTCATGCAATCAACTCGTGCATATCAGAATGAAAAATCCCC
261 TTTATGCAGTTTTAAAAACTTAATATCATGCAATCAACTCGTGCATATCAGAATGAAAAATCCCC
* *
40641318 AAAGTAAAGTCTCATGCCACAATCCATATTCAAACTTATTACAATCCCAAAAT-AAAAAATATTA
326 AAAGTAAAGTCTCATGCCACAATCCATACTCAAACTTATTACAATACCAAAATAAAAAAATATTA
* *
40641382 AGATAAACTTTAATTACTTTAATTTAAAAAGAATTTTGAGAAACTCCTCCAAATATTGTCATCGA
391 AGATAAACTTTAATTACTTTAATTTAAAAAGAATTTCGAGAAACTCCTCCAAATACTGTCATCGA
* *
40641447 ATCCTAACCTCGGGGTTATCTATAAAATCAA
456 ATCCTAACCTCAGGGTTATCTATAAAATAAA
* * * *
40641478 AAAACTAAGTCTAATTTTATTAAAAACTT-TATTGTCAGAA-TTGCAGGTAAGAACCACAATGAA
1 AAAACTAAGTCTAATTTTATTAAAAACTTGT-TTATCA-AATTTACAGATAAGAACCACAACGAA
* *
40641541 AATTTTTACTAAAATCATATTTTGTTAAAAATCAA-ATTTCCTATAAATTCGATAAAACATCAAT
64 AATTTTTACTAAAACCATATTTTGTTAAAAATCAATATTTCATATAAATTCGATAAAACATCAAT
* *
40641605 AGACAATTTAAAACCTCAAAAATCAAATCATATTTTTGTCTAAAACTCATTTCCATTGTCGAAGC
129 AGACAATTTAAAACCTAAAAAATCAAATCATATTTTTATCTAAAACTCATTTCCATTGTCGAAGC
* * *
40641670 -GAAAAATAGCGATTTTGTCAAGTTTTAATAGAAACTATGTTTCATGCGTATTCTTATCAAATAC
194 AG-AAAATAGCGATTTTGTCAAGTTTTAAAAGAAACCAAGTTTCATGCGTATTCTTATCAAATAC
* * *
40641734 TAATTTATGCAGTTTTAAAAACTTAATATCATGCAATCAATTCTTGCATATTAGAATGAAAAATC
258 TAATTTATGCAGTTTTAAAAACTTAATATCATGCAATCAACTCGTGCATATCAGAATGAAAAATC
* * * *
40641799 TCCAAAGTAAAGTCTCATGCCATAATTCATACTCAAACTTATTACAATATCAAAATAAAAAAAAT
323 CCCAAAGTAAAGTCTCATGCCACAATCCATACTCAAACTTATTACAATACCAAAAT-AAAAAAAT
* * *
40641864 ATTAAGATAAACTTTAATTATTTTAATTTAAAAAGAATTTCGAGAAACTCCTCCAAATGCTGTGA
387 ATTAAGATAAACTTTAATTACTTTAATTTAAAAAGAATTTCGAGAAACTCCTCCAAATACTGTCA
40641929 TCGAATCCTAACCTCAGGGTTATCTATAAAATAAA
452 TCGAATCCTAACCTCAGGGTTATCTATAAAATAAA
40641964 AAAACTAA
1 AAAACTAA
40641972 AAAGAGTGAG
Statistics
Matches: 453, Mismatches: 36, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
483 1 0.00
484 256 0.57
485 86 0.19
486 110 0.24
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.33
Consensus pattern (486 bp):
AAAACTAAGTCTAATTTTATTAAAAACTTGTTTATCAAATTTACAGATAAGAACCACAACGAAAA
TTTTTACTAAAACCATATTTTGTTAAAAATCAATATTTCATATAAATTCGATAAAACATCAATAG
ACAATTTAAAACCTAAAAAATCAAATCATATTTTTATCTAAAACTCATTTCCATTGTCGAAGCAG
AAAATAGCGATTTTGTCAAGTTTTAAAAGAAACCAAGTTTCATGCGTATTCTTATCAAATACTAA
TTTATGCAGTTTTAAAAACTTAATATCATGCAATCAACTCGTGCATATCAGAATGAAAAATCCCC
AAAGTAAAGTCTCATGCCACAATCCATACTCAAACTTATTACAATACCAAAATAAAAAAATATTA
AGATAAACTTTAATTACTTTAATTTAAAAAGAATTTCGAGAAACTCCTCCAAATACTGTCATCGA
ATCCTAACCTCAGGGTTATCTATAAAATAAA
Found at i:40644729 original size:50 final size:50
Alignment explanation
Indices: 40644629--40644952 Score: 334
Period size: 50 Copynumber: 6.7 Consensus size: 50
40644619 GCAATGTGTA
* * *
40644629 CTAGTGTAAGA-CATGTCTGGGACAT-GCATGGGCCAC-A-TTATGAGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAG
* *
40644675 CTAGTGTAAGACCATATCTGGGACATGGCATCGGCCTCGAGATATGAAAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAG
* *
40644725 CTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CT--TGATAT--GTG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAG
* * * * *
40644770 TTAGTGTAAGACCATGTCTAGGACATGGCATCAGCAC-CGACAGATGAGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATATGAGAG
*
40644820 AC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGAG
1 -CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAG
* * ** * *
40644870 -TCAGTGTAAGATCATGTCTGGGACATGGCATC-G-ATCTTGATGTGTGAG
1 CT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAG
* *
40644918 CCAGTGTAAGACCATGCCTGGGACATGGCATCGGC
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
40644953 ATCTTACCCT
Statistics
Matches: 230, Mismatches: 31, Indels: 30
0.79 0.11 0.10
Matches are distributed among these distances:
45 32 0.14
46 11 0.05
47 19 0.08
48 49 0.21
49 6 0.03
50 113 0.49
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (50 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGAG
Found at i:40644794 original size:95 final size:95
Alignment explanation
Indices: 40644631--40644952 Score: 320
Period size: 95 Copynumber: 3.3 Consensus size: 95
40644621 AATGTGTACT
* * *
40644631 AGTGTAAGA-CATGTCTGGGACAT-GCATGGGC-C-ACATTATGAGAGCTAGTGTAAGACCATAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGA-A-TAT-AGAGTTAGTGTAAGACCATGT
40644692 CTGGGACATGGCATCGGCCTCGAGATATGAAAGC
63 CTGGGACATGGCATCGGCCTCGAGATATG-AAGC
* *
40644726 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTG-ATAT-GTGTTAGTGTAAGACCATGTCT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAATATAGAGTTAGTGTAAGACCATGTCT
* * * *
40644789 AGGACATGGCATCAGCAC-CGACAGATGAGAGAC
65 GGGACATGGCATCGGC-CTCGAGATATGA-AG-C
* *
40644822 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGAGTCAGTGTAAGATCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGA-ATAT-AGAGTTAGTGTAAGACCATGT
** * *
40644887 CTGGGACATGGCATCGATCTTGATG-TGTG-AGCC
63 CTGGGACATGGCATCGGCCTCGA-GATATGAAG-C
*
40644920 AGTGTAAGACCATGCCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
40644953 ATCTTACCCT
Statistics
Matches: 189, Mismatches: 23, Indels: 27
0.79 0.10 0.11
Matches are distributed among these distances:
94 1 0.01
95 74 0.39
96 14 0.07
97 18 0.10
98 46 0.24
99 1 0.01
100 35 0.19
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (95 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAATATAGAGTTAGTGTAAGACCATGTCTG
GGACATGGCATCGGCCTCGAGATATGAAGC
Found at i:40649307 original size:27 final size:27
Alignment explanation
Indices: 40649272--40649327 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
40649262 ATATATTCTC
*
40649272 AAAATTTTACCAAGGATAAAATTATCA
1 AAAATTTTACCAAGGATAAAATCATCA
* * *
40649299 AAAATTTTATCGAGGGTAAAATCATCA
1 AAAATTTTACCAAGGATAAAATCATCA
40649326 AA
1 AA
40649328 TTTTACTAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.29
Consensus pattern (27 bp):
AAAATTTTACCAAGGATAAAATCATCA
Found at i:40660340 original size:40 final size:39
Alignment explanation
Indices: 40660290--40660451 Score: 148
Period size: 39 Copynumber: 4.1 Consensus size: 39
40660280 CAAATCCAAT
*
40660290 CACCACCACAAAGCATGCGGGACTTTAAGCCCGGATATAA
1 CACCAACACAAAGCATGCGGGACTTT-AGCCCGGATATAA
* *
40660330 TACCAACACAAAGCCTGCGGGACTTTAGCCCGGATATAA
1 CACCAACACAAAGCATGCGGGACTTTAGCCCGGATATAA
* * * * ** * *
40660369 CACCAGCATGAATGCCTTTGGGGC-TTAACCCGGATATAA
1 CACCAACA-CAAAGCATGCGGGACTTTAGCCCGGATATAA
* * * *
40660408 CACCAGCACGAATGCCTTCGGGAC-TTAGCCCGGATATAA
1 CACCAACAC-AAAGCATGCGGGACTTTAGCCCGGATATAA
40660447 CACCA
1 CACCA
40660452 GCACGAATGC
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 72 0.69
40 33 0.31
ACGTcount: A:0.31, C:0.30, G:0.21, T:0.18
Consensus pattern (39 bp):
CACCAACACAAAGCATGCGGGACTTTAGCCCGGATATAA
Found at i:40660401 original size:39 final size:39
Alignment explanation
Indices: 40660307--40660485 Score: 216
Period size: 39 Copynumber: 4.5 Consensus size: 39
40660297 ACAAAGCATG
* * * *
40660307 CGGGACTTTAAGCCCGGATATAATACCAACAC-AAAGCCTG
1 CGGGAC-TTAA-CCCGGATATAACACCAGCACGAATGCCTT
* *
40660347 CGGGACTTTAGCCCGGATATAACACCAGCATGAATGCCTT
1 CGGGAC-TTAACCCGGATATAACACCAGCACGAATGCCTT
* *
40660387 TGGGGCTTAACCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAACCCGGATATAACACCAGCACGAATGCCTT
*
40660426 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAACCCGGATATAACACCAGCACGAATGCCTT
* * *
40660465 CAGGACTTAGCTCGGATATAA
1 CGGGACTTAACCCGGATATAA
40660486 TTCTCCATTA
Statistics
Matches: 123, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 103 0.84
40 20 0.16
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.20
Consensus pattern (39 bp):
CGGGACTTAACCCGGATATAACACCAGCACGAATGCCTT
Found at i:40670658 original size:482 final size:482
Alignment explanation
Indices: 40669797--40670760 Score: 1595
Period size: 482 Copynumber: 2.0 Consensus size: 482
40669787 TTCAAATCTA
** * * *
40669797 AGACCTGATCTACTAACACTGTTCCCCATGAACTTTGTCTTTCAGAAAGAGGTTCCCGGGCTTGA
1 AGACCTGATCTACTAACACTACTCCCCATGAAATTTGTCTTTCAGAAAAAAGTTCCCGGGCTTGA
** * *
40669862 TTAACAGATAACATGTGGTATTGCCTTACAGTTCATTGATCTAAACACAAGAATCCAACCTCTAT
66 TTAACAGATAACATGTGCCATTGCCTTACAGTTCATTGATCTAAACACAAGAATCCAACCCCCAT
* * * *
40669927 TTTCGTTGGGAACTTGATCTTCATGTAGAATGTTGTGACCACCATCTTTTTCATCCTCATTATTG
131 TTTCATTGGGAACTTGATCTTCATGCAGAATGTTGCGACCACCATCTTTGTCATCCTCATTATTG
* *
40669992 GTCGTCCGAAGAGAGCATTGTATGCCATTGGGTGGTCTACTACGTAGAATTGAATATATTCTGTA
196 GTCGTCCGAAGAGAGCATTGTATGCCATTGGGTCGTCTACTACGTAGAATTGAATATATTCTGCA
40670057 GTTGTGTGCTCGCTATCCTCTAAGGTGACTGGTATGATGACCAAACCCTTCATCTCAATAGGATG
261 GTTGTGTGCTCGCTATCCTCTAAGGTGACTGGTATGATGACCAAACCCTTCATCTCAATAGGATG
*
40670122 GTTCGCAAAGTCATACAACGGACTAGCTTTAGATAATGCCTGCTCTTTCGGTCCCATCTTCTGGT
326 GTTCGCAAAGTCATACAACGGACTAGCTTTAGACAATGCCTGCTCTTTCGGTCCCATCTTCTGGT
* *
40670187 ACACATCCCAAGACAACACCTCAACTACACTTCCACTGTCTATAAGTATTTTTTTAACTTTGAAA
391 ACACATCCCAAGACAACACCTCAACTACACTTCCACTATCTATAAGTATTCTTTTAACTTTGAAA
40670252 CCTACAACTGTCGTCGAGACAATTATC
456 CCTACAACTGTCGTCGAGACAATTATC
* * * *
40670279 AGACCTGATTTGCTAACACTACTCCTCATGAAATTTGTCTTTCAGAAAAAAGTTCCCTGGCTTGA
1 AGACCTGATCTACTAACACTACTCCCCATGAAATTTGTCTTTCAGAAAAAAGTTCCCGGGCTTGA
** * ** *
40670344 TTAACAGATAACATGTGCCATTGCCTTGTAGTTCGTTGATCTAAATGCAAGAATCTAACCCCCAT
66 TTAACAGATAACATGTGCCATTGCCTTACAGTTCATTGATCTAAACACAAGAATCCAACCCCCAT
*
40670409 TTTTATTGGGAACTTGATCTTCATGCAGAATGTTGCGACCACCATCTTTGTCATCCTCATTATTG
131 TTTCATTGGGAACTTGATCTTCATGCAGAATGTTGCGACCACCATCTTTGTCATCCTCATTATTG
**
40670474 GTCGTCCGAAGAGAGCATTGTATGTTATTGGGTCGTCTACTACGTAGAATTGAATATATTCTGCA
196 GTCGTCCGAAGAGAGCATTGTATGCCATTGGGTCGTCTACTACGTAGAATTGAATATATTCTGCA
* *
40670539 GTTGTGTGCTTGCTATCCTCTAAGGTGACTGGTATGATGACCAAACCTTTCATCTCAATAGGATG
261 GTTGTGTGCTCGCTATCCTCTAAGGTGACTGGTATGATGACCAAACCCTTCATCTCAATAGGATG
* * *
40670604 GTTCGCAAAGTCATACAACGGGCTAGCTTTAGACATTGCCTGCTTTTTCGGTCCCATCTTCTGGT
326 GTTCGCAAAGTCATACAACGGACTAGCTTTAGACAATGCCTGCTCTTTCGGTCCCATCTTCTGGT
*
40670669 ACACATCCCAAGACAACACCTCAACTATACTTCCACTATCTATAAGTATTCTTTTAACTTTGAAA
391 ACACATCCCAAGACAACACCTCAACTACACTTCCACTATCTATAAGTATTCTTTTAACTTTGAAA
40670734 CCTACAACTGTCGTCGAGACAATTATC
456 CCTACAACTGTCGTCGAGACAATTATC
40670761 GAGTCATTAC
Statistics
Matches: 445, Mismatches: 37, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
482 445 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (482 bp):
AGACCTGATCTACTAACACTACTCCCCATGAAATTTGTCTTTCAGAAAAAAGTTCCCGGGCTTGA
TTAACAGATAACATGTGCCATTGCCTTACAGTTCATTGATCTAAACACAAGAATCCAACCCCCAT
TTTCATTGGGAACTTGATCTTCATGCAGAATGTTGCGACCACCATCTTTGTCATCCTCATTATTG
GTCGTCCGAAGAGAGCATTGTATGCCATTGGGTCGTCTACTACGTAGAATTGAATATATTCTGCA
GTTGTGTGCTCGCTATCCTCTAAGGTGACTGGTATGATGACCAAACCCTTCATCTCAATAGGATG
GTTCGCAAAGTCATACAACGGACTAGCTTTAGACAATGCCTGCTCTTTCGGTCCCATCTTCTGGT
ACACATCCCAAGACAACACCTCAACTACACTTCCACTATCTATAAGTATTCTTTTAACTTTGAAA
CCTACAACTGTCGTCGAGACAATTATC
Found at i:40673656 original size:40 final size:41
Alignment explanation
Indices: 40673601--40673683 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 41
40673591 TTAAAAAATG
** *
40673601 TTTTAAAATAAATTTTAT-ACTTTTTAATGATTTTAATTTT
1 TTTTAAAATAAATTTTATAACTTTTTAACAATTTTAAATTT
*
40673641 TTTTAAAA-ATAATTTTATAATTTTTTAACAATTTTAAATTT
1 TTTTAAAATA-AATTTTATAACTTTTTAACAATTTTAAATTT
40673682 TT
1 TT
40673684 AAAAATTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.03
40 16 0.43
41 20 0.54
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.59
Consensus pattern (41 bp):
TTTTAAAATAAATTTTATAACTTTTTAACAATTTTAAATTT
Found at i:40673684 original size:17 final size:19
Alignment explanation
Indices: 40673651--40673690 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
40673641 TTTTAAAAAT
*
40673651 AATTTTATAATTTTTTAAC
1 AATTTTATAATTTTTTAAA
40673670 AATTTTA-AA-TTTTTAAA
1 AATTTTATAATTTTTTAAA
40673687 AATT
1 AATT
40673691 AATTAAATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 2 0.10
19 7 0.35
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
AATTTTATAATTTTTTAAA
Found at i:40673694 original size:40 final size:39
Alignment explanation
Indices: 40673596--40673694 Score: 103
Period size: 41 Copynumber: 2.5 Consensus size: 39
40673586 AATATTTAAA
* **
40673596 AAATGTTTT-AAAATAAATTTTATACTTTTTAATGATTTT
1 AAAT-TTTTAAAAATTAATTTTATACTTTTTAACAATTTT
* *
40673635 AATTTTTTTTAAAAA-TAATTTTATAATTTTTTAACAATTTT
1 AA--ATTTTTAAAAATTAATTTTAT-ACTTTTTAACAATTTT
40673676 AAATTTTTAAAAATTAATT
1 AAATTTTTAAAAATTAATT
40673695 AAATGCTGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
39 12 0.24
40 17 0.35
41 20 0.41
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (39 bp):
AAATTTTTAAAAATTAATTTTATACTTTTTAACAATTTT
Found at i:40673696 original size:19 final size:19
Alignment explanation
Indices: 40673640--40673698 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 19
40673630 ATTTTAATTT
40673640 TTTTTAAAAA-TAATTTTATAA
1 TTTTTAAAAATTAA--TTA-AA
*
40673661 TTTTTTAACAATT--TTAAA
1 -TTTTTAAAAATTAATTAAA
40673679 TTTTTAAAAATTAATTAAA
1 TTTTTAAAAATTAATTAAA
40673698 T
1 T
40673699 GCTGAAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
17 11 0.34
18 2 0.06
19 9 0.28
22 9 0.28
23 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTTAAAAATTAATTAAA
Found at i:40678690 original size:17 final size:19
Alignment explanation
Indices: 40678663--40678697 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
40678653 GCTTGAATTT
40678663 AAATAATTTTT-TTTAAAA
1 AAATAATTTTTGTTTAAAA
40678681 AAAT-ATTTTTGTTTAAA
1 AAATAATTTTTGTTTAAA
40678698 GTTAATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
AAATAATTTTTGTTTAAAA
Found at i:40688376 original size:23 final size:23
Alignment explanation
Indices: 40688346--40688392 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
40688336 GCTTGTAATC
40688346 GAGCATTTTATGCTATTTTCATA
1 GAGCATTTTATGCTATTTTCATA
40688369 GAGCATTTTATGCTATTTTCATA
1 GAGCATTTTATGCTATTTTCATA
40688392 G
1 G
40688393 TTTTATCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.47
Consensus pattern (23 bp):
GAGCATTTTATGCTATTTTCATA
Found at i:40689338 original size:18 final size:18
Alignment explanation
Indices: 40689301--40689338 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
40689291 ACAAACTCAA
*
40689301 ATTTTTTAAATTTAATAT
1 ATTTTTTAAATTTAAAAT
40689319 ATTTTTT-AATTTCAAAAT
1 ATTTTTTAAATTT-AAAAT
40689337 AT
1 AT
40689339 ATGGTGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTTTAAATTTAAAAT
Found at i:40695980 original size:26 final size:26
Alignment explanation
Indices: 40695951--40696000 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
40695941 TCTCATCCCT
*
40695951 ATTTTACCCCTAGTAAAATTTTGACG
1 ATTTTACCCATAGTAAAATTTTGACG
*
40695977 ATTTTACCCATGGTAAAATTTTGA
1 ATTTTACCCATAGTAAAATTTTGA
40696001 AAATATGTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (26 bp):
ATTTTACCCATAGTAAAATTTTGACG
Found at i:40698679 original size:15 final size:16
Alignment explanation
Indices: 40698647--40698680 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
40698637 ATTTCATCTC
*
40698647 ATTTGCATTTAGGTTA
1 ATTTACATTTAGGTTA
40698663 ATTTACATTTA-GTTA
1 ATTTACATTTAGGTTA
40698678 ATT
1 ATT
40698681 AATTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (16 bp):
ATTTACATTTAGGTTA
Found at i:40709415 original size:20 final size:20
Alignment explanation
Indices: 40709390--40709429 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
40709380 CGTACAACTA
40709390 AGTCAGTACGCAACTGAATG
1 AGTCAGTACGCAACTGAATG
40709410 AGTCAGTACGCAACTGAATG
1 AGTCAGTACGCAACTGAATG
40709430 GGTCCAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (20 bp):
AGTCAGTACGCAACTGAATG
Done.