Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 82 of 335
Found at i:27209441 original size:96 final size:97
Alignment explanation
Indices: 27209275--27209456 Score: 267
Period size: 96 Copynumber: 1.9 Consensus size: 97
27209265 TTTTATTTTA
* * * * * *
27209275 TTTATTTTTATTTAGGAATATATTGAACCTTTTGACGCCAAGAGAGATGACAGCTAAGGACCCCA
1 TTTATTTTTATTTAAGAACATATCGAACCTTTTGACGCCAAAAGAGATGACAGCAAAGCACCCCA
*
27209340 CCCCGGTTACTCAACCCAACATACTCCTAATT
66 ACCCGGTTACTCAACCCAACATACTCCTAATT
* *
27209372 TTTATTTTT-TTTAAGAACATATCGAACCTTTTGACGCGAAAAGAGATGACAGCAAAGCACCTCA
1 TTTATTTTTATTTAAGAACATATCGAACCTTTTGACGCCAAAAGAGATGACAGCAAAGCACCCCA
*
27209436 ACCCGGTTACTCAGCCCAACA
66 ACCCGGTTACTCAACCCAACA
27209457 CATTCTTAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
96 66 0.88
97 9 0.12
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (97 bp):
TTTATTTTTATTTAAGAACATATCGAACCTTTTGACGCCAAAAGAGATGACAGCAAAGCACCCCA
ACCCGGTTACTCAACCCAACATACTCCTAATT
Found at i:27210203 original size:15 final size:14
Alignment explanation
Indices: 27210183--27210247 Score: 71
Period size: 15 Copynumber: 4.5 Consensus size: 14
27210173 TTAATATCTG
27210183 AAAATAATAAATAAT
1 AAAATAATAAA-AAT
*
27210198 AAAATAATAAGAA-
1 AAAATAATAAAAAT
27210211 AAAATAAATAAAAAT
1 AAAAT-AATAAAAAT
27210226 AAAATAA-ACTAAAAT
1 AAAATAATA--AAAAT
27210241 AAAATAA
1 AAAATAA
27210248 AAATAAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
13 6 0.14
14 11 0.25
15 27 0.61
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (14 bp):
AAAATAATAAAAAT
Found at i:27210230 original size:11 final size:11
Alignment explanation
Indices: 27210188--27210255 Score: 61
Period size: 11 Copynumber: 6.2 Consensus size: 11
27210178 ATCTGAAAAT
27210188 AATAAATAATAA
1 AATAAA-AATAA
* *
27210200 AATAATAAGAA
1 AATAAAAATAA
27210211 AA-AATAAATAA
1 AATAA-AAATAA
27210222 AA-ATAAAATAA
1 AATA-AAAATAA
*
27210233 ACT-AAAATAA
1 AATAAAAATAA
27210243 AATAAAAATAA
1 AATAAAAATAA
27210254 AA
1 AA
27210256 ATTGGGTTGC
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
10 11 0.24
11 29 0.63
12 6 0.13
ACGTcount: A:0.78, C:0.01, G:0.01, T:0.19
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:27210231 original size:5 final size:5
Alignment explanation
Indices: 27210195--27210255 Score: 59
Period size: 5 Copynumber: 11.4 Consensus size: 5
27210185 AATAATAAAT
* * *
27210195 AATAA AATAA TAAGAA AAAATA AATAAA AATAA AATAA ACTAA AATAA
1 AATAA AATAA -AATAA AATA-A AAT-AA AATAA AATAA AATAA AATAA
27210243 AATAAA AATAA AA
1 AAT-AA AATAA AA
27210256 ATTGGGTTGC
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
5 30 0.64
6 16 0.34
7 1 0.02
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:27210231 original size:25 final size:25
Alignment explanation
Indices: 27210182--27210255 Score: 80
Period size: 25 Copynumber: 2.9 Consensus size: 25
27210172 ATTAATATCT
*
27210182 GAAAATAATAAATAATAAA-ATAATAA
1 GAAAA-AATAAATAA-AAATAAAATAA
27210208 GAAAAAATAAATAAAAATAAAATAA
1 GAAAAAATAAATAAAAATAAAATAA
*
27210233 -ACTAAAATAAAATAAAAATAAAA
1 GA-AAAAAT-AAATAAAAATAAAA
27210256 ATTGGGTTGC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.09
25 20 0.47
26 19 0.44
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.19
Consensus pattern (25 bp):
GAAAAAATAAATAAAAATAAAATAA
Found at i:27213991 original size:16 final size:16
Alignment explanation
Indices: 27213970--27214004 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
27213960 TGAAATTCTA
27213970 AAAGATAAAAAAAAAT
1 AAAGATAAAAAAAAAT
* *
27213986 AAAGATAAATAAAGAT
1 AAAGATAAAAAAAAAT
27214002 AAA
1 AAA
27214005 TGAAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (16 bp):
AAAGATAAAAAAAAAT
Found at i:27213999 original size:10 final size:10
Alignment explanation
Indices: 27213982--27214015 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
27213972 AGATAAAAAA
27213982 AAATAAAGAT
1 AAATAAAGAT
27213992 AAATAAAGAT
1 AAATAAAGAT
27214002 AAATGAAA-AT
1 AAAT-AAAGAT
27214012 AAAT
1 AAAT
27214016 CCTAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 20 0.87
11 3 0.13
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (10 bp):
AAATAAAGAT
Found at i:27217776 original size:34 final size:34
Alignment explanation
Indices: 27217732--27217808 Score: 136
Period size: 34 Copynumber: 2.3 Consensus size: 34
27217722 TTTCGTCTTT
* *
27217732 TTTACCAAATTAAGCATTTAAACGGTGAAATTTC
1 TTTACGAAATTAAGCATTTAAACGGTAAAATTTC
27217766 TTTACGAAATTAAGCATTTAAACGGTAAAATTTC
1 TTTACGAAATTAAGCATTTAAACGGTAAAATTTC
27217800 TTTACGAAA
1 TTTACGAAA
27217809 CTTTCACATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (34 bp):
TTTACGAAATTAAGCATTTAAACGGTAAAATTTC
Found at i:27229561 original size:12 final size:12
Alignment explanation
Indices: 27229544--27229568 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27229534 GTTTATGCCA
27229544 AGTTTAAGTTTG
1 AGTTTAAGTTTG
27229556 AGTTTAAGTTTG
1 AGTTTAAGTTTG
27229568 A
1 A
27229569 ATTTTAGATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (12 bp):
AGTTTAAGTTTG
Found at i:27242366 original size:50 final size:50
Alignment explanation
Indices: 27242291--27242466 Score: 262
Period size: 50 Copynumber: 3.5 Consensus size: 50
27242281 TATGGCAACC
*
27242291 AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGAA
1 AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGAA
* * *
27242341 AGTGATAAGTAATAGCTTCAGCTACACTTATCTGATTAAGGACAAGTGAA
1 AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGAA
* * *
27242391 AGTGATAAGTGATAGCTTCGGCTACGCTTATCAGATCAAGGACAAATGACA
1 AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA-A
* *
27242442 AGTGAAAAGTGGTAGCTTCGGCTAC
1 AGTGATAAGTGATAGCTTCGGCTAC
27242467 CTGATCAGTG
Statistics
Matches: 113, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
50 89 0.79
51 24 0.21
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (50 bp):
AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGAA
Found at i:27242480 original size:31 final size:31
Alignment explanation
Indices: 27242442--27242590 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
27242432 ACAAATGACA
27242442 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
27242473 AGTGAAAAGTGGTAGTTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
27242504 AGTGAAAAGTGGTAGCTTCGACTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
27242535 AGTGAAAAATGGTAG-TTCTGGGTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
*
27242566 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
27242591 AAGTGACAAG
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
30 3 0.03
31 99 0.94
32 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:27242726 original size:46 final size:48
Alignment explanation
Indices: 27242659--27242878 Score: 213
Period size: 48 Copynumber: 4.7 Consensus size: 48
27242649 TGCTACTGTA
* * * * * *
27242659 TAAGACCATATCTGGGATATGGCATC-A-GTGAGATAGGTGATTCGAG
1 TAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATTCGTG
* *
27242705 TAAGACCATAGTTGGGCTATGGCATCAATATGTGATATGTGATCCGTG
1 TAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATTCGTG
* * *
27242753 TAATACCATAGCTGGGCTATGACATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATT-CGTG
* ** * *
27242802 TAAGACCATAGCTGGGCTATGACATTGATATATGA-A--T-A-T-GCG
1 TAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATTCGTG
* *
27242844 TAAGACCATAACTGGGCTATGGCATCATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCAATATGTGA
27242879 AGATGTGTAA
Statistics
Matches: 148, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
42 31 0.21
44 1 0.01
45 1 0.01
46 24 0.16
47 1 0.01
48 54 0.36
49 36 0.24
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATTCGTG
Found at i:27242761 original size:48 final size:48
Alignment explanation
Indices: 27242640--27242826 Score: 198
Period size: 48 Copynumber: 3.9 Consensus size: 48
27242630 ATGCCATCGG
* * * * * * *
27242640 TGTGATATATGCTACTGTATAAGACCATATCTGGGATATGGCATC-A-G
1 TGTGATATGTGATAC-GTGTAAGACCATAGCTGGGCTATGACATCAATA
* * * * * *
27242687 TGAGATAGGTGATTCGAGTAAGACCATAGTTGGGCTATGGCATCAATA
1 TGTGATATGTGATACGTGTAAGACCATAGCTGGGCTATGACATCAATA
* * *
27242735 TGTGATATGTGATCCGTGTAATACCATAGCTGGGCTATGACATCGATA
1 TGTGATATGTGATACGTGTAAGACCATAGCTGGGCTATGACATCAATA
27242783 TGTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGACAT
1 TGTGATATGTGA-TACGTGTAAGACCATAGCTGGGCTATGACAT
27242827 TGATATATGA
Statistics
Matches: 116, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
46 24 0.21
47 11 0.09
48 52 0.45
49 29 0.25
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (48 bp):
TGTGATATGTGATACGTGTAAGACCATAGCTGGGCTATGACATCAATA
Found at i:27242847 original size:42 final size:42
Alignment explanation
Indices: 27242801--27242896 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
27242791 GTGATTACGT
* *
27242801 GTAAGACCATAGCTGGGCTATGACATTGA-TATATGAATATGC
1 GTAAGACCATAGCTGGGCTATGACA-TCATTATATGAAGATGC
* * * *
27242843 GTAAGACCATAACTGGGCTATGGCATCATTATGTGAAGATGT
1 GTAAGACCATAGCTGGGCTATGACATCATTATATGAAGATGC
27242885 GTAAGACCATAG
1 GTAAGACCATAG
27242897 TTGAATTATG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
41 2 0.04
42 44 0.96
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (42 bp):
GTAAGACCATAGCTGGGCTATGACATCATTATATGAAGATGC
Found at i:27245640 original size:2 final size:2
Alignment explanation
Indices: 27245628--27245658 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
27245618 ATTAAGTTAT
27245628 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27245659 ATGGTTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:27245773 original size:19 final size:20
Alignment explanation
Indices: 27245727--27245767 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
27245717 AAAAGCAGGG
27245727 AAAGAAAGAAAGAAAGGAGA
1 AAAGAAAGAAAGAAAGGAGA
27245747 AAAGAAAG-AAGAAAGG-GA
1 AAAGAAAGAAAGAAAGGAGA
27245765 AAA
1 AAA
27245768 TTAAAGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.24
19 8 0.38
20 8 0.38
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (20 bp):
AAAGAAAGAAAGAAAGGAGA
Found at i:27246422 original size:6 final size:6
Alignment explanation
Indices: 27246411--27246438 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
27246401 TGTCGGATAT
27246411 TGTTAC TGTTAC TGTTAC TGTTAC TGTT
1 TGTTAC TGTTAC TGTTAC TGTTAC TGTT
27246439 TCAGATTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.18, T:0.54
Consensus pattern (6 bp):
TGTTAC
Found at i:27246486 original size:53 final size:53
Alignment explanation
Indices: 27246423--27246541 Score: 184
Period size: 53 Copynumber: 2.2 Consensus size: 53
27246413 TTACTGTTAC
* *
27246423 TGTTACTGTTACTGTTTCAGATTTGTTCTGATGAGGTACTCTGTGTATCGTAA
1 TGTTACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTAA
* * *
27246476 TGTTAATGTTACTGTTTCGGATTTGTTCCGATGAGGTACTCTGTGTACCGTAC
1 TGTTACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTAA
*
27246529 TGCTACTGTTACT
1 TGTTACTGTTACT
27246542 ATTACTGTTC
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 59 1.00
ACGTcount: A:0.18, C:0.16, G:0.23, T:0.44
Consensus pattern (53 bp):
TGTTACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTAA
Found at i:27246486 original size:59 final size:59
Alignment explanation
Indices: 27246417--27246550 Score: 172
Period size: 53 Copynumber: 2.4 Consensus size: 59
27246407 ATATTGTTAC
* *
27246417 TGTTACTGTTACTGTTACTGTTTCAGATTTGTTCTGATGAGGTACTCTGTGTATCGTAA
1 TGTTACTGTTACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTAA
* *
27246476 TGTTA-----A-TGTTACTGTTTCGGATTTGTTCCGATGAGGTACTCTGTGTACCGTAC
1 TGTTACTGTTACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTAA
* *
27246529 TGCTACTGTTACTATTACTGTT
1 TGTTACTGTTACTGTTACTGTT
27246551 CCGGCTTCGG
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
53 47 0.75
54 1 0.02
58 1 0.02
59 14 0.22
ACGTcount: A:0.18, C:0.16, G:0.22, T:0.45
Consensus pattern (59 bp):
TGTTACTGTTACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTAA
Found at i:27246917 original size:36 final size:36
Alignment explanation
Indices: 27246655--27246932 Score: 179
Period size: 36 Copynumber: 7.5 Consensus size: 36
27246645 AAAGGTATAA
* * * *
27246655 AATAACTGATTATTACTGAATAATTGACTGTTACCG
1 AATAATTGATTGTTACTGAATAACTGACTGTTACTG
* * * *
27246691 GATAATTGACTGTTACTGGAT-ATTAGACTGTTACTG
1 AATAATTGATTGTTACTGAATAACT-GACTGTTACTG
* * * *
27246727 AATAATTGAATATTACTGAATAACTGATTGTCACTG
1 AATAATTGATTGTTACTGAATAACTGACTGTTACTG
* * * *
27246763 AATGAA-TAACTGTTACTGAATAACCTAATTGTTACTG
1 AAT-AATTGATTGTTACTGAATAA-CTGACTGTTACTG
*
27246800 AAT-ATCTGATT-TTACTGAATAATTGACTGTTACTGG
1 AATAAT-TGATTGTTACTGAATAACTGACTGTTACT-G
* * ** * *
27246836 ATAACCAATCAATTGATCGATACTGAATAACTGGTTATTATTG
1 ------AAT-AATTGATTGTTACTGAATAACTGACTGTTACTG
*
27246879 AATAATTGATTGTTACCGAATAACTGACTGTTACTG
1 AATAATTGATTGTTACTGAATAACTGACTGTTACTG
* *
27246915 AATAAATAATTGTT-CTGA
1 AATAATTGATTGTTACTGA
27246933 GTGTTAATGA
Statistics
Matches: 186, Mismatches: 40, Indels: 33
0.72 0.15 0.13
Matches are distributed among these distances:
35 16 0.09
36 119 0.64
37 24 0.13
42 3 0.02
43 5 0.03
44 19 0.10
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.37
Consensus pattern (36 bp):
AATAATTGATTGTTACTGAATAACTGACTGTTACTG
Found at i:27246928 original size:18 final size:18
Alignment explanation
Indices: 27246655--27246932 Score: 159
Period size: 18 Copynumber: 15.1 Consensus size: 18
27246645 AAAGGTATAA
*
27246655 AATAACTGATTATTACTG
1 AATAACTGATTGTTACTG
* * *
27246673 AATAATTGACTGTTACCG
1 AATAACTGATTGTTACTG
* * *
27246691 GATAATTGACTGTTACTG
1 AATAACTGATTGTTACTG
* * *
27246709 GAT-ATTAGACTGTTACTG
1 AATAACT-GATTGTTACTG
* * *
27246727 AATAATTGAATATTACTG
1 AATAACTGATTGTTACTG
*
27246745 AATAACTGATTGTCACTG
1 AATAACTGATTGTTACTG
* *
27246763 AATGAA-TAACTGTTACTG
1 AAT-AACTGATTGTTACTG
*
27246781 AATAACCTAATTGTTACTG
1 AATAA-CTGATTGTTACTG
*
27246800 AATATCTGATT-TTACTG
1 AATAACTGATTGTTACTG
* *
27246817 AATAATTGACTGTTACTG
1 AATAACTGATTGTTACTG
* *
27246835 GATAACCAATCAATTGATCGATACTG
1 AATAA-C--T-GATTG-T---TACTG
* * *
27246861 AATAACTGGTTATTATTG
1 AATAACTGATTGTTACTG
* *
27246879 AATAATTGATTGTTACCG
1 AATAACTGATTGTTACTG
*
27246897 AATAACTGACTGTTACTG
1 AATAACTGATTGTTACTG
* *
27246915 AATAAATAATTGTT-CTG
1 AATAACTGATTGTTACTG
27246932 A
1 A
27246933 GTGTTAATGA
Statistics
Matches: 204, Mismatches: 42, Indels: 29
0.74 0.15 0.11
Matches are distributed among these distances:
17 23 0.11
18 142 0.70
19 20 0.10
21 2 0.01
22 5 0.02
23 2 0.01
25 1 0.00
26 9 0.04
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.37
Consensus pattern (18 bp):
AATAACTGATTGTTACTG
Found at i:27251480 original size:208 final size:208
Alignment explanation
Indices: 27251122--27251548 Score: 732
Period size: 208 Copynumber: 2.1 Consensus size: 208
27251112 GGTAAGATGT
* *
27251122 ATTTAATAGTCATACGAGCTTACTAAGCTTAATTACTTACTTTGTTTATGTTTTCTGTGTTTTAT
1 ATTTAATAGTCATACGAACTGACTAAGCTTAATTACTTACTTTGTTTATGTTTTCTGTGTTTTAT
* *
27251187 AGTATTTTGGAAGCACTAGTTTCGGAAGCCGTCAGAGATCGTGCCACACTATCAAACTCTTATTT
66 AGTATTTTGGAAGCACTAGGTTCAGAAGCCGTCAGAGATCGTGCCACACTATCAAACTCTTATTT
* *
27251252 TGGCATTTTAGACTTTACATTTTGGGTTAAATGGCATGTATAGGTGTTTTGGCTAATATGGCGTA
131 TGGCATTTTAGACTTTACATTTTGGGTTAAATGGCATGTATAGGTATTTTGGCTAATATGGCCTA
27251317 TATGTCTTGTTGA
196 TATGTCTTGTTGA
*
27251330 ATTTAATAGTCATACGAACTGACTAAGCTTAATTGCTTACTTTGTTTATGTTTTCTGTGTTTTAT
1 ATTTAATAGTCATACGAACTGACTAAGCTTAATTACTTACTTTGTTTATGTTTTCTGTGTTTTAT
* *
27251395 AGTATTTTGGAAGCGCTCGGTTCAGAAGCCGTCAGAGATCGTGCCACACTATCAAACTCTTATTT
66 AGTATTTTGGAAGCACTAGGTTCAGAAGCCGTCAGAGATCGTGCCACACTATCAAACTCTTATTT
* * *
27251460 TGGTATTTTGGACTTTACATTTTGGGTTAAATGGCATGTATTGGTATTTTGGCTAATATGGCCTA
131 TGGCATTTTAGACTTTACATTTTGGGTTAAATGGCATGTATAGGTATTTTGGCTAATATGGCCTA
27251525 TATGTCTTGTTGA
196 TATGTCTTGTTGA
27251538 ATTT--TAGTCAT
1 ATTTAATAGTCAT
27251549 TTGTTTTGGC
Statistics
Matches: 207, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
206 7 0.03
208 200 0.97
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (208 bp):
ATTTAATAGTCATACGAACTGACTAAGCTTAATTACTTACTTTGTTTATGTTTTCTGTGTTTTAT
AGTATTTTGGAAGCACTAGGTTCAGAAGCCGTCAGAGATCGTGCCACACTATCAAACTCTTATTT
TGGCATTTTAGACTTTACATTTTGGGTTAAATGGCATGTATAGGTATTTTGGCTAATATGGCCTA
TATGTCTTGTTGA
Found at i:27254252 original size:102 final size:102
Alignment explanation
Indices: 27254076--27254272 Score: 252
Period size: 102 Copynumber: 1.9 Consensus size: 102
27254066 GAATTGACGG
* * * *
27254076 GTAAGACCATGGTTGGACCATGACAATATTTATAAGTAAGACCATAACTGGGCTATGCCATTTTA
1 GTAAGACCATAGTTGGACCATGACAATATTTATAAGTAAGAACATAACTGAGCTATGCCATTCTA
27254141 ATGAAAAGACCATAACTGGGTTATGACACTTTTGAAC
66 ATGAAAAGACCATAACTGGGTTATGACACTTTTGAAC
* * ** *
27254178 GTAAGACCATAGTTGGACCAT-AGTAGTATTTATAAGTAAGAACATAGTTGAGCTATGGCATTCT
1 GTAAGACCATAGTTGGACCATGA-CAATATTTATAAGTAAGAACATAACTGAGCTATGCCATTCT
* * * * *
27254242 GATGATAAGACCTTAATTGGGTTATGGCACT
65 AATGAAAAGACCATAACTGGGTTATGACACT
27254273 ATGAATGTAA
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
101 1 0.01
102 79 0.99
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (102 bp):
GTAAGACCATAGTTGGACCATGACAATATTTATAAGTAAGAACATAACTGAGCTATGCCATTCTA
ATGAAAAGACCATAACTGGGTTATGACACTTTTGAAC
Found at i:27263136 original size:53 final size:53
Alignment explanation
Indices: 27263076--27263180 Score: 183
Period size: 53 Copynumber: 2.0 Consensus size: 53
27263066 TGTTTGAGTT
* *
27263076 TATTTATTTGCATAATGCAATATTGGTAGTTGTACTTGTAGTTATTCTAAGTC
1 TATTTATTTGCATAATGCAATATTGGCAGTTATACTTGTAGTTATTCTAAGTC
*
27263129 TATTTATTTGCATATTGCAATATTGGCAGTTATACTTGTAGTTATTCTAAGT
1 TATTTATTTGCATAATGCAATATTGGCAGTTATACTTGTAGTTATTCTAAGT
27263181 AAAGCAATGT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.48
Consensus pattern (53 bp):
TATTTATTTGCATAATGCAATATTGGCAGTTATACTTGTAGTTATTCTAAGTC
Found at i:27265383 original size:11 final size:11
Alignment explanation
Indices: 27265367--27265392 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
27265357 TTAAGAAATC
27265367 TTAATTAATAT
1 TTAATTAATAT
27265378 TTAATTAATAT
1 TTAATTAATAT
27265389 TTAA
1 TTAA
27265393 AAATTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TTAATTAATAT
Found at i:27265409 original size:19 final size:20
Alignment explanation
Indices: 27265385--27265459 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 20
27265375 TATTTAATTA
27265385 ATATTTAA-AAATTAAAAAT
1 ATATTTAACAAATTAAAAAT
* *
27265404 ATATTTAACAAATATACTTAATT
1 ATATTTAACAAAT-TA--AAAAT
27265427 AATATTTAA-AAATTAAAAAT
1 -ATATTTAACAAATTAAAAAT
*
27265447 ATATTTAAGAAAT
1 ATATTTAACAAAT
27265460 CTGCGGATCA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
19 16 0.35
20 11 0.24
21 2 0.04
22 2 0.04
23 7 0.15
24 8 0.17
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (20 bp):
ATATTTAACAAATTAAAAAT
Found at i:27265432 original size:43 final size:43
Alignment explanation
Indices: 27265378--27265459 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 43
27265368 TAATTAATAT
27265378 TTAATTAATATTTAAAAATTAAAAATATATTTAACAAATATAC
1 TTAATTAATATTTAAAAATTAAAAATATATTTAACAAATATAC
*
27265421 TTAATTAATATTTAAAAATTAAAAATATATTTAAGAAAT
1 TTAATTAATATTTAAAAATTAAAAATATATTTAACAAAT
27265460 CTGCGGATCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (43 bp):
TTAATTAATATTTAAAAATTAAAAATATATTTAACAAATATAC
Found at i:27266343 original size:24 final size:24
Alignment explanation
Indices: 27266311--27266414 Score: 163
Period size: 24 Copynumber: 4.3 Consensus size: 24
27266301 CAGAGAACAG
27266311 GAAGGTGGCAAGAGTACGACACAA
1 GAAGGTGGCAAGAGTACGACACAA
27266335 GAAGGTGGCAAGAGTACGACACAA
1 GAAGGTGGCAAGAGTACGACACAA
*
27266359 GAAGGTGGCAAGAGTAAGACACAA
1 GAAGGTGGCAAGAGTACGACACAA
* * * *
27266383 GAAGGTAGTAAGAATAGGACACAA
1 GAAGGTGGCAAGAGTACGACACAA
27266407 GAAGGTGG
1 GAAGGTGG
27266415 AAACAAGACT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
24 74 1.00
ACGTcount: A:0.43, C:0.12, G:0.35, T:0.10
Consensus pattern (24 bp):
GAAGGTGGCAAGAGTACGACACAA
Found at i:27267439 original size:39 final size:39
Alignment explanation
Indices: 27267384--27267463 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
27267374 TACTCATCAC
*
27267384 ATATATAATAAGGGTAATTACATATTATTATTTACTATT
1 ATATATAATAAAGGTAATTACATATTATTATTTACTATT
*
27267423 ATATATAATAAAGGTAATTACATATTATTATTTATTATT
1 ATATATAATAAAGGTAATTACATATTATTATTTACTATT
27267462 AT
1 AT
27267464 GATAAGTTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.47
Consensus pattern (39 bp):
ATATATAATAAAGGTAATTACATATTATTATTTACTATT
Found at i:27282261 original size:20 final size:20
Alignment explanation
Indices: 27282221--27282260 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
27282211 TTATGTATTA
*
27282221 TGTTCTTTTGAAATTCATTT
1 TGTTATTTTGAAATTCATTT
*
27282241 TGTTATTTTTAAATTC-TTT
1 TGTTATTTTGAAATTCATTT
27282260 T
1 T
27282261 TCAATGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.65
Consensus pattern (20 bp):
TGTTATTTTGAAATTCATTT
Found at i:27286161 original size:42 final size:42
Alignment explanation
Indices: 27286102--27286185 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
27286092 CAAGAAGATG
27286102 ATAGAAAAAAGGATGGAGAGATAAATGAAAGCTTGCTTCTAT
1 ATAGAAAAAAGGATGGAGAGATAAATGAAAGCTTGCTTCTAT
* *
27286144 ATAGAAAAAAGGATGGAGGGGTAAATGAAAGCTTGCTTCTAT
1 ATAGAAAAAAGGATGGAGAGATAAATGAAAGCTTGCTTCTAT
27286186 CACGTGTAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.43, C:0.07, G:0.26, T:0.24
Consensus pattern (42 bp):
ATAGAAAAAAGGATGGAGAGATAAATGAAAGCTTGCTTCTAT
Found at i:27291475 original size:14 final size:14
Alignment explanation
Indices: 27291452--27291481 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
27291442 TTGAAAATAT
27291452 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
27291466 GTTGATTTGGATTG
1 GTTGAATTGGATTG
27291480 GT
1 GT
27291482 CTCAATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:27292370 original size:25 final size:25
Alignment explanation
Indices: 27292342--27292413 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
27292332 ACGAACTATA
* *
27292342 AATCGGTATGCCCTCACGAGCTGTG
1 AATCGGTAAGCCCTCACGAGCTGAG
* *
27292367 AATCGATAAGCTCAT-ACGAGCTGAG
1 AATCGGTAAGC-CCTCACGAGCTGAG
* *
27292392 AATCAGTAAGCTCTCACGAGCT
1 AATCGGTAAGCCCTCACGAGCT
27292414 ACAAATCAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
24 1 0.03
25 34 0.92
26 2 0.05
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (25 bp):
AATCGGTAAGCCCTCACGAGCTGAG
Found at i:27292420 original size:25 final size:25
Alignment explanation
Indices: 27292367--27292439 Score: 87
Period size: 25 Copynumber: 2.9 Consensus size: 25
27292357 ACGAGCTGTG
* *
27292367 AATCGATAAGCTCATACGAGCTGA-G
1 AATCAATAAGCTCATACGAGCT-ACA
*
27292392 AATCAGTAAGCTC-TCACGAGCTACA
1 AATCAATAAGCTCAT-ACGAGCTACA
27292417 AATCAATAAGCTCATACGAGCTA
1 AATCAATAAGCTCATACGAGCTA
27292440 TGGTGTGTCC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 2 0.05
25 38 0.93
26 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (25 bp):
AATCAATAAGCTCATACGAGCTACA
Found at i:27294161 original size:36 final size:35
Alignment explanation
Indices: 27294120--27294193 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 35
27294110 TCTTATTTTT
27294120 ATTTTTTTAATAATTAATATGTGTTTTTATATGATC
1 ATTTTTTTAATAATTAATATGTG-TTTTATATGATC
*
27294156 ATTTTTTTAATGATTAATATGTGTTTTATATGATC
1 ATTTTTTTAATAATTAATATGTGTTTTATATGATC
27294191 ATT
1 ATT
27294194 CAATGTTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 15 0.41
36 22 0.59
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.58
Consensus pattern (35 bp):
ATTTTTTTAATAATTAATATGTGTTTTATATGATC
Found at i:27298413 original size:3 final size:3
Alignment explanation
Indices: 27298405--27298457 Score: 83
Period size: 3 Copynumber: 18.0 Consensus size: 3
27298395 AGATATTTAC
27298405 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27298451 TCTA TTA
1 T-TA TTA
27298458 ATTGAGTTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.09
3 40 0.85
4 3 0.06
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:27298609 original size:16 final size:15
Alignment explanation
Indices: 27298588--27298632 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
27298578 TAAATAAGGT
*
27298588 AATAAAATAAAGAATG
1 AATAAAA-AAAGAAAG
27298604 AATAAAAGAAAGAAAG
1 AATAAAA-AAAGAAAG
27298620 AA-AAAAAAAGAAA
1 AATAAAAAAAGAAA
27298633 TAGTTACGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 7 0.26
15 4 0.15
16 16 0.59
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (15 bp):
AATAAAAAAAGAAAG
Found at i:27300654 original size:20 final size:20
Alignment explanation
Indices: 27300629--27300706 Score: 120
Period size: 20 Copynumber: 3.9 Consensus size: 20
27300619 TGCCCATAGG
27300629 CAGGCCACACGGCCATGTTC
1 CAGGCCACACGGCCATGTTC
27300649 CAGGCCACACGGCCATGTTC
1 CAGGCCACACGGCCATGTTC
* *
27300669 CAGGCCACACGGTCATGTCC
1 CAGGCCACACGGCCATGTTC
* *
27300689 CAGGCCATACGGGCATGT
1 CAGGCCACACGGCCATGT
27300707 GTAACACCCC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.21, C:0.37, G:0.27, T:0.15
Consensus pattern (20 bp):
CAGGCCACACGGCCATGTTC
Found at i:27303164 original size:13 final size:13
Alignment explanation
Indices: 27303148--27303187 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
27303138 CAATCTCATA
27303148 TCTCAATTTCAAT
1 TCTCAATTTCAAT
27303161 TCTCAA-TTCAATT
1 TCTCAATTTCAA-T
27303174 TCTC-ATTTC-AT
1 TCTCAATTTCAAT
27303185 TCT
1 TCT
27303188 AATAGCTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.16
12 7 0.28
13 14 0.56
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (13 bp):
TCTCAATTTCAAT
Found at i:27303173 original size:18 final size:19
Alignment explanation
Indices: 27303135--27303175 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
27303125 TGGTTCATGT
27303135 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
27303154 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
27303172 TTTC
1 TTTC
27303176 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:27304740 original size:19 final size:19
Alignment explanation
Indices: 27304716--27304754 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
27304706 AATACTTATT
*
27304716 TATTATTTATACATGTGTA
1 TATTATTAATACATGTGTA
27304735 TATTATTAATACATGTGTA
1 TATTATTAATACATGTGTA
27304754 T
1 T
27304755 CTATTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (19 bp):
TATTATTAATACATGTGTA
Found at i:27304762 original size:19 final size:19
Alignment explanation
Indices: 27304719--27304762 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
27304709 ACTTATTTAT
27304719 TATTT-ATACATGTGTATA
1 TATTTAATACATGTGTATA
*
27304737 T-TATTAATACATGTGTATC
1 TAT-TTAATACATGTGTATA
27304756 TATTTAA
1 TATTTAA
27304763 AACCATACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 1 0.05
18 3 0.14
19 17 0.77
20 1 0.05
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.50
Consensus pattern (19 bp):
TATTTAATACATGTGTATA
Found at i:27308685 original size:21 final size:21
Alignment explanation
Indices: 27308661--27308761 Score: 143
Period size: 20 Copynumber: 4.8 Consensus size: 21
27308651 GACACATAAA
* *
27308661 GTGCCTAAAACGACACACGAG
1 GTGCCTGATACGACACACGAG
27308682 GTGCCTGATA-GACACACGAG
1 GTGCCTGATACGACACACGAG
27308702 GTGCCTGATA-GACACACGAG
1 GTGCCTGATACGACACACGAG
*
27308722 GTGCCTGATACGACACACGAA
1 GTGCCTGATACGACACACGAG
27308743 GTGCCTGAAATACGACACA
1 GTGCCTG--ATACGACACA
27308762 TAAAGTGTCT
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
20 40 0.54
21 24 0.32
23 10 0.14
ACGTcount: A:0.34, C:0.27, G:0.26, T:0.14
Consensus pattern (21 bp):
GTGCCTGATACGACACACGAG
Found at i:27308695 original size:41 final size:41
Alignment explanation
Indices: 27308650--27308761 Score: 145
Period size: 41 Copynumber: 2.7 Consensus size: 41
27308640 GATCAGTATA
**
27308650 AGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGAT
1 AGACACACGAAGTGCCTAAAACGACACACGAGGTGCCTGAT
* * *
27308691 AGACACACGAGGTGCCTGATA-GACACACGAGGTGCCTGAT
1 AGACACACGAAGTGCCTAAAACGACACACGAGGTGCCTGAT
27308731 ACGACACACGAAGTGCCTGAAATACGACACA
1 A-GACACACGAAGTGCCT-AAA-ACGACACA
27308762 TAAAGTGTCT
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
40 20 0.34
41 31 0.53
42 1 0.02
43 1 0.02
44 6 0.10
ACGTcount: A:0.37, C:0.26, G:0.24, T:0.13
Consensus pattern (41 bp):
AGACACACGAAGTGCCTAAAACGACACACGAGGTGCCTGAT
Found at i:27309169 original size:15 final size:15
Alignment explanation
Indices: 27309144--27309201 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
27309134 TCATATATAT
27309144 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
27309160 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
27309175 AATAATTTCAATCAA
1 TATAAATTCAATCAA
27309190 TATAAATTCAAT
1 TATAAATTCAAT
27309202 AAAACAGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:27309186 original size:30 final size:28
Alignment explanation
Indices: 27309147--27309205 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
27309137 TATATATTAT
27309147 ATAATTCAATCAATATAAATTCAATCAAA
1 ATAATTCAATCAATATAAATTCAAT-AAA
27309176 ATAATTTCAATCAATATAAATTCAATAAA
1 ATAA-TTCAATCAATATAAATTCAATAAA
27309205 A
1 A
27309206 CAGATATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
ATAATTCAATCAATATAAATTCAATAAA
Found at i:27310762 original size:8 final size:8
Alignment explanation
Indices: 27310749--27310775 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
27310739 TATCTTTATT
27310749 ATATAATA
1 ATATAATA
27310757 ATATAATA
1 ATATAATA
27310765 ATATAATA
1 ATATAATA
27310773 ATA
1 ATA
27310776 CACTAAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
ATATAATA
Found at i:27315390 original size:23 final size:21
Alignment explanation
Indices: 27315352--27315433 Score: 119
Period size: 21 Copynumber: 3.8 Consensus size: 21
27315342 GACACATAAA
* *
27315352 GTGCCTAAAACGACACACGAG
1 GTGCCTGATACGACACACGAG
27315373 GTGCCTGATACGACACACGAG
1 GTGCCTGATACGACACACGAG
*
27315394 GTGCCTGATACGACACACGAA
1 GTGCCTGATACGACACACGAG
27315415 GTGCCTGAAATACGACACA
1 GTGCCTG--ATACGACACA
27315434 TAAAGTGTCT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
21 46 0.82
23 10 0.18
ACGTcount: A:0.34, C:0.28, G:0.24, T:0.13
Consensus pattern (21 bp):
GTGCCTGATACGACACACGAG
Found at i:27315445 original size:23 final size:23
Alignment explanation
Indices: 27315342--27315445 Score: 94
Period size: 21 Copynumber: 4.8 Consensus size: 23
27315332 ATCAGTATAA
*
27315342 GACACATAAAGTGCCT-AAA-AC
1 GACACACAAAGTGCCTGAAATAC
* *
27315363 GACACACGAGGTGCCTG--ATAC
1 GACACACAAAGTGCCTGAAATAC
* *
27315384 GACACACGAGGTGCCTG--ATAC
1 GACACACAAAGTGCCTGAAATAC
*
27315405 GACACACGAAGTGCCTGAAATAC
1 GACACACAAAGTGCCTGAAATAC
* *
27315428 GACACATAAAGTGTCTGA
1 GACACACAAAGTGCCTGA
27315446 TCGATAAAGC
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
20 1 0.01
21 52 0.72
23 19 0.26
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.15
Consensus pattern (23 bp):
GACACACAAAGTGCCTGAAATAC
Found at i:27315841 original size:15 final size:15
Alignment explanation
Indices: 27315816--27315873 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
27315806 TCATATATAT
27315816 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
27315832 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
27315847 AATAATTTCAATCAA
1 TATAAATTCAATCAA
27315862 TATAAATTCAAT
1 TATAAATTCAAT
27315874 AAAACAGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:27315858 original size:30 final size:28
Alignment explanation
Indices: 27315819--27315877 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
27315809 TATATATTAT
27315819 ATAATTCAATCAATATAAATTCAATCAAA
1 ATAATTCAATCAATATAAATTCAAT-AAA
27315848 ATAATTTCAATCAATATAAATTCAATAAA
1 ATAA-TTCAATCAATATAAATTCAATAAA
27315877 A
1 A
27315878 CAGATATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
ATAATTCAATCAATATAAATTCAATAAA
Found at i:27316036 original size:2 final size:2
Alignment explanation
Indices: 27316029--27316107 Score: 77
Period size: 2 Copynumber: 39.0 Consensus size: 2
27316019 ATATCTCATT
* * * * *
27316029 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA TA TA TA TA TA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
* **
27316071 TCT CA TT CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 -CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
27316108 GATATATATA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.47, C:0.42, G:0.00, T:0.11
Consensus pattern (2 bp):
CA
Found at i:27317374 original size:22 final size:23
Alignment explanation
Indices: 27317340--27317385 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
27317330 AACCTTCAAT
*
27317340 TTTCTCTTTTCTCCCTTTCTTTC
1 TTTCTCTTTTCTCCCTTGCTTTC
27317363 TTTCT-TTTTCTCCCTTGCTTTC
1 TTTCTCTTTTCTCCCTTGCTTTC
27317385 T
1 T
27317386 GTTTCGTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTCTCTTTTCTCCCTTGCTTTC
Found at i:27317448 original size:5 final size:5
Alignment explanation
Indices: 27317433--27317474 Score: 75
Period size: 5 Copynumber: 8.2 Consensus size: 5
27317423 TTCTATAGTT
27317433 TATATA TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
27317475 TAAAACATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 32 0.89
6 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:27320599 original size:38 final size:38
Alignment explanation
Indices: 27320548--27320704 Score: 208
Period size: 38 Copynumber: 4.1 Consensus size: 38
27320538 TTAAGCTCGA
*
27320548 ATATAATATCAGCACTAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
* *
27320586 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCAGG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
* * *
27320624 ATATATTACCAGCACAAAGCCTGCGAGATTTAACCCGG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
* *
27320662 ATATAATACCAACA-TATAGCCTGCGGGTCTTTAAGCCCGG
1 ATATAATACCAGCACTA-AGCCTGCGGG-ATTTAA-CCCGG
27320702 ATA
1 ATA
27320705 CACATAAAAT
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
37 1 0.01
38 90 0.87
39 5 0.05
40 8 0.08
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (38 bp):
ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
Found at i:27323756 original size:15 final size:15
Alignment explanation
Indices: 27323733--27323764 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
27323723 TGTAAAACTA
27323733 ATGTATGATATTTTT
1 ATGTATGATATTTTT
*
27323748 ATGTTTGATATTTTT
1 ATGTATGATATTTTT
27323763 AT
1 AT
27323765 ACTATGCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (15 bp):
ATGTATGATATTTTT
Found at i:27327556 original size:21 final size:21
Alignment explanation
Indices: 27327530--27327582 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
27327520 CATTATTTCT
* *
27327530 AATCTCACCGCTATAGTATCC
1 AATCTCACCACTATAGTAACC
*
27327551 AATCTCACCACTATAGTAACT
1 AATCTCACCACTATAGTAACC
27327572 AATCTCACCAC
1 AATCTCACCAC
27327583 CACCGCTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.34, C:0.34, G:0.06, T:0.26
Consensus pattern (21 bp):
AATCTCACCACTATAGTAACC
Found at i:27327777 original size:39 final size:40
Alignment explanation
Indices: 27327723--27327804 Score: 157
Period size: 39 Copynumber: 2.1 Consensus size: 40
27327713 TTTCTTTCTT
27327723 TTTGCATTTTATAATAAAAGGTTAAATTTTAGTTTTA-TA
1 TTTGCATTTTATAATAAAAGGTTAAATTTTAGTTTTAGTA
27327762 TTTGCATTTTATAATAAAAGGTTAAATTTTAGTTTTAGTA
1 TTTGCATTTTATAATAAAAGGTTAAATTTTAGTTTTAGTA
27327802 TTT
1 TTT
27327805 TAATATGCCT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 37 0.88
40 5 0.12
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.52
Consensus pattern (40 bp):
TTTGCATTTTATAATAAAAGGTTAAATTTTAGTTTTAGTA
Found at i:27332713 original size:69 final size:70
Alignment explanation
Indices: 27332621--27332760 Score: 264
Period size: 69 Copynumber: 2.0 Consensus size: 70
27332611 TCTTTCTGTT
*
27332621 ATATGGTTTGAAAGGCATAGTTTAAGTTGCAGTGGTTTTCATGAAGAAAAAGTATTATATATTTA
1 ATATGGTTTGAAAGGCAAAGTTTAAGTTGCAGTGGTTTTCATGAAGAAAAAGTATTATATATTTA
27332686 CTCCA
66 CTCCA
27332691 ATATGGTTTG-AAGGCAAAGTTTAAGTTGCAGTGGTTTTCATGAAGAAAAAGTATTATATATTTA
1 ATATGGTTTGAAAGGCAAAGTTTAAGTTGCAGTGGTTTTCATGAAGAAAAAGTATTATATATTTA
27332755 CTCCA
66 CTCCA
27332760 A
1 A
27332761 ATAGATTCCA
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
69 59 0.86
70 10 0.14
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (70 bp):
ATATGGTTTGAAAGGCAAAGTTTAAGTTGCAGTGGTTTTCATGAAGAAAAAGTATTATATATTTA
CTCCA
Found at i:27348887 original size:16 final size:16
Alignment explanation
Indices: 27348866--27348900 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
27348856 GTAAGTGCGG
27348866 AAATTCAATTATTCTA
1 AAATTCAATTATTCTA
27348882 AAATTCAATTATTCTA
1 AAATTCAATTATTCTA
27348898 AAA
1 AAA
27348901 AATCAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATTCAATTATTCTA
Found at i:27348906 original size:17 final size:16
Alignment explanation
Indices: 27348870--27348906 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
27348860 GTGCGGAAAT
*
27348870 TCAATTATTCTAAAAT
1 TCAATTATTCTAAAAA
27348886 TCAATTATTCTAAAAAA
1 TCAATTATTCT-AAAAA
27348903 TCAA
1 TCAA
27348907 AACAGAGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.38
Consensus pattern (16 bp):
TCAATTATTCTAAAAA
Found at i:27350068 original size:15 final size:15
Alignment explanation
Indices: 27350048--27350079 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
27350038 CCAATAGCCA
27350048 TAGCCTCAACATAAG
1 TAGCCTCAACATAAG
27350063 TAGCCTCAACATAAG
1 TAGCCTCAACATAAG
27350078 TA
1 TA
27350080 ATGAACTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.22
Consensus pattern (15 bp):
TAGCCTCAACATAAG
Found at i:27354741 original size:21 final size:22
Alignment explanation
Indices: 27354717--27354757 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
27354707 CTCATATTAC
27354717 ATTTTAGTCACT-TAC-GTTATT
1 ATTTT-GTCACTCTACTGTTATT
27354738 ATTTTGTCACTCTACTGTTA
1 ATTTTGTCACTCTACTGTTA
27354758 AGTTTCATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 8 0.44
22 4 0.22
ACGTcount: A:0.22, C:0.17, G:0.10, T:0.51
Consensus pattern (22 bp):
ATTTTGTCACTCTACTGTTATT
Found at i:27356050 original size:15 final size:14
Alignment explanation
Indices: 27356030--27356070 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
27356020 ACTTTTAACT
27356030 AAAATTATATATTTA
1 AAAATTAT-TATTTA
*
27356045 AAAATTATTAATTA
1 AAAATTATTATTTA
*
27356059 AAATTTATTATT
1 AAAATTATTATT
27356071 AAATATTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AAAATTATTATTTA
Found at i:27356078 original size:14 final size:14
Alignment explanation
Indices: 27356024--27356083 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
27356014 AATTTTACTT
*
27356024 TTAACTAAAA-TTA
1 TTAATTAAAATTTA
* *
27356037 TATATTTAAAAATTA
1 T-TAATTAAAATTTA
27356052 TTAATTAAAATTTA
1 TTAATTAAAATTTA
*
27356066 TT-ATTAAATATTTG
1 TTAATTAAA-ATTTA
27356080 TTAA
1 TTAA
27356084 GAATAAAGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
13 7 0.18
14 26 0.68
15 5 0.13
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (14 bp):
TTAATTAAAATTTA
Found at i:27362718 original size:17 final size:18
Alignment explanation
Indices: 27362685--27362718 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27362675 TTCATAGCAA
*
27362685 CTTTCTTTCTCCTCTTGT
1 CTTTCTTTCTACTCTTGT
27362703 CTTTCTTT-TACTCTTG
1 CTTTCTTTCTACTCTTG
27362719 GCCAGTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.03, C:0.29, G:0.06, T:0.62
Consensus pattern (18 bp):
CTTTCTTTCTACTCTTGT
Found at i:27371407 original size:41 final size:41
Alignment explanation
Indices: 27371354--27371433 Score: 160
Period size: 41 Copynumber: 2.0 Consensus size: 41
27371344 TGTGTTAACC
27371354 CACTGGACGAGGCAGTCGTATGTTAACCCATGTTGCCTTAA
1 CACTGGACGAGGCAGTCGTATGTTAACCCATGTTGCCTTAA
27371395 CACTGGACGAGGCAGTCGTATGTTAACCCATGTTGCCTT
1 CACTGGACGAGGCAGTCGTATGTTAACCCATGTTGCCTT
27371434 CGTAATCTGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (41 bp):
CACTGGACGAGGCAGTCGTATGTTAACCCATGTTGCCTTAA
Found at i:27374711 original size:18 final size:17
Alignment explanation
Indices: 27374671--27374711 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
27374661 AAATGTCTTC
27374671 CCAACACGGTTCATTCT
1 CCAACACGGTTCATTCT
**
27374688 TAAACACGGTTCCATTCT
1 CCAACACGGTT-CATTCT
27374706 CCAACA
1 CCAACA
27374712 TAATTGGTGG
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.29, C:0.34, G:0.10, T:0.27
Consensus pattern (17 bp):
CCAACACGGTTCATTCT
Found at i:27382928 original size:23 final size:23
Alignment explanation
Indices: 27382898--27382944 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
27382888 ATAATTTTAG
27382898 ATATTGCAATACTTATGAGATCA
1 ATATTGCAATACTTATGAGATCA
27382921 ATATTGCAATACTTATGAGATCA
1 ATATTGCAATACTTATGAGATCA
27382944 A
1 A
27382945 CTCTACTCTT
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:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (23 bp):
ATATTGCAATACTTATGAGATCA
Found at i:27383137 original size:2 final size:2
Alignment explanation
Indices: 27383126--27383163 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
27383116 ATCTATTTGG
27383126 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27383164 TATTCTGCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27384664 original size:25 final size:25
Alignment explanation
Indices: 27384636--27384688 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
27384626 CCTTAACATA
27384636 ATTTAAGTTT-ATATAAGTTTATATG
1 ATTT-AGTTTGATATAAGTTTATATG
* * *
27384661 ATTTATTTTGTTATAAGTTTTTATG
1 ATTTAGTTTGATATAAGTTTATATG
27384686 ATT
1 ATT
27384689 AAAACTACAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.58
Consensus pattern (25 bp):
ATTTAGTTTGATATAAGTTTATATG
Found at i:27388953 original size:2 final size:2
Alignment explanation
Indices: 27388902--27388934 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
27388892 CTAAACTTAA
27388902 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
27388935 ATGGATTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:27392359 original size:2 final size:2
Alignment explanation
Indices: 27392347--27392376 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
27392337 TAAATACTAG
*
27392347 TA TA GA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27392377 ACTAATGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:27393063 original size:54 final size:54
Alignment explanation
Indices: 27392981--27393126 Score: 249
Period size: 54 Copynumber: 2.7 Consensus size: 54
27392971 ACTAAATTGC
27392981 GGTGCATCAATTAAATTGCATAGGTAATTACAATAAAATGAAAACATTAATTAT
1 GGTGCATCAATTAAATTGCATAGGTAATTACAATAAAATGAAAACATTAATTAT
* *
27393035 GGTGCATCAATAAAATTGCATAGGTAATTACAATAAAATGACAACATTAATTAT
1 GGTGCATCAATTAAATTGCATAGGTAATTACAATAAAATGAAAACATTAATTAT
*
27393089 GGTGCATCAGTTAAATTGCAT-GAGTAATTACAATAAAA
1 GGTGCATCAATTAAATTGCATAG-GTAATTACAATAAAA
27393127 ATTAATTAAT
Statistics
Matches: 87, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
53 1 0.01
54 86 0.99
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.30
Consensus pattern (54 bp):
GGTGCATCAATTAAATTGCATAGGTAATTACAATAAAATGAAAACATTAATTAT
Found at i:27393275 original size:38 final size:38
Alignment explanation
Indices: 27393226--27393301 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
27393216 TGAATTTTAC
27393226 AAAATTAACAGTAATTATGGTGCATTAATTAAATTGCA
1 AAAATTAACAGTAATTATGGTGCATTAATTAAATTGCA
27393264 AAAATTAACAGTAATTATGGTGCATTAATTAAATTGCA
1 AAAATTAACAGTAATTATGGTGCATTAATTAAATTGCA
27393302 CGGTAATTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (38 bp):
AAAATTAACAGTAATTATGGTGCATTAATTAAATTGCA
Found at i:27395438 original size:38 final size:38
Alignment explanation
Indices: 27395387--27395464 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
27395377 GAACTAATAG
27395387 TAGAATTTAACATATTCTTTTCAAATAAAATTAGTGGA
1 TAGAATTTAACATATTCTTTTCAAATAAAATTAGTGGA
27395425 TAGAATTTAACATATTCTTTTCAAATAAAATTAGTGGA
1 TAGAATTTAACATATTCTTTTCAAATAAAATTAGTGGA
27395463 TA
1 TA
27395465 TTTTCTAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (38 bp):
TAGAATTTAACATATTCTTTTCAAATAAAATTAGTGGA
Found at i:27395615 original size:2 final size:2
Alignment explanation
Indices: 27395610--27395635 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27395600 TGTTTTTTTA
27395610 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
27395636 TTGTCTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27396717 original size:22 final size:22
Alignment explanation
Indices: 27396692--27396734 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
27396682 GGTTAGTTCT
*
27396692 TATGAGAT-TTATTTTGTTAATA
1 TATG-GATGTTATTGTGTTAATA
*
27396714 TATGGTTGTTATTGTGTTAAT
1 TATGGATGTTATTGTGTTAAT
27396735 TTTTTACTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.56
Consensus pattern (22 bp):
TATGGATGTTATTGTGTTAATA
Found at i:27397032 original size:21 final size:21
Alignment explanation
Indices: 27397008--27397056 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
27396998 TGTTTGAATT
27397008 GATTCTTTTTTTGTTCAAACC
1 GATTCTTTTTTTGTTCAAACC
* * *
27397029 GATTC-ATTTTTGTTTAAATC
1 GATTCTTTTTTTGTTCAAACC
*
27397049 AATTCTTT
1 GATTCTTT
27397057 GTTGTTTAAC
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.22, C:0.14, G:0.08, T:0.55
Consensus pattern (21 bp):
GATTCTTTTTTTGTTCAAACC
Found at i:27397053 original size:20 final size:19
Alignment explanation
Indices: 27397015--27397072 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
27397005 ATTGATTCTT
* * *
27397015 TTTTTGTTCAAACCGATTC
1 TTTTTGTTTAAATCAATTC
27397034 ATTTTTGTTTAAATCAATTC
1 -TTTTTGTTTAAATCAATTC
*
27397054 TTTGTTGTTTAACTCAATT
1 TTT-TTGTTTAAATCAATT
27397073 TAAACTCCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.24, C:0.14, G:0.09, T:0.53
Consensus pattern (19 bp):
TTTTTGTTTAAATCAATTC
Found at i:27397777 original size:18 final size:17
Alignment explanation
Indices: 27397743--27397797 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 17
27397733 ATATTTAAAA
27397743 AATTTAGAAAAAAATAT
1 AATTTAGAAAAAAATAT
27397760 AATTTAGAAAAAACATAT
1 AATTTAGAAAAAA-ATAT
* *
27397778 AAATTATAAAAAAATTAT
1 AATTTAGAAAAAAA-TAT
27397796 AA
1 AA
27397798 GAATAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 14 0.41
18 20 0.59
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (17 bp):
AATTTAGAAAAAAATAT
Found at i:27397876 original size:18 final size:19
Alignment explanation
Indices: 27397853--27397900 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
27397843 TTGAAATTAA
27397853 TAATAATATTAAAAAT-TT
1 TAATAATATTAAAAATATT
* *
27397871 TAATAAAAATAAAAATATT
1 TAATAATATTAAAAATATT
*
27397890 TCAAAAATATT
1 T-AATAATATT
27397901 TTTTAATAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 14 0.61
19 3 0.13
20 6 0.26
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATAATATTAAAAATATT
Found at i:27398812 original size:3 final size:3
Alignment explanation
Indices: 27398804--27398833 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
27398794 TTATAAAAAT
27398804 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
27398834 GCCGTTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:27399002 original size:24 final size:23
Alignment explanation
Indices: 27398940--27399007 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 23
27398930 ATTAATTTAA
*
27398940 TTTAAATTTTTGGGTTTTTATTT
1 TTTAAATTTTTAGGTTTTTATTT
*
27398963 TTT-AATTTTTGGAGGTTTTTCTGTT
1 TTTAAATTTTT--AGGTTTTTAT-TT
*
27398988 TTTAAATTTCTAGGTTTTTA
1 TTTAAATTTTTAGGTTTTTA
27399008 GGTGTTCGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
22 7 0.19
23 3 0.08
24 16 0.43
25 5 0.14
26 6 0.16
ACGTcount: A:0.18, C:0.03, G:0.15, T:0.65
Consensus pattern (23 bp):
TTTAAATTTTTAGGTTTTTATTT
Found at i:27412198 original size:20 final size:20
Alignment explanation
Indices: 27412143--27412199 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
27412133 AATTCAAATT
* *
27412143 TATTTTATAAAAAACATAAAC
1 TATTTTATATAAAATA-AAAC
* **
27412164 TA-TATATATTTAATAAAAC
1 TATTTTATATAAAATAAAAC
27412183 TATTTTATATAAAATAA
1 TATTTTATATAAAATAA
27412200 TTAAGATGCA
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
19 6 0.22
20 19 0.70
21 2 0.07
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.40
Consensus pattern (20 bp):
TATTTTATATAAAATAAAAC
Found at i:27412287 original size:43 final size:41
Alignment explanation
Indices: 27412238--27412322 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 41
27412228 TTATTGTATG
27412238 ATATTATA-TGA-AATAATGAAAATATTATTTATTATTTATTATT
1 ATATTATATTGACAAT--TGAAAA-ATTATTTATT-TTTATTATT
* *
27412281 ATATTATATTGACAATTGAAAAATTTTTTATTTTTGTTATT
1 ATATTATATTGACAATTGAAAAATTATTTATTTTTATTATT
27412322 A
1 A
27412323 AATTTATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
41 9 0.24
42 9 0.24
43 14 0.37
44 3 0.08
45 3 0.08
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (41 bp):
ATATTATATTGACAATTGAAAAATTATTTATTTTTATTATT
Found at i:27415444 original size:3 final size:3
Alignment explanation
Indices: 27415436--27415473 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
27415426 AATAAAAATA
27415436 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
27415474 AGAAGCAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:27440445 original size:42 final size:42
Alignment explanation
Indices: 27440386--27440502 Score: 128
Period size: 42 Copynumber: 2.7 Consensus size: 42
27440376 GATATTCATA
* *
27440386 AGATCTTAAACCCCTAAGCAGTAGGGTAACAGA-CCAAATTG
1 AGATCTTAAACCCCTAAGCAGTAGGGTAACAGATCAAAAGTG
* * *
27440427 CAGATCTTAATCCCCTAAGTAGTAGGGAAACAGATCAAAAGTG
1 -AGATCTTAAACCCCTAAGCAGTAGGGTAACAGATCAAAAGTG
** *
27440470 ATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA
1 A-GATC-TTAAACCCCTAAGCAGTAGGGTAACA
27440503 AGCTGAATTT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 31 0.50
43 8 0.13
44 23 0.37
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (42 bp):
AGATCTTAAACCCCTAAGCAGTAGGGTAACAGATCAAAAGTG
Found at i:27440495 original size:44 final size:42
Alignment explanation
Indices: 27440390--27440543 Score: 125
Period size: 43 Copynumber: 3.6 Consensus size: 42
27440380 TTCATAAGAT
* * *
27440390 CTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGAT
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACAAAAGTGCAGAG
* * * *
27440432 CTTAATCCCCTAAGTAGTAGGGAAACAGATCAAAAGTG-ATGGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGA-CAAAAGTGCA-GAG
* * ** *
27440475 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCTGAATTTACA-AG
1 C-TTAAACCCCTAAGCAGTAGGGTAACAGA-C-AAAAGTGCAGAG
27440518 CCTTAAACCCCTAAGCAGTAGGGTAA
1 -CTTAAACCCCTAAGCAGTAGGGTAA
27440544 TAGGTTGAAA
Statistics
Matches: 89, Mismatches: 17, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
42 27 0.30
43 34 0.38
44 27 0.30
45 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (42 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGACAAAAGTGCAGAG
Found at i:27441136 original size:44 final size:44
Alignment explanation
Indices: 27440742--27441142 Score: 267
Period size: 44 Copynumber: 9.3 Consensus size: 44
27440732 GATCTTATCT
*
27440742 CCCTAAGCAGTAGTGGAGCAGATTGAAGACGAAGAACCTTAAAC
1 CCCTAAGCAGTAGTGGAACAGATTGAAGACGAAGAACCTTAAAC
* * ** * * *
27440786 CCCTAAACAGTAG-GGTAACAGGTTGAA-TTGCAG-ATCTT-ATC
1 CCCTAAGCAGTAGTGG-AACAGATTGAAGACGAAGAACCTTAAAC
* *
27440827 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAAC
1 -CCCTAAGCAGTAGTGGAACAGATTGAAGACGAAGAACCTTAAAC
* * * * * *
27440872 CCCTAAGTAGTAG-GGTAACAGGTTGAATA-GCAG-ATCTT-ATC
1 CCCTAAGCAGTAGTGG-AACAGATTGAAGACGAAGAACCTTAAAC
* *
27440913 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAAC
1 -CCCTAAGCAGTAGTGGAACAGATTGAAGACGAAGAACCTTAAAC
* * ** * * *
27440958 CCCTAAGTAGTAG-GGTAACAGGTTGAA-TTGCAG-ATCTT-ATC
1 CCCTAAGCAGTAGTGG-AACAGATTGAAGACGAAGAACCTTAAAC
*
27440999 TCCCTAAACAGTAGTGGAACAGATTGAAGACGAAGAACCTTAAAC
1 -CCCTAAGCAGTAGTGGAACAGATTGAAGACGAAGAACCTTAAAC
* * * ** * * *
27441044 CCCTAAGTAGCAG-GGTAACAGGTTGAA-TTGCAG-ATCTT-ATC
1 CCCTAAGCAGTAGTGG-AACAGATTGAAGACGAAGAACCTTAAAC
* * ** *
27441085 TCCCTAAGTAGTAGTGGAGCAGACCGAAGAGGAAGAACCTTAAAC
1 -CCCTAAGCAGTAGTGGAACAGATTGAAGACGAAGAACCTTAAAC
27441130 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
27441143 GATAACAGGT
Statistics
Matches: 263, Mismatches: 70, Indels: 48
0.69 0.18 0.13
Matches are distributed among these distances:
41 8 0.03
42 97 0.37
43 40 0.15
44 110 0.42
45 8 0.03
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (44 bp):
CCCTAAGCAGTAGTGGAACAGATTGAAGACGAAGAACCTTAAAC
Found at i:27441213 original size:86 final size:86
Alignment explanation
Indices: 27440518--27441155 Score: 827
Period size: 86 Copynumber: 7.4 Consensus size: 86
27440508 AATTTACAAG
* * * * **
27440518 CCTTAAACCCCTAAGCAGTAGGGTAATAGGTTGAAAAT-CATAGATCTT-GCTTTCCTGAAGTTG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTG-AATTGC--AGATCTTATC-TCCCT-AAGCAG
* * **
27440581 CAGTGGAGCAGATCAAAGACGAAGGG
61 TAGTGGAGCAGATCGAAGACGAAGAA
* * *** * * ** *
27440607 TCTTAAATCCCTAAGCAGTAGGGTAACAGACCGAATTGAAGATCTTAAC-CCCTAATTAGCAG-G
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
** * *
27440670 GAAATAGATCGAAGA-TAATAAA
66 G-AGCAGATCGAAGACGAA-GAA
*
27440692 CCTTAAACCCCTAAGCAGTAGGGTAACAAGTTGAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
*
27440757 GAGCAGATTGAAGACGAAGAA
66 GAGCAGATCGAAGACGAAGAA
*
27440778 CCTTAAACCCCTAAACAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
27440843 GAGCAGATCGAAGACGAAGAA
66 GAGCAGATCGAAGACGAAGAA
* *
27440864 CCTTAAACCCCTAAGTAGTAGGGTAACAGGTTGAATAGCAGATCTTATCTCCCTAAGCAGTAGTG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
27440929 GAGCAGATCGAAGACGAAGAA
66 GAGCAGATCGAAGACGAAGAA
* *
27440950 CCTTAAACCCCTAAGTAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTCCCTAAACAGTAGTG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
* *
27441015 GAACAGATTGAAGACGAAGAA
66 GAGCAGATCGAAGACGAAGAA
* * *
27441036 CCTTAAACCCCTAAGTAGCAGGGTAACAGGTTGAATTGCAGATCTTATCTCCCTAAGTAGTAGTG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
* *
27441101 GAGCAGACCGAAGAGGAAGAA
66 GAGCAGATCGAAGACGAAGAA
*
27441122 CCTTAAACCCCTAAGCAGTAGGATAACAGGTTGA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGA
27441156 GTTTACAGAT
Statistics
Matches: 487, Mismatches: 55, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
84 4 0.01
85 58 0.12
86 383 0.79
87 11 0.02
88 4 0.01
89 27 0.06
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.22
Consensus pattern (86 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATCGAAGACGAAGAA
Found at i:27446537 original size:27 final size:27
Alignment explanation
Indices: 27446497--27446637 Score: 171
Period size: 27 Copynumber: 5.2 Consensus size: 27
27446487 AGGAAGCGTC
* *
27446497 CTGGTAGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
*
27446524 CTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACAAATATCTGAT
*
27446550 CCTGGTGGCTCTGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAAATATCTGAT
*
27446578 CTGGTGGCTCTGCCACATAA-ATCTGTT
1 CTGGTGGCTCTGCCACA-AATATCTGAT
* *
27446605 CTGGTGGCTCCGCCAC-AATATCTATAT
1 CTGGTGGCTCTGCCACAAATATCT-GAT
27446632 CTGGTG
1 CTGGTG
27446638 ACTTCGTCAC
Statistics
Matches: 99, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
25 2 0.02
26 5 0.05
27 90 0.91
28 2 0.02
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:27446576 original size:54 final size:53
Alignment explanation
Indices: 27446494--27446637 Score: 207
Period size: 54 Copynumber: 2.7 Consensus size: 53
27446484 TGGAGGAAGC
* * *
27446494 GTCCTGGTAGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTCTGCCAC-AATATCTGATCTGGTGGCTCTGCCACATAAATCT
27446548 GTCCTGGTGGCTCTGCCACAATTATCTGATCTGGTGGCTCTGCCACATAAATCT
1 GTCCTGGTGGCTCTGCCACAA-TATCTGATCTGGTGGCTCTGCCACATAAATCT
* * *
27446602 GTTCTGGTGGCTCCGCCACAATATCTATATCTGGTG
1 GTCCTGGTGGCTCTGCCACAATATCT-GATCTGGTG
27446638 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
53 7 0.09
54 75 0.91
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.32
Consensus pattern (53 bp):
GTCCTGGTGGCTCTGCCACAATATCTGATCTGGTGGCTCTGCCACATAAATCT
Found at i:27446649 original size:81 final size:80
Alignment explanation
Indices: 27446497--27446655 Score: 189
Period size: 81 Copynumber: 2.0 Consensus size: 80
27446487 AGGAAGCGTC
* * *
27446497 CTGGTAGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTCT
1 CTGGTAGCTATGCCACAAATATCTGATCTGGTGGCTCCGCCACATATATCTATCCTGGTGACTCT
27446562 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * * *
27446578 CTGGTGGCTCTGCCACATAA-ATCTGTTCTGGTGGCTCCGCCACA-ATATCTATATCTGGTGACT
1 CTGGTAGCTATGCCACA-AATATCTGATCTGGTGGCTCCGCCACATATATCTAT-CCTGGTGACT
*
27446641 -TCGTCACAATATCTG
64 CT-GCCACAATATCTG
27446656 GCAGCCTCGC
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
80 14 0.21
81 51 0.76
82 2 0.03
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (80 bp):
CTGGTAGCTATGCCACAAATATCTGATCTGGTGGCTCCGCCACATATATCTATCCTGGTGACTCT
GCCACAATATCTGAT
Found at i:27459434 original size:39 final size:39
Alignment explanation
Indices: 27459391--27459525 Score: 114
Period size: 39 Copynumber: 3.4 Consensus size: 39
27459381 ACCAATATGG
*
27459391 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAATTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAATTGA
* * * *
27459430 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAATTGA
* * * * *
27459468 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATA-ATTGA
*
27459509 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
27459526 ACTTGAGGTC
Statistics
Matches: 73, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAATTGA
Found at i:27461066 original size:17 final size:17
Alignment explanation
Indices: 27461044--27461078 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
27461034 GAATGCTCTC
*
27461044 TGTTTCTTATTCTTCTT
1 TGTTTCTTATTATTCTT
*
27461061 TGTTTCTTTTTATTCTT
1 TGTTTCTTATTATTCTT
27461078 T
1 T
27461079 TTCTTCATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.74
Consensus pattern (17 bp):
TGTTTCTTATTATTCTT
Found at i:27461148 original size:13 final size:13
Alignment explanation
Indices: 27461108--27461141 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
27461098 ACATATATAT
* *
27461108 ATAATATTATTTA
1 ATAATAATAGTTA
27461121 ATAATAATAGTTA
1 ATAATAATAGTTA
27461134 ATAATAAT
1 ATAATAAT
27461142 TTATAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
ATAATAATAGTTA
Found at i:27463460 original size:31 final size:30
Alignment explanation
Indices: 27463425--27463494 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
27463415 AAAATTGAAG
27463425 TTTCATGTATATAATTAAACCACAACCAAAA
1 TTTCATGTATATAATTAAACCA-AACCAAAA
* * * *
27463456 TTTCACGTATATAATTATACTAAATCAAAA
1 TTTCATGTATATAATTAAACCAAACCAAAA
27463486 TTT-ATGTAT
1 TTTCATGTAT
27463495 CAAATGAGAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 5 0.15
30 10 0.29
31 19 0.56
ACGTcount: A:0.44, C:0.14, G:0.04, T:0.37
Consensus pattern (30 bp):
TTTCATGTATATAATTAAACCAAACCAAAA
Found at i:27463565 original size:47 final size:47
Alignment explanation
Indices: 27463503--27463630 Score: 231
Period size: 47 Copynumber: 2.7 Consensus size: 47
27463493 ATCAAATGAG
*
27463503 AGAGAGAGCAACAACAAAATAATATAAAGAGCATTAGAGAGAGAGAC
1 AGAGAGAGCAACAACAAAATAATATAAAGAGCATTAGAGACAGAGAC
*
27463550 AGAGAGAGCAACAACAAAATAATATAAAGAGCATTAGAGACAGAGAG
1 AGAGAGAGCAACAACAAAATAATATAAAGAGCATTAGAGACAGAGAC
27463597 AGAGAGAGCAACAACAAAATAATA-AAAGAGCATT
1 AGAGAGAGCAACAACAAAATAATATAAAGAGCATT
27463631 CCCCACCAAG
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
46 10 0.13
47 69 0.87
ACGTcount: A:0.56, C:0.11, G:0.22, T:0.11
Consensus pattern (47 bp):
AGAGAGAGCAACAACAAAATAATATAAAGAGCATTAGAGACAGAGAC
Found at i:27465054 original size:12 final size:12
Alignment explanation
Indices: 27465037--27465061 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27465027 AGTTCGATTA
27465037 AAAAAATATTTT
1 AAAAAATATTTT
27465049 AAAAAATATTTT
1 AAAAAATATTTT
27465061 A
1 A
27465062 TTTTACTGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAAAATATTTT
Found at i:27465188 original size:2 final size:2
Alignment explanation
Indices: 27465181--27465215 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
27465171 ATTAGGCATC
27465181 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27465216 TAGTTTTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:27465406 original size:10 final size:9
Alignment explanation
Indices: 27465379--27465439 Score: 51
Period size: 9 Copynumber: 7.0 Consensus size: 9
27465369 AAAAATTTAA
27465379 AATATATTTT
1 AATAT-TTTT
27465389 -AT-TTTTT
1 AATATTTTT
27465396 ATATATTTTT
1 A-ATATTTTT
*
27465406 AATTTTTTT
1 AATATTTTT
27465415 AATGATTTTT
1 AAT-ATTTTT
27465425 -A-ATTTTT
1 AATATTTTT
27465432 AAT-TTTTT
1 AATATTTTT
27465440 CCTATCTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
7 10 0.23
8 7 0.16
9 15 0.35
10 11 0.26
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (9 bp):
AATATTTTT
Found at i:27465410 original size:18 final size:18
Alignment explanation
Indices: 27465380--27465431 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
27465370 AAAATTTAAA
27465380 ATATA-TTTT-ATTTTTT
1 ATATATTTTTAATTTTTT
27465396 ATATATTTTTAATTTTTT
1 ATATATTTTTAATTTTTT
27465414 -TAATGATTTTTAATTTTT
1 AT-AT-ATTTTTAATTTTT
27465432 AATTTTTTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.16
17 5 0.16
18 9 0.28
19 13 0.41
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (18 bp):
ATATATTTTTAATTTTTT
Found at i:27465414 original size:19 final size:19
Alignment explanation
Indices: 27465390--27465431 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
27465380 ATATATTTTA
27465390 TTTTTTATAT-ATTTTTAAT
1 TTTTTTA-ATGATTTTTAAT
27465409 TTTTTTAATGATTTTTAAT
1 TTTTTTAATGATTTTTAAT
27465428 TTTT
1 TTTT
27465432 AATTTTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTTTAATGATTTTTAAT
Found at i:27465433 original size:17 final size:16
Alignment explanation
Indices: 27465379--27465439 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 16
27465369 AAAAATTTAA
*
27465379 AATATATTTTATTTTTT
1 AATAT-TTTTAATTTTT
27465396 ATATATTTTTAATTTTTTT
1 A-ATATTTTTAA--TTTTT
27465415 AATGATTTTTAATTTTT
1 AAT-ATTTTTAATTTTT
27465432 AAT-TTTTT
1 AATATTTTT
27465440 CCTATCTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
15 5 0.13
17 14 0.36
18 6 0.15
19 14 0.36
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (16 bp):
AATATTTTTAATTTTT
Found at i:27465842 original size:26 final size:28
Alignment explanation
Indices: 27465803--27465860 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
27465793 TTGGATAAAC
**
27465803 AATTGAAAAGGTAAAATTAAAGA-TGGA
1 AATTGAAAAGGTAAAAACAAAGATTGGA
*
27465830 AATTGAAGA-GTAAAAACAAAGATTGGA
1 AATTGAAAAGGTAAAAACAAAGATTGGA
27465857 AATT
1 AATT
27465861 AGAATTAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 11 0.41
27 16 0.59
ACGTcount: A:0.55, C:0.02, G:0.21, T:0.22
Consensus pattern (28 bp):
AATTGAAAAGGTAAAAACAAAGATTGGA
Found at i:27469406 original size:42 final size:46
Alignment explanation
Indices: 27469343--27469553 Score: 152
Period size: 49 Copynumber: 4.6 Consensus size: 46
27469333 CTTCGTTTTC
** *
27469343 TCGATGCCATAGTTCAACTATGGTCTTACAC-AT-C-T-TCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACAATACATATCACAT-A
27469386 T-GATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC--AAT-ACATATCACATA
** *
27469434 TCGATGCCATAGCCCAGCTATGGTCTTACATGGATCACATATCTCAT-
1 TCGATGCCATAGCCCAGCTATGGTCTTACA-CAAT-ACATATCACATA
* * * * * *
27469481 T-GATGCCATATCACAGATATGGTCTTATACAGTAGCATAT-ATCACA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACAATA-CATATCA-CATA
* *
27469527 -CTGATGCCATATCCCAGATATGGTCTT
1 TC-GATGCCATAGCCCAGCTATGGTCTT
27469554 GTACGGAAAT
Statistics
Matches: 138, Mismatches: 16, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
42 26 0.19
43 1 0.01
44 1 0.01
45 10 0.07
46 24 0.17
47 26 0.19
48 16 0.12
49 34 0.25
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.30
Consensus pattern (46 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACAATACATATCACATA
Found at i:27469444 original size:49 final size:47
Alignment explanation
Indices: 27469378--27469553 Score: 194
Period size: 47 Copynumber: 3.7 Consensus size: 47
27469368 TTACACATCT
*
27469378 TCACATAATGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATA
1 TCACAT-ATGATGCCATAGCCCAGATATGGTCTTACACGT-ATCACATA
* * *
27469427 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACATGGATCACATA
1 TCACATAT-GATGCCATAGCCCAGATATGGTCTTACACGTATCACATA
* * * * * *
27469475 TCTCAT-TGATGCCATATCACAGATATGGTCTTATACAGTAGCATATA
1 TCACATATGATGCCATAGCCCAGATATGGTCTTACAC-GTATCACATA
* *
27469522 TCACA-CTGATGCCATATCCCAGATATGGTCTT
1 TCACATATGATGCCATAGCCCAGATATGGTCTT
27469554 GTACGGAAAT
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
46 24 0.22
47 37 0.33
48 15 0.14
49 35 0.32
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (47 bp):
TCACATATGATGCCATAGCCCAGATATGGTCTTACACGTATCACATA
Found at i:27469611 original size:31 final size:31
Alignment explanation
Indices: 27469576--27469693 Score: 166
Period size: 31 Copynumber: 3.8 Consensus size: 31
27469566 CTTGTCACTT
* *
27469576 GTAGCCGAAGCTACCACTATTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
27469607 GTAGCCGGTA-CTACTACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
27469638 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
27469669 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
27469694 TGTCATTTGT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
30 2 0.03
31 73 0.95
32 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:27469781 original size:50 final size:51
Alignment explanation
Indices: 27469669--27469797 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
27469659 CACTGATCAG
* * *
27469669 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCTGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGAAAAGT
*
27469720 GTAGCTGAAGCTATCACTTATCACTT-TCACTTTTTC-TTGATCAGAAAAGT
1 GTAGCTGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGAAAAGT
*
27469770 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCTGAAGCTATCACTTATCACTTGT
27469798 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 41 0.58
51 30 0.42
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCTGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGAAAAGT
Found at i:27473513 original size:19 final size:19
Alignment explanation
Indices: 27473475--27473534 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
27473465 ATCAAATTTG
*
27473475 TTAATTATGATTAAAATTAAT
1 TTAATTAAGATT--AATTAAT
* *
27473496 TTAATTAAGTTTAATTAAG
1 TTAATTAAGATTAATTAAT
* *
27473515 CTAATTAGGATTAATTAAT
1 TTAATTAAGATTAATTAAT
27473534 T
1 T
27473535 ACTAAACTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
19 21 0.68
21 10 0.32
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (19 bp):
TTAATTAAGATTAATTAAT
Found at i:27474303 original size:23 final size:22
Alignment explanation
Indices: 27474250--27474304 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 22
27474240 AGTTCATATG
* * *
27474250 GTATGATTGTATTTGAATTTTT
1 GTATGTTTGAATTTGAATTTGT
* *
27474272 ATATATTTGAATTATGAATTTGT
1 GTATGTTTGAATT-TGAATTTGT
27474295 GTATGTTTGA
1 GTATGTTTGA
27474305 TAGTAATTTG
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (22 bp):
GTATGTTTGAATTTGAATTTGT
Found at i:27474381 original size:12 final size:12
Alignment explanation
Indices: 27474359--27474388 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
27474349 GAATTAAATC
27474359 ATAAA-TAATTG
1 ATAAATTAATTG
27474370 ATAAATTAATTG
1 ATAAATTAATTG
27474382 ATAAATT
1 ATAAATT
27474389 GAATATCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (12 bp):
ATAAATTAATTG
Found at i:27479640 original size:20 final size:20
Alignment explanation
Indices: 27479611--27479655 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
27479601 AGCACATATA
* *
27479611 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
27479631 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
27479651 TTCAT
1 TTCAT
27479656 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:27482580 original size:42 final size:42
Alignment explanation
Indices: 27482470--27482626 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 42
27482460 AGCTTGTACA
* * ** *
27482470 ATGCCAATGTCCTAGACGTGGGCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTATTACATGAAATCAAATA-CG
*
27482513 ATACC-ACTGTCCCAGACAG-GGTATTACATGAAATCAAATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTATTACATGAAATCAAATACG
*
27482555 ATGCCAACGTCCCAGACGTGGTATTACACGTAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACGTGGTATTACATG-AAATCA-AA-TACG
* *
27482599 ATGCCAACGCCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTATTACA
27482627 CAAAAACACA
Statistics
Matches: 97, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.01
42 26 0.27
43 38 0.39
44 31 0.32
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTATTACATGAAATCAAATACG
Found at i:27482613 original size:44 final size:42
Alignment explanation
Indices: 27482483--27482627 Score: 134
Period size: 44 Copynumber: 3.4 Consensus size: 42
27482473 CCAATGTCCT
** * * * *
27482483 AGACGTGGGCTTACATGTAATCAAATATCGATACC-ACTGTCCC
1 AGACGTGGTATTACACGAAATCAAATA-CGATGCCAAC-GCCCC
* *
27482526 AGACAG-GGTATTACATGAAATCAAATACGATGCCAACGTCCC
1 AGAC-GTGGTATTACACGAAATCAAATACGATGCCAACGCCCC
27482568 AGACGTGGTATTACACGTAAATCATAAGT-CGATGCCAACGCCCC
1 AGACGTGGTATTACACG-AAATCA-AA-TACGATGCCAACGCCCC
*
27482612 AGACGTGGTCTTACAC
1 AGACGTGGTATTACAC
27482628 AAAAACACAT
Statistics
Matches: 89, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.01
42 25 0.28
43 30 0.34
44 32 0.36
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (42 bp):
AGACGTGGTATTACACGAAATCAAATACGATGCCAACGCCCC
Found at i:27485508 original size:43 final size:42
Alignment explanation
Indices: 27485460--27485605 Score: 152
Period size: 43 Copynumber: 3.4 Consensus size: 42
27485450 ATCCCAGATG
*
27485460 TGGTCTTACATATTATATCATAT-TGATGCCAATGTCCCTGACA
1 TGGTCTTACATA-TA-ATCATATAAGATGCCAATGTCCCTGACA
* *
27485503 TGGTCTTACACAAAATCATATAACGATGCCAATGT-CCTAGACA
1 TGGTCTTACATATAATCATATAA-GATGCCAATGTCCCT-GACA
* * * * *
27485546 TGATCTTACATGTAATCACAATAAAATGCCAATGTCCCAGACA
1 TGGTCTTACATATAATCA-TATAAGATGCCAATGTCCCTGACA
*
27485589 TGGTCTTACATGTAATC
1 TGGTCTTACATATAATC
27485606 TCATCTCGGC
Statistics
Matches: 87, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
41 7 0.08
42 4 0.05
43 70 0.80
44 6 0.07
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.31
Consensus pattern (42 bp):
TGGTCTTACATATAATCATATAAGATGCCAATGTCCCTGACA
Found at i:27489005 original size:43 final size:43
Alignment explanation
Indices: 27488957--27489045 Score: 135
Period size: 43 Copynumber: 2.1 Consensus size: 43
27488947 TTTATGTCAA
*
27488957 TTGTTAGAGTATATTATACTTATATC-TCAAAGGTATTATTTTC
1 TTGTTAGAGTATATTATACTTATATCAT-AAAGGTATTATTCTC
* *
27489000 TTGTTAGAGTATATTGTACTTATATCATAAGGGTATTATTCTC
1 TTGTTAGAGTATATTATACTTATATCATAAAGGTATTATTCTC
27489043 TTG
1 TTG
27489046 GTATCATCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
43 41 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.48
Consensus pattern (43 bp):
TTGTTAGAGTATATTATACTTATATCATAAAGGTATTATTCTC
Found at i:27489608 original size:21 final size:21
Alignment explanation
Indices: 27489582--27489621 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
27489572 ATTATAAAGC
27489582 TTCAAAATAATTT-TAAAAAAA
1 TTCAAAAT-ATTTGTAAAAAAA
27489603 TTCAAAATATTTGTAAAAA
1 TTCAAAATATTTGTAAAAA
27489622 TTCTAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (21 bp):
TTCAAAATATTTGTAAAAAAA
Found at i:27489620 original size:20 final size:20
Alignment explanation
Indices: 27489582--27489630 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 20
27489572 ATTATAAAGC
27489582 TTCAAAATAATTTTAAAAAAA
1 TTCAAAATAATTTT-AAAAAA
27489603 TTCAAAAT-ATTTGT-AAAAA
1 TTCAAAATAATTT-TAAAAAA
27489622 TTCTAAAAT
1 TTC-AAAAT
27489631 TTATATTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 8 0.31
20 9 0.35
21 9 0.35
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (20 bp):
TTCAAAATAATTTTAAAAAA
Done.