Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 62 of 132
Found at i:17466371 original size:70 final size:71
Alignment explanation
Indices: 17466158--17466380 Score: 240
Period size: 72 Copynumber: 3.1 Consensus size: 71
17466148 CGAAACTTCA
* * * * * *
17466158 CAAGTTAGTAACCAAGGTAAATTCTTCCCTGAACTTCTACCGACACCCTGTTGAATTGTT-TCGA
1 CAAGTTAGTAGCCAAGGTAACTTCTTCCTTGAACTTCTACCGATACCCTGATGAGTTGTTCT-GA
17466222 AACAAC-
65 AACAACT
* * *
17466228 CTAAGTCAGTAG-CTAGAGTAACTTC-TCCTGTAGGACTTCTACCGATACCCTGATGAGTTGTTC
1 C-AAGTTAGTAGCCAAG-GTAACTTCTTCCT-T-GAACTTCTACCGATACCCTGATGAGTTGTTC
17466291 TGAAACAACT
62 TGAAACAACT
* * ***
17466301 CAAGTTAGTAGCCAAGGTAACTTCTTCCTTGTACTTATACCGATATTTTG-TGAGTTGTTCTGAA
1 CAAGTTAGTAGCCAAGGTAACTTCTTCCTTGAACTTCTACCGATACCCTGATGAGTTGTTCTGAA
17466365 ACAACT
66 ACAACT
17466371 CAAGTTAGTA
1 CAAGTTAGTA
17466381 TCAAAATTTG
Statistics
Matches: 129, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
70 37 0.29
71 31 0.24
72 52 0.40
73 9 0.07
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (71 bp):
CAAGTTAGTAGCCAAGGTAACTTCTTCCTTGAACTTCTACCGATACCCTGATGAGTTGTTCTGAA
ACAACT
Found at i:17466867 original size:21 final size:21
Alignment explanation
Indices: 17466825--17466869 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
17466815 TAGGAAGTTT
*
17466825 TACAAGCAGACATTCAATCGA
1 TACAAGCAGACATTCAACCGA
** *
17466846 TACAAGCAGATGTTCTACCGA
1 TACAAGCAGACATTCAACCGA
17466867 TAC
1 TAC
17466870 TTTTATGTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (21 bp):
TACAAGCAGACATTCAACCGA
Found at i:17467423 original size:18 final size:18
Alignment explanation
Indices: 17467384--17467441 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
17467374 GAGAAATAAA
* *
17467384 CTCTTGCGATCTAGTAATG
1 CTCTTACGATCCAGT-ATG
17467403 CTCTTACGATCCAGTATG
1 CTCTTACGATCCAGTATG
* * *
17467421 CTCTAACGAACCCGTATG
1 CTCTTACGATCCAGTATG
17467439 CTC
1 CTC
17467442 AAATGAGCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 21 0.62
19 13 0.38
ACGTcount: A:0.22, C:0.29, G:0.17, T:0.31
Consensus pattern (18 bp):
CTCTTACGATCCAGTATG
Found at i:17469082 original size:24 final size:24
Alignment explanation
Indices: 17469055--17469113 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
17469045 CATCGGCCAA
*
17469055 TTTACGTTTATGCTCGTCGACCAC
1 TTTACGTTTATGCCCGTCGACCAC
*
17469079 TTTACGTTTATGCCCGTCGGCCAC
1 TTTACGTTTATGCCCGTCGACCAC
17469103 TTTACGTTTAT
1 TTTACGTTTAT
17469114 TTTACGAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.15, C:0.27, G:0.17, T:0.41
Consensus pattern (24 bp):
TTTACGTTTATGCCCGTCGACCAC
Found at i:17469903 original size:156 final size:156
Alignment explanation
Indices: 17469619--17469931 Score: 527
Period size: 156 Copynumber: 2.0 Consensus size: 156
17469609 TGTTTAACCC
* * * *
17469619 CTAACATAAATCACCCATTGATGGTAAAACCTTAAAATTTCAAGGGCTTTACAAATTAATATCTC
1 CTAACATAAATCACCCATTAATGGTAAAACCCTAAAATTTCAAAGGCTTTACAAATAAATATCTC
* **
17469684 ATTTTAAAAGATCAAACAAATACAAGCTGACCCATACAAAAATTACTAAATAAATTCTGTAAAAA
66 ATTTTAAAAGATCAAACAAATACAAGCTGACCCATACAAAAATTACTAAAGAAATTCCATAAAAA
17469749 TCTTACTATATGAAGGAGATGATTAT
131 TCTTACTATATGAAGGAGATGATTAT
* *
17469775 CTAACATAGATCACCCATTAATGGTAAAACCCTAAAATTTCAAAGGCTTTGCAAATAAATATCTC
1 CTAACATAAATCACCCATTAATGGTAAAACCCTAAAATTTCAAAGGCTTTACAAATAAATATCTC
* *
17469840 ATTTTAAAAGATCAAACAAATACAAGCTTACCCATGCAAAAATTACTAAAGAAATTCCATAAAAA
66 ATTTTAAAAGATCAAACAAATACAAGCTGACCCATACAAAAATTACTAAAGAAATTCCATAAAAA
17469905 TCTTACTATATGAAGGAGATGATTAT
131 TCTTACTATATGAAGGAGATGATTAT
17469931 C
1 C
17469932 GAAACCCTAG
Statistics
Matches: 146, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
156 146 1.00
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.28
Consensus pattern (156 bp):
CTAACATAAATCACCCATTAATGGTAAAACCCTAAAATTTCAAAGGCTTTACAAATAAATATCTC
ATTTTAAAAGATCAAACAAATACAAGCTGACCCATACAAAAATTACTAAAGAAATTCCATAAAAA
TCTTACTATATGAAGGAGATGATTAT
Found at i:17473657 original size:15 final size:15
Alignment explanation
Indices: 17473639--17473682 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
17473629 GAGCATGGAA
*
17473639 GATGCTAGCACTCAT
1 GATGCGAGCACTCAT
* *
17473654 GATGCGAACACTGAT
1 GATGCGAGCACTCAT
*
17473669 GTTGCGAGCACTCA
1 GATGCGAGCACTCA
17473683 CATTGTGAAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (15 bp):
GATGCGAGCACTCAT
Found at i:17473695 original size:15 final size:15
Alignment explanation
Indices: 17473677--17473720 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
17473667 ATGTTGCGAG
*
17473677 CACTCACATTGTGAA
1 CACTCACGTTGTGAA
* * *
17473692 CACTGATGTTGCGAA
1 CACTCACGTTGTGAA
17473707 CACTCACGTTGTGA
1 CACTCACGTTGTGA
17473721 GCATGGACGA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (15 bp):
CACTCACGTTGTGAA
Found at i:17473719 original size:30 final size:30
Alignment explanation
Indices: 17473659--17473720 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
17473649 CTCATGATGC
*
17473659 GAACACTGATGTTGCGAGCACTCACATTGT
1 GAACACTGATGTTGCGAACACTCACATTGT
*
17473689 GAACACTGATGTTGCGAACACTCACGTTGT
1 GAACACTGATGTTGCGAACACTCACATTGT
17473719 GA
1 GA
17473721 GCATGGACGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (30 bp):
GAACACTGATGTTGCGAACACTCACATTGT
Found at i:17476493 original size:9 final size:9
Alignment explanation
Indices: 17476479--17476513 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
17476469 GTTAAACGAA
17476479 TCGAGTTAT
1 TCGAGTTAT
*
17476488 TCGAGTTAA
1 TCGAGTTAT
*
17476497 TCGAATTAT
1 TCGAGTTAT
17476506 TCGAGTTA
1 TCGAGTTA
17476514 ACTCAATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:17476521 original size:18 final size:18
Alignment explanation
Indices: 17476477--17476514 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
17476467 GAGTTAAACG
*
17476477 AATCGAGTTATTCGAGTT
1 AATCGAATTATTCGAGTT
17476495 AATCGAATTATTCGAGTT
1 AATCGAATTATTCGAGTT
17476513 AA
1 AA
17476515 CTCAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (18 bp):
AATCGAATTATTCGAGTT
Found at i:17477177 original size:19 final size:18
Alignment explanation
Indices: 17477137--17477181 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
17477127 TACTTATATT
*
17477137 ATTGAATTGTATAATAAT
1 ATTGAATTGTATAATAAA
* *
17477155 ATTGAATGTTTATATTAAA
1 ATTGAAT-TGTATAATAAA
17477174 ATTGAATT
1 ATTGAATT
17477182 ATTAATGATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (18 bp):
ATTGAATTGTATAATAAA
Found at i:17482861 original size:26 final size:25
Alignment explanation
Indices: 17482832--17482893 Score: 83
Period size: 23 Copynumber: 2.5 Consensus size: 25
17482822 TTTATAGTTA
17482832 TAATTAAATGATATCGATATGATCAC
1 TAATTAAATGATAT-GATATGATCAC
*
17482858 TAATTTAAT-AT-TGATATGATCAC
1 TAATTAAATGATATGATATGATCAC
*
17482881 TACTTAAATGATA
1 TAATTAAATGATA
17482894 ATTAATTTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 18 0.58
24 3 0.10
25 2 0.06
26 8 0.26
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.39
Consensus pattern (25 bp):
TAATTAAATGATATGATATGATCAC
Found at i:17483354 original size:23 final size:24
Alignment explanation
Indices: 17483290--17483366 Score: 97
Period size: 24 Copynumber: 3.3 Consensus size: 24
17483280 CACTTTAAAA
* *
17483290 AAAATAAACATATAGTAAATATAA
1 AAAATAAATATATAGTAAATATAT
17483314 AAAATAAATATATAGTAAATATAT
1 AAAATAAATATATAGTAAATATAT
*
17483338 AAAAT-ATTATA-ATGTAAATAT-T
1 AAAATAAATATATA-GTAAATATAT
17483360 AAAATAA
1 AAAATAA
17483367 TGATAAAATG
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.15
23 14 0.29
24 27 0.56
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (24 bp):
AAAATAAATATATAGTAAATATAT
Found at i:17484483 original size:11 final size:11
Alignment explanation
Indices: 17484463--17484494 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
17484453 AACTAACTGA
17484463 TTTAAATTATG
1 TTTAAATTATG
*
17484474 TTTGAATTATG
1 TTTAAATTATG
17484485 TTTAAATTAT
1 TTTAAATTAT
17484495 TTAAAAGGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.56
Consensus pattern (11 bp):
TTTAAATTATG
Found at i:17497015 original size:17 final size:17
Alignment explanation
Indices: 17496989--17497023 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
17496979 AAGACAAGGC
17496989 ATTTCAAAGCTAAGAGG
1 ATTTCAAAGCTAAGAGG
*
17497006 ATTTCGAAGCTAAGAGG
1 ATTTCAAAGCTAAGAGG
17497023 A
1 A
17497024 AAATCTTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.26, T:0.23
Consensus pattern (17 bp):
ATTTCAAAGCTAAGAGG
Found at i:17507511 original size:27 final size:27
Alignment explanation
Indices: 17507452--17507506 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
17507442 TACCTTTACC
*
17507452 AACCCATTTCTTTTAAACCCCAAAATA
1 AACCCATTTCCTTTAAACCCCAAAATA
17507479 AACCCATTTCCTTTAAA-CCC-AAATA
1 AACCCATTTCCTTTAAACCCCAAAATA
17507504 AAC
1 AAC
17507507 ACCCAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 8 0.30
26 3 0.11
27 16 0.59
ACGTcount: A:0.42, C:0.31, G:0.00, T:0.27
Consensus pattern (27 bp):
AACCCATTTCCTTTAAACCCCAAAATA
Found at i:17507512 original size:12 final size:12
Alignment explanation
Indices: 17507493--17507524 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
17507483 CATTTCCTTT
17507493 AAACCCAAATAA
1 AAACCCAAATAA
*
17507505 ACACCCAAATAA
1 AAACCCAAATAA
17507517 AAACCCAA
1 AAACCCAA
17507525 CCCATATCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.62, C:0.31, G:0.00, T:0.06
Consensus pattern (12 bp):
AAACCCAAATAA
Found at i:17515685 original size:32 final size:37
Alignment explanation
Indices: 17515649--17515721 Score: 84
Period size: 37 Copynumber: 2.1 Consensus size: 37
17515639 TGGATGAGTC
17515649 TGATC-ATG-GTTGAAT-AGATG-AATGATTTGG-TG
1 TGATCTATGCGTTGAATGAGATGCAATGATTTGGCTG
* *
17515681 TGATCTATGTCGTTTAATGAGATGCAATGGTTTGGCTG
1 TGATCTATG-CGTTGAATGAGATGCAATGATTTGGCTG
17515719 TGA
1 TGA
17515722 ATAAATATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
32 5 0.15
33 3 0.09
35 6 0.18
36 5 0.15
37 9 0.27
38 5 0.15
ACGTcount: A:0.25, C:0.07, G:0.30, T:0.38
Consensus pattern (37 bp):
TGATCTATGCGTTGAATGAGATGCAATGATTTGGCTG
Found at i:17524114 original size:21 final size:21
Alignment explanation
Indices: 17524090--17524142 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
17524080 AAGTGACAGG
*
17524090 TCTATCGATACAAGTGACT-CT
1 TCTATCGATACAAAT-ACTACT
* * *
17524111 TCTACCGAAACAAATATTACT
1 TCTATCGATACAAATACTACT
17524132 TCTATCGATAC
1 TCTATCGATAC
17524143 TAAAAACTCC
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.32
Consensus pattern (21 bp):
TCTATCGATACAAATACTACT
Found at i:17524859 original size:58 final size:59
Alignment explanation
Indices: 17524771--17524937 Score: 219
Period size: 58 Copynumber: 2.8 Consensus size: 59
17524761 TTCGTGTTTG
* * * *
17524771 ATACTCACGATGACATAGAGTCATCGGACCTTTAATCCGTAATGGCTTTCAATTAATTCA
1 ATACTCACTATGACACA-AGTCATCGGACCTTTAATCTGTAATGGATTTCAATTAATTCA
* * * *
17524831 ATACTCACTATGACGC-AGTCATCGGACCTCTAATCTGTAATGGATTTCATTTAATTTA
1 ATACTCACTATGACACAAGTCATCGGACCTTTAATCTGTAATGGATTTCAATTAATTCA
*
17524889 ATACTCACTATGACACATAGTCATCGGACCTCTTAATCTGTAAAGGATT
1 ATACTCACTATGACACA-AGTCATCGGACCT-TTAATCTGTAATGGATT
17524938 CATATACTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
58 52 0.56
60 26 0.28
61 15 0.16
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (59 bp):
ATACTCACTATGACACAAGTCATCGGACCTTTAATCTGTAATGGATTTCAATTAATTCA
Found at i:17525172 original size:156 final size:156
Alignment explanation
Indices: 17524888--17525173 Score: 459
Period size: 156 Copynumber: 1.8 Consensus size: 156
17524878 CATTTAATTT
* * * *
17524888 AATACTCACTATGACACATAGTCATCGGACCTCTTAATCTGTAAAGGATTCATATACTCACGATG
1 AATACTCACTATAACACATAGTAATCGAACCTCATAATCTGTAAAGGATTCATATACTCACGATG
* ** *
17524953 ACACATAGTCATCGGACCTCATGATCCATAAAGGATTCATATACTCACGATGACACATAGTCATC
66 ACACATAGACATCAAACCTCATAATCCATAAAGGATTCATATACTCACGATGACACATAGTCATC
17525018 GGGCCTCATAATCCGTAAAAGATTCA
131 GGGCCTCATAATCCGTAAAAGATTCA
*
17525044 AATACTCA-TGATAACACATAGTAATCGAACCTCATAAT-TCGTAAAGGATTCATATACTCATGA
1 AATACTCACT-ATAACACATAGTAATCGAACCTCATAATCT-GTAAAGGATTCATATACTCACGA
17525107 TGACACATAGACATCAAACCTCATAATCCATAAAGGATTCATATACTCACGATGACACATAGTCA
64 TGACACATAGACATCAAACCTCATAATCCATAAAGGATTCATATACTCACGATGACACATAGTCA
17525172 TC
129 TC
17525174 AGAGCTTTTT
Statistics
Matches: 119, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
155 2 0.02
156 117 0.98
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.26
Consensus pattern (156 bp):
AATACTCACTATAACACATAGTAATCGAACCTCATAATCTGTAAAGGATTCATATACTCACGATG
ACACATAGACATCAAACCTCATAATCCATAAAGGATTCATATACTCACGATGACACATAGTCATC
GGGCCTCATAATCCGTAAAAGATTCA
Found at i:17525174 original size:52 final size:52
Alignment explanation
Indices: 17524889--17525173 Score: 408
Period size: 52 Copynumber: 5.5 Consensus size: 52
17524879 ATTTAATTTA
* * *
17524889 ATACTCACTATGACACATAGTCATCGGACCTCTTAATCTGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
17524941 ATACTCACGATGACACATAGTCATCGGACCTCATGATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * *
17524993 ATACTCACGATGACACATAGTCATCGGGCCTCATAATCCGTAAAAGATTCAA
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * * * *
17525045 ATACTCATGATAACACATAGTAATCGAACCTCATAATTCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * ** *
17525097 ATACTCATGATGACACATAGACATCAAACCTCATAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
17525149 ATACTCACGATGACACATAGTCATC
1 ATACTCACGATGACACATAGTCATC
17525174 AGAGCTTTTT
Statistics
Matches: 207, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 207 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:17530911 original size:12 final size:12
Alignment explanation
Indices: 17530894--17530943 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
17530884 TAGGTTCTAT
17530894 TTCTTCTTTCTC
1 TTCTTCTTTCTC
17530906 TTCTTCCTTTC-C
1 TTCTT-CTTTCTC
*
17530918 TTCTTCTTTTTC
1 TTCTTCTTTCTC
* *
17530930 TTCATCCTTCTC
1 TTCTTCTTTCTC
17530942 TT
1 TT
17530944 GATCACCTCC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 4 0.12
12 23 0.72
13 5 0.16
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTCTTTCTC
Found at i:17539875 original size:3 final size:3
Alignment explanation
Indices: 17539867--17539920 Score: 62
Period size: 3 Copynumber: 19.3 Consensus size: 3
17539857 CGGGGCAACG
* *
17539867 TCT TCT TCT TTT TCT TCT T-T TCT TTT TCT TCT TCT T-T TC- TCT TC-
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
17539911 TCT TCT TCT T
1 TCT TCT TCT T
17539921 TTGCTTCAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 8 0.19
3 35 0.81
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TCT
Found at i:17539898 original size:17 final size:17
Alignment explanation
Indices: 17539869--17539922 Score: 74
Period size: 17 Copynumber: 3.1 Consensus size: 17
17539859 GGGCAACGTC
17539869 TTCTTCTTT-TTCTTCTT
1 TTCTT-TTTCTTCTTCTT
17539886 TTCTTTTTCTTCTTCTT
1 TTCTTTTTCTTCTTCTT
*
17539903 TTCTCTTCTCTTCTTCTT
1 TTCT-TTTTCTTCTTCTT
17539921 TT
1 TT
17539923 GCTTCAATAC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
16 3 0.09
17 17 0.50
18 14 0.41
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (17 bp):
TTCTTTTTCTTCTTCTT
Found at i:17541717 original size:24 final size:25
Alignment explanation
Indices: 17541690--17541737 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
17541680 TACAAAAACT
*
17541690 AAAGA-AACAAATTAA-AGTAAAATA
1 AAAGACAA-AAATTAATAGAAAAATA
17541714 AAAGACAAAAATTAATAGAAAAAT
1 AAAGACAAAAATTAATAGAAAAAT
17541738 TGCAATGACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.71, C:0.04, G:0.08, T:0.17
Consensus pattern (25 bp):
AAAGACAAAAATTAATAGAAAAATA
Found at i:17547368 original size:18 final size:17
Alignment explanation
Indices: 17547345--17547378 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
17547335 TTTAAAAGAA
17547345 AATCAACAAAAGATTAGT
1 AATCAACAAAAG-TTAGT
*
17547363 AATCAATAAAAGTTAG
1 AATCAACAAAAGTTAG
17547379 AAAAATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (17 bp):
AATCAACAAAAGTTAGT
Found at i:17550408 original size:21 final size:21
Alignment explanation
Indices: 17550384--17550448 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 21
17550374 ATCTATCAAA
* *
17550384 ACAAGTGACAGGTCTACCGAT
1 ACAAGTAACACGTCTACCGAT
* *
17550405 ACAAGTAACACTTCTACCGAA
1 ACAAGTAACACGTCTACCGAT
* ** *
17550426 ATAAGTATTACTTCTACCGAT
1 ACAAGTAACACGTCTACCGAT
17550447 AC
1 AC
17550449 TAAAAACTCC
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.25
Consensus pattern (21 bp):
ACAAGTAACACGTCTACCGAT
Found at i:17551204 original size:60 final size:61
Alignment explanation
Indices: 17551117--17551230 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 61
17551107 TTCAATTCAT
* * * * *
17551117 ATTTGATACTCATGATAACATAGAGTCATC-GAACCT-TTAATTCGTAATGGATTTCATTTC
1 ATTTAATACTCACGATAACACAGAGTCATCTG-ACCTCTTAATCCGTAAAGGATTTCATTTC
*
17551177 ATTTAATACTCACGATAACACATAGTCATCTGACCTCTTAATCCGTAAAGGATT
1 ATTTAATACTCACGATAACACAGAGTCATCTGACCTCTTAATCCGTAAAGGATT
17551231 CATATACTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
60 30 0.65
61 16 0.35
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (61 bp):
ATTTAATACTCACGATAACACAGAGTCATCTGACCTCTTAATCCGTAAAGGATTTCATTTC
Found at i:17551294 original size:51 final size:52
Alignment explanation
Indices: 17551182--17551367 Score: 257
Period size: 52 Copynumber: 3.6 Consensus size: 52
17551172 ATTTCATTTA
* * *
17551182 ATACTCACGATAACACATAGTCATCTGACCTCTTAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * * *
17551234 ATACTCACGATGATACATAGTCATCGGATCTC-TGATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * *
17551285 ATACTCACGAGGACACATAATCATCGAACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
17551337 ATACTCATGATGACACATAGTCAACGGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
17551368 TTTTCATTTA
Statistics
Matches: 115, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
51 44 0.38
52 71 0.62
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:17554557 original size:26 final size:26
Alignment explanation
Indices: 17554469--17554559 Score: 76
Period size: 26 Copynumber: 3.4 Consensus size: 26
17554459 GAAGTCCGTC
* * * *
17554469 AGGATTATCTTTTGTGAAAGTCCATA
1 AGGACTATCTTTTGTGGAAGTTCACA
* *
17554495 AGGACTATCTGATATGTGGAAAGTTCGGC-
1 AGGACTATCT--TTTGTGG-AAGTTC-ACA
*
17554524 AGGGCTATCTTTTGTGGAAGTTCACA
1 AGGACTATCTTTTGTGGAAGTTCACA
17554550 AGGACTATCT
1 AGGACTATCT
17554560 CATATGGGGA
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
25 1 0.02
26 24 0.48
27 6 0.12
28 5 0.10
29 14 0.28
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.33
Consensus pattern (26 bp):
AGGACTATCTTTTGTGGAAGTTCACA
Found at i:17554587 original size:55 final size:55
Alignment explanation
Indices: 17554474--17554616 Score: 144
Period size: 55 Copynumber: 2.6 Consensus size: 55
17554464 CCGTCAGGAT
* * * * * * * *
17554474 TATCTTTTGTGAAAGTCCATAAGGACTATCTGATATGTGGAAAGTTCGGCAGGGC
1 TATCTTTTGTGGAAGTTCACAAGGACTATCTCATATGGGGAAAGTTCGCCAAGAC
17554529 TATCTTTTGTGGAAGTTCACAAGGACTATCTCATATGGGGAAAG-TCTGCCAAGAC
1 TATCTTTTGTGGAAGTTCACAAGGACTATCTCATATGGGGAAAGTTC-GCCAAGAC
* * * *
17554584 TATCATTGTGAGGAAAGTTCACCAGAACTATCT
1 TATC-TTTTGTGG-AAGTTCACAAGGACTATCT
17554617 TGTAAATATG
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
54 2 0.03
55 48 0.66
56 6 0.08
57 17 0.23
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (55 bp):
TATCTTTTGTGGAAGTTCACAAGGACTATCTCATATGGGGAAAGTTCGCCAAGAC
Found at i:17555492 original size:25 final size:25
Alignment explanation
Indices: 17555458--17555505 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
17555448 AGAAAGATGG
*
17555458 ATTATTCTCCCGTTGGCATGAATGA
1 ATTATTCTCCCGTTGGCAAGAATGA
17555483 ATTATTCTCCCGTTGGCAAGAAT
1 ATTATTCTCCCGTTGGCAAGAAT
17555506 TAATAGACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (25 bp):
ATTATTCTCCCGTTGGCAAGAATGA
Found at i:17557971 original size:7 final size:7
Alignment explanation
Indices: 17557959--17557989 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
17557949 TTAAGGTAAT
17557959 CATATAG
1 CATATAG
17557966 CATATAG
1 CATATAG
17557973 CATATAG
1 CATATAG
17557980 CATATAG
1 CATATAG
17557987 CAT
1 CAT
17557990 TATTTAAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (7 bp):
CATATAG
Found at i:17562090 original size:5 final size:5
Alignment explanation
Indices: 17562080--17562107 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
17562070 AATCAAAGCT
17562080 TTTTC TTTTC TTTTC TTTTC TTTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTT
17562108 GGGTTTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:17567274 original size:24 final size:24
Alignment explanation
Indices: 17567242--17567291 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
17567232 TAAGTAGAAT
17567242 AGTACTTAGTGAG-TTCATTAACCA
1 AGTACTTAGTGAGCTT-ATTAACCA
17567266 AGTACTTAGTGAGCTTATTAACCA
1 AGTACTTAGTGAGCTTATTAACCA
17567290 AG
1 AG
17567292 CCTCGATGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (24 bp):
AGTACTTAGTGAGCTTATTAACCA
Found at i:17570030 original size:62 final size:61
Alignment explanation
Indices: 17569964--17570169 Score: 226
Period size: 62 Copynumber: 3.3 Consensus size: 61
17569954 AATTTTTCCT
17569964 ACATTAGG-GCCTAAACTTTTTTGTTTGCCCAAGTTA-AGCCTTGAACTTGAGAATTGTTTCTC
1 ACATT-GGAGCCTAAACTTTTTTGTTT-CCCAAGTTAGA-CCTTGAACTTGAGAATTGTTTCTC
** * *
17570026 ACATTGGAGCCTAAACTTGGAAATTG-TTCCCACA-TTGGGACC-TGAACTTTGATAATT-TTTC
1 ACATTGGAGCCTAAACTT---TTTTGTTTCCCA-AGTT-AGACCTTGAAC-TTGAGAATTGTTTC
17570087 TC
60 TC
* *
17570089 ACATTGGAGCCTAAAGTTTTTTGTTTACCCAAGTTAGACCTTGAACTTGAGAATTGTTCCTC
1 ACATTGGAGCCTAAACTTTTTTGTTT-CCCAAGTTAGACCTTGAACTTGAGAATTGTTTCTC
17570151 ACATTGGAGCCTAAACTTT
1 ACATTGGAGCCTAAACTTT
17570170 GCAATTGTTC
Statistics
Matches: 120, Mismatches: 11, Indels: 26
0.76 0.07 0.17
Matches are distributed among these distances:
60 3 0.03
61 17 0.14
62 49 0.41
63 34 0.28
64 13 0.11
65 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.36
Consensus pattern (61 bp):
ACATTGGAGCCTAAACTTTTTTGTTTCCCAAGTTAGACCTTGAACTTGAGAATTGTTTCTC
Found at i:17570051 original size:32 final size:32
Alignment explanation
Indices: 17570007--17570168 Score: 117
Period size: 32 Copynumber: 5.2 Consensus size: 32
17569997 TTAAGCCTTG
17570007 AACTTGAGAATTGTTTCTCACATTGGAGCCTA
1 AACTTGAGAATTGTTTCTCACATTGGAGCCTA
* *
17570039 AACTTG-GAAATTG-TTCCCACATTGG-GACCTG
1 AACTTGAG-AATTGTTTCTCACATTGGAG-CCTA
*
17570070 AACTTTGATAATT-TTTCTCACATTGGAGCCTA
1 AAC-TTGAGAATTGTTTCTCACATTGGAGCCTA
* ** * * *
17570102 AAGTT---TTTTGTTTACCCA-AGTTAGA-CCTTG
1 AACTTGAGAATTGTTT-CTCACA-TTGGAGCC-TA
*
17570132 AACTTGAGAATTGTTCCTCACATTGGAGCCTA
1 AACTTGAGAATTGTTTCTCACATTGGAGCCTA
17570164 AACTT
1 AACTT
17570169 TGCAATTGTT
Statistics
Matches: 97, Mismatches: 18, Indels: 30
0.67 0.12 0.21
Matches are distributed among these distances:
28 2 0.02
29 6 0.06
30 13 0.13
31 20 0.21
32 47 0.48
33 9 0.09
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (32 bp):
AACTTGAGAATTGTTTCTCACATTGGAGCCTA
Found at i:17570132 original size:125 final size:124
Alignment explanation
Indices: 17569911--17570182 Score: 388
Period size: 125 Copynumber: 2.2 Consensus size: 124
17569901 CAAGATAGGT
* * *
17569911 CCTAAACTTGGCAATTGTTTCCACATTGAAACCTGGACTCGGTAATTTTTCCTACATTAGGGCCT
1 CCTAAACTTGGCAATTGTTCCCACATTGAAACCTGAACTCGATAATTTTTCCTACATTAGGGCCT
* *
17569976 AAACTTTTTTGTTTGCCCAAGTTAAGCCTTGAACTTGAGAATTGTTTCTCACATTGGAG
66 AAACTTTTTTGTTTACCCAAGTTAAGCCTTGAACTTGAGAATTGTTCCTCACATTGGAG
* ** *
17570035 CCTAAACTTGGAAATTGTTCCCACATTGGGACCTGAACTTTGATAATTTTT-CTCACATT-GGAG
1 CCTAAACTTGGCAATTGTTCCCACATTGAAACCTGAAC-TCGATAATTTTTCCT-ACATTAGG-G
*
17570098 CCTAAAGTTTTTTGTTTACCCAAGTT-AGACCTTGAACTTGAGAATTGTTCCTCACATTGGAG
63 CCTAAACTTTTTTGTTTACCCAAGTTAAG-CCTTGAACTTGAGAATTGTTCCTCACATTGGAG
*
17570160 CCTAAACTTTGCAATTGTTCCCA
1 CCTAAACTTGGCAATTGTTCCCA
17570183 TATTAAGGCT
Statistics
Matches: 132, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
124 39 0.30
125 93 0.70
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (124 bp):
CCTAAACTTGGCAATTGTTCCCACATTGAAACCTGAACTCGATAATTTTTCCTACATTAGGGCCT
AAACTTTTTTGTTTACCCAAGTTAAGCCTTGAACTTGAGAATTGTTCCTCACATTGGAG
Found at i:17573495 original size:40 final size:40
Alignment explanation
Indices: 17573440--17573641 Score: 262
Period size: 40 Copynumber: 5.0 Consensus size: 40
17573430 TTAAATTCGA
17573440 TGTTAATATTCAAGCTTCGACTTAGCAGGCTATGAGCCGG
1 TGTTAATATTCAAGCTTCGACTTAGCAGGCTATGAGCCGG
* * * * *
17573480 TGTTAATAATCAAGCTTTGGCTTAGCAGACTACGAGCCGG
1 TGTTAATATTCAAGCTTCGACTTAGCAGGCTATGAGCCGG
* **
17573520 TGTTAATATTTAAGCTTCGGTTTAGCAGGCTATGAGCCGG
1 TGTTAATATTCAAGCTTCGACTTAGCAGGCTATGAGCCGG
* * *
17573560 TGTTAATATTCAAGGTTCGACTTAGCGGGGTATGAGCCGG
1 TGTTAATATTCAAGCTTCGACTTAGCAGGCTATGAGCCGG
* * *
17573600 TGTTAATATTCAAGCTTC-AGCTTAGTAAGCCATGAGCCGG
1 TGTTAATATTCAAGCTTCGA-CTTAGCAGGCTATGAGCCGG
17573640 TG
1 TG
17573642 AATACGTAAG
Statistics
Matches: 138, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 1 0.01
40 137 0.99
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (40 bp):
TGTTAATATTCAAGCTTCGACTTAGCAGGCTATGAGCCGG
Found at i:17582696 original size:19 final size:19
Alignment explanation
Indices: 17582674--17582737 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
17582664 TTAATTTAAC
17582674 ATTTATAAAAATTTTACCT
1 ATTTATAAAAATTTTACCT
* **
17582693 ATTTATTTAACAAA--ATAATT
1 ATTTA--TAA-AAATTTTACCT
17582713 ATTTATAAAAATTTTACCT
1 ATTTATAAAAATTTTACCT
17582732 ATTTAT
1 ATTTAT
17582738 TTAACAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
17 3 0.09
18 3 0.09
19 14 0.41
20 8 0.24
21 3 0.09
22 3 0.09
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTTATAAAAATTTTACCT
Found at i:17582700 original size:23 final size:23
Alignment explanation
Indices: 17582674--17582740 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
17582664 TTAATTTAAC
17582674 ATTTATAAAAATTTTACCTATTT
1 ATTTATAAAAATTTTACCTATTT
17582697 ATTTA-ACAAAA---TA---A-TT
1 ATTTATA-AAAATTTTACCTATTT
17582713 ATTTATAAAAATTTTACCTATTT
1 ATTTATAAAAATTTTACCTATTT
17582736 ATTTA
1 ATTTA
17582741 ACAAAATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 18
0.66 0.00 0.34
Matches are distributed among these distances:
16 11 0.31
17 2 0.06
19 2 0.06
20 2 0.06
22 2 0.06
23 16 0.46
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTTATAAAAATTTTACCTATTT
Found at i:17582719 original size:39 final size:39
Alignment explanation
Indices: 17582674--17582752 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
17582664 TTAATTTAAC
17582674 ATTTATAAAAATTTTACCTATTTATTTAACAAAATAATT
1 ATTTATAAAAATTTTACCTATTTATTTAACAAAATAATT
17582713 ATTTATAAAAATTTTACCTATTTATTTAACAAAATAATT
1 ATTTATAAAAATTTTACCTATTTATTTAACAAAATAATT
17582752 A
1 A
17582753 ATTAAAAGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.46
Consensus pattern (39 bp):
ATTTATAAAAATTTTACCTATTTATTTAACAAAATAATT
Found at i:17582880 original size:23 final size:23
Alignment explanation
Indices: 17582854--17582898 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
17582844 TTAGGTCATG
*
17582854 TTAT-TATTATTGGGATTTTTTAT
1 TTATATATT-TTGAGATTTTTTAT
*
17582877 TTATATATTTTTAGATTTTTTA
1 TTATATATTTTGAGATTTTTTA
17582899 AGACTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (23 bp):
TTATATATTTTGAGATTTTTTAT
Found at i:17584301 original size:12 final size:12
Alignment explanation
Indices: 17584284--17584325 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
17584274 ATCAAATTAT
17584284 AAATTTTTTACA
1 AAATTTTTTACA
*
17584296 AAA-TTTTTAAA
1 AAATTTTTTACA
* *
17584307 AAATTCTTTACC
1 AAATTTTTTACA
17584319 AAATTTT
1 AAATTTT
17584326 ATATGGATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATTTTTTACA
Found at i:17590984 original size:25 final size:23
Alignment explanation
Indices: 17590927--17590984 Score: 55
Period size: 25 Copynumber: 2.5 Consensus size: 23
17590917 AACATATTAA
* *
17590927 AAAATAA-ATTTTGATTAACTAT
1 AAAATAATATTTTAATTAAATAT
* *
17590949 ATAATATTATTTTAATATAAATATT
1 AAAATAATATTTTAAT-TAAATA-T
17590974 AAAATAATATT
1 AAAATAATATT
17590985 AAGGTTATTC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
22 5 0.19
23 7 0.26
24 5 0.19
25 10 0.37
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
AAAATAATATTTTAATTAAATAT
Found at i:17591398 original size:29 final size:30
Alignment explanation
Indices: 17591365--17591441 Score: 122
Period size: 29 Copynumber: 2.6 Consensus size: 30
17591355 AAAATTATTT
17591365 AATAATTTTAATAATTTTATA-TTTAAAAA
1 AATAATTTTAATAATTTTATATTTTAAAAA
*
17591394 AATAA-TTTAAAAATTTTATATTTTAAAAA
1 AATAATTTTAATAATTTTATATTTTAAAAA
*
17591423 AATAATTTTAATAAATTTA
1 AATAATTTTAATAATTTTA
17591442 AAATCATTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 14 0.33
29 18 0.42
30 11 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
AATAATTTTAATAATTTTATATTTTAAAAA
Found at i:17597193 original size:20 final size:21
Alignment explanation
Indices: 17597157--17597195 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17597147 CATTTGTTTA
*
17597157 TTTACTTTTATTTGTTTCACT
1 TTTACTTTTAGTTGTTTCACT
17597178 TTTACTTTT-GTTGTTTCA
1 TTTACTTTTAGTTGTTTCA
17597196 AATTCCTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.13, C:0.13, G:0.08, T:0.67
Consensus pattern (21 bp):
TTTACTTTTAGTTGTTTCACT
Found at i:17600178 original size:10 final size:10
Alignment explanation
Indices: 17600165--17600194 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
17600155 AAACAAAATG
17600165 AGAAAAAGAA
1 AGAAAAAGAA
17600175 AGAAAAAGAA
1 AGAAAAAGAA
17600185 A-AAAAAGAA
1 AGAAAAAGAA
17600194 A
1 A
17600195 TTTTTAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:17600180 original size:18 final size:15
Alignment explanation
Indices: 17600165--17600194 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
17600155 AAACAAAATG
17600165 AGAAAAAGAAAGAAAA
1 AGAAAAA-AAAGAAAA
17600181 AGAAAAAAAAGAAA
1 AGAAAAAAAAGAAA
17600195 TTTTTAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AGAAAAAAAAGAAAA
Found at i:17608753 original size:3 final size:3
Alignment explanation
Indices: 17608745--17608790 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
17608735 GTCGGGACAA
*
17608745 CTT CTT CTT CTT CTT CTT CCTT C-T CTT CTT TTT CTT CTT CTT -TT
1 CTT CTT CTT CTT CTT CTT -CTT CTT CTT CTT CTT CTT CTT CTT CTT
17608789 CT
1 CT
17608791 CTACTTCAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 4 0.11
3 31 0.82
4 3 0.08
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:17610491 original size:24 final size:24
Alignment explanation
Indices: 17610446--17610493 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
17610436 TGCAAAAACT
17610446 AAAGAAACAAATTAAAGTAAAATA
1 AAAGAAACAAATTAAAGTAAAATA
*
17610470 AAAGACAA-AAATTAACAGAAAAAT
1 AAAGA-AACAAATTAA-AGTAAAAT
17610494 TGCAATAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.71, C:0.06, G:0.08, T:0.15
Consensus pattern (24 bp):
AAAGAAACAAATTAAAGTAAAATA
Found at i:17622537 original size:19 final size:21
Alignment explanation
Indices: 17622499--17622537 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17622489 CCTATTTTTA
*
17622499 ATATTTATAAAAGTTGTCAAT
1 ATATTTATAAAACTTGTCAAT
17622520 ATATTTAT-AAACTT-TCAA
1 ATATTTATAAAACTTGTCAA
17622538 ACATGAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 5 0.29
21 8 0.47
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (21 bp):
ATATTTATAAAACTTGTCAAT
Found at i:17625939 original size:30 final size:29
Alignment explanation
Indices: 17625903--17626169 Score: 187
Period size: 30 Copynumber: 9.2 Consensus size: 29
17625893 AAAATCAAAC
* *
17625903 TTTTGGAAAATTTGAGGGTAAAATGGTGAT
1 TTTTGGAAAGTTTGAGGGTAAAAT-GTAAT
* * *
17625933 TTTTGGATA-TTCG-GGGCAAAATGGTAA-
1 TTTTGGAAAGTTTGAGGGTAAAAT-GTAAT
* * *
17625960 TTTT-GAAAGTTCGTGGGCAAAAATGTAAT
1 TTTTGGAAAGTTTGAGGG-TAAAATGTAAT
* *
17625989 TTTT-AAGAAGTTTGAGGATAAAAATGTAAT
1 TTTTGGA-AAGTTTGAGGGT-AAAATGTAAT
* * *
17626019 TTTTGGAAA--TTCAGGGGTAAAAAGTGAT
1 TTTTGGAAAGTTTGA-GGGTAAAATGTAAT
* * *
17626047 TTTAGG-AAGTATG-GTGGTAAAAATGTGAT
1 TTTTGGAAAGTTTGAG-GGT-AAAATGTAAT
*
17626076 TTTTGG-AAGTTTGAGGGAAAAAATGTAAT
1 TTTTGGAAAGTTTGAGGG-TAAAATGTAAT
*
17626105 TTTT-GAGAAGTTTGAGGGTTATAATGTAAT
1 TTTTGGA-AAGTTTGAGGG-TAAAATGTAAT
17626135 TTTTGGAAAGTTTGAGGGTTAAAATGTAAT
1 TTTTGGAAAGTTTGAGGG-TAAAATGTAAT
17626165 TTTTG
1 TTTTG
17626170 AGAAGATCAA
Statistics
Matches: 192, Mismatches: 28, Indels: 34
0.76 0.11 0.13
Matches are distributed among these distances:
26 3 0.02
27 11 0.06
28 39 0.20
29 52 0.27
30 84 0.44
31 3 0.02
ACGTcount: A:0.34, C:0.02, G:0.27, T:0.37
Consensus pattern (29 bp):
TTTTGGAAAGTTTGAGGGTAAAATGTAAT
Found at i:17625992 original size:29 final size:29
Alignment explanation
Indices: 17625950--17626208 Score: 197
Period size: 30 Copynumber: 8.8 Consensus size: 29
17625940 TATTCGGGGC
* *
17625950 AAAATGGTAA-TTTTGAAAGTTCGTGGGCA
1 AAAAT-GTAATTTTTGAAAGTTCGAGGGTA
* * *
17625979 AAAATGTAATTTTTAAGAAGTTTGAGGATA
1 AAAATGTAATTTTTGA-AAGTTCGAGGGTA
17626009 AAAATGTAATTTTTGGAAA-TTC-AGGGGTA
1 AAAATGTAATTTTT-GAAAGTTCGA-GGGTA
* * *
17626038 AAAA-GTGATTTTAGGAAGTAT-G-GTGGTA
1 AAAATGTAATTTTTGAAAGT-TCGAG-GGTA
* * * *
17626066 AAAATGTGATTTTTGGAAGTTTGAGGGAA
1 AAAATGTAATTTTTGAAAGTTCGAGGGTA
* *
17626095 AAAATGTAATTTTTGAGAAGTTTGAGGGTT
1 AAAATGTAATTTTTGA-AAGTTCGAGGGTA
* * *
17626125 ATAATGTAATTTTTGGAAAGTTTGAGGGTT
1 AAAATGTAATTTTT-GAAAGTTCGAGGGTA
* * * *
17626155 AAAATGTAATTTTTGAGAAGATCAAAGGTT
1 AAAATGTAATTTTTGA-AAGTTCGAGGGTA
17626185 AAAATGTAATTTTTGAGAAGTTCG
1 AAAATGTAATTTTTGA-AAGTTCG
17626209 GGGGCCTCCT
Statistics
Matches: 191, Mismatches: 25, Indels: 27
0.79 0.10 0.11
Matches are distributed among these distances:
27 4 0.02
28 22 0.12
29 55 0.29
30 107 0.56
31 3 0.02
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.36
Consensus pattern (29 bp):
AAAATGTAATTTTTGAAAGTTCGAGGGTA
Found at i:17626011 original size:86 final size:85
Alignment explanation
Indices: 17625913--17626109 Score: 211
Period size: 86 Copynumber: 2.3 Consensus size: 85
17625903 TTTTGGAAAA
* * * *
17625913 TTTGAGGGTAAAATGGTGATTTTTGGATATTC-GGGGCAAAATGGTAATTTT-GAAAGT-TCGTG
1 TTTGAGGATAAAAT-GTAATTTTTGGAAATTCAGGGGCAAAA-AGTAATTTTAGAAAGTATCGT-
17625975 GGCAAAAATGTAATTTTTAAGAAG
63 GGCAAAAATGTAATTTTT-AGAAG
* * * *
17625999 TTTGAGGATAAAAATGTAATTTTTGGAAATTCAGGGGTAAAAAGTGATTTTAGGAAGTATGGTGG
1 TTTGAGGAT-AAAATGTAATTTTTGGAAATTCAGGGGCAAAAAGTAATTTTAGAAAGTATCGTGG
* * *
17626064 TAAAAATGTGATTTTTGGAAG
65 CAAAAATGTAATTTTTAGAAG
*
17626085 TTTGAGGGAAAAAATGTAATTTTTG
1 TTTGA-GGATAAAATGTAATTTTTG
17626110 AGAAGTTTGA
Statistics
Matches: 94, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
86 54 0.57
87 37 0.39
88 3 0.03
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.36
Consensus pattern (85 bp):
TTTGAGGATAAAATGTAATTTTTGGAAATTCAGGGGCAAAAAGTAATTTTAGAAAGTATCGTGGC
AAAAATGTAATTTTTAGAAG
Found at i:17626023 original size:116 final size:117
Alignment explanation
Indices: 17625903--17626174 Score: 297
Period size: 116 Copynumber: 2.3 Consensus size: 117
17625893 AAAATCAAAC
*
17625903 TTTTGGAAAATTTGAGGGTAAAATGGTGATTTTTGG-A-TATTCGG-GG-CAAAATG-GTAATTT
1 TTTTGGAAAATTTGAGGGTAAAAT-GTGATTTTTGGAAGTA-T-GGTGGTAAAAATGTG-AATTT
* *
17625963 TGAAAGTTCGTGGGCAAAAATGTAATTTTTAAGAAGTTTGAGGATAAAAATGTAAT
62 TGAAAGTTCGAGGGAAAAAATGTAATTTTTAAGAAGTTTGAGGATAAAAATGTAAT
* * * * *
17626019 TTTTGG-AAA-TTCAGGGGTAAAAAGTGATTTTAGGAAGTATGGTGGTAAAAATGTGATTTTTGG
1 TTTTGGAAAATTTGA-GGGTAAAATGTGATTTTTGGAAGTATGGTGGTAAAAATGTGAATTTTGA
* * * * *
17626082 AAGTTTGAGGGAAAAAATGTAATTTTTGAGAAGTTTGAGGGTTATAATGTAAT
65 AAGTTCGAGGGAAAAAATGTAATTTTTAAGAAGTTTGAGGATAAAAATGTAAT
* *
17626135 TTTTGGAAAGTTTGAGGGTTAAAATGTAATTTTTGAGAAG
1 TTTTGGAAAATTTGAGGG-TAAAATGTGATTTTTG-GAAG
17626175 ATCAAAGGTT
Statistics
Matches: 128, Mismatches: 18, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
114 15 0.12
115 15 0.12
116 72 0.56
117 6 0.05
118 16 0.12
119 4 0.03
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.36
Consensus pattern (117 bp):
TTTTGGAAAATTTGAGGGTAAAATGTGATTTTTGGAAGTATGGTGGTAAAAATGTGAATTTTGAA
AGTTCGAGGGAAAAAATGTAATTTTTAAGAAGTTTGAGGATAAAAATGTAAT
Found at i:17626163 original size:60 final size:60
Alignment explanation
Indices: 17625903--17626199 Score: 242
Period size: 60 Copynumber: 5.1 Consensus size: 60
17625893 AAAATCAAAC
* * * *
17625903 TTTTGGAAAATTTGAGGG-TAAAATGGTGATTTTTG-GATA-TTCG-GGG-CAAAATGGTAA-
1 TTTTGGAAAGTTTGAGGGATAAAAT-GTAATTTTTGAGA-AGTTTGAGGGTAAAAAT-GTAAT
* * * *
17625960 TTTT-GAAAGTTCGTGGGCA-AAAATGTAATTTTTAAGAAGTTTGAGGATAAAAATGTAAT
1 TTTTGGAAAGTTTGAGGG-ATAAAATGTAATTTTTGAGAAGTTTGAGGGTAAAAATGTAAT
* * * * * * *
17626019 TTTTGGAAA--TTCAGGGGTAAAAAGTGATTTTAG-GAAGTATG-GTGGTAAAAATGTGAT
1 TTTTGGAAAGTTTGAGGGATAAAATGTAATTTTTGAGAAGTTTGAG-GGTAAAAATGTAAT
* * *
17626076 TTTTGG-AAGTTTGAGGGAAAAAATGTAATTTTTGAGAAGTTTGAGGGTTATAATGTAAT
1 TTTTGGAAAGTTTGAGGGATAAAATGTAATTTTTGAGAAGTTTGAGGGTAAAAATGTAAT
* * ** * *
17626135 TTTTGGAAAGTTTGAGGGTTAAAATGTAATTTTTGAGAAGATCAAAGGTTAAAATGTAAT
1 TTTTGGAAAGTTTGAGGGATAAAATGTAATTTTTGAGAAGTTTGAGGGTAAAAATGTAAT
17626195 TTTTG
1 TTTTG
17626200 AGAAGTTCGG
Statistics
Matches: 189, Mismatches: 36, Indels: 27
0.75 0.14 0.11
Matches are distributed among these distances:
56 22 0.12
57 39 0.21
58 39 0.21
59 33 0.17
60 56 0.30
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.37
Consensus pattern (60 bp):
TTTTGGAAAGTTTGAGGGATAAAATGTAATTTTTGAGAAGTTTGAGGGTAAAAATGTAAT
Found at i:17626185 original size:30 final size:30
Alignment explanation
Indices: 17625979--17626206 Score: 225
Period size: 30 Copynumber: 7.7 Consensus size: 30
17625969 TTCGTGGGCA
* * *
17625979 AAAATGTAATTTTTAAGAAGTTTGAGGATA
1 AAAATGTAATTTTTGAGAAGTTTGAGGGTT
* * *
17626009 AAAATGTAATTTTTG-GAA-ATTCAGGGGT
1 AAAATGTAATTTTTGAGAAGTTTGAGGGTT
* * * * *
17626037 AAAAAGTGATTTTAG-GAAGTATG-GTGGTA
1 AAAATGTAATTTTTGAGAAGTTTGAG-GGTT
* **
17626066 AAAATGTGATTTTTG-GAAGTTTGAGGGAA
1 AAAATGTAATTTTTGAGAAGTTTGAGGGTT
17626095 AAAATGTAATTTTTGAGAAGTTTGAGGGTT
1 AAAATGTAATTTTTGAGAAGTTTGAGGGTT
*
17626125 ATAATGTAATTTTTG-GAAAGTTTGAGGGTT
1 AAAATGTAATTTTTGAG-AAGTTTGAGGGTT
* ** *
17626155 AAAATGTAATTTTTGAGAAGATCAAAGGTT
1 AAAATGTAATTTTTGAGAAGTTTGAGGGTT
17626185 AAAATGTAATTTTTGAGAAGTT
1 AAAATGTAATTTTTGAGAAGTT
17626207 CGGGGGCCTC
Statistics
Matches: 164, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
28 21 0.13
29 44 0.27
30 98 0.60
31 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.25, T:0.37
Consensus pattern (30 bp):
AAAATGTAATTTTTGAGAAGTTTGAGGGTT
Found at i:17627947 original size:6 final size:6
Alignment explanation
Indices: 17627938--17628000 Score: 51
Period size: 6 Copynumber: 10.8 Consensus size: 6
17627928 TAATTTTTAA
* * * *
17627938 TTAAAT TTAAAA ATAAAT TTAAAT TTAGAA- -TGAAT TTAAAT TCAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTA-AAT TTAAAT TTAAAT TTAAAT
*
17627984 ATAAAT TTAAAT TTAAA
1 TTAAAT TTAAAT TTAAA
17628001 CTAAATTAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
4 2 0.05
5 4 0.09
6 35 0.81
7 2 0.05
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.40
Consensus pattern (6 bp):
TTAAAT
Found at i:17627956 original size:17 final size:16
Alignment explanation
Indices: 17627936--17628010 Score: 78
Period size: 17 Copynumber: 4.4 Consensus size: 16
17627926 TTTAATTTTT
17627936 AATTAAATTTAAAAATA
1 AATTAAATTT-AAAATA
*
17627953 AATTTAAATTTAGAATGA
1 AA-TTAAATTTAAAAT-A
* *
17627971 ATTTAAATTCAAAATA
1 AATTAAATTTAAAATA
*
17627987 AATTTAAATTTAAACTA
1 AA-TTAAATTTAAAATA
17628004 AATTAAA
1 AATTAAA
17628011 AATAAATTAA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
16 7 0.15
17 31 0.65
18 10 0.21
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (16 bp):
AATTAAATTTAAAATA
Found at i:17628839 original size:208 final size:208
Alignment explanation
Indices: 17628415--17629095 Score: 831
Period size: 208 Copynumber: 3.3 Consensus size: 208
17628405 TTTTTTTCTA
* * * *
17628415 TATCTCATCAGGAAGATGACCGCTTCATTGCTTCGACTTACTTCTCTGTATCTCATCAGGAAGAT
1 TATCTCATCAGGAAGATGACCGCTTCATTGCTTCAACCTACTTCTCAGTATCTCATCAGGAAGCT
* * * ** * * *
17628480 AGGGATTTTGAAGCTTC-A-C---TCGCA-TTTTCCTTCATTTGATTTGGTCTAC-TTCTCCGTA
66 AGGG--TTTGAAGTTTCGATCATATTG-AGCTTTGTTTCA-TTGATTTGGTATGCTTTCT-TGTA
* * ** *
17628538 TCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCGTTTCTCTGTATCACATCAGGAAGACA
126 TCTCATCAAGAAGATGACCGCATCAC-TGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGACA
*
17628603 GATTTGGTCCACTTCTTTA
190 GATTTGGTCCACTTCTTTG
* * * **
17628622 TGTCTCATCAGGAAGATGATCGCTTTATTGCTTTGACCTACTTCTCAGTATCTCATCAGGAAGCT
1 TATCTCATCAGGAAGATGACCGCTTCATTGCTTCAACCTACTTCTCAGTATCTCATCAGGAAGCT
*
17628687 AGGGTTTGAAGTTTCGATCATATTGAGCTTTGTTTCATTGATTTGGTATGCTTTCTTATATCTCA
66 AGGGTTTGAAGTTTCGATCATATTGAGCTTTGTTTCATTGATTTGGTATGCTTTCTTGTATCTCA
**
17628752 TCAAGAAGATGACCGCATCACTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGATGGATTTG
131 TCAAGAAGATGACCGCATCACTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGACAGATTTG
17628817 GTCCACTTCTTTG
196 GTCCACTTCTTTG
* ** * *
17628830 TATCTCATCAGGAAGATGACCGCTTTATTGCTTCAACCCGCTTCTCAGTATCTCATCAAGACGCT
1 TATCTCATCAGGAAGATGACCGCTTCATTGCTTCAACCTACTTCTCAGTATCTCATCAGGAAGCT
* * *
17628895 GGGGTTCGAAGTTTCGCTCATATTGAGCTTTGTTTCATTGATTTGGTATGCTTATC-TGTATCTC
66 AGGGTTTGAAGTTTCGATCATATTGAGCTTTGTTTCATTGATTTGGTATGCTT-TCTTGTATCTC
** *
17628959 ATCAAGAAGATGACTACATCACTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGACAGATCT
130 ATCAAGAAGATGACCGCATCACTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGACAGATTT
*
17629024 GGTCCACTTCTCTG
195 GGTCCACTTCTTTG
* * * * * *
17629038 TATCTTATCAGGAAGACGACCACTTCATTGTTTTAATCC-ACTTCTCTGTATCTCATCA
1 TATCTCATCAGGAAGATGACCGCTTCATTGCTTCAA-CCTACTTCTCAGTATCTCATCA
17629096 AGAAAACGGA
Statistics
Matches: 415, Mismatches: 50, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
205 10 0.02
206 1 0.00
207 63 0.15
208 284 0.68
209 44 0.11
210 13 0.03
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (208 bp):
TATCTCATCAGGAAGATGACCGCTTCATTGCTTCAACCTACTTCTCAGTATCTCATCAGGAAGCT
AGGGTTTGAAGTTTCGATCATATTGAGCTTTGTTTCATTGATTTGGTATGCTTTCTTGTATCTCA
TCAAGAAGATGACCGCATCACTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGACAGATTTG
GTCCACTTCTTTG
Found at i:17629039 original size:37 final size:37
Alignment explanation
Indices: 17628989--17629139 Score: 131
Period size: 37 Copynumber: 3.8 Consensus size: 37
17628979 ACTGTTTCAA
17628989 TCCACTTCTCTGTATCTCATCAGGAAGACAGATCTGG
1 TCCACTTCTCTGTATCTCATCAGGAAGACAGATCTGG
* * *
17629026 TCCACTTCTCTGTATCTTATCAGGAAGACGACCACTTCATTGTTTTAA
1 TCCACTTCTCTGTATCTCATCAGGAAGAC-A-GA--TC--TG-----G
* * * *
17629074 TCCACTTCTCTGTATCTCATCAAGAAAACGGATTTGG
1 TCCACTTCTCTGTATCTCATCAGGAAGACAGATCTGG
*
17629111 TCCACTTCTCTATATCTCATCAGGAAGAC
1 TCCACTTCTCTGTATCTCATCAGGAAGAC
17629140 GACCCTTTTA
Statistics
Matches: 90, Mismatches: 13, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
37 54 0.60
38 1 0.01
39 1 0.01
41 2 0.02
42 2 0.02
43 2 0.02
44 1 0.01
46 1 0.01
48 26 0.29
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (37 bp):
TCCACTTCTCTGTATCTCATCAGGAAGACAGATCTGG
Found at i:17629092 original size:85 final size:85
Alignment explanation
Indices: 17628953--17629223 Score: 357
Period size: 85 Copynumber: 3.2 Consensus size: 85
17628943 TGCTTATCTG
* * * * * *
17628953 TATCTCATCAAGAAGATGACTACATCACTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGAC
1 TATCTCATCAGGAAGACGACCACTTCATTGTTTTAATCCACTTCTCTGTATCTCATCAGGAAGAC
* *
17629018 AGATCTGGTCCACTTCTCTG
66 AGATTTGGTCCACTTCTCTA
* * *
17629038 TATCTTATCAGGAAGACGACCACTTCATTGTTTTAATCCACTTCTCTGTATCTCATCAAGAAAAC
1 TATCTCATCAGGAAGACGACCACTTCATTGTTTTAATCCACTTCTCTGTATCTCATCAGGAAGAC
*
17629103 GGATTTGGTCCACTTCTCTA
66 AGATTTGGTCCACTTCTCTA
* * * *
17629123 TATCTCATCAGGAAGACGACC-CTTTTATTGATTTAATCCACTTCTCTGTATTTCATTAGGAAGA
1 TATCTCATCAGGAAGACGACCAC-TTCATTGTTTTAATCCACTTCTCTGTATCTCATCAGGAAGA
*
17629187 -TGAATTTGGTCCACTTCTCTA
65 CAG-ATTTGGTCCACTTCTCTA
17629208 TATCTCATCAGGAAGA
1 TATCTCATCAGGAAGA
17629224 TAACCGTTTT
Statistics
Matches: 164, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
84 2 0.01
85 162 0.99
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (85 bp):
TATCTCATCAGGAAGACGACCACTTCATTGTTTTAATCCACTTCTCTGTATCTCATCAGGAAGAC
AGATTTGGTCCACTTCTCTA
Found at i:17629430 original size:39 final size:39
Alignment explanation
Indices: 17629394--17629553 Score: 178
Period size: 39 Copynumber: 4.1 Consensus size: 39
17629384 TAAGGGTATA
*
17629394 AGATTGGATGATGGTGATCTGTCCCAAGCTCGGGGTAAA
1 AGATTGGATGATGGTGATCTGTCCCAAGCTCGGGGTAAG
* *
17629433 AGATTGGCTGATGGTGATCTGTCCCAAGCTCGAGGTAAG
1 AGATTGGATGATGGTGATCTGTCCCAAGCTCGGGGTAAG
* * * ** * * *
17629472 AGATCGAATGATTGCAATCTGCCCCAGGCTCGGTGTAAG
1 AGATTGGATGATGGTGATCTGTCCCAAGCTCGGGGTAAG
* * *
17629511 AGATTGGCTGATGGTGATCTG-CCTCAGGCTCGGGTTAAG
1 AGATTGGATGATGGTGATCTGTCC-CAAGCTCGGGGTAAG
17629550 AGAT
1 AGAT
17629554 CGAAATCTTT
Statistics
Matches: 99, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
38 2 0.02
39 97 0.98
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.26
Consensus pattern (39 bp):
AGATTGGATGATGGTGATCTGTCCCAAGCTCGGGGTAAG
Found at i:17629530 original size:78 final size:78
Alignment explanation
Indices: 17629410--17629557 Score: 219
Period size: 78 Copynumber: 1.9 Consensus size: 78
17629400 GATGATGGTG
*
17629410 ATCTGTCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTGATCTGTCC-CAAGCTCGAGG-TAAGA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTGATCTG-CCTCAAGCTCG-GGTTAAGA
17629473 GATCGAATGATTGCA
64 GATCGAATGATTGCA
* * * *
17629488 ATCTGCCCCAGGCTCGGTGTAAGAGATTGGCTGATGGTGATCTGCCTCAGGCTCGGGTTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGTTAAGAGA
17629553 TCGAA
66 TCGAA
17629558 ATCTTTAATT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
77 4 0.06
78 59 0.94
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (78 bp):
ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGTTAAGAGA
TCGAATGATTGCA
Found at i:17629954 original size:49 final size:49
Alignment explanation
Indices: 17629901--17630113 Score: 202
Period size: 49 Copynumber: 4.3 Consensus size: 49
17629891 GCCGTTTCTA
*
17629901 CCTCAACCTTTCCCATTGCATCTCTATGGAACCGAATTCGCCATTGCGG
1 CCTCAACCTTTCCCATTGCATCTCTATGGAACCGGATTCGCCATTGCGG
*** * * * * * *
17629950 CCTCAATCC-TTCCCATAATATCTTTTAAGGTATCGGGTTCGCCATTGCTG
1 CCTCAA-CCTTTCCCATTGCATC-TCTATGGAACCGGATTCGCCATTGCGG
* * *
17630000 CCTCAACCTTTCCC-TT-CAAATCT-TCATGGTATCGGGTTCGCCATTGCGG
1 CCTCAACCTTTCCCATTGC--ATCTCT-ATGGAACCGGATTCGCCATTGCGG
* *
17630049 CCTCAACCTTTCCCATTGCATCTCTATGGAACCGGATTCGCTATTGTGG
1 CCTCAACCTTTCCCATTGCATCTCTATGGAACCGGATTCGCCATTGCGG
17630098 CCTCAATCC-TTCCCAT
1 CCTCAA-CCTTTCCCAT
17630114 GATATCTTTT
Statistics
Matches: 135, Mismatches: 19, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
48 1 0.01
49 92 0.68
50 41 0.30
51 1 0.01
ACGTcount: A:0.19, C:0.33, G:0.16, T:0.32
Consensus pattern (49 bp):
CCTCAACCTTTCCCATTGCATCTCTATGGAACCGGATTCGCCATTGCGG
Found at i:17629987 original size:99 final size:98
Alignment explanation
Indices: 17629879--17630064 Score: 234
Period size: 99 Copynumber: 1.9 Consensus size: 98
17629869 AAGCCTTCAT
* *
17629879 GGTACCGGGTTCGCCGTTTCTACCTCAACCTTTCCCATTGC-ATC-TCTATGGAACCGAATTCGC
1 GGTACCGGGTTCGCCATTGCTACCTCAACCTTTCCC-TT-CAATCTTC-ATGGAACCGAATTCGC
17629942 CATTGCGGCCTCAATCC-TTCCCATAATATCTTTTAA
63 CATTGCGGCCTCAA-CCTTTCCCATAATATCTTTTAA
* * * * **
17629978 GGTATCGGGTTCGCCATTGCTGCCTCAACCTTTCCCTTCAAATCTTCATGGTATCGGGTTCGCCA
1 GGTACCGGGTTCGCCATTGCTACCTCAACCTTTCCCTTC-AATCTTCATGGAACCGAATTCGCCA
17630043 TTGCGGCCTCAACCTTTCCCAT
65 TTGCGGCCTCAACCTTTCCCAT
17630065 TGCATCTCTA
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
97 1 0.01
98 4 0.05
99 68 0.91
100 2 0.03
ACGTcount: A:0.18, C:0.33, G:0.17, T:0.32
Consensus pattern (98 bp):
GGTACCGGGTTCGCCATTGCTACCTCAACCTTTCCCTTCAATCTTCATGGAACCGAATTCGCCAT
TGCGGCCTCAACCTTTCCCATAATATCTTTTAA
Found at i:17630017 original size:148 final size:148
Alignment explanation
Indices: 17629853--17630123 Score: 443
Period size: 148 Copynumber: 1.8 Consensus size: 148
17629843 TCGTTGTGGA
* * * *
17629853 CTCAACCTTTCCCTTCAAGCCTTCATGGTACCGGGTTCGCCGTTTCTACCTCAACCTTTCCCATT
1 CTCAACCTTTCCCTTCAAACCTTCATGGTACCGGGTTCGCCATTGCGACCTCAACCTTTCCCATT
17629918 GCATCTCTATGGAACCGAATTCGCCATTGCGGCCTCAATCCTTCCCATAATATCTTTTAAGGTAT
66 GCATCTCTATGGAACCGAATTCGCCATTGCGGCCTCAATCCTTCCCATAATATCTTTTAAGGTAT
17629983 CGGGTTCGCCATTGCTGC
131 CGGGTTCGCCATTGCTGC
* * *
17630001 CTCAACCTTTCCCTTCAAATCTTCATGGTATCGGGTTCGCCATTGCGGCCTCAACCTTTCCCATT
1 CTCAACCTTTCCCTTCAAACCTTCATGGTACCGGGTTCGCCATTGCGACCTCAACCTTTCCCATT
* * * *
17630066 GCATCTCTATGGAACCGGATTCGCTATTGTGGCCTCAATCCTTCCCATGATATCTTTT
66 GCATCTCTATGGAACCGAATTCGCCATTGCGGCCTCAATCCTTCCCATAATATCTTTT
17630124 TGTTTCTCTG
Statistics
Matches: 112, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
148 112 1.00
ACGTcount: A:0.18, C:0.32, G:0.16, T:0.34
Consensus pattern (148 bp):
CTCAACCTTTCCCTTCAAACCTTCATGGTACCGGGTTCGCCATTGCGACCTCAACCTTTCCCATT
GCATCTCTATGGAACCGAATTCGCCATTGCGGCCTCAATCCTTCCCATAATATCTTTTAAGGTAT
CGGGTTCGCCATTGCTGC
Found at i:17630958 original size:16 final size:16
Alignment explanation
Indices: 17630942--17631029 Score: 54
Period size: 16 Copynumber: 5.2 Consensus size: 16
17630932 CCTCGACCTC
*
17630942 TTTTTTCT-TTTTTCTC
1 TTTTTTCTCTTTTT-TA
*
17630958 TTTTTTAT-TTTTATTA
1 TTTTTTCTCTTTT-TTA
*
17630974 TTTTTTCTGTCTTTATTA
1 TTTTTTC--TCTTTTTTA
* *
17630992 TTTTTTATTTTATTTTA
1 TTTTTTCTCTT-TTTTA
17631009 TTTTTTCTTTCTTTTTTA
1 TTTTTTC--TCTTTTTTA
17631027 TTT
1 TTT
17631030 ATTTTTCTTC
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
16 21 0.38
17 11 0.20
18 18 0.32
19 6 0.11
ACGTcount: A:0.10, C:0.08, G:0.01, T:0.81
Consensus pattern (16 bp):
TTTTTTCTCTTTTTTA
Found at i:17630979 original size:18 final size:17
Alignment explanation
Indices: 17630958--17631035 Score: 61
Period size: 18 Copynumber: 4.4 Consensus size: 17
17630948 CTTTTTTCTC
*
17630958 TTTTTTATTTTTATTAT
1 TTTTTTTTTTTTATTAT
* *
17630975 TTTTTCTGTCTTTATTAT
1 TTTTT-TTTTTTTATTAT
*
17630993 TTTTTATTTTATT-TTAT
1 TTTTT-TTTTTTTATTAT
17631010 TTTTTCTTTCTTTT-TTAT
1 TTTTT-TTT-TTTTATTAT
17631028 TTATTTTT
1 TT-TTTTT
17631036 CTTCATCGAA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
17 17 0.34
18 30 0.60
19 3 0.06
ACGTcount: A:0.13, C:0.05, G:0.01, T:0.81
Consensus pattern (17 bp):
TTTTTTTTTTTTATTAT
Found at i:17630999 original size:25 final size:24
Alignment explanation
Indices: 17630942--17631002 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
17630932 CCTCGACCTC
* *
17630942 TTTTTTCTTTTTTCTCTTTTTTAT
1 TTTTTTATTTTTTCTCTTTATTAT
17630966 TTTTATTATTTTTTCTGTCTTTATTA-
1 TTTT-TTATTTTTTC--TCTTTATTAT
17630992 TTTTTTATTTT
1 TTTTTTATTTT
17631003 ATTTTATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 4 0.12
25 16 0.50
26 4 0.12
27 8 0.25
ACGTcount: A:0.10, C:0.08, G:0.02, T:0.80
Consensus pattern (24 bp):
TTTTTTATTTTTTCTCTTTATTAT
Found at i:17631010 original size:35 final size:34
Alignment explanation
Indices: 17630958--17631029 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 34
17630948 CTTTTTTCTC
17630958 TTTTTTATTTTTATTATTTTTTCTGTCTTTATTA
1 TTTTTTATTTTTATTATTTTTTCTGTCTTTATTA
* * *
17630992 TTTTTTATTTTATTTTATTTTTTCTTTCTTTTTTA
1 TTTTTTATTTT-TATTATTTTTTCTGTCTTTATTA
17631027 TTT
1 TTT
17631030 ATTTTTCTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 11 0.32
35 23 0.68
ACGTcount: A:0.12, C:0.06, G:0.01, T:0.81
Consensus pattern (34 bp):
TTTTTTATTTTTATTATTTTTTCTGTCTTTATTA
Found at i:17631020 original size:39 final size:39
Alignment explanation
Indices: 17630960--17631035 Score: 102
Period size: 39 Copynumber: 1.9 Consensus size: 39
17630950 TTTTTCTCTT
17630960 TTTTATTTTTATTATTTTTTCTGTCTTTA-TTATTTTTTA
1 TTTTATTTTTATTATTTTTTCT-TCTTTATTTATTTTTTA
* *
17630999 TTTTA-TTTTATTTTTTCTTTCTTTTTTATTTATTTTT
1 TTTTATTTTTATTATTT-TTTCTTCTTTATTTATTTTT
17631036 CTTCATCGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 15 0.45
39 18 0.55
ACGTcount: A:0.13, C:0.05, G:0.01, T:0.80
Consensus pattern (39 bp):
TTTTATTTTTATTATTTTTTCTTCTTTATTTATTTTTTA
Found at i:17646878 original size:23 final size:23
Alignment explanation
Indices: 17646847--17646896 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
17646837 TGAATAATTT
* *
17646847 AAAACTTATATAATACAAATTAC
1 AAAAATTATATAAGACAAATTAC
* *
17646870 AAAAATTATTTAAGATAAATTAC
1 AAAAATTATATAAGACAAATTAC
17646893 AAAA
1 AAAA
17646897 TTACTCAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.30
Consensus pattern (23 bp):
AAAAATTATATAAGACAAATTAC
Found at i:17647342 original size:17 final size:17
Alignment explanation
Indices: 17647322--17647363 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
17647312 TTCATTTATT
17647322 TTTAAATTTAGTTTAAA
1 TTTAAATTTAGTTTAAA
* *
17647339 TTTAAATTTATTTTGAA
1 TTTAAATTTAGTTTAAA
17647356 TTTAAATT
1 TTTAAATT
17647364 CATTCTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (17 bp):
TTTAAATTTAGTTTAAA
Found at i:17647374 original size:17 final size:16
Alignment explanation
Indices: 17647322--17647375 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
17647312 TTCATTTATT
17647322 TTTAAATTTAGTTTAAA
1 TTTAAATTTA-TTTAAA
*
17647339 TTTAAATTTATTTTGAA
1 TTTAAATTTA-TTTAAA
*
17647356 TTTAAATTCATTCTAAA
1 TTTAAATTTATT-TAAA
17647373 TTT
1 TTT
17647376 CATTAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 2 0.06
17 30 0.94
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:17647450 original size:12 final size:12
Alignment explanation
Indices: 17647413--17647451 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
17647403 TCCACATTAC
*
17647413 ACAAACCCAAGT
1 ACAAACCCAATT
*
17647425 CCAAACCCAATT
1 ACAAACCCAATT
*
17647437 ACAAACCCATTT
1 ACAAACCCAATT
17647449 ACA
1 ACA
17647452 CCCAAAGCCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.46, C:0.36, G:0.03, T:0.15
Consensus pattern (12 bp):
ACAAACCCAATT
Found at i:17648543 original size:17 final size:18
Alignment explanation
Indices: 17648495--17648544 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 18
17648485 CCGTCATGCA
17648495 CGGCGGTGACGGCGACAGT
1 CGGCGGTGACGGCGA-AGT
17648514 CGGCGGTGAACGGCG-A-T
1 CGGCGGTG-ACGGCGAAGT
17648531 CGGCGGTCGACGGC
1 CGGCGGT-GACGGC
17648545 TGGAGAAGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 13 0.45
18 2 0.07
19 8 0.28
20 6 0.21
ACGTcount: A:0.14, C:0.28, G:0.48, T:0.10
Consensus pattern (18 bp):
CGGCGGTGACGGCGAAGT
Found at i:17649123 original size:30 final size:30
Alignment explanation
Indices: 17649087--17649229 Score: 123
Period size: 30 Copynumber: 4.8 Consensus size: 30
17649077 AGGAGGCTCC
*
17649087 CGAACTTCTTAAAAATTACATTTTGACTTT
1 CGAACTTCTCAAAAATTACATTTTGACTTT
**
17649117 CGAACTTCTCAAAAATTACATTTTGAC-CC
1 CGAACTTCTCAAAAATTACATTTTGACTTT
* * ***
17649146 CAAAACTT-TCCAAAAATTACATTTTAACCCC
1 C-GAACTTCT-CAAAAATTACATTTTGACTTT
* * **
17649177 CGAACTTCTCAAAAATTATATTTTCACCGT
1 CGAACTTCTCAAAAATTACATTTTGACTTT
17649207 -GAACTT-TCCAAAAATTACATTTT
1 CGAACTTCT-CAAAAATTACATTTT
17649230 AACCCTTAAA
Statistics
Matches: 97, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
28 1 0.01
29 22 0.23
30 70 0.72
31 4 0.04
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (30 bp):
CGAACTTCTCAAAAATTACATTTTGACTTT
Found at i:17649230 original size:59 final size:59
Alignment explanation
Indices: 17649097--17649374 Score: 280
Period size: 58 Copynumber: 4.7 Consensus size: 59
17649087 CGAACTTCTT
* ** *
17649097 AAAAATTACATTTTGACTTTCGAACTTCTCAAAAATTACATTTTGACCCCAAAACTTTCC
1 AAAAATTACATTTTAACCCTCGAACTTCTCAAAAATTACATTTT-ACCCCTAAACTTTCC
* * * *
17649157 AAAAATTACATTTTAACCCCCGAACTTCTCAAAAATTATATTTT-CACCGTGAACTTTCC
1 AAAAATTACATTTTAACCCTCGAACTTCTCAAAAATTACATTTTAC-CCCTAAACTTTCC
** *
17649216 AAAAATTACATTTTAACCCTTAAACTTCT-TAAAATTACATTTTTACCCCTAAAC-TTCC
1 AAAAATTACATTTTAACCCTCGAACTTCTCAAAAATTACA-TTTTACCCCTAAACTTTCC
* * * * * * *
17649274 AAAAATCACATTTTTACCCCCGTACTTC-CTAAAATCACTTTTTAGCCCC-AAA-TTTCC
1 AAAAATTACATTTTAACCCTCGAACTTCTCAAAAATTACATTTTA-CCCCTAAACTTTCC
* * **
17649331 AAAAATTACATTTTTATCCTTAAACTTCTCAAAAATTACATTTT
1 AAAAATTACATTTTAACCCTCGAACTTCTCAAAAATTACATTTT
17649375 TGCCCCCGAA
Statistics
Matches: 179, Mismatches: 32, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
57 34 0.19
58 59 0.33
59 46 0.26
60 40 0.22
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.36
Consensus pattern (59 bp):
AAAAATTACATTTTAACCCTCGAACTTCTCAAAAATTACATTTTACCCCTAAACTTTCC
Found at i:17649387 original size:30 final size:30
Alignment explanation
Indices: 17649085--17649403 Score: 253
Period size: 29 Copynumber: 10.9 Consensus size: 30
17649075 ACAGGAGGCT
* * *
17649085 CCCGAACTTCTTAAAAATTACATTTTGACT
1 CCCGAACTTCTCAAAAATTACATTTTTACC
** *
17649115 TTCGAACTTCTCAAAAATTACATTTTGACC
1 CCCGAACTTCTCAAAAATTACATTTTTACC
** *
17649145 CCAAAACTT-TCCAAAAATTACATTTTAACC
1 CCCGAACTTCT-CAAAAATTACATTTTTACC
* *
17649175 CCCGAACTTCTCAAAAATTATATTTTCA-C
1 CCCGAACTTCTCAAAAATTACATTTTTACC
** *
17649204 CGTGAACTT-TCCAAAAATTACATTTTAACC
1 CCCGAACTTCT-CAAAAATTACATTTTTACC
*** *
17649234 CTTAAACTTCT-TAAAATTACATTTTTACC
1 CCCGAACTTCTCAAAAATTACATTTTTACC
** *
17649263 CCTAAACTTC-CAAAAATCACATTTTTACC
1 CCCGAACTTCTCAAAAATTACATTTTTACC
* * * *
17649292 CCCGTACTTC-CTAAAATCAC-TTTTTAGC
1 CCCGAACTTCTCAAAAATTACATTTTTACC
* * *
17649320 CCCAAATTTC-CAAAAATTACATTTTTATC
1 CCCGAACTTCTCAAAAATTACATTTTTACC
*** *
17649349 CTTAAACTTCTCAAAAATTACATTTTTGCC
1 CCCGAACTTCTCAAAAATTACATTTTTACC
17649379 CCCGAACTT-TC-AAAATTACCATTTT
1 CCCGAACTTCTCAAAAATTA-CATTTT
17649404 GCCTCGAGTA
Statistics
Matches: 237, Mismatches: 43, Indels: 19
0.79 0.14 0.06
Matches are distributed among these distances:
28 30 0.13
29 103 0.43
30 102 0.43
31 2 0.01
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (30 bp):
CCCGAACTTCTCAAAAATTACATTTTTACC
Found at i:17651855 original size:19 final size:18
Alignment explanation
Indices: 17651833--17651873 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 18
17651823 TTTCATAACA
17651833 TATTATATGAATCAT-A-
1 TATTATATGAATCATAAG
*
17651849 TAGTAT-TGAATCATAAG
1 TATTATATGAATCATAAG
17651866 TATTATAT
1 TATTATAT
17651874 ATATGTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 8 0.40
16 6 0.30
17 5 0.25
18 1 0.05
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (18 bp):
TATTATATGAATCATAAG
Found at i:17651867 original size:14 final size:15
Alignment explanation
Indices: 17651840--17651869 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17651830 ACATATTATA
17651840 TGAATCATATAGTAT
1 TGAATCATATAGTAT
17651855 TGAATCATA-AGTAT
1 TGAATCATATAGTAT
17651869 T
1 T
17651870 ATATATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (15 bp):
TGAATCATATAGTAT
Found at i:17661808 original size:7 final size:7
Alignment explanation
Indices: 17661798--17661839 Score: 50
Period size: 7 Copynumber: 5.7 Consensus size: 7
17661788 AGAAAGATAA
17661798 AAAAAAG
1 AAAAAAG
17661805 -AAAAAG
1 AAAAAAG
17661811 AAAAAAG
1 AAAAAAG
17661818 AAAAGAGAAG
1 -AAA-A-AAG
17661828 AAAAAAG
1 AAAAAAG
17661835 AAAAA
1 AAAAA
17661840 GGAGAGGTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 6 0.19
7 14 0.45
8 4 0.13
9 4 0.13
10 3 0.10
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:17661816 original size:17 final size:17
Alignment explanation
Indices: 17661786--17661838 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
17661776 AAAAAAGGGG
*
17661786 AAAG-AAAGATAAAA-A
1 AAAGAAAAGAAAAAAGA
17661801 AAAGAAAAAGAAAAAAGA
1 AAAG-AAAAGAAAAAAGA
*
17661819 AAAGAGAAGAAAAAAGA
1 AAAGAAAAGAAAAAAGA
17661836 AAA
1 AAA
17661839 AGGAGAGGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 4 0.12
17 24 0.73
18 5 0.15
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (17 bp):
AAAGAAAAGAAAAAAGA
Found at i:17661817 original size:24 final size:24
Alignment explanation
Indices: 17661785--17661839 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
17661775 TAAAAAAGGG
17661785 GAAAGAAAGATAAAAAAAAG-AAAAA
1 GAAA-AAAGA-AAAAAAAAGAAAAAA
* *
17661810 GAAAAAAGAAAAGAGAAGAAAAAA
1 GAAAAAAGAAAAAAAAAGAAAAAA
17661834 GAAAAA
1 GAAAAA
17661840 GGAGAGGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 7 0.26
24 16 0.59
25 4 0.15
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (24 bp):
GAAAAAAGAAAAAAAAAGAAAAAA
Found at i:17662831 original size:49 final size:48
Alignment explanation
Indices: 17662773--17663125 Score: 222
Period size: 49 Copynumber: 7.2 Consensus size: 48
17662763 GCAAATTTAA
* * *
17662773 TACCCTAGAGATATGGATGGAAAGGTTGAAGCCGTAACGGCAAACCTTG
1 TACCTTAGAGATAT-GATGGAAAGGTTGAAGCCGCAACGGCGAACCTTG
** * * * *
17662822 TACCTTAGAGACGTGATGAGAAAGATTGAAGCCGCAATGGCAAATCTTG
1 TACCTTAGAGATATGATG-GAAAGGTTGAAGCCGCAACGGCGAACCTTG
* * * ***
17662871 TA-CTATGGAGATATGGAGGGAAGGGTTGAAGCCGCAATTTCGAACCTTG
1 TACCT-TAGAGATAT-GATGGAAAGGTTGAAGCCGCAACGGCGAACCTTG
* * * * * * *
17662920 TACCTTAGAAAAATAATAGGAAAGATTAAAGTCGCAACGGCGAATCTTG
1 TACCTTAGAGATATGAT-GGAAAGGTTGAAGCCGCAACGGCGAACCTTG
* * * * * * * * * *
17662969 TACCGTGGAGATATAGAGGGAAAAGTTGAAGTCGTAATGGTGAAACTTA
1 TACCTTAGAGATAT-GATGGAAAGGTTGAAGCCGCAACGGCGAACCTTG
* * * * * *
17663018 TACCTTAAAGATGTGATGGGAAAGATTGAAGCCGCAACGACGAATCTTA
1 TACCTTAGAGATATGAT-GGAAAGGTTGAAGCCGCAACGGCGAACCTTG
* * * * ** *
17663067 TACCCTAAAGATGTGGAGGGAAAGGTTGAAGCTACAACGGCGAACCTTA
1 TACCTTAGAGATAT-GATGGAAAGGTTGAAGCCGCAACGGCGAACCTTG
17663116 TACCTTAGAG
1 TACCTTAGAG
17663126 GTGTAAAGGG
Statistics
Matches: 230, Mismatches: 66, Indels: 16
0.74 0.21 0.05
Matches are distributed among these distances:
48 9 0.04
49 213 0.93
50 8 0.03
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.22
Consensus pattern (48 bp):
TACCTTAGAGATATGATGGAAAGGTTGAAGCCGCAACGGCGAACCTTG
Found at i:17663136 original size:49 final size:49
Alignment explanation
Indices: 17663014--17663177 Score: 184
Period size: 49 Copynumber: 3.3 Consensus size: 49
17663004 AATGGTGAAA
* * *
17663014 CTTATACCTTAAAGATGTGATGGGAAAGATTGAAGCCGCAACGACGAAT
1 CTTATACCTTAAAGATGTGAAGGGAAAGATTGAAGCTGCAACGGCGAAT
* * * * *
17663063 CTTATACCCTAAAGATGTGGAGGGAAAGGTTGAAGCTACAACGGCGAAC
1 CTTATACCTTAAAGATGTGAAGGGAAAGATTGAAGCTGCAACGGCGAAT
* * * * * *
17663112 CTTATACCTTAGAGGTGTAAAGGGAAAGATTGAGGCTGCAATGGCAAAT
1 CTTATACCTTAAAGATGTGAAGGGAAAGATTGAAGCTGCAACGGCGAAT
* *
17663161 CTTATACCCTGAAGATG
1 CTTATACCTTAAAGATG
17663178 AGAAAAAGCA
Statistics
Matches: 92, Mismatches: 23, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
49 92 1.00
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (49 bp):
CTTATACCTTAAAGATGTGAAGGGAAAGATTGAAGCTGCAACGGCGAAT
Found at i:17663169 original size:98 final size:98
Alignment explanation
Indices: 17662741--17663176 Score: 369
Period size: 98 Copynumber: 4.5 Consensus size: 98
17662731 TATAGGTTTG
* * *
17662741 AAGGG-AAGATTGAAGATGC-ACGGCAAAT-TTAATACCCTAGAGATATGGATGGAAAGGTTGAA
1 AAGGGAAAGATTGAAGCTGCAACGGCAAATCTT-ATACCCTGGAGATATGGAGGGAAAGGTTGAA
* * * * *
17662803 GCCGTAACGGCAAACCTTGTACCTTAGAGACGTG
65 GCCGCAACGGCGAACCTTATACCTTAGAGATGTA
* * * * * ** *
17662837 ATGAGAAAGATTGAAGCCGCAATGGCAAATCTTGTACTATGGAGATATGGAGGGAAGGGTTGAAG
1 AAGGGAAAGATTGAAGCTGCAACGGCAAATCTTATACCCTGGAGATATGGAGGGAAAGGTTGAAG
*** * * **
17662902 CCGCAATTTCGAACCTTGTACCTTAGAAAAATA
66 CCGCAACGGCGAACCTTATACCTTAGAGATGTA
* * * * * *
17662935 ATA-GGAAAGATTAAAG-TCGCAACGGCGAATCTTGTACCGTGGAGATATAGAGGGAAAAGTTGA
1 A-AGGGAAAGATTGAAGCT-GCAACGGCAAATCTTATACCCTGGAGATATGGAGGGAAAGGTTGA
* * * * * * *
17662998 AGTCGTAATGGTGAAACTTATACCTTAAAGATGTG
64 AGCCGCAACGGCGAACCTTATACCTTAGAGATGTA
* * * * ** *
17663033 ATGGGAAAGATTGAAGCCGCAACGACGAATCTTATACCCTAAAGATGTGGAGGGAAAGGTTGAAG
1 AAGGGAAAGATTGAAGCTGCAACGGCAAATCTTATACCCTGGAGATATGGAGGGAAAGGTTGAAG
** *
17663098 CTACAACGGCGAACCTTATACCTTAGAGGTGTA
66 CCGCAACGGCGAACCTTATACCTTAGAGATGTA
* * *
17663131 AAGGGAAAGATTGAGGCTGCAATGGCAAATCTTATACCCTGAAGAT
1 AAGGGAAAGATTGAAGCTGCAACGGCAAATCTTATACCCTGGAGAT
17663177 GAGAAAAAGC
Statistics
Matches: 262, Mismatches: 71, Indels: 12
0.76 0.21 0.03
Matches are distributed among these distances:
96 3 0.01
97 12 0.05
98 245 0.94
99 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (98 bp):
AAGGGAAAGATTGAAGCTGCAACGGCAAATCTTATACCCTGGAGATATGGAGGGAAAGGTTGAAG
CCGCAACGGCGAACCTTATACCTTAGAGATGTA
Found at i:17663486 original size:40 final size:37
Alignment explanation
Indices: 17663393--17663563 Score: 180
Period size: 38 Copynumber: 4.4 Consensus size: 37
17663383 CGAAGCTACT
* ** *
17663393 ATCCAATCTCATACCTCGATCATAAGGCAGATTGAAGC
1 ATCCAATCT-TTACCTTAATCAGAAGGCAGATTGAAGC
*
17663431 ATCCAATCTTTTACCTTAATTAGAAGGCAGATTGAAGAC
1 ATCCAATC-TTTACCTTAATCAGAAGGCAGATTGAAG-C
*
17663470 ACTCCAATCTTATACCTTAATCAGAAGGCAGATTCAAGC
1 A-TCCAATCTT-TACCTTAATCAGAAGGCAGATTGAAGC
* *
17663509 ATCCAATCTCTTACCCTAATCAGATGGCAGATTGAAGAC
1 ATCCAATCT-TTACCTTAATCAGAAGGCAGATTGAAG-C
*
17663548 ACACCAATCTCTTACC
1 A-TCCAATCT-TTACC
17663564 CCGTTCATGA
Statistics
Matches: 115, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
38 61 0.53
39 10 0.09
40 44 0.38
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (37 bp):
ATCCAATCTTTACCTTAATCAGAAGGCAGATTGAAGC
Found at i:17663523 original size:78 final size:78
Alignment explanation
Indices: 17663394--17663966 Score: 264
Period size: 81 Copynumber: 7.1 Consensus size: 78
17663384 GAAGCTACTA
* * * * * *
17663394 TCCAATCTCATACCTCGATCATAAGGCAGATTGAAGCATCCAATCTTTTACCTTAATTAGAAGGC
1 TCCAATCTCATACCTCAATCAGAAGGCAGATTCAAGCATCCAATCTCTTACCCTAATCAGAAGGC
17663459 AGATTGAAGACAC
66 AGATTGAAGACAC
* * *
17663472 TCCAATCTTATACCTTAATCAGAAGGCAGATTCAAGCATCCAATCTCTTACCCTAATCAGATGGC
1 TCCAATCTCATACCTCAATCAGAAGGCAGATTCAAGCATCCAATCTCTTACCCTAATCAGAAGGC
17663537 AGATTGAAGACAC
66 AGATTGAAGACAC
* * * ** * * * * * *
17663550 ACCAATCTCTTACCCCGTTCATG-AGGTAGATTGAGGACCATCCAATCTCTTACCCCAATCATAG
1 TCCAATCTCATACCTCAATCA-GAAGGCAGATTCA--AGCATCCAATCTCTTACCCTAATCAGAA
*
17663614 GGCCGATTGAAGACATC
63 GGCAGATTGAAGACA-C
* * * * * * * *
17663631 ATCTAATCTCTTACCCCTATCATG-GGGCAGATTGAAGACATCATCCAATCTTTTACCCTGATCA
1 -TCCAATCTCATACCTCAATCA-GAAGGCAGATTCAAG----CATCCAATCTCTTACCCTAATCA
* *
17663695 TG-GGGCAGATTGAAGCCA-
60 -GAAGGCAGATTGAAGACAC
* * * * ** * ** *
17663713 TCCAATCTCTTACCCCGATTAGGGGGCAGATTGAAGATATCATCCAATCTCTTACCCCGATCATA
1 TCCAATCTCATACCTCAATCAGAAGGCAGATTCAAG----CATCCAATCTCTTACCCTAATCAGA
* * * * *
17663778 GGGTAAATTAAAGTCA-
62 AGGCAGATTGAAGACAC
* * * * * * * *
17663794 TCCAATCTCTTACCCCGATCATG-GGGAAAATTGAAGACATCACCCAATCTCTTA-CCTCGATCA
1 TCCAATCTCATACCTCAATCA-GAAGGCAGATTCAAG-CAT---CCAATCTCTTACCCT-AATCA
17663857 TG-AGGCAGATTGAAGACATC
60 -GAAGGCAGATTGAAGACA-C
* * * *** * * *
17663877 ATCCAATCTCTTACCCCGATCATTGGGCAGATTAAAGCCATCCAATCTCTTACCCCAATCATG-G
1 -TCCAATCTCATACCTCAATCAGAAGGCAGATTCAAG-CATCCAATCTCTTACCCTAATCA-GAA
17663941 GGCAGATTGAAGACATC
63 GGCAGATTGAAGACA-C
17663958 ATCCAATCT
1 -TCCAATCT
17663967 TTTACCTCGA
Statistics
Matches: 406, Mismatches: 66, Indels: 43
0.79 0.13 0.08
Matches are distributed among these distances:
78 95 0.23
79 1 0.00
80 42 0.10
81 169 0.42
82 31 0.08
84 68 0.17
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (78 bp):
TCCAATCTCATACCTCAATCAGAAGGCAGATTCAAGCATCCAATCTCTTACCCTAATCAGAAGGC
AGATTGAAGACAC
Found at i:17663745 original size:123 final size:125
Alignment explanation
Indices: 17663508--17664545 Score: 1124
Period size: 123 Copynumber: 8.5 Consensus size: 125
17663498 CAGATTCAAG
** * *
17663508 CATCCAATCTCTTACCCTAATCA-GATGGCAGATTGAAGACA-CA-CCAATCTCTTACCCCGTTC
1 CATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATC
* * * * * *
17663570 ATGAGGTAGATTGAGGAC-CATCCAATCTCTTACCCCAATCATAGGGCCGATTGAAGACAT
65 ATGGGGCAGATTGAAGACACATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * * *
17663630 CATCTAATCTCTTACCCCTATCATGGGGCAGATTGAAGACATCATCCAATCTTTTACCCTGATCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCA
* * *
17663695 TGGGGCAGATTGAAG-C-CATCCAATCTCTTACCCCGATTAGGGGGCAGATTGAAGATAT
66 TGGGGCAGATTGAAGACACATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * * *
17663753 CATCCAATCTCTTACCCCGATCATAGGGTAAATT-AA-A-GTCATCCAATCTCTTACCCCGATCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCA
* * * * *
17663815 TGGGGAAAATTGAAGACATCACCCAATCTCTTACCTCGATCATGAGGCAGATTGAAGACAT
66 TGGGGCAGATTGAAGACA-CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * *
17663876 CATCCAATCTCTTACCCCGATCATTGGGCAGATTAAAG-C--CATCCAATCTCTTACCCCAATCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCA
* * * *
17663938 TGGGGCAGATTGAAGACATCATCCAATCTTTTACCTCGATCATGGGGCTGATTGAAGACGT
66 TGGGGCAGATTGAAGACA-CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* *
17663999 CATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGACGTCATCCAATCTCTTACCCCGATCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCA
* * *
17664064 TAGGGCAGATTGAATACATCATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAG-C--
66 TGGGGCAGATTGAAGACA-CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * * * *
17664122 CAT-CAA-ATCTTACCTCGATCATGGGTCAGACTGAAGACATCATCCAATCTCTTACCCCGCTCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCA
* * * * * * *
17664185 TGAGGTAGATTGAAAACATCAGCCAATCTCTTACCCCGATCATAGAGCAAATTGAA-AC--
66 TGGGGCAGATTGAAGACA-CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* *
17664243 CATCCAATCTCTTACCCCGATCATAGGGTAGATTGAAGA-AGTCATCCAATCTCTTACCCCGATC
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACA-TCATCCAATCTCTTACCCCGATC
* * * *
17664307 ATGGGGTAGATTGAAG-C-CATCCAATCTCTTACCTCGATCATGGGTCAAATTGAAGACAT
65 ATGGGGCAGATTGAAGACACATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * **
17664366 CATCCAATCTCTTACCCCGACCATAGGGCAGATTGAAG-C-T-ATCCAATCTCTTACCCTAATCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCA
** * * * * * ** * *
17664428 CAGGGCATATTAAAGACA-ATCTAATCTTTTATCCTAATCA-GAGGGTAGATTGAAGATAT
66 TGGGGCAGATTGAAGACACATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAGACAT
* * * * * *
17664487 CAACCAAGCTCTTACCCTGATCATGGGGAAGATTAAAGACATCATCCAATCTTTTACCC
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCC
17664546 TTAAATCAAG
Statistics
Matches: 780, Mismatches: 110, Indels: 50
0.83 0.12 0.05
Matches are distributed among these distances:
120 98 0.13
121 167 0.21
122 46 0.06
123 348 0.45
124 47 0.06
125 1 0.00
126 73 0.09
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (125 bp):
CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCA
TGGGGCAGATTGAAGACACATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
Found at i:17663755 original size:81 final size:83
Alignment explanation
Indices: 17663508--17664545 Score: 1063
Period size: 81 Copynumber: 12.7 Consensus size: 83
17663498 CAGATTCAAG
* * *
17663508 CATCCAATCTCTTACCCTAATCA-GATGGCAGATTGAAGACACA-CCAATCTCTTACCCCGTTCA
1 CATCCAATCTCTTACCCTGATCATG-GGGCAGATTGAAGACACATCCAATCTCTTACCCCGATCA
* * *
17663571 TGAGGTAGATTGAGGAC--
65 TGGGGCAGATTGAAGACAT
** * * * *
17663588 CATCCAATCTCTTACCCCAATCATAGGGCCGATTGAAGACATCATCTAATCTCTTACCCCTATCA
1 CATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAGACA-CATCCAATCTCTTACCCCGATCA
17663653 TGGGGCAGATTGAAGACAT
65 TGGGGCAGATTGAAGACAT
* * *
17663672 CATCCAATCTTTTACCCTGATCATGGGGCAGATTGAAG-C-CATCCAATCTCTTACCCCGATTAG
1 CATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAGACACATCCAATCTCTTACCCCGATCAT
*
17663735 GGGGCAGATTGAAGATAT
66 GGGGCAGATTGAAGACAT
* * * * **
17663753 CATCCAATCTCTTACCCCGATCATAGGGTAAATT-AA-AGTCATCCAATCTCTTACCCCGATCAT
1 CATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAGACACATCCAATCTCTTACCCCGATCAT
* *
17663816 GGGGAAAATTGAAGACAT
66 GGGGCAGATTGAAGACAT
* *
17663834 CACCCAATCTCTTA-CCTCGATCATGAGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATC
1 CATCCAATCTCTTACCCT-GATCATGGGGCAGATTGAAGACA-CATCCAATCTCTTACCCCGATC
* *
17663898 ATTGGGCAGATTAAAG-C--
64 ATGGGGCAGATTGAAGACAT
** * *
17663915 CATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACATCATCCAATCTTTTACCTCGATCA
1 CATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAGACA-CATCCAATCTCTTACCCCGATCA
* *
17663980 TGGGGCTGATTGAAGACGT
65 TGGGGCAGATTGAAGACAT
* * *
17663999 CATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGACGTCATCCAATCTCTTACCCCGATCA
1 CATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAGAC-ACATCCAATCTCTTACCCCGATCA
* *
17664064 TAGGGCAGATTGAATACAT
65 TGGGGCAGATTGAAGACAT
* *
17664083 CATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAG-C-CAT-CAA-ATCTTACCTCGATCAT
1 CATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAGACACATCCAATCTCTTACCCCGATCAT
* *
17664144 GGGTCAGACTGAAGACAT
66 GGGGCAGATTGAAGACAT
* * * * * *
17664162 CATCCAATCTCTTACCCCGCTCATGAGGTAGATTGAAAACATCAGCCAATCTCTTACCCCGATCA
1 CATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAGACA-CATCCAATCTCTTACCCCGATCA
* * *
17664227 TAGAGCAAATTGAA-AC--
65 TGGGGCAGATTGAAGACAT
* * *
17664243 CATCCAATCTCTTACCCCGATCATAGGGTAGATTGAAGA-AGTCATCCAATCTCTTACCCCGATC
1 CATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAGACA--CATCCAATCTCTTACCCCGATC
*
17664307 ATGGGGTAGATTGAAG-C--
64 ATGGGGCAGATTGAAGACAT
* * *
17664324 CATCCAATCTCTTA-CCTCGATCATGGGTCAAATTGAAGACATCATCCAATCTCTTACCCCGACC
1 CATCCAATCTCTTACCCT-GATCATGGGGCAGATTGAAGACA-CATCCAATCTCTTACCCCGATC
*
17664388 ATAGGGCAGATTGAAG-C-T
64 ATGGGGCAGATTGAAGACAT
* ** * * * * * **
17664406 -ATCCAATCTCTTACCCTAATCACAGGGCATATTAAAGACA-ATCTAATCTTTTATCCTAATCA-
1 CATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAGACACATCCAATCTCTTACCCCGATCAT
* *
17664468 GAGGGTAGATTGAAGATAT
66 G-GGGCAGATTGAAGACAT
* * * * *
17664487 CAACCAAGCTCTTACCCTGATCATGGGGAAGATTAAAGACATCATCCAATCTTTTACCC
1 CATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAGACA-CATCCAATCTCTTACCC
17664546 TTAAATCAAG
Statistics
Matches: 802, Mismatches: 123, Indels: 62
0.81 0.12 0.06
Matches are distributed among these distances:
79 89 0.11
80 47 0.06
81 369 0.46
82 75 0.09
83 9 0.01
84 213 0.27
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (83 bp):
CATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAGACACATCCAATCTCTTACCCCGATCAT
GGGGCAGATTGAAGACAT
Found at i:17664523 original size:82 final size:87
Alignment explanation
Indices: 17664393--17664569 Score: 199
Period size: 82 Copynumber: 2.1 Consensus size: 87
17664383 CGACCATAGG
* * * * *
17664393 GCAGATTGAAGCTAT---CCAATCTCTTACCCTAATCACAGGGCATATTAAAGACA-ATCTAATC
1 GCAGATTGAAGATATCAACCAAGCTCTTACCCTAATCACAGGGAAGATTAAAGACACATCCAATC
*
17664454 TTTTATCC-T-AATC-AGAGG-
66 TTTTACCCTTAAATCAAGAGGT
* * **
17664472 GTAGATTGAAGATATCAACCAAGCTCTTACCCTGATCATGGGGAAGATTAAAGACATCATCCAAT
1 GCAGATTGAAGATATCAACCAAGCTCTTACCCTAATCACAGGGAAGATTAAAGACA-CATCCAAT
17664537 CTTTTACCCTTAAATCAAGAGGT
65 CTTTTACCCTTAAATCAAGAGGT
17664560 GCAGATTGAA
1 GCAGATTGAA
17664570 ACTACCATCT
Statistics
Matches: 78, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
79 13 0.17
82 32 0.41
84 14 0.18
85 1 0.01
86 4 0.05
87 5 0.06
88 9 0.12
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (87 bp):
GCAGATTGAAGATATCAACCAAGCTCTTACCCTAATCACAGGGAAGATTAAAGACACATCCAATC
TTTTACCCTTAAATCAAGAGGT
Found at i:17664546 original size:42 final size:42
Alignment explanation
Indices: 17663508--17664545 Score: 1132
Period size: 42 Copynumber: 25.4 Consensus size: 42
17663498 CAGATTCAAG
** *
17663508 CATCCAATCTCTTACCCTAATCA-GATGGCAGATTGAAGACA-
1 CATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAGACAT
* * * *
17663549 CA-CCAATCTCTTACCCCGTTCATGAGGTAGATTGAGGAC--
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * *
17663588 CATCCAATCTCTTACCCCAATCATAGGGCCGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* *
17663630 CATCTAATCTCTTACCCCTATCATGGGGCAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* *
17663672 CATCCAATCTTTTACCCTGATCATGGGGCAGATTGAAG-C--
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * *
17663711 CATCCAATCTCTTACCCCGATTAGGGGGCAGATTGAAGATAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * * *
17663753 CATCCAATCTCTTACCCCGATCATAGGGTAAATT-AA-A-GT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* *
17663792 CATCCAATCTCTTACCCCGATCATGGGGAAAATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * *
17663834 CACCCAATCTCTTACCTCGATCATGAGGCAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* *
17663876 CATCCAATCTCTTACCCCGATCATTGGGCAGATTAAAG-C--
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
*
17663915 CATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * * *
17663957 CATCCAATCTTTTACCTCGATCATGGGGCTGATTGAAGACGT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* *
17663999 CATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGACGT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* *
17664041 CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAATACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
*
17664083 CATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAG-C--
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * * *
17664122 CAT-CAA-ATCTTACCTCGATCATGGGTCAGACTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * * *
17664162 CATCCAATCTCTTACCCCGCTCATGAGGTAGATTGAAAACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * * *
17664204 CAGCCAATCTCTTACCCCGATCATAGAGCAAATTGAA-AC--
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* *
17664243 CATCCAATCTCTTACCCCGATCATAGGGTAGATTGAAGA-AGT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACA-T
*
17664285 CATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAG-C--
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * *
17664324 CATCCAATCTCTTACCTCGATCATGGGTCAAATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* *
17664366 CATCCAATCTCTTACCCCGACCATAGGGCAGATTGAAG-C-T
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
** ** * *
17664406 -ATCCAATCTCTTACCCTAATCACAGGGCATATTAAAGACA-
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * * ** * *
17664446 -ATCTAATCTTTTATCCTAATCA-GAGGGTAGATTGAAGATAT
1 CATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAGACAT
* * * * *
17664487 CAACCAAGCTCTTACCCTGATCATGGGGAAGATTAAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
*
17664529 CATCCAATCTTTTACCC
1 CATCCAATCTCTTACCC
17664546 TTAAATCAAG
Statistics
Matches: 841, Mismatches: 124, Indels: 63
0.82 0.12 0.06
Matches are distributed among these distances:
37 25 0.03
38 4 0.00
39 205 0.24
40 101 0.12
41 15 0.02
42 490 0.58
43 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (42 bp):
CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
Found at i:17665639 original size:18 final size:18
Alignment explanation
Indices: 17665616--17665652 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
17665606 TGTAATATAG
17665616 TTATATATT-TATTTTATT
1 TTATATATTAT-TTTTATT
17665634 TTATATATTATTTTTATT
1 TTATATATTATTTTTATT
17665652 T
1 T
17665653 CATTATTTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
TTATATATTATTTTTATT
Found at i:17671396 original size:40 final size:40
Alignment explanation
Indices: 17671352--17671465 Score: 165
Period size: 40 Copynumber: 2.9 Consensus size: 40
17671342 AAGCTATTGT
*
17671352 TTAGCAGGCCATGAGCCGGTGTTAAAATTCAAGCTACGAC
1 TTAGCAGGCTATGAGCCGGTGTTAAAATTCAAGCTACGAC
* * * **
17671392 TTAGCAGGATATGAGTCGGTGTTAAAATTCAAACTACGGT
1 TTAGCAGGCTATGAGCCGGTGTTAAAATTCAAGCTACGAC
*
17671432 TTAGCAGGCTATAAGCCGGTGTTAAAATTCAAGC
1 TTAGCAGGCTATGAGCCGGTGTTAAAATTCAAGC
17671466 AAAGCTATGG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (40 bp):
TTAGCAGGCTATGAGCCGGTGTTAAAATTCAAGCTACGAC
Found at i:17683217 original size:20 final size:21
Alignment explanation
Indices: 17683179--17683221 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
17683169 TATTTAAAAT
*
17683179 TTAAATTATAATATATTAATA
1 TTAAATGATAATATATTAATA
*
17683200 TTAAATGAT-ATATTTTAATA
1 TTAAATGATAATATATTAATA
17683220 TT
1 TT
17683222 TTATTCTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TTAAATGATAATATATTAATA
Found at i:17688918 original size:26 final size:26
Alignment explanation
Indices: 17688880--17688953 Score: 80
Period size: 24 Copynumber: 2.9 Consensus size: 26
17688870 AGAAAGGAAG
*
17688880 TTTAAATAAAAAAATAAAGAATTAAGT
1 TTTAAATATAAAAATAAA-AATTAAGT
* *
17688907 TTTAAAT-T-AAAATAAAAATAAATT
1 TTTAAATATAAAAATAAAAATTAAGT
* *
17688931 TTTAAGTATAACAATAAAAATTA
1 TTTAAATATAAAAATAAAAATTA
17688954 CAAAATTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 12 0.31
25 9 0.23
26 11 0.28
27 7 0.18
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (26 bp):
TTTAAATATAAAAATAAAAATTAAGT
Found at i:17688969 original size:29 final size:25
Alignment explanation
Indices: 17688880--17688969 Score: 74
Period size: 29 Copynumber: 3.4 Consensus size: 25
17688870 AGAAAGGAAG
* * *
17688880 TTTAAATAAAAAAATAAAGAATTAAGT
1 TTTAAAT-ATAAAATAAA-AATAAAAT
*
17688907 TTTAAAT-TAAAATAAAAATAAATT
1 TTTAAATATAAAATAAAAATAAAAT
*
17688931 TTTAAGTATAACAATAAAAATTACAAAAT
1 TTTAAATATAA-AATAAAAA-T--AAAAT
17688960 TTTAAATATA
1 TTTAAATATA
17688970 TTGAAGTTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
24 12 0.23
25 11 0.21
26 8 0.15
27 8 0.15
29 13 0.25
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.34
Consensus pattern (25 bp):
TTTAAATATAAAATAAAAATAAAAT
Found at i:17690143 original size:14 final size:15
Alignment explanation
Indices: 17690124--17690158 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
17690114 AATCATGGTG
17690124 ATTTGTTT-TTTGCT
1 ATTTGTTTCTTTGCT
17690138 ATTTGTTTCTTTGCT
1 ATTTGTTTCTTTGCT
*
17690153 TTTTGT
1 ATTTGT
17690159 CTCTGTCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.06, C:0.09, G:0.14, T:0.71
Consensus pattern (15 bp):
ATTTGTTTCTTTGCT
Found at i:17691062 original size:114 final size:113
Alignment explanation
Indices: 17690834--17691211 Score: 447
Period size: 114 Copynumber: 3.3 Consensus size: 113
17690824 TTTGTTTTAG
* * ** * * * * *
17690834 CCCACTTCTTTGTATCTTGCCAGGATGATGAGATTTGAAGTCTCACTCCATTCCACTGTAACCTC
1 CCCACTTCTCTGTACCTCACCAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACTATATCCTC
* * * *
17690899 AGGGACATTGAGCTCT-ACTTCATTGTTTTAATAT-AAC-CTACTGCTTTGA
66 AGGGACGTTGAGCT-TGGCTTCGTTGTTTTGAT-TCAACAC-ACTG-TTTGA
* * * *
17690948 CCCACTTCTTTGTACCTCACCAGGAAGATGGGATTTGATGTCTCACCCCACTCCATTATATCCTC
1 CCCACTTCTCTGTACCTCACCAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACTATATCCTC
* *
17691013 AGGGACGTTGAGCTTGGCTTCGTTCTTCTGATTCAACACACTGTATTGA
66 AGGGACGTTGAGCTTGGCTTCGTTGTTTTGATTCAACACACTGT-TTGA
* * *
17691062 CCCACTTCTCTGTACCTCATCAGGAAGATGGGATTTGAAGTTTCACTCCACTCCACTATATGCTC
1 CCCACTTCTCTGTACCTCACCAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACTATATCCTC
* * * *
17691127 AGAGACGTTGAGCTCGGCTTCGTTGTTTTGATTCAACATACTATTTTGA
66 AGGGACGTTGAGCTTGGCTTCGTTGTTTTGATTCAACACACT-GTTTGA
17691176 CCCACTTCTCTGTACCTCACCAGGAAGATGGGATTT
1 CCCACTTCTCTGTACCTCACCAGGAAGATGGGATTT
17691212 TCACTCGCAT
Statistics
Matches: 228, Mismatches: 31, Indels: 10
0.85 0.12 0.04
Matches are distributed among these distances:
113 3 0.01
114 223 0.98
115 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (113 bp):
CCCACTTCTCTGTACCTCACCAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACTATATCCTC
AGGGACGTTGAGCTTGGCTTCGTTGTTTTGATTCAACACACTGTTTGA
Found at i:17691386 original size:122 final size:122
Alignment explanation
Indices: 17691240--17691519 Score: 330
Period size: 122 Copynumber: 2.3 Consensus size: 122
17691230 ACCTCATTAT
** * * * *
17691240 TTTGGTCCGCTTCTCTGTATCTCATCAGGAAGATGAATACTTCGTTGTCCGACCCACCTCTCTCT
1 TTTGGTCTACTTCTCTGTACCTCATCAGGAAGATGAACACTTCATTGTCCGACCCACCTATCTCT
17691305 ATCTCATCAAGAAGATGGGGTTTCAAAGTTTTACTCACATGATG-TCTACTTCATTGA
66 ATCTCATCAAGAAGATGGGGTTTCAAAGTTTTACTCACATGA-GCTCTACTTCATTGA
* * * * ** * * * *
17691362 TTTGGTCTATTTCTCTGTACCTCATTAGGAAGATGACCGCTTCATTGTTTGATCCACTTATTTGT
1 TTTGGTCTACTTCTCTGTACCTCATCAGGAAGATGAACACTTCATTGTCCGACCCACCTATCTCT
** * *
17691427 ATCTCATCAAGAAGATGGGGTTTCAAAGTTTTACTTGCATGAGCTCTGCTTCATTTA
66 ATCTCATCAAGAAGATGGGGTTTCAAAGTTTTACTCACATGAGCTCTACTTCATTGA
* *
17691484 TTTGGTCTACTTCTTTGTACCACA-CTAGGAAGATGA
1 TTTGGTCTACTTCTCTGTACCTCATC-AGGAAGATGA
17691520 CCCACTTCTC
Statistics
Matches: 132, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
121 1 0.01
122 131 0.99
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (122 bp):
TTTGGTCTACTTCTCTGTACCTCATCAGGAAGATGAACACTTCATTGTCCGACCCACCTATCTCT
ATCTCATCAAGAAGATGGGGTTTCAAAGTTTTACTCACATGAGCTCTACTTCATTGA
Found at i:17691600 original size:106 final size:106
Alignment explanation
Indices: 17691415--17691608 Score: 248
Period size: 106 Copynumber: 1.8 Consensus size: 106
17691405 ATTGTTTGAT
* * ** * *
17691415 CCACTTATTTGTATCTCATCAAGAAGATGGGGTTTCAAAGTTTTACTTGCATGAGCTCTGCTTCA
1 CCACTTATCTGTATCTCATCAAGAAGATGGGGTTTCAAAGTTTCACTCACATAAGCTCTACTTCA
* *
17691480 TTTATTTGGTCTACTTCTTTGTACCACACTAGGAAGATGAC
66 TTGATTTGGTCTACTTCTCTGTACCACACTAGGAAGATGAC
* * *
17691521 CCACTTCTCTGTATCTCTTCAAGAAGATGGGGTTT-GAAGTTTCACTCACATTAAGCT-TCACTT
1 CCACTTATCTGTATCTCATCAAGAAGATGGGGTTTCAAAGTTTCACTCACA-TAAGCTCT-ACTT
*
17691584 CCTTGATTTGGTCTACTTCTCTGTA
64 CATTGATTTGGTCTACTTCTCTGTA
17691609 TCTCATCAAG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
105 12 0.16
106 62 0.84
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.39
Consensus pattern (106 bp):
CCACTTATCTGTATCTCATCAAGAAGATGGGGTTTCAAAGTTTCACTCACATAAGCTCTACTTCA
TTGATTTGGTCTACTTCTCTGTACCACACTAGGAAGATGAC
Found at i:17691695 original size:42 final size:43
Alignment explanation
Indices: 17691648--17691731 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
17691638 ATGACCCACT
*
17691648 TGATTA-GGGTAAAAGATCGAAATGTGGCTTCAATTTTCCCCA
1 TGATTAGGGGTAAAAGATCGAAATGTGGCTTCAATTTACCCCA
* * * *
17691690 TGATTAGGGGTAAAATATTGGAATGTGGTTTCAATTTACCCC
1 TGATTAGGGGTAAAAGATCGAAATGTGGCTTCAATTTACCCC
17691732 TCTTGATTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 6 0.17
43 30 0.83
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (43 bp):
TGATTAGGGGTAAAAGATCGAAATGTGGCTTCAATTTACCCCA
Found at i:17692311 original size:48 final size:48
Alignment explanation
Indices: 17692138--17692475 Score: 125
Period size: 49 Copynumber: 6.9 Consensus size: 48
17692128 ATGTTTATAG
* *
17692138 GGTACAAGG-TTCACCATTGTGACCTCAACCTTTCCCCTTTATAT-TTCCA
1 GGTAC-AGGATTCACCATTGCGACCTCAACCTTT-CCCTTCATATCTT-CA
* * * * * * * * *
17692187 TGGTACTA-GATCCGCCATTGCGGCCTCGATCTTTCCCATCAAACCTCTAA
1 -GGTAC-AGGATTCACCATTGCGACCTCAACCTTTCCCTTCATATCT-TCA
*** *
17692237 GGTACCAGG-TTTGTCGTTGC-AGCCTCAACCTTTCCCTTCATATCTTCA
1 GGTA-CAGGATTCACCATTGCGA-CCTCAACCTTTCCCTTCATATCTTCA
* *** * **
17692285 GGTACCGGATTCGTTATTGCGACCTCAATCC-TTCCCATCGCATCTTCTAA
1 GGTACAGGATTCACCATTGCGACCTCAA-CCTTTCCCTTCATATCTTC--A
* * *
17692335 GGTACAGGGTTCACCGTTGCGACCTCAACCTTTCCTTTCATATCTTCA
1 GGTACAGGATTCACCATTGCGACCTCAACCTTTCCCTTCATATCTTCA
* * * * * * * *
17692383 TGGTATC-GAATTCATCGTTACGGCCTCAATC-TTCCCATCATGTCTTCAAA
1 -GGTA-CAGGATTCACCATTGCGACCTCAACCTTTCCCTTCATATCTTC--A
* * * * * * *
17692433 GGTATAGGGTTCGCCGTTGCTACCTCAACTTTTCCCTTTATAT
1 GGTACAGGATTCACCATTGCGACCTCAACCTTTCCCTTCATAT
17692476 TTCCATGGTA
Statistics
Matches: 208, Mismatches: 62, Indels: 36
0.68 0.20 0.12
Matches are distributed among these distances:
47 3 0.01
48 47 0.23
49 83 0.40
50 74 0.36
51 1 0.00
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.34
Consensus pattern (48 bp):
GGTACAGGATTCACCATTGCGACCTCAACCTTTCCCTTCATATCTTCA
Found at i:17692353 original size:98 final size:99
Alignment explanation
Indices: 17692087--17692673 Score: 509
Period size: 98 Copynumber: 6.0 Consensus size: 99
17692077 AAGATCTTTT
* * * * ** * * *
17692087 ATGGTTCCAAATTCGCCGTTACGGCCTCAATCCTTCCCATAATGT-TTATAGGGTACAAGGTTCA
1 ATGGTACCAGATTCGTCGTTGCGGCCTCAATCCTTCCCATCCT-TCTTCTAAGGTACAAGGTTCG
* *
17692151 CCATTG-TGACCTCAACCTTTCCCCTTTATAT-TTCC
65 CCGTTGCAG-CCTCAACCTTT-CCCTTTATATCTTCC
* * * * * * *** * * * *
17692186 ATGGTACTAGATCCGCCATTGCGGCCTCGATCTTTCCCATCAAACCTCTAAGGTACCAGGTTTGT
1 ATGGTACCAGATTCGTCGTTGCGGCCTCAATCCTTCCCATCCTTCTTCTAAGGTACAAGGTTCGC
*
17692251 CGTTGCAGCCTCAACCTTTCCCTTCATATCTT-C
66 CGTTGCAGCCTCAACCTTTCCCTTTATATCTTCC
* ** * * * *
17692284 A-GGTACCGGATTCGTTATTGCGACCTCAATCCTTCCCATCGCATCTTCTAAGGTACAGGGTTCA
1 ATGGTACCAGATTCGTCGTTGCGGCCTCAATCCTTCCCATC-CTTCTTCTAAGGTACAAGGTTCG
17692348 CCGTTGC-GACCTCAACCTTT-CCTTTCATATCTT-C
65 CCGTTGCAG-CCTCAACCTTTCCCTTT-ATATCTTCC
* * * * * * *
17692382 ATGGTATC-GAATTCATCGTTACGGCCTCAAT-CTTCCCATCATGTCTTCAAAGGTATAGGGTTC
1 ATGGTACCAG-ATTCGTCGTTGCGGCCTCAATCCTTCCCATCCT-TCTTCTAAGGTACAAGGTTC
*
17692445 GCCGTTGCTA-CCTCAACTTTTCCCTTTATAT-TTCC
64 GCCGTTGC-AGCCTCAACCTTTCCCTTTATATCTTCC
* * * * *
17692480 ATGGTACTAGATTTGTTGTTGCGGCTTCAATCTTTCCCATCCTTCTTCTAAGGTACAAGGTTCGC
1 ATGGTACCAGATTCGTCGTTGCGGCCTCAATCCTTCCCATCCTTCTTCTAAGGTACAAGGTTCGC
* *
17692545 CATTGTAGCCTCAACCTTTCCCTTTATAT-TTCC
66 CGTTGCAGCCTCAACCTTTCCCTTTATATCTTCC
* * * *
17692578 ATGGTACTAGATTC-TCCGTTGCGGCTTCAATCTTTCCCATCCTTGTTCTAAGGTACAAGGTTCG
1 ATGGTACCAGATTCGT-CGTTGCGGCCTCAATCCTTCCCATCCTTCTTCTAAGGTACAAGGTTCG
* *
17692642 CCATTACAGCCTCAACCTTTCCCTTTATATCT
65 CCGTTGCAGCCTCAACCTTTCCCTTTATATCT
17692674 CTATGTTTTC
Statistics
Matches: 400, Mismatches: 70, Indels: 36
0.79 0.14 0.07
Matches are distributed among these distances:
97 40 0.10
98 259 0.65
99 100 0.25
100 1 0.00
ACGTcount: A:0.20, C:0.29, G:0.15, T:0.35
Consensus pattern (99 bp):
ATGGTACCAGATTCGTCGTTGCGGCCTCAATCCTTCCCATCCTTCTTCTAAGGTACAAGGTTCGC
CGTTGCAGCCTCAACCTTTCCCTTTATATCTTCC
Found at i:17692380 original size:50 final size:49
Alignment explanation
Indices: 17692251--17692673 Score: 156
Period size: 49 Copynumber: 8.6 Consensus size: 49
17692241 CCAGGTTTGT
* **
17692251 CGTTGC-AGCCTCAACCTTTCCCTTCATATCTTC-AGGTACCGGATTCGT
1 CGTTGCGA-CCTCAACCTTTCCCTTCATATCTTCAAGGTACAGGATTCAC
** * ** *
17692299 TATTGCGACCTCAATCC-TTCCCATCGCATCTTCTAAGGTACAGGGTTCAC
1 CGTTGCGACCTCAA-CCTTTCCCTTCATATCTTC-AAGGTACAGGATTCAC
* * * *
17692349 CGTTGCGACCTCAACCTTTCCTTTCATATCTTCATGGTATC-GAATTCAT
1 CGTTGCGACCTCAACCTTTCCCTTCATATCTTCAAGGTA-CAGGATTCAC
* * * * * * * *
17692398 CGTTACGGCCTCAATC-TTCCCATCATGTCTTCAAAGGTATAGGGTTCGC
1 CGTTGCGACCTCAACCTTTCCCTTCATATCTTC-AAGGTACAGGATTCAC
* * * * ***
17692447 CGTTGCTACCTCAACTTTTCCCTTTATAT-TTCCATGGTACTA-GATTTGT
1 CGTTGCGACCTCAACCTTTCCCTTCATATCTT-CAAGGTAC-AGGATTCAC
* * * * * * *
17692496 TGTTGCGGCTTCAATCTTTCCCATCCT-TCTTCTAAGGTACAAGG-TTCGC
1 CGTTGCGACCTCAACCTTTCCCTTCATATCTTC-AAGGTAC-AGGATTCAC
* * * * *
17692545 CATTG-TAGCCTCAACCTTTCCCTTTATAT-TTCCATGGTACTA-GATTCTC
1 CGTTGCGA-CCTCAACCTTTCCCTTCATATCTT-CAAGGTAC-AGGATTCAC
* * * * * * *
17692594 CGTTGCGGCTTCAATCTTTCCCATCCT-TGTTCTAAGGTACAAGG-TTCGC
1 CGTTGCGACCTCAACCTTTCCCTTCATATCTTC-AAGGTAC-AGGATTCAC
* * *
17692643 CATTAC-AGCCTCAACCTTTCCCTTTATATCT
1 CGTTGCGA-CCTCAACCTTTCCCTTCATATCT
17692674 CTATGTTTTC
Statistics
Matches: 262, Mismatches: 89, Indels: 46
0.66 0.22 0.12
Matches are distributed among these distances:
48 41 0.16
49 168 0.64
50 53 0.20
ACGTcount: A:0.19, C:0.30, G:0.15, T:0.36
Consensus pattern (49 bp):
CGTTGCGACCTCAACCTTTCCCTTCATATCTTCAAGGTACAGGATTCAC
Found at i:17692461 original size:196 final size:197
Alignment explanation
Indices: 17692111--17692673 Score: 576
Period size: 196 Copynumber: 2.9 Consensus size: 197
17692101 GCCGTTACGG
* *
17692111 CCTCAATCCTTCCCAT-AATGTT-TATAGGGTACAAGGTTCACCATTGTGA-CCTCAACCTTTCC
1 CCTCAATCCTTCCCATCCATCTTCTA-A-GGTACAAGGTTCACCATTG-GAGCCTCAACCTTT-C
* * * * * * ** * *
17692173 CCTTTATATTTCCATGGTACTAGATCCGCCATTGCGGCCTCGATCTTTCCCATCAAACCTCTAAG
62 CCTTTATATTTCCATGGTACGAGATTCTCCGTTACGGCCTCAATCTTTCCCATCATTCTTCAAAG
* * * * *
17692238 GTACCAGGTTTGTCGTTGCAGCCTCAACCTTTCCCTTCATATCTT-CA-GGTACCGGATTCGTTA
127 GTACAAGGTTCGCCGTTGCAGCCTCAACCTTTCCCTTTATATCTTCCATGGTACCAGATTCGTTA
17692301 TTGCGA
192 TTGCGA
* *
17692307 CCTCAATCCTTCCCATCGCATCTTCTAAGGTACAGGGTTCACCGTTGCGA-CCTCAACCTTT-CC
1 CCTCAATCCTTCCCATC-CATCTTCTAAGGTACAAGGTTCACCATTG-GAGCCTCAACCTTTCCC
17692370 TTTCATATCTT-CATGGTATCGA-ATTCAT-CGTTACGGCCTCAATC-TTCCCATCATGTCTTCA
64 TTT-ATAT-TTCCATGGTA-CGAGATTC-TCCGTTACGGCCTCAATCTTTCCCATCAT-TCTTCA
* * * * *
17692431 AAGGTATAGGGTTCGCCGTTGCTA-CCTCAACTTTTCCCTTTATAT-TTCCATGGTACTAGATTT
124 AAGGTACAAGGTTCGCCGTTGC-AGCCTCAACCTTTCCCTTTATATCTTCCATGGTACCAGATTC
* *
17692494 GTTGTTGCGG
188 GTTATTGCGA
* * * * *
17692504 CTTCAATCTTTCCCATCCTTCTTCTAAGGTACAAGGTTCGCCATTGTAGCCTCAACCTTTCCCTT
1 CCTCAATCCTTCCCATCCATCTTCTAAGGTACAAGGTTCACCATTGGAGCCTCAACCTTTCCCTT
* * * * * *
17692569 TATATTTCCATGGTACTAGATTCTCCGTTGCGGCTTCAATCTTTCCCATCCTTGTTCTAAGGTAC
66 TATATTTCCATGGTACGAGATTCTCCGTTACGGCCTCAATCTTTCCCATCATTCTTCAAAGGTAC
* *
17692634 AAGGTTCGCCATTACAGCCTCAACCTTTCCCTTTATATCT
131 AAGGTTCGCCGTTGCAGCCTCAACCTTTCCCTTTATATCT
17692674 CTATGTTTTC
Statistics
Matches: 303, Mismatches: 45, Indels: 37
0.79 0.12 0.10
Matches are distributed among these distances:
195 23 0.08
196 191 0.63
197 82 0.27
198 5 0.02
199 2 0.01
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.36
Consensus pattern (197 bp):
CCTCAATCCTTCCCATCCATCTTCTAAGGTACAAGGTTCACCATTGGAGCCTCAACCTTTCCCTT
TATATTTCCATGGTACGAGATTCTCCGTTACGGCCTCAATCTTTCCCATCATTCTTCAAAGGTAC
AAGGTTCGCCGTTGCAGCCTCAACCTTTCCCTTTATATCTTCCATGGTACCAGATTCGTTATTGC
GA
Found at i:17693656 original size:8 final size:8
Alignment explanation
Indices: 17693627--17693669 Score: 50
Period size: 8 Copynumber: 5.0 Consensus size: 8
17693617 CGACATCACC
17693627 TTTTCTTT
1 TTTTCTTT
*
17693635 TTTCCTTCTT
1 TTTTC-T-TT
17693645 TTTTCTTT
1 TTTTCTTT
17693653 TTTTCCTTT
1 TTTT-CTTT
17693662 TTTTCTTT
1 TTTTCTTT
17693670 CCTCTTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
8 14 0.47
9 10 0.33
10 6 0.20
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTCTTT
Found at i:17694570 original size:9 final size:9
Alignment explanation
Indices: 17694556--17694585 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
17694546 CGTCTTGACT
17694556 TTTTCTTTC
1 TTTTCTTTC
17694565 TTTTCTTTC
1 TTTTCTTTC
17694574 -TTTCTTTC
1 TTTTCTTTC
17694582 TTTT
1 TTTT
17694586 TTTTATATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:17696067 original size:11 final size:11
Alignment explanation
Indices: 17696051--17696079 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
17696041 AATCTACAAC
17696051 CGTGCCCTCTA
1 CGTGCCCTCTA
17696062 CGTGCCCTCTA
1 CGTGCCCTCTA
17696073 CGTGCCC
1 CGTGCCC
17696080 CAACACTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.07, C:0.48, G:0.21, T:0.24
Consensus pattern (11 bp):
CGTGCCCTCTA
Found at i:17700733 original size:51 final size:50
Alignment explanation
Indices: 17700669--17700885 Score: 267
Period size: 51 Copynumber: 4.3 Consensus size: 50
17700659 ATGACTAAGT
*
17700669 GTCATCGTGAGTAAATGAATCATTTACGGATTAAAGGTCCGATGACTCTTA
1 GTCATCGTGAGTAAATGAATCATTTACGGATTAAAGGTCCGATGACT-ATA
* * *
17700720 GTCATCGAGAGTAAATGAATCCTTTACGGATTAAAGGTCCGATGACTAAA
1 GTCATCGTGAGTAAATGAATCATTTACGGATTAAAGGTCCGATGACTATA
* *
17700770 TGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGACCGATGACTA-A
1 -GTCATCGTGAGTAAATGAATCATTTACGGATTAAAGGTCCGATGACTATA
* * * *
17700820 GTGTCATCGTGAGTAAATGAATCCA-TGACGAATTAAAGGTCCAATGACGATA
1 --GTCATCGTGAGTAAATGAAT-CATTTACGGATTAAAGGTCCGATGACTATA
*
17700872 TGTCATCATGAGTA
1 -GTCATCGTGAGTA
17700886 TTAAATGAAA
Statistics
Matches: 149, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
50 2 0.01
51 145 0.97
52 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (50 bp):
GTCATCGTGAGTAAATGAATCATTTACGGATTAAAGGTCCGATGACTATA
Found at i:17700834 original size:102 final size:102
Alignment explanation
Indices: 17700657--17700885 Score: 325
Period size: 102 Copynumber: 2.2 Consensus size: 102
17700647 CGAAAGAGTT
* * **
17700657 CGATGACTAAGTGTCATCGTGAGTAAATGAATCATTTACGGATTAAAGGTCCGATGACTCTTAGT
1 CGATGACTAAATGTCATCGTGAGTAAATGAATCATTTACGGATTAAAGGACCGATGACTAGTAGT
* * *
17700722 CATCGAGAGTAAATGAATCCTTTACGGATTAAAGGTC
66 CATCGAGAGTAAATGAATCCATGACGAATTAAAGGTC
*
17700759 CGATGACTAAATGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGACCGATGACTAAGT-G
1 CGATGACTAAATGTCATCGTGAGTAAATGAATCATTTACGGATTAAAGGACCGATGACT-AGTAG
*
17700823 TCATCGTGAGTAAATGAATCCATGACGAATTAAAGGTC
65 TCATCGAGAGTAAATGAATCCATGACGAATTAAAGGTC
* * * *
17700861 CAATGACGATATGTCATCATGAGTA
1 CGATGACTAAATGTCATCGTGAGTA
17700886 TTAAATGAAA
Statistics
Matches: 113, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
102 112 0.99
103 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (102 bp):
CGATGACTAAATGTCATCGTGAGTAAATGAATCATTTACGGATTAAAGGACCGATGACTAGTAGT
CATCGAGAGTAAATGAATCCATGACGAATTAAAGGTC
Found at i:17704990 original size:36 final size:37
Alignment explanation
Indices: 17704920--17704992 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
17704910 TGACCTATTA
*
17704920 AATTCATGCTCTCTACATTATTTTCTCAATAAATATG
1 AATTCATGCTCTCTACATTATTTTCTCAACAAATATG
* *
17704957 AATTCATGTTTTCTACATTA-TTTCTCAACAAATATG
1 AATTCATGCTCTCTACATTATTTTCTCAACAAATATG
17704993 TTTCTTTTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 15 0.45
37 18 0.55
ACGTcount: A:0.33, C:0.18, G:0.05, T:0.44
Consensus pattern (37 bp):
AATTCATGCTCTCTACATTATTTTCTCAACAAATATG
Found at i:17710305 original size:33 final size:34
Alignment explanation
Indices: 17710204--17710310 Score: 153
Period size: 34 Copynumber: 3.2 Consensus size: 34
17710194 CAAATAATAA
* ***
17710204 ATCAGAATGTCATATTACCAAAAACATATATCAT
1 ATCAGAATGCCATATTTTTAAAAACATATATCAT
*
17710238 ATCAGAATGTCATATTTTTAAAAACATATATCAT
1 ATCAGAATGCCATATTTTTAAAAACATATATCAT
*
17710272 ATCAGAATGCCATATTTTT-AAAATATATATCAT
1 ATCAGAATGCCATATTTTTAAAAACATATATCAT
17710305 ATCAGA
1 ATCAGA
17710311 TCAGAACAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
33 19 0.28
34 49 0.72
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.35
Consensus pattern (34 bp):
ATCAGAATGCCATATTTTTAAAAACATATATCAT
Found at i:17710945 original size:24 final size:24
Alignment explanation
Indices: 17710917--17711003 Score: 129
Period size: 24 Copynumber: 3.6 Consensus size: 24
17710907 TAGACTAATA
*
17710917 AGAGTTTAACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
*
17710941 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
* * *
17710965 AGAGTTTAATTGAAACAATTAAAT
1 AGAGTTTAACTGAAACAAATAAAC
17710989 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
17711004 GATTATTTCT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.52, C:0.09, G:0.13, T:0.26
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:17712950 original size:24 final size:25
Alignment explanation
Indices: 17712922--17712984 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
17712912 TAGACTAATA
17712922 AGAGTTTAACTT-AAACAAATAAAC
1 AGAGTTTAACTTGAAACAAATAAAC
*
17712946 AGAGTTTAA-TTGAAACAATTAAAC
1 AGAGTTTAACTTGAAACAAATAAAC
*
17712970 ATAGTTTAAC-TGAAA
1 AGAGTTTAACTTGAAA
17712985 GATTATTTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 2 0.06
24 33 0.94
ACGTcount: A:0.51, C:0.10, G:0.11, T:0.29
Consensus pattern (25 bp):
AGAGTTTAACTTGAAACAAATAAAC
Found at i:17713871 original size:2 final size:2
Alignment explanation
Indices: 17713866--17713905 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
17713856 TTTTACTATC
17713866 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
17713906 TAACAAAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.