Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 159 of 325
Found at i:48734710 original size:40 final size:40
Alignment explanation
Indices: 48734419--48734703 Score: 452
Period size: 40 Copynumber: 7.2 Consensus size: 40
48734409 AACCCAAGTA
* *
48734419 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
48734458 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
48734498 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
48734537 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
48734577 TCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
48734617 CCTTC-GGATCTTAGTCCGGTTATAGTAACTAGCACAAATG
1 CCTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATG
48734657 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
48734697 CCTTCGG
1 CCTTCGG
48734704 ATCTTAGTCC
Statistics
Matches: 227, Mismatches: 14, Indels: 9
0.91 0.06 0.04
Matches are distributed among these distances:
39 54 0.24
40 169 0.74
41 4 0.02
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:48736136 original size:13 final size:13
Alignment explanation
Indices: 48736120--48736147 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
48736110 TTTATTATTT
48736120 TTAACACAAAATA
1 TTAACACAAAATA
48736133 TTAACACAAAATA
1 TTAACACAAAATA
48736146 TT
1 TT
48736148 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:48736966 original size:29 final size:29
Alignment explanation
Indices: 48736931--48737143 Score: 234
Period size: 29 Copynumber: 7.4 Consensus size: 29
48736921 AACCAAGCAT
* *
48736931 TGTGTGTGCGAGATCGGTTTTTAAGGCAC
1 TGTGTGTGCGAGATCGGTTGTTGAGGCAC
* * * **** *
48736960 TGTGTGTGCAAGTTCCG-TAACCAAGCAC
1 TGTGTGTGCGAGATCGGTTGTTGAGGCAC
48736988 TGTGTGTGCGAGATCGGTTGTTGAGGCAC
1 TGTGTGTGCGAGATCGGTTGTTGAGGCAC
* * * ****
48737017 TGTGTGTACGAGTTTC-ATAACCGA-GCAC
1 TGTGTGTGCGAG-ATCGGTTGTTGAGGCAC
*
48737045 TGTGTGTGTGAGATCGGTTGTTGAGGCAC
1 TGTGTGTGCGAGATCGGTTGTTGAGGCAC
48737074 TGTGTGTGCGAGATCGGTTGTTGAGGCAC
1 TGTGTGTGCGAGATCGGTTGTTGAGGCAC
48737103 TGTGTGTGCGAGATCGGTTGTTGAGGCAC
1 TGTGTGTGCGAGATCGGTTGTTGAGGCAC
48737132 TGTGTGTGCGAG
1 TGTGTGTGCGAG
48737144 TTCCGTAACC
Statistics
Matches: 148, Mismatches: 32, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
27 2 0.01
28 37 0.25
29 107 0.72
30 2 0.01
ACGTcount: A:0.17, C:0.15, G:0.37, T:0.31
Consensus pattern (29 bp):
TGTGTGTGCGAGATCGGTTGTTGAGGCAC
Found at i:48736992 original size:28 final size:28
Alignment explanation
Indices: 48736899--48736996 Score: 97
Period size: 28 Copynumber: 3.5 Consensus size: 28
48736889 GTGAACATAG
* *
48736899 GCACTGTGTGTGTAACTTCCGTAACCAA
1 GCACTGTGTGTGCAAGTTCCGTAACCAA
* * * * ****
48736927 GCATTGTGTGTGCGAGATCGGTTTTTAA
1 GCACTGTGTGTGCAAGTTCCGTAACCAA
48736955 GGCACTGTGTGTGCAAGTTCCGTAACCAA
1 -GCACTGTGTGTGCAAGTTCCGTAACCAA
48736984 GCACTGTGTGTGC
1 GCACTGTGTGTGC
48736997 GAGATCGGTT
Statistics
Matches: 51, Mismatches: 18, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
28 31 0.61
29 20 0.39
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (28 bp):
GCACTGTGTGTGCAAGTTCCGTAACCAA
Found at i:48737196 original size:57 final size:57
Alignment explanation
Indices: 48736897--48737182 Score: 374
Period size: 57 Copynumber: 5.0 Consensus size: 57
48736887 AAGTGAACAT
** * * * *
48736897 AGGCACTGTGTGTGTAACTTCCGTAACCAAGCATTGTGTGTGCGAGATCGGTTTTTA
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
*
48736954 AGGCACTGTGTGTGCAAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
* * * * *
48737011 AGGCACTGTGTGTACGAGTTTCATAACCGAGCACTGTGTGTGTGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
* * **** *
48737068 AGGCACTGTGTGTGCGAGATCGGTTGTTGAGGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCG-TAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
* *
48737126 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCAGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
48737183 GGGAACTAAG
Statistics
Matches: 196, Mismatches: 32, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
57 148 0.76
58 48 0.24
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.30
Consensus pattern (57 bp):
AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
Found at i:48737196 original size:115 final size:115
Alignment explanation
Indices: 48736984--48737196 Score: 327
Period size: 115 Copynumber: 1.9 Consensus size: 115
48736974 CCGTAACCAA
* *
48736984 GCACTGTGTGTGCGAGATCGGTTGTTGAGGCACTGTGTGTACGAGTTTCATAACCGAGCACTGTG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAGGCACTGTGTGTACGAGTTCCATAACCAAGCACTGTG
** * * **
48737049 TGTGTGAGATCGGTTGTTGAGGCACTGTGTGTGCGAGATCGGTTGTTGAG
66 TGTGCAAGATCAGTTGTTGAGGAACTAAGTGTGCGAGATCGGTTGTTGAG
* *
48737099 GCACTGTGTGTGCGAGATCGGTTGTTGAGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAGGCACTGTGTGTACGAGTTCCATAACCAAGCACTGTG
*
48737164 TGTGCAAGATCAGTTGTTGGGGAACTAAGTGTG
66 TGTGCAAGATCAGTTGTTGAGGAACTAAGTGTG
48737197 TGAAATGAGA
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
115 87 1.00
ACGTcount: A:0.18, C:0.15, G:0.37, T:0.30
Consensus pattern (115 bp):
GCACTGTGTGTGCGAGATCGGTTGTTGAGGCACTGTGTGTACGAGTTCCATAACCAAGCACTGTG
TGTGCAAGATCAGTTGTTGAGGAACTAAGTGTGCGAGATCGGTTGTTGAG
Found at i:48740702 original size:79 final size:82
Alignment explanation
Indices: 48740562--48740746 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
48740552 TCGAATGATG
* * *
48740562 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
* *
48740626 CGTGTGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
48740642 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
48740704 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
48740722 -CCGGGCTTTGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48740747 AGCGAGTCGT
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.61
80 34 0.38
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:48740754 original size:40 final size:40
Alignment explanation
Indices: 48740563--48740754 Score: 142
Period size: 40 Copynumber: 4.8 Consensus size: 40
48740553 CGAATGATGT
* * * * *
48740563 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * * *
48740603 CCGGACTAGGAT-CCGAAGGCATTCGTGTGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
48740643 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
48740682 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
48740722 CCGGGCTT-TGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
48740755 GTTATATCCG
Statistics
Matches: 124, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
39 32 0.26
40 82 0.66
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:48740777 original size:79 final size:79
Alignment explanation
Indices: 48740562--48740779 Score: 174
Period size: 79 Copynumber: 2.7 Consensus size: 79
48740552 TCGAATGATG
* * * * ** *
48740562 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
* *
48740625 TCGTGTGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
48740642 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
48740707 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
48740722 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
48740780 TACGTGATTC
Statistics
Matches: 112, Mismatches: 22, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
79 68 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:48744550 original size:30 final size:31
Alignment explanation
Indices: 48744505--48744566 Score: 117
Period size: 30 Copynumber: 2.0 Consensus size: 31
48744495 ATACTTAACT
48744505 GGAAGCCTCCGAGGAATATTACTGAGGTTCG
1 GGAAGCCTCCGAGGAATATTACTGAGGTTCG
48744536 GGAAGCCT-CGAGGAATATTACTGAGGTTCG
1 GGAAGCCTCCGAGGAATATTACTGAGGTTCG
48744566 G
1 G
48744567 AGCTTTTTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 23 0.74
31 8 0.26
ACGTcount: A:0.26, C:0.18, G:0.34, T:0.23
Consensus pattern (31 bp):
GGAAGCCTCCGAGGAATATTACTGAGGTTCG
Found at i:48748414 original size:40 final size:39
Alignment explanation
Indices: 48748383--48748482 Score: 137
Period size: 39 Copynumber: 2.5 Consensus size: 39
48748373 CGGACTAGGA
48748383 TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG
1 TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG
* * * * * *
48748422 CCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAG
1 TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG
48748461 TCCCGAAGGCATTCGTGCGAGT
1 T-CCGAAGGCATTCGTGCGAGT
48748483 CACTATAACT
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
39 33 0.65
40 18 0.35
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG
Found at i:48748431 original size:39 final size:40
Alignment explanation
Indices: 48748384--48748522 Score: 147
Period size: 40 Copynumber: 3.5 Consensus size: 40
48748374 GGACTAGGAT
*
48748384 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG-C
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGTC
* * * *
48748423 CCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGTC
* * * **
48748463 CCGAAGGCATTCGTGCGAGTCACTATAA-CTGGGCTTCGTC
1 CCGAAGGCATTCGTGCGAGTTAATA-AACCCGGGCTAAGTC
* *
48748503 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
48748523 CGTTATATCC
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 33 0.39
40 49 0.58
41 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGTC
Found at i:48748471 original size:79 final size:80
Alignment explanation
Indices: 48748331--48748482 Score: 202
Period size: 79 Copynumber: 1.9 Consensus size: 80
48748321 TCGAATGATG
* * *
48748331 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAATGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAATGACTAAACCCGGACTAAGATCCGAAGGCATTC
48748396 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* * **
48748411 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAATGACTAAACCCGGACTAAGAT-CCGAAGGCAT
48748473 TCGTGCGAGT
64 TCGTGCGAGT
48748483 CACTATAACT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 1 0.02
79 44 0.70
80 18 0.29
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAATGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:48749136 original size:130 final size:130
Alignment explanation
Indices: 48748903--48749163 Score: 522
Period size: 130 Copynumber: 2.0 Consensus size: 130
48748893 GCTCGTTAGC
48748903 TATCGGATTCGGGATCATCAAAGTCGAAGTCATCCACACTATCGAAGCCCCCATTTTGGTACAAT
1 TATCGGATTCGGGATCATCAAAGTCGAAGTCATCCACACTATCGAAGCCCCCATTTTGGTACAAT
48748968 TTTGGTTGAACTTTGAAATGGCATGTATAGGACTACCCTTTTGTTGAAGGTCATGTACCTTTCAG
66 TTTGGTTGAACTTTGAAATGGCATGTATAGGACTACCCTTTTGTTGAAGGTCATGTACCTTTCAG
48749033 TATCGGATTCGGGATCATCAAAGTCGAAGTCATCCACACTATCGAAGCCCCCATTTTGGTACAAT
1 TATCGGATTCGGGATCATCAAAGTCGAAGTCATCCACACTATCGAAGCCCCCATTTTGGTACAAT
48749098 TTTGGTTGAACTTTGAAATGGCATGTATAGGACTACCCTTTTGTTGAAGGTCATGTACCTTTCAG
66 TTTGGTTGAACTTTGAAATGGCATGTATAGGACTACCCTTTTGTTGAAGGTCATGTACCTTTCAG
48749163 T
1 T
48749164 TTTGTGTAAA
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
130 131 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (130 bp):
TATCGGATTCGGGATCATCAAAGTCGAAGTCATCCACACTATCGAAGCCCCCATTTTGGTACAAT
TTTGGTTGAACTTTGAAATGGCATGTATAGGACTACCCTTTTGTTGAAGGTCATGTACCTTTCAG
Found at i:48753315 original size:28 final size:28
Alignment explanation
Indices: 48753275--48753340 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
48753265 GCAATCAAAT
* *
48753275 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
48753303 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
*
48753331 ATGACACTTA
1 ATGGCACTTA
48753341 ATGTGCAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:48753353 original size:28 final size:28
Alignment explanation
Indices: 48753292--48753353 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
48753282 TCAGTGTACG
* * *
48753292 AAATATTGAGAATGGCACTTAGTGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
*
48753320 AGATATTGAGAATGACACTTAATGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
48753348 AAATAT
1 AAATAT
48753354 CAAATGATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:48760232 original size:21 final size:21
Alignment explanation
Indices: 48760203--48760243 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
48760193 AAAAGTTCAG
*
48760203 AAAATTTTTATCAAATTCATA
1 AAAAATTTTATCAAATTCATA
48760224 AAAAATTTTATCAAATTCAT
1 AAAAATTTTATCAAATTCAT
48760244 TCATAACGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAAATTTTATCAAATTCATA
Found at i:48761725 original size:18 final size:18
Alignment explanation
Indices: 48761702--48761736 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
48761692 ATAGCATCAA
48761702 TAGGCATTCAAACCAATG
1 TAGGCATTCAAACCAATG
48761720 TAGGCATTCAAACCAAT
1 TAGGCATTCAAACCAAT
48761737 CTCGTCTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (18 bp):
TAGGCATTCAAACCAATG
Found at i:48761997 original size:2 final size:2
Alignment explanation
Indices: 48761990--48762018 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
48761980 TCATTTGCAC
48761990 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
48762019 CATAACCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:48772033 original size:40 final size:40
Alignment explanation
Indices: 48771952--48772133 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 40
48771942 CAACCAAGTA
* ** *
48771952 CCTTCGGGATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
48771991 CCTTCGGGACTTAGCCCAGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * **
48772031 CCTTTGGGACTTAGCCCGGATATAGTAACTCATACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * *
48772071 CCTTCGGGACTTAGCCCGG-AATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAATG
48772111 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
48772134 CATCCGAATA
Statistics
Matches: 122, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
39 15 0.12
40 106 0.87
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:48779564 original size:40 final size:40
Alignment explanation
Indices: 48779483--48779660 Score: 218
Period size: 40 Copynumber: 4.5 Consensus size: 40
48779473 CAACCAAGTA
* * *
48779483 CCTTCGGGATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
48779522 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
48779562 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
48779602 ACTTCGGGACTTAGCCTGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
48779642 CCTTCAGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48779661 TTATCATCCG
Statistics
Matches: 120, Mismatches: 16, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 15 0.12
40 105 0.88
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:48782614 original size:42 final size:41
Alignment explanation
Indices: 48782555--48782709 Score: 175
Period size: 42 Copynumber: 3.7 Consensus size: 41
48782545 CTAAGTCTAT
* * * *
48782555 GTGTAAGACCGTATCTGGGATATGGCATCAATATGGGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATAAGAGA-TTC
*
48782597 GTGTAAGACCATATCTGGGATATGGCATCGATAAGACATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATAAGAGA-TTC
* * * * *
48782639 GTGTAAGACAATAGCTAGGCTATTGGCATCGATACGAGATTAC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATAAGAGATT-C
*
48782682 ATGTAAGACCATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
48782710 TGGCATGGTA
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 62 0.66
43 32 0.34
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (41 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATAAGAGATTC
Found at i:48786831 original size:40 final size:40
Alignment explanation
Indices: 48786776--48787030 Score: 422
Period size: 40 Copynumber: 6.4 Consensus size: 40
48786766 AACCCAAGTA
48786776 CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATG
1 CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATG
48786816 CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATG
1 CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATG
* * *
48786856 CCTTTGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATG
* *
48786896 CCTTCGGGACTTAGCCTGGATATAGCAACTAGCACAAATG
1 CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATG
*
48786936 CCTTCGGGATTTAGCTCGGATATAGCAACTAGCACAAATG
1 CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATG
* *
48786976 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATG
48787016 CCTTC-GGATCTTAGC
1 CCTTCGGGAT-TTAGC
48787031 TCGGTTATCA
Statistics
Matches: 201, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 3 0.01
40 198 0.99
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATG
Found at i:48787836 original size:19 final size:19
Alignment explanation
Indices: 48787784--48787839 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
48787774 ATAAATATAA
*
48787784 GTTCAATATAAACTCACAT
1 GTTCAATATAAATTCACAT
* *
48787803 G-T-AA-CTAAATACACAT
1 GTTCAATATAAATTCACAT
48787819 GTTCAATATAAATTCACAT
1 GTTCAATATAAATTCACAT
48787838 GT
1 GT
48787840 AATCGAATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
16 10 0.34
17 3 0.10
18 3 0.10
19 13 0.45
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (19 bp):
GTTCAATATAAATTCACAT
Found at i:48789336 original size:28 final size:25
Alignment explanation
Indices: 48789312--48789363 Score: 68
Period size: 28 Copynumber: 2.0 Consensus size: 25
48789302 AGTACTGTGT
48789312 TAGTGGCTTTGCCACGTAATTACTGCTC
1 TAGTGGCTTTGCCACGT--TTACTG-TC
*
48789340 TGGTGGCTTTGCCACGTTTACTGT
1 TAGTGGCTTTGCCACGTTTACTGT
48789364 TATTAGTAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 1 0.04
26 6 0.26
28 16 0.70
ACGTcount: A:0.13, C:0.23, G:0.25, T:0.38
Consensus pattern (25 bp):
TAGTGGCTTTGCCACGTTTACTGTC
Found at i:48795107 original size:43 final size:42
Alignment explanation
Indices: 48794984--48795138 Score: 204
Period size: 42 Copynumber: 3.7 Consensus size: 42
48794974 CTAAGTCTAT
* * * *
48794984 GTGTAAGACCATATCTGGGATATGACATCAATATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATAAGAGATTTC
48795026 GTGTAAGACCATATCTGGGATATGGCATCGATAAGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATAAGAGATTTC
* * *
48795068 GTGTAAGACCATAGCT-GGACTATTGGCATCGATACGAGATTAC
1 GTGTAAGACCATATCTGGGA-TA-TGGCATCGATAAGAGATTTC
* *
48795111 ATGTAAGACCATATCTGGTATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
48795139 TGGTATGGTA
Statistics
Matches: 100, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
41 3 0.03
42 61 0.61
43 34 0.34
44 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATAAGAGATTTC
Found at i:48795124 original size:85 final size:84
Alignment explanation
Indices: 48794984--48795138 Score: 215
Period size: 85 Copynumber: 1.8 Consensus size: 84
48794974 CTAAGTCTAT
* * *
48794984 GTGTAAGACCATATCTGGGATATGACATCAATATGAGACTTCGTGTAAGACCATATCTGGGATAT
1 GTGTAAGACCATAGCTGGGATATGACATCAATACGAGACTTCATGTAAGACCATATCTGGGATAT
48795049 GGCATCGATAAGAGATTTC
66 GGCATCGATAAGAGATTTC
* * *
48795068 GTGTAAGACCATAGCT-GGACTATTGGCATCGATACGAGA-TTACATGTAAGACCATATCTGGTA
1 GTGTAAGACCATAGCTGGGA-TA-TGACATCAATACGAGACTT-CATGTAAGACCATATCTGGGA
48795131 TATGGCAT
63 TATGGCAT
48795139 TGGTATGGTA
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
83 3 0.05
84 19 0.31
85 40 0.65
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (84 bp):
GTGTAAGACCATAGCTGGGATATGACATCAATACGAGACTTCATGTAAGACCATATCTGGGATAT
GGCATCGATAAGAGATTTC
Found at i:48802171 original size:40 final size:39
Alignment explanation
Indices: 48802003--48802173 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
48801993 AGAAATTGAA
* *
48802003 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
48802043 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
48802083 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
48802123 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
48802163 TGATATCCGGG
1 TGATATCCGGG
48802174 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:48810146 original size:39 final size:40
Alignment explanation
Indices: 48810088--48810188 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
48810078 AAATTGAATG
* *
48810088 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
48810127 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
48810167 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
48810189 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:48810181 original size:40 final size:40
Alignment explanation
Indices: 48810088--48810238 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
48810078 AAATTGAATG
* * * * *
48810088 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
48810127 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
48810167 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* *
48810207 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
48810239 AAATCGTGAT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 32 0.33
40 62 0.65
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:48810253 original size:40 final size:38
Alignment explanation
Indices: 48810084--48810255 Score: 161
Period size: 40 Copynumber: 4.4 Consensus size: 38
48810074 TGAGAAATTG
* *
48810084 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-A
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
48810123 AAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
48810160 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
48810200 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
48810240 AATCGTGATATCCGGG
1 AAT-GT-ATATCCGGG
48810256 TAAAGTCCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
36 2 0.02
37 4 0.04
38 2 0.02
39 26 0.24
40 74 0.68
41 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:48814463 original size:40 final size:40
Alignment explanation
Indices: 48814393--48814531 Score: 201
Period size: 40 Copynumber: 3.5 Consensus size: 40
48814383 AGGCTAAGTC
** *
48814393 CCGAAGGC-TTTGTGCTGAGTGACCATATCCGGACTAAGAT
1 CCGAAGGCATTTGTGC-GAGTTCCCAAATCCGGACTAAGAT
48814433 CCGAAGGCATTTGTGCGAGTTCCCAAATCCGGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTTCCCAAATCCGGACTAAGAT
**
48814473 CCGAAGGCATTTGTGCGAGTTCCCAAATCCGGGTTAAG-T
1 CCGAAGGCATTTGTGCGAGTTCCCAAATCCGGACTAAGAT
48814512 CCCGAAGGCATTTGTGCGAG
1 -CCGAAGGCATTTGTGCGAG
48814532 CTATTATAAC
Statistics
Matches: 92, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
39 1 0.01
40 84 0.91
41 7 0.08
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTCCCAAATCCGGACTAAGAT
Found at i:48814545 original size:40 final size:40
Alignment explanation
Indices: 48814384--48814571 Score: 179
Period size: 40 Copynumber: 4.7 Consensus size: 40
48814374 ATGATGTCCA
*
48814384 GGCTAAGTCCCGAAGGC-TTTGTGCTGAG-TGACCATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACCAAATCCG
* * *
48814424 GACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAATCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACCAAATCCG
* * *
48814464 GACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAATCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACCAAATCCG
* **
48814504 GGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCA-AATCCG
* * *
48814544 GGCTATGTCCCGAAGGCTTTTGAGCGAG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAG
48814572 TCGCTATATC
Statistics
Matches: 130, Mismatches: 13, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 118 0.91
41 11 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCAAATCCG
Found at i:48814557 original size:80 final size:79
Alignment explanation
Indices: 48814384--48814598 Score: 206
Period size: 80 Copynumber: 2.7 Consensus size: 79
48814374 ATGATGTCCA
*
48814384 GGCTAAGTCCCGAAGGCTTTGTGCTGAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCTTTGTGC-GAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGC
* *
48814449 GAGTTCCCAAATCCG
65 GAGCTACCAAATCCG
* ** **
48814464 GACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAATCCGGGTTAAG-TCCCGAAGGCATTTGT
1 GGCTAAG-TCCCGAAGGC-TTTGTGCGAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGT
**
48814527 GCGAGCTATTATAA-CCG
63 GCGAGCTACCA-AATCCG
* * * *
48814544 GGCTATGTCCCGAAGGCTTTTGAGCGAGTCG-CTATATCCGGA-TAAGATCCGAAGG
1 GGCTAAGTCCCGAAGGC-TTTGTGCGAGT-GACCAAATCCGGACTAAGATCCGAAGG
48814599 TACGTGATTC
Statistics
Matches: 110, Mismatches: 18, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
79 13 0.12
80 87 0.79
81 10 0.09
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCTTTGTGCGAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCG
AGCTACCAAATCCG
Found at i:48819317 original size:40 final size:40
Alignment explanation
Indices: 48819254--48819509 Score: 342
Period size: 40 Copynumber: 6.5 Consensus size: 40
48819244 CGGATGATAA
* * * *
48819254 CCGGGCTAAG-CCCGACGGCATTTGTGCTAGTGAC-AAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
48819293 CCGGGCTAAGCCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48819333 CCGGGCTAAGT-CCGAAGCCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48819372 CTGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48819412 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48819452 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
48819492 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48819510 TACTTGGTTG
Statistics
Matches: 196, Mismatches: 17, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
39 63 0.32
40 131 0.67
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48819427 original size:119 final size:119
Alignment explanation
Indices: 48819255--48819509 Score: 338
Period size: 119 Copynumber: 2.2 Consensus size: 119
48819245 GGATGATAAC
* * *
48819255 CGGGCTAAG-CCCGACGGCATTTGTGCTAGTGACAAATTCCGGGCTAAGCCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTACGAGTGACAAATTCCGGGCTAAGCCCCGAAGGCATTTGT
* *
48819319 GCAAGTTACTATATCCGGGCTAAGT-CCGAAGCCATTTGTGCGAGTTA-CTATAT
66 GCAAGTTACTATAACCGGGCTAAGTCCCGAAGCCATTTGAGCGAG-TAGCTATAT
* * *
48819372 CTGGGCTAAGTCCCGAAGGCATTTGTACGAGTTAC-TATATCCGGGCTAAGTCCCGAAGGCATTT
1 C-GGGCTAAGTCCCGAAGGCATTTGTACGAGTGACAAAT-TCCGGGCTAAGCCCCGAAGGCATTT
* * *
48819436 GTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATGT
64 GTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGCCATTTGAGCGAGTAGCTATAT
* *
48819492 CCGGCTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
48819510 TACTTGGTTG
Statistics
Matches: 120, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
117 1 0.01
118 10 0.08
119 86 0.72
120 23 0.19
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (119 bp):
CGGGCTAAGTCCCGAAGGCATTTGTACGAGTGACAAATTCCGGGCTAAGCCCCGAAGGCATTTGT
GCAAGTTACTATAACCGGGCTAAGTCCCGAAGCCATTTGAGCGAGTAGCTATAT
Found at i:48819498 original size:79 final size:80
Alignment explanation
Indices: 48819254--48819509 Score: 328
Period size: 79 Copynumber: 3.2 Consensus size: 80
48819244 CGGATGATAA
* * * *
48819254 CCGGGCTAAG-CCCGACGGCATTTGTGCTAGTGAC-A-AATTCCGGGCTAAGCCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA--CCGGGCTAAGTCCCGAAGGCATT
* *
48819316 TGTGCAAGTTACTATAT
64 TGAGCGAGTTACTATAT
* * *
48819333 CCGGGCTAAGT-CCGAAGCCATTTGTGCGAGTTACTATATCTGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
48819397 TA-CGAGTTACTATAT
66 -AGCGAGTTACTATAT
48819412 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
*
48819477 AGCGAG-TAGCTATGT
66 AGCGAGTTA-CTATAT
*
48819492 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48819510 TACTTGGTTG
Statistics
Matches: 156, Mismatches: 14, Indels: 14
0.85 0.08 0.08
Matches are distributed among these distances:
79 93 0.60
80 62 0.40
81 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
AGCGAGTTACTATAT
Found at i:48821778 original size:19 final size:20
Alignment explanation
Indices: 48821754--48821791 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
48821744 GGTACCACCA
48821754 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
48821773 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
48821792 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:48822136 original size:93 final size:93
Alignment explanation
Indices: 48822021--48822191 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
48822011 GCCCCTAAGT
* * *
48822021 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAATGAATTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
48822085 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* *
48822114 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
48822179 CGAGTTCGGATGC
66 CGAGTTCGGATGC
48822192 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:48822181 original size:46 final size:46
Alignment explanation
Indices: 48822016--48822188 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
48822006 AACCCGCCCC
* * *
48822016 TAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCATCCA
* * * *
48822062 TAAATGAATTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
48822110 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
48822155 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
48822189 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 57 0.54
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:48822645 original size:30 final size:30
Alignment explanation
Indices: 48822611--48822670 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
48822601 ATTTAATACG
48822611 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** * *
48822641 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
48822671 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.38
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:48823941 original size:20 final size:21
Alignment explanation
Indices: 48823899--48823941 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
48823889 ATTTTAGTGA
*
48823899 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
48823920 TTGATGATAG-TTAT-ATAAGT
1 TTGATGATAGATTATGA-AAGT
48823940 TT
1 TT
48823942 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.47
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:48835084 original size:29 final size:29
Alignment explanation
Indices: 48835042--48835123 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
48835032 GCCGTATTTT
**
48835042 TTTCCAGCTTGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
48835071 TTTCCAGCACGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
48835100 TTTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCACGCACACTTAGTGCC
48835124 GATCTCGTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (29 bp):
TTTCCAGCACGCACACTTAGTGCCATATA
Found at i:48837372 original size:15 final size:15
Alignment explanation
Indices: 48837350--48837388 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
48837340 GCTTTGATTT
48837350 AAAGAAAAGTTTGAA
1 AAAGAAAAGTTTGAA
*
48837365 ATAGAAAAGTTTGAA
1 AAAGAAAAGTTTGAA
48837380 AAAGAAAAG
1 AAAGAAAAG
48837389 GAAAAGGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.18
Consensus pattern (15 bp):
AAAGAAAAGTTTGAA
Found at i:48844381 original size:14 final size:15
Alignment explanation
Indices: 48844347--48844391 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
48844337 ATTAGTCTCC
48844347 AATTATAATAAATAT
1 AATTATAATAAATAT
*
48844362 GA-TATAATAAATA-
1 AATTATAATAAATAT
48844375 AATTATAATAAAATAT
1 AATTATAAT-AAATAT
48844391 A
1 A
48844392 CCTGAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 1 0.04
14 17 0.68
15 6 0.24
16 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (15 bp):
AATTATAATAAATAT
Found at i:48844899 original size:41 final size:42
Alignment explanation
Indices: 48844840--48844984 Score: 141
Period size: 42 Copynumber: 3.5 Consensus size: 42
48844830 AAAAACTCCG
* *
48844840 CTAAAGAACATAACCTTTAACGGCACTTTCT-CT-GAACTGCCA
1 CTAAA-AACATAATCTTTAACGGCACTTTCTCCTCAAAC-GCCA
* *
48844882 CTAAAAACATAATCTTTAATGGCACTTTCTCCTCAAACGCCG
1 CTAAAAACATAATCTTTAACGGCACTTTCTCCTCAAACGCCA
* * ** * *
48844924 CTAAAAACATGATCCTTAACAACATTTTCTTCTCAAACGCCA
1 CTAAAAACATAATCTTTAACGGCACTTTCTCCTCAAACGCCA
* * *
48844966 CTAAAGACATGACCTTTAA
1 CTAAAAACATAATCTTTAA
48844985 TAAGGCTTTC
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 23 0.27
42 60 0.70
43 3 0.03
ACGTcount: A:0.36, C:0.28, G:0.09, T:0.28
Consensus pattern (42 bp):
CTAAAAACATAATCTTTAACGGCACTTTCTCCTCAAACGCCA
Found at i:48849404 original size:22 final size:21
Alignment explanation
Indices: 48849376--48849433 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
48849366 ATGTTTGACT
48849376 TTTTTATAATTTTTATATTAAA
1 TTTTTATAATTTTTATATT-AA
**
48849398 TTTTTATAACCTTTATATTAA
1 TTTTTATAATTTTTATATTAA
*
48849419 TTTTAAATAATTTTT
1 TTTT-TATAATTTTT
48849434 TTAAAATTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 6 0.20
22 24 0.80
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTTATAATTTTTATATTAA
Found at i:48849540 original size:18 final size:18
Alignment explanation
Indices: 48849519--48849580 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
48849509 AAACAAAAAT
48849519 AAAAAATTTCAAAATATA
1 AAAAAATTTCAAAATATA
** *
48849537 AAAAAATAACAAAA-A-C
1 AAAAAATTTCAAAATATA
*
48849553 AAAAAATTTTAAAATATGA
1 AAAAAATTTCAAAATAT-A
48849572 AAAAAATTT
1 AAAAAATTT
48849581 GTTATAATTT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
16 11 0.32
17 2 0.06
18 12 0.35
19 9 0.26
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (18 bp):
AAAAAATTTCAAAATATA
Found at i:48849575 original size:35 final size:35
Alignment explanation
Indices: 48849501--48849578 Score: 115
Period size: 34 Copynumber: 2.3 Consensus size: 35
48849491 TTTTATGTAA
*
48849501 GAAAACAAA-AACAAAAATAAAAAATTTCAAAATAT
1 GAAAA-AAATAACAAAAACAAAAAATTTCAAAATAT
*
48849536 -AAAAAAATAACAAAAACAAAAAATTTTAAAATAT
1 GAAAAAAATAACAAAAACAAAAAATTTCAAAATAT
48849570 GAAAAAAAT
1 GAAAAAAAT
48849579 TTGTTATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
33 3 0.08
34 28 0.72
35 8 0.21
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.18
Consensus pattern (35 bp):
GAAAAAAATAACAAAAACAAAAAATTTCAAAATAT
Found at i:48849966 original size:7 final size:7
Alignment explanation
Indices: 48849951--48849984 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
48849941 CCCTAAATCC
*
48849951 TAAATCA
1 TAAACCA
*
48849958 TAAAACA
1 TAAACCA
48849965 TAAACCA
1 TAAACCA
48849972 TAAACCA
1 TAAACCA
48849979 TAAACC
1 TAAACC
48849985 CTTAACCCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.24, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAACCA
Found at i:48850199 original size:21 final size:21
Alignment explanation
Indices: 48850175--48850215 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
48850165 AAGAATTTCA
48850175 ATATTC-AATTAGAAATAAATT
1 ATATTCTAATTA-AAATAAATT
*
48850196 ATATTCTAATTAATATAAAT
1 ATATTCTAATTAAAATAAAT
48850216 GAACTAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (21 bp):
ATATTCTAATTAAAATAAATT
Found at i:48850536 original size:40 final size:40
Alignment explanation
Indices: 48850431--48850548 Score: 175
Period size: 40 Copynumber: 3.0 Consensus size: 40
48850421 CTTAATTTTT
* * * *
48850431 TGGCGTATTTCAAAAAGTGTCGCTAATGGTCGACCTATAG
1 TGGCGTTTTTCAAAAAGTGCCGCTAATGCTCGATCTATAG
* *
48850471 TGGCG-TTTTCAAAAAGCGCCACTAATGCTCGATCTATAG
1 TGGCGTTTTTCAAAAAGTGCCGCTAATGCTCGATCTATAG
48850510 TGGCGTTTTTCAAAAAGTGCCGCTAATGCTCGATCTATA
1 TGGCGTTTTTCAAAAAGTGCCGCTAATGCTCGATCTATA
48850549 ACTGCCTTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 33 0.48
40 36 0.52
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (40 bp):
TGGCGTTTTTCAAAAAGTGCCGCTAATGCTCGATCTATAG
Found at i:48864648 original size:13 final size:13
Alignment explanation
Indices: 48864630--48864655 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48864620 ATATACTTTA
48864630 GAAATTTTTGAAT
1 GAAATTTTTGAAT
48864643 GAAATTTTTGAAT
1 GAAATTTTTGAAT
48864656 CAAAATGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
GAAATTTTTGAAT
Found at i:48868461 original size:20 final size:19
Alignment explanation
Indices: 48868433--48868518 Score: 57
Period size: 20 Copynumber: 4.3 Consensus size: 19
48868423 TTTTAAAATG
*
48868433 AAGTGAAAATGATTTTAACC
1 AAGTCAAAATGATTTTAA-C
* * *
48868453 AAGTCAAAATTATTTCAGTC
1 AAGTCAAAATGATTTTA-AC
* *
48868473 AAGTTAAAATCATTTTAAC
1 AAGTCAAAATGATTTTAAC
*
48868492 ACA-TCAAAATGTTTTTCAAAC
1 A-AGTCAAAATGATTTT--AAC
48868513 AAGTCA
1 AAGTCA
48868519 GAATTGCTAC
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
19 12 0.24
20 31 0.62
21 7 0.14
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (19 bp):
AAGTCAAAATGATTTTAAC
Found at i:48868516 original size:40 final size:40
Alignment explanation
Indices: 48868433--48868516 Score: 91
Period size: 40 Copynumber: 2.1 Consensus size: 40
48868423 TTTTAAAATG
* **
48868433 AAGTGAAAATGATTTTAACCAAGTCAAAATTATTTCAGTC
1 AAGTGAAAATCATTTTAACCAAGTCAAAATTATTTCAAAC
* *
48868473 AAGTTAAAATCATTTTAA-CACA-TCAAAATGTTTTTCAAAC
1 AAGTGAAAATCATTTTAACCA-AGTCAAAAT-TATTTCAAAC
48868513 AAGT
1 AAGT
48868517 CAGAATTGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
39 9 0.24
40 28 0.76
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (40 bp):
AAGTGAAAATCATTTTAACCAAGTCAAAATTATTTCAAAC
Found at i:48871430 original size:26 final size:26
Alignment explanation
Indices: 48871390--48871457 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
48871380 AACACACCAG
* *
48871390 TATCGCAGCATAGCTGCCAGTAATAA
1 TATCGCAGCAAAGCTGCCAGTAACAA
*
48871416 TATCGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAA
* *
48871442 TAACGCAACAAAGCTG
1 TATCGCAGCAAAGCTG
48871458 GCAATATTAG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.18
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAA
Found at i:48871581 original size:60 final size:60
Alignment explanation
Indices: 48871489--48871707 Score: 312
Period size: 60 Copynumber: 3.6 Consensus size: 60
48871479 AAACCATGAG
* * * **
48871489 TAGCGGCACAAAGGCATCAATAGCCGTGCAAAGCCATCAATAGTGGCACAAAGCCATCAA
1 TAGCAGCACAAAGCCATCAATAGCAGCACAAAGCCATCAATAGTGGCACAAAGCCATCAA
* * *
48871549 TAGCGGCACAAAGCCATCAGTAGCAGCACAAAGCCATCAATAGTGGCACAAAGCCATCAG
1 TAGCAGCACAAAGCCATCAATAGCAGCACAAAGCCATCAATAGTGGCACAAAGCCATCAA
** **
48871609 TAGCAGCACAAAGCCATCAATAGTGGCACAAAGCTGTCAATAGTGGCACAAAGCCATCAA
1 TAGCAGCACAAAGCCATCAATAGCAGCACAAAGCCATCAATAGTGGCACAAAGCCATCAA
* *
48871669 TAGCAGTACAAAGCCATCAGTAGCAGCACAAAGCCATCA
1 TAGCAGCACAAAGCCATCAATAGCAGCACAAAGCCATCA
48871708 GTAGGTCTAC
Statistics
Matches: 140, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 140 1.00
ACGTcount: A:0.39, C:0.27, G:0.21, T:0.13
Consensus pattern (60 bp):
TAGCAGCACAAAGCCATCAATAGCAGCACAAAGCCATCAATAGTGGCACAAAGCCATCAA
Found at i:48871711 original size:20 final size:20
Alignment explanation
Indices: 48871489--48871707 Score: 276
Period size: 20 Copynumber: 10.9 Consensus size: 20
48871479 AAACCATGAG
*
48871489 TAGCGGCACAAAGGCATCAA
1 TAGCGGCACAAAGCCATCAA
* **
48871509 TAGCCGTGCAAAGCCATCAA
1 TAGCGGCACAAAGCCATCAA
*
48871529 TAGTGGCACAAAGCCATCAA
1 TAGCGGCACAAAGCCATCAA
*
48871549 TAGCGGCACAAAGCCATCAG
1 TAGCGGCACAAAGCCATCAA
*
48871569 TAGCAGCACAAAGCCATCAA
1 TAGCGGCACAAAGCCATCAA
* *
48871589 TAGTGGCACAAAGCCATCAG
1 TAGCGGCACAAAGCCATCAA
*
48871609 TAGCAGCACAAAGCCATCAA
1 TAGCGGCACAAAGCCATCAA
* **
48871629 TAGTGGCACAAAGCTGTCAA
1 TAGCGGCACAAAGCCATCAA
*
48871649 TAGTGGCACAAAGCCATCAA
1 TAGCGGCACAAAGCCATCAA
* * *
48871669 TAGCAGTACAAAGCCATCAG
1 TAGCGGCACAAAGCCATCAA
*
48871689 TAGCAGCACAAAGCCATCA
1 TAGCGGCACAAAGCCATCA
48871708 GTAGGTCTAC
Statistics
Matches: 170, Mismatches: 29, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 170 1.00
ACGTcount: A:0.39, C:0.27, G:0.21, T:0.13
Consensus pattern (20 bp):
TAGCGGCACAAAGCCATCAA
Found at i:48873969 original size:49 final size:49
Alignment explanation
Indices: 48873884--48874129 Score: 231
Period size: 49 Copynumber: 5.0 Consensus size: 49
48873874 GTAGACAAGG
* * ** * *
48873884 CTATCTGGTACGCATAGTAGCCTACTGTTAGCACTACACATGCGACCAA
1 CTATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * **
48873933 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTAACCTAA
1 CTATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC-AA
* * * * * * *
48873983 CCATCTGATACGCATAGTAGCCTACACTTAGTACCACACACGTGATCGAA
1 CTATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * * * *
48874033 GTTATCGGGTACGTATAGTAGGCTGCACTTAGTACTACACATGCGACCAA
1 -CTATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * * *
48874083 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CTATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC
48874130 TCACAATAGG
Statistics
Matches: 157, Mismatches: 37, Indels: 6
0.79 0.19 0.03
Matches are distributed among these distances:
49 77 0.49
50 44 0.28
51 36 0.23
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (49 bp):
CTATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:48876321 original size:24 final size:24
Alignment explanation
Indices: 48876294--48876343 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
48876284 AAGGGAAAGA
48876294 TAATAGGAGAAAGGAGAAAATAAC
1 TAATAGGAGAAAGGAGAAAATAAC
48876318 TAATAGGAGAAAGGAGAAAATAAC
1 TAATAGGAGAAAGGAGAAAATAAC
48876342 TA
1 TA
48876344 GTCCTTGACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.58, C:0.04, G:0.24, T:0.14
Consensus pattern (24 bp):
TAATAGGAGAAAGGAGAAAATAAC
Found at i:48878866 original size:51 final size:51
Alignment explanation
Indices: 48878811--48879009 Score: 346
Period size: 51 Copynumber: 3.9 Consensus size: 51
48878801 TGAACCTTAG
*
48878811 GAATAAAATAGCTTTGGACACAAGTGTGATACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
48878862 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
48878913 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
48878964 GAATAAAATAGCTTTGG-CTACAAGGGTGGTCCTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
48879010 CATGTATCCG
Statistics
Matches: 142, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
50 1 0.01
51 141 0.99
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:48885014 original size:40 final size:40
Alignment explanation
Indices: 48884994--48885179 Score: 372
Period size: 40 Copynumber: 4.7 Consensus size: 40
48884984 TTGCACAAAG
48884994 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
48885034 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
48885074 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
48885114 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
48885154 GCCTTCGGGTCTTAGCCCGGATATAT
1 GCCTTCGGGTCTTAGCCCGGATATAT
48885180 TTCCAATGTT
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 146 1.00
ACGTcount: A:0.22, C:0.30, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
Found at i:48893202 original size:40 final size:40
Alignment explanation
Indices: 48893094--48893343 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
48893084 CGGGATTTAA
* * * * *
48893094 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
48893134 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
48893174 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
48893214 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
48893254 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
48893294 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
48893334 CCGGATATAT
1 CCGGATATAT
48893344 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:48899565 original size:24 final size:24
Alignment explanation
Indices: 48899512--48899565 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
48899502 TTCATAAGTC
* * *
48899512 AAATAAATTATGCTAATAAATAAT
1 AAATATATTATACCAATAAATAAT
*
48899536 AAATATATTATACCAATAAATACT
1 AAATATATTATACCAATAAATAAT
48899560 AAATAT
1 AAATAT
48899566 TTTAAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATATATTATACCAATAAATAAT
Found at i:48900273 original size:23 final size:19
Alignment explanation
Indices: 48900227--48900276 Score: 55
Period size: 23 Copynumber: 2.4 Consensus size: 19
48900217 AAATATGGAT
48900227 AATTTAATATATATTTTAA
1 AATTTAATATATATTTTAA
*
48900246 TATTTACATATTATATTATTAAA
1 AATTTA-ATA-TATATT-TT-AA
48900269 AATTTAAT
1 AATTTAAT
48900277 TTTTATATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.20
20 3 0.12
21 6 0.24
22 4 0.16
23 7 0.28
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
AATTTAATATATATTTTAA
Found at i:48901825 original size:26 final size:26
Alignment explanation
Indices: 48901795--48901850 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
48901785 TTATAAATCA
48901795 TAAATATTTTAAAAAAT-AA-AAATATT
1 TAAATA-TTTAAAAAATCAACAAA-ATT
48901821 TAAATATTTAAAAAATCAACAAAATT
1 TAAATATTTAAAAAATCAACAAAATT
48901847 TAAA
1 TAAA
48901851 AAAGTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 10 0.36
26 15 0.54
27 3 0.11
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (26 bp):
TAAATATTTAAAAAATCAACAAAATT
Found at i:48903877 original size:3 final size:3
Alignment explanation
Indices: 48903871--48903919 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
48903861 TGAAAGTAGT
48903871 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
48903919 A
1 A
48903920 ATTTGGTGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:48913882 original size:28 final size:29
Alignment explanation
Indices: 48913844--48913913 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
48913834 TTTAAAAGAA
*
48913844 CTTTTATAATTTTC-ATTATTT-TCTATTTT
1 CTTTT-TAATTTTCTAATATTTGTCTA-TTT
*
48913873 CTTTTTAA-TTTCTAATATTTGTTTATTT
1 CTTTTTAATTTTCTAATATTTGTCTATTT
48913901 CATTTTTAATTTT
1 C-TTTTTAATTTT
48913914 AGTATTAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
27 4 0.11
28 13 0.37
29 15 0.43
30 3 0.09
ACGTcount: A:0.21, C:0.09, G:0.01, T:0.69
Consensus pattern (29 bp):
CTTTTTAATTTTCTAATATTTGTCTATTT
Found at i:48913927 original size:29 final size:28
Alignment explanation
Indices: 48913870--48913936 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
48913860 TATTTTCTAT
**
48913870 TTTCTTTTTAATTTCTAATATTTGTTTA
1 TTTCTTTTTAATTTCTAATATTAATTTA
*
48913898 TTTCATTTTTAATTT-TAGTATTAATCTTA
1 TTTC-TTTTTAATTTCTAATATTAAT-TTA
*
48913927 TTTGTTTTTA
1 TTTCTTTTTA
48913937 GTTTTTTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 17 0.52
29 16 0.48
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.67
Consensus pattern (28 bp):
TTTCTTTTTAATTTCTAATATTAATTTA
Found at i:48918996 original size:34 final size:36
Alignment explanation
Indices: 48918928--48918996 Score: 99
Period size: 34 Copynumber: 2.0 Consensus size: 36
48918918 TGCACACCTA
*
48918928 GCAACCAAAATAGTACCATTTCAAATACATTTATAG
1 GCAACCAAAATAGTACCATTTCAAATACAATTATAG
48918964 GCAACCAAAATA-T-CCATTTC-AATACAAATTATA
1 GCAACCAAAATAGTACCATTTCAAATAC-AATTATA
48918997 AGCCATTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 5 0.16
34 13 0.42
35 1 0.03
36 12 0.39
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.28
Consensus pattern (36 bp):
GCAACCAAAATAGTACCATTTCAAATACAATTATAG
Found at i:48920231 original size:43 final size:43
Alignment explanation
Indices: 48920176--48920334 Score: 180
Period size: 43 Copynumber: 3.7 Consensus size: 43
48920166 CAATACCATA
* * * *
48920176 TCCCAGATATGGTCATACATGTTATCTCATATCGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCTCATATCGATGCCAATG
* * *
48920219 TCCCAAACATGGTCTTACACGAAATCATACA-AT-GATGCCTATG
1 TCCCAGACATGGTCTTACACGTAATC-T-CATATCGATGCCAATG
* *
48920262 TCCCAGACATGGTCTTACACGTAATCACAGTA-CAATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCTCA-TATCGATGCCAATG
*
48920305 TCCCAGACATGGTCTTACATGTAATCTCAT
1 TCCCAGACATGGTCTTACACGTAATCTCAT
48920335 CTCGGTAATC
Statistics
Matches: 97, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 89 0.92
44 3 0.03
45 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCTCATATCGATGCCAATG
Found at i:48924811 original size:40 final size:40
Alignment explanation
Indices: 48924767--48924876 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
48924757 TTCACAATTT
* *
48924767 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
48924807 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
48924847 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
48924877 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:48932862 original size:40 final size:40
Alignment explanation
Indices: 48932818--48932927 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
48932808 TTCACAATTT
* *
48932818 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
48932858 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
48932898 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
48932928 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:48936139 original size:40 final size:40
Alignment explanation
Indices: 48936058--48936195 Score: 199
Period size: 40 Copynumber: 3.5 Consensus size: 40
48936048 CAACCAAGTA
* * *
48936058 CCTTCGGGATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
48936097 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
48936137 CCTTCGGGACTTAACCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
48936177 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48936196 TTATCATCTG
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 14 0.16
40 74 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:48944003 original size:40 final size:40
Alignment explanation
Indices: 48943922--48944099 Score: 263
Period size: 40 Copynumber: 4.5 Consensus size: 40
48943912 CAACCAAGTA
* * *
48943922 CCTTCGGGATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
48943961 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
48944001 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
48944041 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
48944081 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48944100 TTATCATCCG
Statistics
Matches: 129, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
39 15 0.12
40 114 0.88
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:48951944 original size:40 final size:39
Alignment explanation
Indices: 48951893--48952031 Score: 197
Period size: 40 Copynumber: 3.5 Consensus size: 39
48951883 GGACATAGCT
*
48951893 ACTCGCTCAAATGCCTTCAGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCAGGACTTAGCCCGG-TATAGTA
*
48951933 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCAGGACTTAGCCCGG-TATAGTA
* * *
48951973 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGTA-TAGTA
*
48952013 ACTAGCACAAATGCCTTCA
1 ACTCGCACAAATGCCTTCA
48952032 TAGCCCGGTT
Statistics
Matches: 91, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 90 0.99
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCAGGACTTAGCCCGGTATAGTA
Found at i:48951999 original size:80 final size:79
Alignment explanation
Indices: 48951867--48952030 Score: 224
Period size: 80 Copynumber: 2.1 Consensus size: 79
48951857 CAACCAAGTA
* * *
48951867 CCTTCGGGATTTAGCCGGACATAGCTACTCGCTCAAATGCCTTCAGGACTTAGCCCGG-TTATAG
1 CCTTCGGGACTTAGCCGGACATAGCTACTCGCACAAATGCCTTCAGGACTTAGCCCGGAAT-TAG
*
48951931 TAACTCGCACAAATG
65 TAACTAGCACAAATG
* *
48951946 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
1 CCTTCGGGACTTAG-CCGGACATAGCT-ACTCGCACAAATGCCTTCAGGACTTAGCCCGGAATTA
*
48952010 GTCACTAGCACAAATG
64 GTAACTAGCACAAATG
48952026 CCTTC
1 CCTTC
48952031 ATAGCCCGGT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
79 14 0.19
80 60 0.80
81 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCGGACATAGCTACTCGCACAAATGCCTTCAGGACTTAGCCCGGAATTAGT
AACTAGCACAAATG
Found at i:48953783 original size:39 final size:40
Alignment explanation
Indices: 48953654--48953859 Score: 294
Period size: 40 Copynumber: 5.2 Consensus size: 40
48953644 TCTTCGGAAT
* ** *
48953654 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
48953693 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
48953733 TTAGCCCGGATATAACAACTCGCACAAATGCCTTC-GGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
48953772 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
48953812 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGG-C
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
48953851 TTAGCCCGG
1 TTAGCCCGG
48953860 GTATCATTCA
Statistics
Matches: 152, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 52 0.34
40 99 0.65
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:48953791 original size:79 final size:78
Alignment explanation
Indices: 48953654--48953859 Score: 297
Period size: 79 Copynumber: 2.6 Consensus size: 78
48953644 TCTTCGGAAT
* * * * *
48953654 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTC-GGTCTTAGCCCGGATATAACAACTCGCAC
48953718 AAATGCCTTCGGGTC
64 AAATGCCTTCGGGTC
*
48953733 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGTCTTAGCCCGGATATAACAACTCGCACA
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGTCTTAGCCCGGATATAACAACTCGCACA
48953798 AATGCCTTCGGGTC
65 AATGCCTTCGGGTC
* *
48953812 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGCTTAGCCCGG
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGTCTTAGCCCGG
48953860 GTATCATTCA
Statistics
Matches: 115, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
79 89 0.77
80 26 0.23
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (78 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGTCTTAGCCCGGATATAACAACTCGCACAA
ATGCCTTCGGGTC
Found at i:48961720 original size:40 final size:40
Alignment explanation
Indices: 48961655--48961860 Score: 294
Period size: 40 Copynumber: 5.2 Consensus size: 40
48961645 TCTTCGGAAT
* ** *
48961655 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
48961694 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
48961734 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
48961774 TTAGCCC-GATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
48961813 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGG-C
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
48961852 TTAGCCCGG
1 TTAGCCCGG
48961861 GTATCATTCA
Statistics
Matches: 152, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 52 0.34
40 99 0.65
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:48961803 original size:79 final size:78
Alignment explanation
Indices: 48961655--48961859 Score: 297
Period size: 79 Copynumber: 2.6 Consensus size: 78
48961645 TCTTCGGAAT
* * * * *
48961655 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGCCC-GATATAACAACTCGCAC
48961719 AAATGCCTTCGGGTC
64 AAATGCCTTCGGGTC
*
48961734 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGATATAACAACTCGCACA
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGATATAACAACTCGCACA
48961799 AATGCCTTCGGGTC
65 AATGCCTTCGGGTC
*
48961813 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGG-CTTAGCCCG
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGCCCG
48961860 GGTATCATTC
Statistics
Matches: 115, Mismatches: 8, Indels: 7
0.88 0.06 0.05
Matches are distributed among these distances:
78 9 0.08
79 69 0.60
80 37 0.32
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (78 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGCCCGATATAACAACTCGCACAA
ATGCCTTCGGGTC
Found at i:48967207 original size:71 final size:71
Alignment explanation
Indices: 48967123--48967286 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
48967113 CGATTTGTCT
48967123 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
48967188 CTTTCA
66 CTTTCA
48967194 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
48967259 CTTTCA
66 CTTTCA
48967265 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
48967287 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:48967324 original size:71 final size:70
Alignment explanation
Indices: 48967123--48967320 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
48967113 CGATTTGTCT
* * * *
48967123 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
48967188 CTTTCA
65 CTTTCA
* * * *
48967194 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
48967259 CTTTCA
65 CTTTCA
* *
48967265 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
48967321 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:48974784 original size:71 final size:71
Alignment explanation
Indices: 48974700--48974863 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
48974690 CGATTTGTCT
48974700 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
48974765 CTTTCA
66 CTTTCA
48974771 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
48974836 CTTTCA
66 CTTTCA
48974842 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
48974864 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:48974901 original size:71 final size:70
Alignment explanation
Indices: 48974700--48974897 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
48974690 CGATTTGTCT
* * * *
48974700 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
48974765 CTTTCA
65 CTTTCA
* * * *
48974771 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
48974836 CTTTCA
65 CTTTCA
* *
48974842 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
48974898 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:48977906 original size:43 final size:42
Alignment explanation
Indices: 48977771--48977932 Score: 207
Period size: 42 Copynumber: 3.8 Consensus size: 42
48977761 AGGGTTATTA
* * * *
48977771 AGACTATATGTAAGACCATATCGGGGATATGCCATCAATACG
1 AGACTACATGTAAGACCATATCTGGGATATGGCATCGATACG
* * * *
48977813 AGACTACGTGTAAGACCATATATGCGATATGGCATCGATATG
1 AGACTACATGTAAGACCATATCTGGGATATGGCATCGATACG
* *
48977855 AGACTACATGTAAGACCATAGCTGGGCTATTGGCATCGATACG
1 AGACTACATGTAAGACCATATCTGGGATA-TGGCATCGATACG
* *
48977898 AGATTACATGTAAGACCATATCTAGGATATGGCAT
1 AGACTACATGTAAGACCATATCTGGGATATGGCAT
48977933 TGGTACGGTA
Statistics
Matches: 101, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 64 0.63
43 37 0.37
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (42 bp):
AGACTACATGTAAGACCATATCTGGGATATGGCATCGATACG
Found at i:48977916 original size:85 final size:84
Alignment explanation
Indices: 48977771--48977932 Score: 218
Period size: 85 Copynumber: 1.9 Consensus size: 84
48977761 AGGGTTATTA
* * *
48977771 AGACTATATGTAAGACCATATCGGGGATATGCCATCAATACGAGACTACGTGTAAGACCATATAT
1 AGACTACATGTAAGACCATAGCGGGGATATGCCATCAATACGAGACTACATGTAAGACCATATAT
48977836 -GCGATATGGCATCGATATG
66 AG-GATATGGCATCGATATG
* * * * * *
48977855 AGACTACATGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGATTACATGTAAGACCATATC
1 AGACTACATGTAAGACCATAGCGGGGATA-TGCCATCAATACGAGACTACATGTAAGACCATATA
48977920 TAGGATATGGCAT
65 TAGGATATGGCAT
48977933 TGGTACGGTA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 25 0.37
85 41 0.61
86 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (84 bp):
AGACTACATGTAAGACCATAGCGGGGATATGCCATCAATACGAGACTACATGTAAGACCATATAT
AGGATATGGCATCGATATG
Found at i:48981800 original size:28 final size:28
Alignment explanation
Indices: 48981760--48981831 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
48981750 AAAATTGTAC
* *
48981760 AGCACTAAGTGTGCGAGCTTG-ATTCTAT
1 AGCACTAAGTGTGCGAGC-TGAAATATAT
48981788 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTG-AAATATAT
48981817 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
48981832 GATTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 18 0.45
29 20 0.50
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTGAAATATAT
Found at i:48986749 original size:46 final size:45
Alignment explanation
Indices: 48986681--48986855 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 45
48986671 TGTAACCCGC
** * * *
48986681 CCATAAGCAAACTCGGAATCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCAT
* * *
48986727 CCATAGGTGAACTCGGACTCAACTCAATGAGTTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A--T
* * *
48986773 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCAT
48986820 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
48986856 ATGCCCAAAT
Statistics
Matches: 103, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 4 0.04
46 59 0.57
47 30 0.29
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCAT
Found at i:48986852 original size:93 final size:93
Alignment explanation
Indices: 48986690--48986860 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
48986680 CCCATAAGCA
* * *
48986690 AACTCGGAATCAACTCAACGAGCTCAGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCAAT
1 AACTCGGAATCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
48986755 GAGTTCGGATGCCTAGTTACATTTCACG
66 GAGTTCGGATGCCTAGTTACATTTCACG
* *
48986783 AACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 AACTCGGAATCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48986847 CGAGTTCGGATGCC
65 CGAGTTCGGATGCC
48986861 CAAATATCCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
AACTCGGAATCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCACG
Found at i:48986875 original size:46 final size:44
Alignment explanation
Indices: 48986733--48986862 Score: 136
Period size: 47 Copynumber: 2.8 Consensus size: 44
48986723 GCATCCATAG
* *
48986733 GTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACATTTCA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACA--TCA
* * * * *
48986781 -CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAA
1 GTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCA
48986826 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA
48986863 AATATCCCAG
Statistics
Matches: 69, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
44 5 0.07
45 2 0.03
46 28 0.41
47 30 0.43
49 4 0.06
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (44 bp):
GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCA
Found at i:48991010 original size:42 final size:42
Alignment explanation
Indices: 48990951--48991112 Score: 198
Period size: 42 Copynumber: 3.8 Consensus size: 42
48990941 AGGGTTATTA
* ** *
48990951 AGACTATGTGTAAGACCATATAGGGGATATGGCATCAATATG
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
* *
48990993 AGACTACGTGTAAGACCATATTTGGGATATGGCATTGATATG
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
* * * * *
48991035 AGACTTCGTGTAAGACCATAGCTGGGCTATTGGTATCGATACG
1 AGACTACGTGTAAGACCATATCTGGGATA-TGGCATCGATATG
* *
48991078 AGATTACATGTAAGACCATATCTGGGATATGGCAT
1 AGACTACGTGTAAGACCATATCTGGGATATGGCAT
48991113 TGGTACAGTC
Statistics
Matches: 101, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 67 0.66
43 34 0.34
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.28
Consensus pattern (42 bp):
AGACTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
Found at i:48991131 original size:85 final size:84
Alignment explanation
Indices: 48990951--48991131 Score: 204
Period size: 85 Copynumber: 2.1 Consensus size: 84
48990941 AGGGTTATTA
* * * *
48990951 AGACTATGTGTAAGACCATATAGGGGATATGGCATCAATATGAGACTACGTGTAAGACCATATTT
1 AGACTATGTGTAAGACCATAGAGGGGATATGGCATCAATACGAGACTACATGTAAGACCATATCT
*
48991016 GGGATATGGCATTGATATG
66 GGGATATGGCATTGATATC
** * * * *
48991035 AGACT-TCGTGTAAGACCATAGCTGGGCTATTGGTATCGATACGAGATTACATGTAAGACCATAT
1 AGACTAT-GTGTAAGACCATAGAGGGGATA-TGGCATCAATACGAGACTACATGTAAGACCATAT
*
48991099 CTGGGATATGGCATTGGTA-C
64 CTGGGATATGGCATTGATATC
*
48991119 AGTCCTATGTGTA
1 AG-ACTATGTGTA
48991132 CGGGACTCCC
Statistics
Matches: 80, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
83 1 0.01
84 25 0.31
85 53 0.66
86 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (84 bp):
AGACTATGTGTAAGACCATAGAGGGGATATGGCATCAATACGAGACTACATGTAAGACCATATCT
GGGATATGGCATTGATATC
Found at i:48991311 original size:15 final size:16
Alignment explanation
Indices: 48991283--48991312 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
48991273 ATGAACCCTC
48991283 AGTAAGGTTATGATTG
1 AGTAAGGTTATGATTG
48991299 AGTAAGG-TATGATT
1 AGTAAGGTTATGATT
48991313 ATAAGATCTT
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:0.33, C:0.00, G:0.30, T:0.37
Consensus pattern (16 bp):
AGTAAGGTTATGATTG
Found at i:48998494 original size:40 final size:39
Alignment explanation
Indices: 48998450--48998577 Score: 202
Period size: 40 Copynumber: 3.2 Consensus size: 39
48998440 GCTCTCGATA
*
48998450 TAATATATATCCGTGTTAAATCCCGCAGGCTTCGTGCTGT
1 TAATATATATCCG-GTTAAATCCCGCAGGCTTCGTGCTGG
48998490 TAATATATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGG
1 TAATATATATCC-GGTTAAATCCCGCAGGCTTCGTGCTGG
*
48998530 TAATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGG
1 TAATATATATCC-GGTTAAATCCCGCAGGCTTCGTGCTGG
*
48998570 TACTATAT
1 TAATATAT
48998578 CCGGACTTAA
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
40 82 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (39 bp):
TAATATATATCCGGTTAAATCCCGCAGGCTTCGTGCTGG
Found at i:48998596 original size:40 final size:40
Alignment explanation
Indices: 48998450--48998601 Score: 186
Period size: 40 Copynumber: 3.8 Consensus size: 40
48998440 GCTCTCGATA
* *
48998450 TAATATATATCCGTG-TTAAATCCCGCAGGCTTCGTGCTGT
1 TAATATATATCCG-GCTTAAATCCCGCAGGCTTAGTGCTGG
*
48998490 TAATATATATCCAGG-TTAAATCCCGCAGGCTTCGTGCTGG
1 TAATATATATCC-GGCTTAAATCCCGCAGGCTTAGTGCTGG
*
48998530 TAATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGG
1 TAATATATATCCGGCTTAAATCCCGCAGGCTTAGTGCTGG
* *
48998570 T-A-CTATATCCGGACTTAAAGTTCCGCAGGCTT
1 TAATATATATCCGG-CTTAAA-TCCCGCAGGCTT
48998602 TGAGCTAGTA
Statistics
Matches: 103, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
38 9 0.09
39 8 0.08
40 85 0.83
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (40 bp):
TAATATATATCCGGCTTAAATCCCGCAGGCTTAGTGCTGG
Found at i:49006116 original size:40 final size:40
Alignment explanation
Indices: 49006072--49006197 Score: 189
Period size: 40 Copynumber: 3.1 Consensus size: 40
49006062 TCGATATAAT
* *
49006072 ATATATATCCGGGTTAAATCCTGCAGGCTTCGTGCTAGTA
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* * *
49006112 ATATATATCTGGGTTAAATCCCGCAGGCTTCCTGTTGGTA
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
*
49006152 ATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
*
49006192 CTATAT
1 ATATAT
49006198 CCGGACTTAA
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (40 bp):
ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
Found at i:49010702 original size:45 final size:45
Alignment explanation
Indices: 49010636--49010863 Score: 295
Period size: 45 Copynumber: 5.1 Consensus size: 45
49010626 GGAGAGAACT
* * * *
49010636 GGTGAAATGTTATTTGGGCCTTTGAGCCTAGTAGGCTATAATGCC
1 GGTGATATATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
*
49010681 GGTGATATATTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCC
1 GGTGATATATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
*
49010726 GGTGAGATATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
1 GGTGATATATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
* *
49010771 GGTGATATATTATT-TGGTCTTTCGAGCCTAGCAGGCTATAATGCC
1 GGTGATATATTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCC
* * * *
49010816 GGTGA-A-ATGATATCGGGCC-TCGAGCCTAGTAGGCGA-AATGCC
1 GGTGATATATTAT-TCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
49010858 GGTGAT
1 GGTGAT
49010864 TTGTGAAAAG
Statistics
Matches: 163, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
42 11 0.07
43 17 0.10
44 9 0.06
45 126 0.77
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (45 bp):
GGTGATATATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
Found at i:49015411 original size:2 final size:2
Alignment explanation
Indices: 49015404--49015440 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
49015394 GAGACTAGTC
49015404 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
49015441 CATGTCATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:49019182 original size:46 final size:46
Alignment explanation
Indices: 49019131--49019312 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
49019121 AGTTAAATAT
49019131 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
49019177 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
49019223 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
49019269 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
49019313 AGATGTATAT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:49019370 original size:47 final size:47
Alignment explanation
Indices: 49019316--49019426 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 47
49019306 ATGTATGAGA
* * *
49019316 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
* *
49019363 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
49019410 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
49019427 TCCCGAGGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:49023708 original size:46 final size:46
Alignment explanation
Indices: 49023657--49023838 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
49023647 AGTTAAATAT
49023657 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
49023703 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
49023749 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
49023795 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
49023839 AGATGTATAT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:49023896 original size:47 final size:47
Alignment explanation
Indices: 49023842--49023952 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 47
49023832 ATGTATGAGA
* * *
49023842 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
* *
49023889 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
49023936 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
49023953 TCCCGAGGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:49026332 original size:30 final size:30
Alignment explanation
Indices: 49026296--49026356 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
49026286 TCCTTAACTC
49026296 AAACTTTGGAAGAATTACAATTTTGCCCCT
1 AAACTTTGGAAGAATTACAATTTTGCCCCT
* * * * *
49026326 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAGAATTACAATTTTGCCCCT
49026356 A
1 A
49026357 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAGAATTACAATTTTGCCCCT
Found at i:49031108 original size:40 final size:39
Alignment explanation
Indices: 49031063--49031192 Score: 127
Period size: 40 Copynumber: 3.3 Consensus size: 39
49031053 CGGAATATAA
49031063 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
49031103 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
49031143 CCGGATGTCGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
49031183 CCGGATATAA
1 CCGGATATAA
49031193 TTTCCAGCAT
Statistics
Matches: 70, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
38 1 0.01
40 67 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:49031207 original size:40 final size:40
Alignment explanation
Indices: 49031079--49031230 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
49031069 ATAACCATGT
* * *
49031079 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* *** * *
49031119 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTCGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
49031159 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
49031199 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
49031231 CATTCAATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
39 2 0.02
40 84 0.94
41 3 0.03
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:49031213 original size:80 final size:80
Alignment explanation
Indices: 49031079--49031228 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
49031069 ATAACCATGT
*
49031079 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
49031143 CCGGATGTCGCCACTA
65 CCGGATGTCGCCACTA
* * * * *
49031159 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
49031222 CCCGGAT
64 CCCGGAT
49031229 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTCGCCACTA
Found at i:49042197 original size:49 final size:47
Alignment explanation
Indices: 49042092--49042261 Score: 170
Period size: 49 Copynumber: 3.6 Consensus size: 47
49042082 GTACAATGCT
* * *
49042092 GATGCCATGTCCCAGACAGGGTCTTACACT-CTCATC-CATCAAG-T
1 GATGCCATGTCCCAGACATGGTCTTACACTACTCATCAAATCAAGCC
* *
49042136 GATGCCCTGTCCCAGACATGGTCTTACACTAACT-ATCAAAATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACT-ACTCATC-AAATC-AAGCC
* * *
49042185 GATGCCATGTCCCAGACATGGTCTT-CACTAGCTCTTGCATATCCATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTA-CTCAT-CAAAT-CAAGCC
*
49042234 GATACCATGTCCCAGACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
49042262 TTGATACATC
Statistics
Matches: 105, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
44 28 0.27
45 3 0.03
46 2 0.02
47 4 0.04
48 8 0.08
49 56 0.53
50 4 0.04
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTACTCATCAAATCAAGCC
Found at i:49042334 original size:46 final size:46
Alignment explanation
Indices: 49042143--49042407 Score: 153
Period size: 46 Copynumber: 5.6 Consensus size: 46
49042133 AGTGATGCCC
** * **
49042143 TGTCCCAGACATGGTCTTACACTAACTATCAAAATCGAGGCCGATGCCA
1 TGTCCCAGACAT-GTCTTACACTGGCTCTC-ATCTCGAGGCCGATG-CA
* * * * *
49042192 TGTCCCAGACATGGTCTT-CACTAGCTCTTGCATATCCATGCCGATACCA
1 TGTCCCAGACAT-GTCTTACACTGGCTC-T-CATCTCGAGGCCGAT-GCA
* * * *** *
49042241 TGTCCCAGACATGGTCTTACA-TTGAT-ACATCTC-ATATTCGATACA
1 TGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCGA-GGCCGATGCA
*
49042286 TGTCCCAGACATGTTTTACACTGGCT-TACATCTCGAGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAGGCCGATGCA
* * * * * * * *
49042332 TGTACCAAACATGTCCTACACTAGCTCTCGTTTTGATGCCGATGCCA
1 TGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCCGATG-CA
49042379 TGTCCCAGACATGGTCTTACACTGGCTCT
1 TGTCCCAGACAT-GTCTTACACTGGCTCT
49042408 TATAATGTGG
Statistics
Matches: 170, Mismatches: 35, Indels: 23
0.75 0.15 0.10
Matches are distributed among these distances:
44 7 0.04
45 18 0.11
46 54 0.32
47 14 0.08
48 21 0.12
49 53 0.31
50 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
TGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCCGATGCA
Found at i:49044673 original size:56 final size:56
Alignment explanation
Indices: 49044587--49044695 Score: 182
Period size: 56 Copynumber: 1.9 Consensus size: 56
49044577 TCCCAATCTG
* *
49044587 TGATTGTGCCCTATCTATAGCTTGTCTTCTTTACGTTTGTAAAAATTTTAGCTATA
1 TGATTGTGCCCTATCTATAACTTGTCTTCTTTAAGTTTGTAAAAATTTTAGCTATA
* *
49044643 TGATTGTGCCCTATTTATAACTTGTCTTCTTTAAGTTTGTAAGAATTTTAGCT
1 TGATTGTGCCCTATCTATAACTTGTCTTCTTTAAGTTTGTAAAAATTTTAGCT
49044696 TTCAAGCACA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.48
Consensus pattern (56 bp):
TGATTGTGCCCTATCTATAACTTGTCTTCTTTAAGTTTGTAAAAATTTTAGCTATA
Found at i:49045734 original size:31 final size:31
Alignment explanation
Indices: 49045699--49045762 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
49045689 TGAATTTTGG
* *
49045699 ACTAAATTGAATGAAGAGATGATTTGTAACA
1 ACTAAATTAAATGAAGAGATGATTTATAACA
*
49045730 ACTAAATTAAATGGAGAGATGATTTATAACA
1 ACTAAATTAAATGAAGAGATGATTTATAACA
49045761 AC
1 AC
49045763 CCGATTTTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.47, C:0.08, G:0.17, T:0.28
Consensus pattern (31 bp):
ACTAAATTAAATGAAGAGATGATTTATAACA
Found at i:49046994 original size:42 final size:43
Alignment explanation
Indices: 49046947--49047044 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 43
49046937 AGTTTACGTG
* *
49046947 TAAGACCATATCTAGGATA-TGACATCGATATGAGACTT-CGTA
1 TAAGACCATATCTAGGATATTGACATCGATACGAGA-TTACATA
* * * *
49046989 TAAGACCATAGCTAGGCTATTGGCATTGATACGAGATTACATA
1 TAAGACCATATCTAGGATATTGACATCGATACGAGATTACATA
49047032 TAAGACCATATCT
1 TAAGACCATATCT
49047045 GAGACATTGA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
42 19 0.40
43 28 0.60
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (43 bp):
TAAGACCATATCTAGGATATTGACATCGATACGAGATTACATA
Found at i:49053993 original size:29 final size:29
Alignment explanation
Indices: 49053960--49054090 Score: 226
Period size: 29 Copynumber: 4.5 Consensus size: 29
49053950 TATAGTGAAC
49053960 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
49053989 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* *
49054018 CGTACATTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
49054047 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
49054076 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49054091 GTACAATTTT
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 95 1.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.40
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:49056698 original size:42 final size:42
Alignment explanation
Indices: 49056587--49056698 Score: 163
Period size: 43 Copynumber: 2.6 Consensus size: 42
49056577 TGCCGTACCA
* *
49056587 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
1 ATGCCATATCCTAGATATGGTCTTACATGGAATCTCATATCG
* *
49056629 ATGCCAATAGCCTAGCTATGGTCTTACA-GGAAGTCTCATATCG
1 ATGCC-ATATCCTAGATATGGTCTTACATGGAA-TCTCATATCG
49056672 ATGCCATATCCTAGATATGGTCTTACA
1 ATGCCATATCCTAGATATGGTCTTACA
49056699 CGTAAACTCA
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
42 28 0.45
43 34 0.55
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACATGGAATCTCATATCG
Found at i:49057353 original size:27 final size:27
Alignment explanation
Indices: 49057316--49057367 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
49057306 ATAAAATATA
49057316 AGAAACAAGGTTCAGACCTAGATCAAG
1 AGAAACAAGGTTCAGACCTAGATCAAG
* **
49057343 AGAAACGAGGTTTGGACCTAGATCA
1 AGAAACAAGGTTCAGACCTAGATCA
49057368 GGGGAAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.17
Consensus pattern (27 bp):
AGAAACAAGGTTCAGACCTAGATCAAG
Found at i:49060818 original size:40 final size:39
Alignment explanation
Indices: 49060781--49060962 Score: 230
Period size: 40 Copynumber: 4.7 Consensus size: 39
49060771 GCTACTCGTT
* *
49060781 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
*
49060821 CAAATGCCTTCGGG-CTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
49060860 C-AATGCCTTCGGG-CTTAGCCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
* * *
49060897 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
49060938 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49060963 CATCATTCGA
Statistics
Matches: 127, Mismatches: 8, Indels: 14
0.85 0.05 0.09
Matches are distributed among these distances:
37 16 0.13
38 31 0.24
39 32 0.25
40 37 0.29
41 11 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:49069014 original size:40 final size:39
Alignment explanation
Indices: 49068977--49069157 Score: 221
Period size: 40 Copynumber: 4.7 Consensus size: 39
49068967 GCTACTCGTT
* *
49068977 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
*
49069017 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
49069057 C-AATGCCTTC-GGA-TTAG-CCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
* * *
49069092 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
49069133 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49069158 CATCATTCGA
Statistics
Matches: 126, Mismatches: 7, Indels: 16
0.85 0.05 0.11
Matches are distributed among these distances:
35 14 0.11
36 17 0.13
37 3 0.02
38 7 0.06
39 15 0.12
40 58 0.46
41 12 0.10
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:49069103 original size:75 final size:78
Alignment explanation
Indices: 49068977--49069153 Score: 218
Period size: 75 Copynumber: 2.3 Consensus size: 78
49068967 GCTACTCGTT
* *
49068977 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAA-GCCTTCGGGACTTAG-CCGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
49069041 GATTTAGTAAC-TCGCA
62 GATATAGTAACTTAGCA
* **
49069057 CAATGCCTTC-GGA-TTAGCCGGATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATA
1 CAAAGCCTTCGGGACTTAGCCGGATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATA
*
49069120 TAGTCACTTAGCA
66 TAGTAACTTAGCA
49069133 CAAAGCCTTCGGGACTTAGCC
1 CAAAGCCTTCGGGACTTAGCC
49069154 CGGACATCAT
Statistics
Matches: 84, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
74 3 0.04
75 39 0.46
76 18 0.21
77 6 0.07
78 9 0.11
79 6 0.07
80 3 0.04
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAAGCCTTCGGGACTTAGCCGGATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATA
TAGTAACTTAGCA
Found at i:49074960 original size:27 final size:27
Alignment explanation
Indices: 49074889--49074964 Score: 125
Period size: 28 Copynumber: 2.8 Consensus size: 27
49074879 TGGAGGAAGC
49074889 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCACAAATATCT
49074916 GTTTCTGGTGGCTATGCCACAAATATCT
1 G-TTCTGGTGGCTATGCCACAAATATCT
* *
49074944 GTTCTAGTGGCTCTGCCACAA
1 GTTCTGGTGGCTATGCCACAA
49074965 TATGTGACAG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 19 0.41
28 27 0.59
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (27 bp):
GTTCTGGTGGCTATGCCACAAATATCT
Found at i:49076744 original size:40 final size:40
Alignment explanation
Indices: 49076636--49076745 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
49076626 ATTGAATGAT
* * * * *
49076636 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
49076676 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
49076716 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
49076746 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Done.