Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 188 of 444
Found at i:52678328 original size:71 final size:70
Alignment explanation
Indices: 52678127--52678324 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
52678117 CGATTTGTCT
* * * *
52678127 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
52678192 CTTTCA
65 CTTTCA
* * * *
52678198 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
52678263 CTTTCA
65 CTTTCA
* *
52678269 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
52678325 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:52696130 original size:38 final size:37
Alignment explanation
Indices: 52696020--52696131 Score: 134
Period size: 39 Copynumber: 2.9 Consensus size: 37
52696010 TTCTAGCACA
*
52696020 AAGCCTGCGGGATTTAACCCGGATATCTATTACCAGCATT
1 AAGCCTGC-GGATTTAACCCGGATA--TAATACCAGCATT
* * *
52696060 AGGCCTGCGGACTATAAGTCCGGATATAATACCAGCATT
1 AAGCCTGCGGA-TTTAA-CCCGGATATAATACCAGCATT
52696099 AAGCCTGCGTGATTTAACCCGGATATAATACCA
1 AAGCCTGCG-GATTTAACCCGGATATAATACCA
52696132 CATAAATTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
38 15 0.24
39 27 0.44
40 13 0.21
41 7 0.11
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (37 bp):
AAGCCTGCGGATTTAACCCGGATATAATACCAGCATT
Found at i:52698313 original size:29 final size:29
Alignment explanation
Indices: 52698271--52698329 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
52698261 CTAAGAAAAA
52698271 AAAATCCATCATACAAATTGAAGCTTGTG
1 AAAATCCATCATACAAATTGAAGCTTGTG
52698300 AAAATCCATCATACAAATTGAAGCTTGTG
1 AAAATCCATCATACAAATTGAAGCTTGTG
52698329 A
1 A
52698330 TTTCACCACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (29 bp):
AAAATCCATCATACAAATTGAAGCTTGTG
Found at i:52702671 original size:32 final size:32
Alignment explanation
Indices: 52702554--52702659 Score: 203
Period size: 32 Copynumber: 3.3 Consensus size: 32
52702544 CTCGGCCCTG
52702554 GCCTCCGTACCCTCTAGCAGCCACACACACGC
1 GCCTCCGTACCCTCTAGCAGCCACACACACGC
52702586 GCCTCCGTACCCTCTAGCAGCCACACACACGC
1 GCCTCCGTACCCTCTAGCAGCCACACACACGC
*
52702618 GCCTCCGTACCCTCTAGCAGCCACGCACACGC
1 GCCTCCGTACCCTCTAGCAGCCACACACACGC
52702650 GCCTCCGTAC
1 GCCTCCGTAC
52702660 GCCAGCCCAG
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 73 1.00
ACGTcount: A:0.20, C:0.50, G:0.17, T:0.13
Consensus pattern (32 bp):
GCCTCCGTACCCTCTAGCAGCCACACACACGC
Found at i:52705927 original size:49 final size:49
Alignment explanation
Indices: 52705850--52706094 Score: 285
Period size: 49 Copynumber: 4.9 Consensus size: 49
52705840 TAACCGAAGC
* * *
52705850 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
52705899 TAT-TCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * *
52705949 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACTCACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * * *
52706000 TATCAGCTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
52706049 TATCTGGTACACGTAGTAGCCTGTACTTAGTACTTCACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
52706095 TCACAATAGC
Statistics
Matches: 164, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
48 1 0.01
49 79 0.48
50 46 0.28
51 38 0.23
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:52708375 original size:15 final size:15
Alignment explanation
Indices: 52708351--52708389 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
52708341 AACAGAGAAG
52708351 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
52708367 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
52708382 CCATGATA
1 CCAAGATA
52708390 CGAGAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:52711195 original size:49 final size:50
Alignment explanation
Indices: 52711118--52711362 Score: 307
Period size: 49 Copynumber: 4.9 Consensus size: 50
52711108 TAGCCGAAGC
* * *
52711118 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA-T
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAACT
* * *
52711167 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AACT
* * * *
52711218 T-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAACT
** * * *
52711268 TATCAAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA-T
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAACT
*
52711317 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
52711363 TCACAATAGC
Statistics
Matches: 167, Mismatches: 25, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
49 82 0.49
50 48 0.29
51 37 0.22
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (50 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAACT
Found at i:52716384 original size:2 final size:2
Alignment explanation
Indices: 52716377--52716406 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
52716367 CGGCTCTAGC
52716377 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
52716407 GTTTGCACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52717209 original size:32 final size:32
Alignment explanation
Indices: 52717168--52717231 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
52717158 CGGGTCAATT
52717168 CCCGAAGGCATTTGTGCGAGTTACCAAAACCG
1 CCCGAAGGCATTTGTGCGAGTTACCAAAACCG
52717200 CCCGAAGGCATTTGTGCGAGTTACCAAAACCG
1 CCCGAAGGCATTTGTGCGAGTTACCAAAACCG
52717232 GGTTAAGTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.19
Consensus pattern (32 bp):
CCCGAAGGCATTTGTGCGAGTTACCAAAACCG
Found at i:52717255 original size:40 final size:40
Alignment explanation
Indices: 52717200--52717326 Score: 182
Period size: 40 Copynumber: 3.2 Consensus size: 40
52717190 ACCAAAACCG
* *
52717200 CCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGT
1 CCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGCTAAGT
* *
52717240 CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAATT
1 CCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGCTAAGT
* * * *
52717280 CCCGAAGGCAATTGTGCGAATTACTATAACCGGGCTATGT
1 CCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGCTAAGT
52717320 CCCGAAG
1 CCCGAAG
52717327 ACAATCGAGC
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 77 1.00
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
CCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGCTAAGT
Found at i:52717361 original size:80 final size:80
Alignment explanation
Indices: 52717200--52717352 Score: 180
Period size: 80 Copynumber: 1.9 Consensus size: 80
52717190 ACCAAAACCG
* * * * * * * *
52717200 CCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 CCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTCACT
52717265 AAATCCGGGCTAATT
66 AAATCCGGGCTAATT
* * * * *
52717280 CCCGAAGGCAATTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGACAATCGAGCTAGTCGCT
1 CCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTCACT
*
52717345 ATATCCGG
66 AAATCCGG
52717353 TTAAATTCCG
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
80 59 1.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (80 bp):
CCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTCACT
AAATCCGGGCTAATT
Found at i:52725291 original size:40 final size:40
Alignment explanation
Indices: 52725195--52725413 Score: 260
Period size: 40 Copynumber: 5.5 Consensus size: 40
52725185 CGAATGGTGT
* * * * *
52725195 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGATTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
52725236 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
52725276 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
52725316 CCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
52725356 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
52725396 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
52725414 ACAATCGAGC
Statistics
Matches: 156, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
40 131 0.84
41 25 0.16
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:52725409 original size:120 final size:121
Alignment explanation
Indices: 52725195--52725413 Score: 316
Period size: 120 Copynumber: 1.8 Consensus size: 121
52725185 CGAATGGTGT
* * *
52725195 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGATTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
52725260 GTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
66 GTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
52725316 CCGGGTTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* * *
52725379 TGTGCGAATTACTATAACCGGGCTATGTCCCGAAG
65 TGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAG
52725414 ACAATCGAGC
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
119 1 0.01
120 60 0.70
121 25 0.29
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (121 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:52725438 original size:80 final size:80
Alignment explanation
Indices: 52725276--52725439 Score: 177
Period size: 80 Copynumber: 2.0 Consensus size: 80
52725266 GTTACCAAAA
* * * * * * *
52725276 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATCG
* *
52725341 TGTGAGTTACTAAAT
66 AGTGAGTCACTAAAT
* * * *
52725356 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGACAATCG
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATCG
* *
52725421 AGCT-AGTCGCTATAT
66 AG-TGAGTCACTAAAT
52725436 CCGG
1 CCGG
52725440 TTAAATTCCG
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
80 67 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATCG
AGTGAGTCACTAAAT
Found at i:52726952 original size:17 final size:18
Alignment explanation
Indices: 52726910--52726958 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
52726900 AGTTGAAAAG
52726910 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
52726929 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
52726946 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
52726959 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:52727847 original size:40 final size:40
Alignment explanation
Indices: 52727781--52727947 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
52727771 AAATTGAATG
* * *
52727781 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
52727820 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
52727860 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
52727900 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
52727940 ATATCCGG
1 ATATCCGG
52727948 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:52734952 original size:17 final size:18
Alignment explanation
Indices: 52734910--52734958 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
52734900 AGTTGAAAAG
52734910 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
52734929 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
52734946 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
52734959 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:52735846 original size:40 final size:39
Alignment explanation
Indices: 52735780--52735945 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 39
52735770 AAATTGAATG
* * *
52735780 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG-TATT
* * **
52735819 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
*
52735858 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G-TATT
* * **
52735898 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGT-ATT
52735938 ATATCCGG
1 ATATCCGG
52735946 TTATATTCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
38 3 0.03
39 42 0.41
40 56 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
Found at i:52738907 original size:27 final size:28
Alignment explanation
Indices: 52738876--52738943 Score: 104
Period size: 27 Copynumber: 2.5 Consensus size: 28
52738866 GCGTAGATCA
*
52738876 CGAAATTACCCCTAAAGAG-CAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
52738903 CGAAATTACCCCTAAAGAGTAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
*
52738931 CGATA-TACCCCTA
1 CGAAATTACCCCTA
52738944 GGGTTTAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 27 0.71
28 11 0.29
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.21
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGTAAAATTAC
Found at i:52742042 original size:27 final size:27
Alignment explanation
Indices: 52741966--52742055 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
52741956 TTTAGTTTAC
* *
52741966 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACTGAAATA-CCTTCGATTTG
* *
52741993 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCTTCGATTTG
*
52742020 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCTTCGATTTG
52742047 TAAAATTAC
1 TAAAATTAC
52742056 CAAAGTACCC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.07
27 51 0.93
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
TAAAATTACTGAAATACCTTCGATTTG
Found at i:52742065 original size:54 final size:54
Alignment explanation
Indices: 52741966--52742072 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
52741956 TTTAGTTTAC
* * *
52741966 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
52742020 TAAAATTACTGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
52742073 ACAGAATTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 8 0.18
54 37 0.82
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:52742080 original size:27 final size:27
Alignment explanation
Indices: 52742061--52742378 Score: 323
Period size: 27 Copynumber: 11.8 Consensus size: 27
52742051 ATTACCAAAG
*
52742061 TACCCCCGATTTACAGAATTATCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
*
52742088 TA-CCCCGATTTACATAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
52742114 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
52742141 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * *
52742168 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* **
52742195 TACCCTCGATTTACAGAATTATTGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * *
52742222 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
** *
52742249 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * *
52742276 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
** * **
52742303 TACCGTCGATTTATAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * ** **
52742330 TTCTCTTGATTTACAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
52742357 TACCCTCGATTTACAAAATTAC
1 TACCCCCGATTTACAGAATTAC
52742379 AGAAATACCC
Statistics
Matches: 250, Mismatches: 40, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
26 24 0.10
27 226 0.90
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCGTTT
Found at i:52742215 original size:81 final size:81
Alignment explanation
Indices: 52742061--52742378 Score: 424
Period size: 81 Copynumber: 3.9 Consensus size: 81
52742051 ATTACCAAAG
* *
52742061 TACCCCCGATTTACAGAATTA-TCGTTTTACCC-CGATTTACATAATTACCGTTTTACCCTCGAT
1 TACCCTCGATTTACAGAATTACT-GTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGAT
52742124 TTACAAAATTACCGTTT
65 TTACAAAATTACCGTTT
* *
52742141 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
* **
52742206 TACAGAATTATTGTTT
66 TACAAAATTACCGTTT
* * * * *
52742222 TACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
*
52742287 TACAAAATTATCGTTT
66 TACAAAATTACCGTTT
* * * * * * **
52742303 TACCGTCGATTTATAGAATTACTATTTTTCTCTTGATTTACAGAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
52742368 TACAAAATTAC
66 TACAAAATTAC
52742379 AGAAATACCC
Statistics
Matches: 213, Mismatches: 23, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
80 29 0.14
81 184 0.86
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
TACAAAATTACCGTTT
Found at i:52742387 original size:27 final size:27
Alignment explanation
Indices: 52742357--52742442 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
52742347 ATTACTATTT
*
52742357 TACCCTCGATTTACAAAATTA-CAGAAA
1 TACCCTCAATTTACAAAATTACCA-AAA
**
52742384 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
* **
52742411 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTC-AATTTACAAAATTACCAAAA
52742438 TACCC
1 TACCC
52742443 ATGGTTTGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.02
27 50 0.94
28 2 0.04
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.28
Consensus pattern (27 bp):
TACCCTCAATTTACAAAATTACCAAAA
Found at i:52742405 original size:54 final size:54
Alignment explanation
Indices: 52742061--52742378 Score: 449
Period size: 54 Copynumber: 5.9 Consensus size: 54
52742051 ATTACCAAAG
* * * * *
52742061 TACCCCCGATTTACAGAATTATCGTTTTACCC-CGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
52742114 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* *
52742168 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* *
52742222 TACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* * * *
52742276 TACCCTCGATTTACAAAATTATCGTTTTACCGTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* * * * ** *
52742330 TTCTCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTAC
52742379 AGAAATACCC
Statistics
Matches: 239, Mismatches: 25, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
53 29 0.12
54 210 0.88
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
Found at i:52742429 original size:54 final size:53
Alignment explanation
Indices: 52742371--52742497 Score: 141
Period size: 54 Copynumber: 2.4 Consensus size: 53
52742361 CTCGATTTAC
* **
52742371 AAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGT-TTGT
1 AAAATTACAGAAATACCCT-AATTTGAAAAATTACCAAAATACCCCT-GTAGGGT
** *
52742425 AAAATTACCA-AAATACCCATGGTTTGAAAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTA-CAGAAATACCC-TAATTTGAAAAATTACCAAAATACCCCTGTAGGGT
*
52742479 AAAATTACTGAAATACCCT
1 AAAATTACAGAAATACCCT
52742498 TGTGGGGTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
53 4 0.06
54 55 0.89
55 3 0.05
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (53 bp):
AAAATTACAGAAATACCCTAATTTGAAAAATTACCAAAATACCCCTGTAGGGT
Found at i:52742449 original size:27 final size:27
Alignment explanation
Indices: 52742371--52742469 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 27
52742361 CTCGATTTAC
*
52742371 AAAATTA-CAGAAATACCC-TCAATTTGT
1 AAAATTACCA-AAATACCCAT-AGTTTGT
*
52742398 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCATAGTTTGT
* *
52742425 AAAATTACCAAAATACCCATGGTTTGA
1 AAAATTACCAAAATACCCATAGTTTGT
*
52742452 AAAATTACTAAAATACCC
1 AAAATTACCAAAATACCC
52742470 CTGTAGGGTA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 62 0.95
28 3 0.05
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCATAGTTTGT
Found at i:52742482 original size:27 final size:27
Alignment explanation
Indices: 52742396--52742515 Score: 109
Period size: 27 Copynumber: 4.4 Consensus size: 27
52742386 CCCTCAATTT
**
52742396 GTAAAATTACCAAAATACCCCTAGTTT
1 GTAAAATTACCAAAATACCCCTAGTGG
* * **
52742423 GTAAAATTACCAAAATACCCATGGTTT
1 GTAAAATTACCAAAATACCCCTAGTGG
* *
52742450 GAAAAATTACTAAAATACCCCT-GTAGG
1 GTAAAATTACCAAAATACCCCTAGT-GG
** *
52742477 GTAAAATTACTGAAATA-CCCTTGTGGG
1 GTAAAATTACCAAAATACCCCTAGT-GG
52742504 GTAAAATTACCA
1 GTAAAATTACCA
52742516 TTTTGCCCCT
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 6 0.08
27 73 0.92
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCCTAGTGG
Found at i:52743207 original size:27 final size:28
Alignment explanation
Indices: 52743130--52743198 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
52743120 GCGTAGATCA
*
52743130 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
52743158 CGAAATTACCCCTAAAGAGTAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
*
52743186 CGATA-TACCCCTA
1 CGAAATTACCCCTA
52743199 GGGTTTAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGTAAAATTAC
Found at i:52746265 original size:26 final size:26
Alignment explanation
Indices: 52746211--52746314 Score: 109
Period size: 27 Copynumber: 3.9 Consensus size: 26
52746201 CCATGTTTAG
* * *
52746211 AATACTTTAGTTTACTAAAATTACCGA
1 AATACCTTAGTTT-GTAAAATTACTGA
*
52746238 AATACCTTAGTTTGTAAAAATACTGA
1 AATACCTTAGTTTGTAAAATTACTGA
* *
52746264 AATACCCTCGATTTGTAAAATTACTGA
1 AATACCTTAG-TTTGTAAAATTACTGA
* *
52746291 AATACCTTCGACTTGTAAAATTAC
1 AATACCTTAG-TTTGTAAAATTAC
52746315 CAAAGTACCC
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
26 18 0.27
27 49 0.73
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (26 bp):
AATACCTTAGTTTGTAAAATTACTGA
Found at i:52746301 original size:27 final size:27
Alignment explanation
Indices: 52746226--52746314 Score: 126
Period size: 27 Copynumber: 3.3 Consensus size: 27
52746216 TTTAGTTTAC
* *
52746226 TAAAATTACCGAAATACCTTAG-TTTG
1 TAAAATTACTGAAATACCTTCGATTTG
* *
52746252 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCTTCGATTTG
*
52746279 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCTTCGATTTG
52746306 TAAAATTAC
1 TAAAATTAC
52746315 CAAAGTACCC
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 18 0.33
27 37 0.67
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (27 bp):
TAAAATTACTGAAATACCTTCGATTTG
Found at i:52746339 original size:27 final size:27
Alignment explanation
Indices: 52746320--52746638 Score: 332
Period size: 27 Copynumber: 11.8 Consensus size: 27
52746310 ATTACCAAAG
*
52746320 TACCCCCGATTTACAGAATTATCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
*
52746347 TACCCCCGATTTACATAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
52746374 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
52746401 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * *
52746428 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* **
52746455 TACCCTCGATTTACAGAATTATTGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * *
52746482 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
** *
52746509 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * *
52746536 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
** * **
52746563 TACCGTCGATTTATAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * ** **
52746590 TTCTCTTGATTTACAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
52746617 TACCCTCGATTTACAAAATTAC
1 TACCCCCGATTTACAGAATTAC
52746639 AGAAATACCC
Statistics
Matches: 252, Mismatches: 40, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 252 1.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCGTTT
Found at i:52746340 original size:54 final size:53
Alignment explanation
Indices: 52746221--52746340 Score: 125
Period size: 54 Copynumber: 2.2 Consensus size: 53
52746211 AATACTTTAG
* * *
52746221 TTTACTAAAATTACCGAAATACCTTAGTTTGTAAAAATACTGAAATACCCTCGA
1 TTTAC-AAAATTACCGAAATACCTTAGCTTGTAAAAATACTCAAATACCCCCGA
** * * *
52746275 TTTGTAAAATTACTGAAATACCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGA
1 TTTACAAAATTACCGAAATACCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGA
*
52746329 TTTACAGAATTA
1 TTTACAAAATTA
52746341 TCGTTTTACC
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
53 22 0.42
54 31 0.58
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (53 bp):
TTTACAAAATTACCGAAATACCTTAGCTTGTAAAAATACTCAAATACCCCCGA
Found at i:52746367 original size:81 final size:81
Alignment explanation
Indices: 52746266--52746556 Score: 188
Period size: 81 Copynumber: 3.6 Consensus size: 81
52746256 AATACTGAAA
* ** * * **
52746266 TACCCTCGATTTGTAAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGATT
1 TACCCCCGATTTACAAAATTACCGAAATACCCTCGACTTACAAAATTACCAAAGTACCCCCGATT
52746331 TACAGAATTA-TCGTTT
66 TACAGAATTACT-GTTT
* *** * **** *
52746347 TACCCCCGATTTACATAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
1 TACCCCCGATTTACAAAATTACCGAAATACCCTCGACTTACAAAATTACCAAAGTACCCCCGATT
52746412 TACAGAATTACTGTTT
66 TACAGAATTACTGTTT
* * *** * * ****** *
52746428 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTATTGTTTTACCCTCGATT
1 TACCCCCGATTTACAAAATTACCGAAATACCCTCGACTTACAAAATTACCAAAGTACCCCCGATT
* * *
52746493 TATAAAATTACCGTTT
66 TACAGAATTACTGTTT
** * * *** *
52746509 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTA
1 TACCCCCGATTTACAAAATTACCGAAATACCCTCGACTTACAAAATTA
52746557 TCGTTTTACC
Statistics
Matches: 178, Mismatches: 31, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
81 177 0.99
82 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (81 bp):
TACCCCCGATTTACAAAATTACCGAAATACCCTCGACTTACAAAATTACCAAAGTACCCCCGATT
TACAGAATTACTGTTT
Found at i:52746557 original size:81 final size:81
Alignment explanation
Indices: 52746320--52746637 Score: 429
Period size: 81 Copynumber: 3.9 Consensus size: 81
52746310 ATTACCAAAG
* * * *
52746320 TACCCCCGATTTACAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
*
52746385 TACAAAATTACCGTTT
66 TACAAAATTATCGTTT
* * *
52746401 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
* *
52746466 TACAGAATTATTGTTT
66 TACAAAATTATCGTTT
* * * *
52746482 TACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
52746547 TACAAAATTATCGTTT
66 TACAAAATTATCGTTT
* * ** * * * **
52746563 TACCGTCGATTTATAGAATTACTATTTTTCTCTTGATTTACAGAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
52746628 TACAAAATTA
66 TACAAAATTA
52746638 CAGAAATACC
Statistics
Matches: 212, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 212 1.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
TACAAAATTATCGTTT
Found at i:52746647 original size:27 final size:27
Alignment explanation
Indices: 52746617--52746702 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
52746607 ATTACTATTT
*
52746617 TACCCTCGATTTACAAAATTA-CAGAAA
1 TACCCTCAATTTACAAAATTACCA-AAA
**
52746644 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
* **
52746671 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTC-AATTTACAAAATTACCAAAA
52746698 TACCC
1 TACCC
52746703 ATGGTTTGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.02
27 50 0.94
28 2 0.04
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.28
Consensus pattern (27 bp):
TACCCTCAATTTACAAAATTACCAAAA
Found at i:52746665 original size:54 final size:54
Alignment explanation
Indices: 52746320--52746638 Score: 449
Period size: 54 Copynumber: 5.9 Consensus size: 54
52746310 ATTACCAAAG
* * * * * *
52746320 TACCCCCGATTTACAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
52746374 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* *
52746428 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* *
52746482 TACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* * * *
52746536 TACCCTCGATTTACAAAATTATCGTTTTACCGTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* * * * ** *
52746590 TTCTCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTAC
52746639 AGAAATACCC
Statistics
Matches: 239, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 239 1.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
Found at i:52746689 original size:54 final size:53
Alignment explanation
Indices: 52746631--52746757 Score: 141
Period size: 54 Copynumber: 2.4 Consensus size: 53
52746621 CTCGATTTAC
* **
52746631 AAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGT-TTGT
1 AAAATTACAGAAATACCCT-AATTTGAAAAATTACCAAAATACCCCT-GTAGGGT
** *
52746685 AAAATTACCA-AAATACCCATGGTTTGAAAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTA-CAGAAATACCC-TAATTTGAAAAATTACCAAAATACCCCTGTAGGGT
*
52746739 AAAATTACTGAAATACCCT
1 AAAATTACAGAAATACCCT
52746758 TGTGGGGTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
53 4 0.06
54 55 0.89
55 3 0.05
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (53 bp):
AAAATTACAGAAATACCCTAATTTGAAAAATTACCAAAATACCCCTGTAGGGT
Found at i:52746709 original size:27 final size:27
Alignment explanation
Indices: 52746631--52746729 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 27
52746621 CTCGATTTAC
*
52746631 AAAATTA-CAGAAATACCC-TCAATTTGT
1 AAAATTACCA-AAATACCCAT-AGTTTGT
*
52746658 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCATAGTTTGT
* *
52746685 AAAATTACCAAAATACCCATGGTTTGA
1 AAAATTACCAAAATACCCATAGTTTGT
*
52746712 AAAATTACTAAAATACCC
1 AAAATTACCAAAATACCC
52746730 CTGTAGGGTA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 62 0.95
28 3 0.05
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCATAGTTTGT
Found at i:52746742 original size:27 final size:27
Alignment explanation
Indices: 52746656--52746775 Score: 109
Period size: 27 Copynumber: 4.4 Consensus size: 27
52746646 CCCTCAATTT
**
52746656 GTAAAATTACCAAAATACCCCTAGTTT
1 GTAAAATTACCAAAATACCCCTAGTGG
* * **
52746683 GTAAAATTACCAAAATACCCATGGTTT
1 GTAAAATTACCAAAATACCCCTAGTGG
* *
52746710 GAAAAATTACTAAAATACCCCT-GTAGG
1 GTAAAATTACCAAAATACCCCTAGT-GG
** *
52746737 GTAAAATTACTGAAATA-CCCTTGTGGG
1 GTAAAATTACCAAAATACCCCTAGT-GG
52746764 GTAAAATTACCA
1 GTAAAATTACCA
52746776 TTTTGCCCCT
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 6 0.08
27 73 0.92
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCCTAGTGG
Found at i:52747470 original size:27 final size:28
Alignment explanation
Indices: 52747393--52747461 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
52747383 GCGTAGATCA
*
52747393 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
52747421 CGAAATTACCCCTAAAGAGTAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
*
52747449 CGATA-TACCCCTA
1 CGAAATTACCCCTA
52747462 GGGTTTAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGTAAAATTAC
Found at i:52749651 original size:11 final size:11
Alignment explanation
Indices: 52749620--52749665 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
52749610 ATGAATATAA
52749620 CATGTGCATAT
1 CATGTGCATAT
*
52749631 CA--TACATAT
1 CATGTGCATAT
52749640 CATGTGCATAT
1 CATGTGCATAT
*
52749651 CATGT-CAAAT
1 CATGTGCATAT
52749661 CATGT
1 CATGT
52749666 ATATCAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 8 0.27
10 9 0.30
11 13 0.43
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.35
Consensus pattern (11 bp):
CATGTGCATAT
Found at i:52754729 original size:27 final size:27
Alignment explanation
Indices: 52754688--52754741 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
52754678 TGTCATGTGA
* *
52754688 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
52754715 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
52754742 GGTTGTACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:52755088 original size:49 final size:50
Alignment explanation
Indices: 52754974--52755098 Score: 137
Period size: 50 Copynumber: 2.5 Consensus size: 50
52754964 TGAGGTTACG
* * * ** *
52754974 TGTGCAGTACTAAGTAC-AGACTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAAG-CTACTACGTGTACCAGATAATTAGGTCACA
* * *
52755024 TGTGTACTACTAAGTGCAAGCTACTACGTGTACCGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTAGGTCACA
*
52755073 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAAGCTACTA
52755099 TGCATACCTG
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
49 29 0.46
50 32 0.51
51 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTAGGTCACA
Found at i:52759184 original size:42 final size:42
Alignment explanation
Indices: 52759137--52759252 Score: 146
Period size: 42 Copynumber: 2.8 Consensus size: 42
52759127 GCCTTGTGTT
*
52759137 GGTGTATTAAATCGGGCTTTATTGCCTAGGAGGCTTTATGTC
1 GGTGTATTAAATCGGGCTTTATTGCCTAGCAGGCTTTATGTC
*
52759179 GGTGTATTATATCGGGCTTTATTGCCTAGCAGGCTTTAT-TCC
1 GGTGTATTAAATCGGGCTTTATTGCCTAGCAGGCTTTATGT-C
* ** * *
52759221 AGTGTATTATGTCAGGC-CTATTGCCTAGCAGG
1 GGTGTATTAAATCGGGCTTTATTGCCTAGCAGG
52759253 TTCTGTGCCG
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 15 0.22
42 52 0.78
ACGTcount: A:0.19, C:0.17, G:0.27, T:0.37
Consensus pattern (42 bp):
GGTGTATTAAATCGGGCTTTATTGCCTAGCAGGCTTTATGTC
Found at i:52761694 original size:55 final size:53
Alignment explanation
Indices: 52761567--52761755 Score: 236
Period size: 55 Copynumber: 3.5 Consensus size: 53
52761557 AACTTACCAT
* * *
52761567 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* * *
52761620 TGCCATGCCTTGGCCTGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * *
52761675 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
*
52761729 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
52761756 ATATCCTTAT
Statistics
Matches: 117, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 2 0.02
53 34 0.29
54 35 0.30
55 44 0.38
56 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:52762033 original size:44 final size:43
Alignment explanation
Indices: 52761953--52762038 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 43
52761943 TATCCTTAAC
* *
52761953 CGTCAATTCCTCCTTAAATGCCATGTTATGAACATGGAATTTTT
1 CGTCAATTCCTCCTTAAATGCCATGGTATCAACATGG-ATTTTT
* * *
52761997 CGTCAATTCTTCCTTAATTTCCATGGTA-CAACCATGGATTTT
1 CGTCAATTCCTCCTTAAATGCCATGGTATCAA-CATGGATTTT
52762039 GAGATATCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
43 7 0.19
44 29 0.81
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.40
Consensus pattern (43 bp):
CGTCAATTCCTCCTTAAATGCCATGGTATCAACATGGATTTTT
Found at i:52764488 original size:40 final size:41
Alignment explanation
Indices: 52764397--52764506 Score: 138
Period size: 40 Copynumber: 2.7 Consensus size: 41
52764387 ATAACCACGT
* *
52764397 GCACGAATGCCTTCGGGTCTTAGCCCAGA-TAGAACGACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTA
*
52764437 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-CCG-CTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTA
*
52764477 GCAC-AATTGCCTTCGGGTCTTAACCCGGAT
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGAT
52764507 ATAATTTCCA
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
39 2 0.03
40 56 0.89
41 2 0.03
42 3 0.05
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (41 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTA
Found at i:52781765 original size:17 final size:17
Alignment explanation
Indices: 52781743--52781780 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
52781733 CCTTTGGTTG
52781743 AATTCGCTTATAATATC
1 AATTCGCTTATAATATC
52781760 AATTCGCTTATAATATC
1 AATTCGCTTATAATATC
52781777 AATT
1 AATT
52781781 ATCATTCCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (17 bp):
AATTCGCTTATAATATC
Found at i:52782750 original size:24 final size:25
Alignment explanation
Indices: 52782723--52782780 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
52782713 TTGGAGGCCT
52782723 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCCTCTTTTAATAAACTGGGGCAA
*
52782747 AGCCAT-TTTTGATAAACTGGGGCAA
1 AGCC-TCTTTTAATAAACTGGGGCAA
52782772 AGCC-CTTTT
1 AGCCTCTTTT
52782781 CGGTAAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
24 14 0.47
25 16 0.53
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (25 bp):
AGCCTCTTTTAATAAACTGGGGCAA
Found at i:52782770 original size:25 final size:24
Alignment explanation
Indices: 52782736--52782825 Score: 99
Period size: 25 Copynumber: 3.6 Consensus size: 24
52782726 CTCTTTTAAT
* *
52782736 AACTGGGGCAAAGCCATTTTTGATA
1 AACTGGGGCAAAGCC-TTTTCGGTA
52782761 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAG-CCTTTTCGGTA
* *
52782786 AATTGGAGCAAAGTCCTTTTCGGTA
1 AACTGGGGCAAAG-CCTTTTCGGTA
* *
52782811 AACTAGGGCATAGCC
1 AACTGGGGCAAAGCC
52782826 CTATTAGCAC
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
24 2 0.04
25 51 0.93
26 2 0.04
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (24 bp):
AACTGGGGCAAAGCCTTTTCGGTA
Found at i:52783063 original size:27 final size:27
Alignment explanation
Indices: 52783033--52783278 Score: 181
Period size: 27 Copynumber: 9.4 Consensus size: 27
52783023 GGGGCAAAAT
* *
52783033 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAGGGGTATCTC
* * *
52783060 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATCTC
52783087 GGT-ATTTCTACCCTACAGGGGTAAT-TC
1 GGTAATTT-TACCCTACAGGGGT-ATCTC
*
52783114 --T-A---T--CCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATCTC
* *
52783133 GGT-ATTTCTACCCTACAGAGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATCTC
* * * * *
52783160 AGTAATTCTATCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATCTC
* * *
52783187 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATCTC
* * *
52783214 GGTAATTCTACCCTACAGGGTTATTTC
1 GGTAATTTTACCCTACAGGGGTATCTC
* * *
52783241 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATCTC
*
52783268 AGTAATTTTAC
1 GGTAATTTTAC
52783279 TGATCGACGG
Statistics
Matches: 187, Mismatches: 20, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
18 2 0.01
19 13 0.07
21 3 0.02
25 3 0.02
26 3 0.02
27 158 0.84
28 5 0.03
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTACAGGGGTATCTC
Found at i:52783099 original size:54 final size:54
Alignment explanation
Indices: 52783037--52783274 Score: 280
Period size: 54 Copynumber: 4.6 Consensus size: 54
52783027 CAAAATGGTA
* * *
52783037 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTATCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCAGT
*
52783090 ATTTCTACCCTAC-A-GG------GGTAATTCTATCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCAGT
* *
52783136 ATTTCTACCCTAC-AGAGGTATTTCAGTAATTCTATCCTATAGGGGTATTTCAGT
1 ATTTCTACCCTACAAG-GGTATTTCGGTAATTCTATCCTACAGGGGTATTTCAGT
* * * *
52783190 AATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCAGT
* * *
52783244 AATTCTACCCTACAGGGGTATTTCAGTAATT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATT
52783275 TTACTGATCG
Statistics
Matches: 164, Mismatches: 11, Indels: 19
0.85 0.06 0.10
Matches are distributed among these distances:
46 44 0.27
48 2 0.01
52 2 0.01
53 5 0.03
54 110 0.67
55 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCAGT
Found at i:52783114 original size:19 final size:19
Alignment explanation
Indices: 52783087--52783128 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
52783077 GGGGTATTTC
*
52783087 GGTATTTCTACCCTACAGG
1 GGTAATTCTACCCTACAGG
*
52783106 GGTAATTCTATCCTACAGG
1 GGTAATTCTACCCTACAGG
52783125 GGTA
1 GGTA
52783129 TTTCGGTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (19 bp):
GGTAATTCTACCCTACAGG
Found at i:52783212 original size:81 final size:81
Alignment explanation
Indices: 52783107--52783274 Score: 284
Period size: 81 Copynumber: 2.1 Consensus size: 81
52783097 CCCTACAGGG
* * *
52783107 GTAATTCTATCCTACAGGGGTATTTCGGTATTTCTACCCTACAGAGG-TATTTCAGTAATTCTAT
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAG-GGTTATTTCAGTAATTCTAC
*
52783171 CCTATAGGGGTATTTCA
65 CCTACAGGGGTATTTCA
52783188 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTATTTCAGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTATTTCAGTAATTCTACC
52783253 CTACAGGGGTATTTCA
66 CTACAGGGGTATTTCA
52783269 GTAATT
1 GTAATT
52783275 TTACTGATCG
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
80 2 0.02
81 80 0.98
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (81 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTTATTTCAGTAATTCTACC
CTACAGGGGTATTTCA
Found at i:52783344 original size:27 final size:27
Alignment explanation
Indices: 52783259--52783344 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 27
52783249 TACCCTACAG
* *
52783259 GGGTATTTCAGTAATTTTACT-GATCGA
1 GGGTATTTCAGTAATTTT-GTAAATCGA
* ** * *
52783286 CGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCAGTAATTTTGTAAATCGA
*
52783313 AGGTATTTCAGTAATTTTGTAAATCGA
1 GGGTATTTCAGTAATTTTGTAAATCGA
52783340 GGGTA
1 GGGTA
52783345 AAACGATAAT
Statistics
Matches: 45, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
26 1 0.02
27 44 0.98
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTGTAAATCGA
Found at i:52783354 original size:27 final size:27
Alignment explanation
Indices: 52783323--52783693 Score: 517
Period size: 27 Copynumber: 13.7 Consensus size: 27
52783313 AGGTATTTCA
* * *
52783323 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * * *
52783350 ATAATTTTATAAATCGAGAGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
52783377 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
52783404 ATAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
52783431 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAATG
*
52783458 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
52783485 GTAATTCTATAAACCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
52783512 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
52783539 GTAATTCTAAAAATCGAAGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
52783566 GTAATTCTATAAATCGAGGGTAAGATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
52783593 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
52783620 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
52783647 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
52783674 GTAATTTTACAAATTGAGGG
1 GTAATTCTATAAATCGAGGG
52783694 CATTTCAGTA
Statistics
Matches: 306, Mismatches: 38, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 306 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:52786479 original size:24 final size:25
Alignment explanation
Indices: 52786435--52786536 Score: 129
Period size: 25 Copynumber: 4.2 Consensus size: 25
52786425 GGCCTAGTCT
*
52786435 CTTTT-AAT-AACTGGGGAAAAGCC
1 CTTTTCAATAAACTGGGGCAAAGCC
*
52786458 CTTTT-GATAAACTGGGGCAAAGCC
1 CTTTTCAATAAACTGGGGCAAAGCC
*
52786482 CTTTTCAATAAACTAGGGCAAAGCC
1 CTTTTCAATAAACTGGGGCAAAGCC
** *
52786507 CTTTTCGGTAAACTGGGGCATAGCC
1 CTTTTCAATAAACTGGGGCAAAGCC
52786532 CTTTT
1 CTTTT
52786537 AGCACTTCCT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
23 7 0.10
24 19 0.28
25 43 0.62
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (25 bp):
CTTTTCAATAAACTGGGGCAAAGCC
Found at i:52786525 original size:50 final size:47
Alignment explanation
Indices: 52786435--52786537 Score: 143
Period size: 50 Copynumber: 2.1 Consensus size: 47
52786425 GGCCTAGTCT
*
52786435 CTTTTAATAACTGGGGAAAAGCCCTTTTGATAAACTGGGGCAAAGCC
1 CTTTTAATAACTAGGGAAAAGCCCTTTTGATAAACTGGGGCAAAGCC
* * *
52786482 CTTTTCAATAAACTAGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAGCC
1 CTTTT-AAT-AACTAGGGAAAAGCCCTTTT-GATAAACTGGGGCAAAGCC
52786532 CTTTTA
1 CTTTTA
52786538 GCACTTCCTC
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
47 5 0.10
48 3 0.06
49 19 0.39
50 22 0.45
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (47 bp):
CTTTTAATAACTAGGGAAAAGCCCTTTTGATAAACTGGGGCAAAGCC
Found at i:52786869 original size:18 final size:18
Alignment explanation
Indices: 52786846--52786888 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
52786836 CTCGGGCTTT
52786846 TGGGCCCAAAACCTCTAA
1 TGGGCCCAAAACCTCTAA
52786864 TGGGCCCAAAACCTCTAA
1 TGGGCCCAAAACCTCTAA
52786882 TGGGCCC
1 TGGGCCC
52786889 TATGAATGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.28, C:0.35, G:0.21, T:0.16
Consensus pattern (18 bp):
TGGGCCCAAAACCTCTAA
Found at i:52787425 original size:27 final size:27
Alignment explanation
Indices: 52787348--52787425 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 27
52787338 TCATACGGAA
52787348 CATA-AGGGCATATT-C-GTCATTTTAC
1 CATACAGGGC-TATTACGGTCATTTTAC
* *
52787373 CATACAGGGGTATTACGGTCACTTTAC
1 CATACAGGGCTATTACGGTCATTTTAC
* *
52787400 CCTACAGAGGCT-TTACGGTCTTTTTA
1 CATACAG-GGCTATTACGGTCATTTTA
52787426 TCTAATAGGG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
25 8 0.19
26 5 0.12
27 27 0.63
28 3 0.07
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (27 bp):
CATACAGGGCTATTACGGTCATTTTAC
Found at i:52787511 original size:27 final size:27
Alignment explanation
Indices: 52787481--52787532 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
52787471 TTAAATCTAC
52787481 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
52787508 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAGGGTATTTCTATAATTTT
52787533 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:52787594 original size:27 final size:28
Alignment explanation
Indices: 52787550--52787785 Score: 130
Period size: 27 Copynumber: 9.0 Consensus size: 28
52787540 TCAAGAGTAC
** *
52787550 TTTT-GTAATTTTGTAAATCTG-GCGTA
1 TTTTGGTAATTTTACAAATCTGAGGGTA
52787576 TTTTGGTAATTTTACAAAT-TGAGGGTA
1 TTTTGGTAATTTTACAAATCTGAGGGTA
* * * *
52787603 TTTCGATAATTTCACAAA-C-CAGTGGTA
1 TTTTGGTAATTTTACAAATCTGAG-GGTA
52787630 TTTTGGTAATTTTACAAA-CT-AGGGGTA
1 TTTTGGTAATTTTACAAATCTGA-GGGTA
*
52787657 TTTTGGTAATTTTACAAA-C--A---AA
1 TTTTGGTAATTTTACAAATCTGAGGGTA
* * * *
52787679 TTTTAGCAATTTTACAGA-C-CAGGGTA
1 TTTTGGTAATTTTACAAATCTGAGGGTA
*** *
52787705 TTTTGGTAATTTTACTGCTC-GAAGGTA
1 TTTTGGTAATTTTACAAATCTGAGGGTA
** *
52787732 TTTTGGTAATTTTGTAAA-CCGAGGGTA
1 TTTTGGTAATTTTACAAATCTGAGGGTA
* **
52787759 TTTTAGTAATTTTGTAAATC-GAGGGTA
1 TTTTGGTAATTTTACAAATCTGAGGGTA
52787786 AAACAGTAAT
Statistics
Matches: 169, Mismatches: 28, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
22 17 0.10
23 1 0.01
26 25 0.15
27 124 0.73
28 2 0.01
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (28 bp):
TTTTGGTAATTTTACAAATCTGAGGGTA
Found at i:52787633 original size:54 final size:54
Alignment explanation
Indices: 52787573--52787675 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 54
52787563 TAAATCTGGC
*
52787573 GTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGATAATTTCACAAACCAGTG
1 GTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGATAATTTCACAAACCAGTG
* * *
52787627 GTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAC
1 GTATTTTGGTAATTTTACAAACTAGGGGTATTTCGATAATTTCACAAAC
52787676 AAATTTTAGC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 42 0.95
55 2 0.05
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (54 bp):
GTATTTTGGTAATTTTACAAACTAGGGGTATTTCGATAATTTCACAAACCAGTG
Found at i:52787793 original size:27 final size:27
Alignment explanation
Indices: 52787737--52787913 Score: 185
Period size: 27 Copynumber: 6.6 Consensus size: 27
52787727 AGGTATTTTG
* * ***
52787737 GTAATTTTGTAAACCGAGGGTATTTTA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* *
52787764 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATA
*
52787791 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* * *
52787818 GTAATTCTATAAATCAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATA
* *
52787845 GTAATTCTATAAATCGAGGGTAAAA-G
1 GTAATTCTGTAAATCGAGGGTAAAATA
* * **
52787871 GTAAATATGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATA
*
52787898 GTAATTATGTAAATCG
1 GTAATTCTGTAAATCG
52787914 GAGGTACTTT
Statistics
Matches: 134, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 23 0.17
27 111 0.83
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATA
Found at i:52787795 original size:54 final size:53
Alignment explanation
Indices: 52787736--52787946 Score: 183
Period size: 54 Copynumber: 3.9 Consensus size: 53
52787726 AAGGTATTTT
* * * *
52787736 GGTAATTTTGTAAACCGAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTA-TATAGTAATTTTATAAATCGAGGGTAAAAC
* * * * * *
52787790 AGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGT-ATATAGTAATTTTATAAATCGAGGGTAAAAC
* * * * *
52787844 GGTAATTCTATAAATCGAGGGTA-AAAGGTAAATATGTAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTATATA-GTAATTTTATAAATCGAGGGTAAAAC
* * * * *
52787897 GGTAATTATGTAAATCG-GAGGTACTTTGGTAATTTTACAAGTCGAGGGTA
1 GGTAATTCTGTAAATCGAG-GGTA-TATAGTAATTTTATAAATCGAGGGTA
52787947 TTTCAATAAT
Statistics
Matches: 123, Mismatches: 29, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
52 3 0.02
53 41 0.33
54 78 0.63
55 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (53 bp):
GGTAATTCTGTAAATCGAGGGTATATAGTAATTTTATAAATCGAGGGTAAAAC
Found at i:52787927 original size:80 final size:81
Alignment explanation
Indices: 52787736--52787946 Score: 219
Period size: 80 Copynumber: 2.6 Consensus size: 81
52787726 AAGGTATTTT
* * * * * * *
52787736 GGTAATTTTGTAAACCGAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGT
1 GGTAATTATGTAAATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAACAGTAAATATGT
*
52787801 AAATCAAGGGTAAAAT
66 AAATCAAGGGTAAAAC
* * * * ** * *
52787817 AGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAA-GGTAAATATGT
1 GGTAATTATGTAAATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAACAGTAAATATGT
*
52787881 AAATCGAGGGTAAAAC
66 AAATCAAGGGTAAAAC
* * *
52787897 GGTAATTATGTAAATCG-GAGGTACTTTGGTAATTTTACAAGTCGAGGGTA
1 GGTAATTATGTAAATCGAG-GGTAATTTGGTAATTTTATAAATCGAGGGTA
52787947 TTTCAATAAT
Statistics
Matches: 103, Mismatches: 26, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
79 1 0.01
80 60 0.58
81 42 0.41
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (81 bp):
GGTAATTATGTAAATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAACAGTAAATATGT
AAATCAAGGGTAAAAC
Found at i:52790254 original size:31 final size:29
Alignment explanation
Indices: 52790177--52790258 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 29
52790167 TTAGTCTTGG
* *
52790177 CATATACTGGGCCGAAGCCTTTTGATTAA
1 CATATACTGGGCCGAAGCCTTTTCATAAA
* *
52790206 CGGT-TACTGGGCTGAAGCCTTTTCATAAA
1 C-ATATACTGGGCCGAAGCCTTTTCATAAA
52790235 TCATATCACTGGGCCGAAGCCTTT
1 -CATAT-ACTGGGCCGAAGCCTTT
52790259 ACTGTAAACG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
29 24 0.56
30 3 0.07
31 16 0.37
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (29 bp):
CATATACTGGGCCGAAGCCTTTTCATAAA
Found at i:52790533 original size:25 final size:24
Alignment explanation
Indices: 52790463--52790569 Score: 117
Period size: 24 Copynumber: 4.4 Consensus size: 24
52790453 CTAGGGGCCT
*
52790463 AGCCTCTTTTAAT-AACTGGGGAAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
52790487 AGCCCTTTTGATAAACTGGGGCAA
1 AGCCCTTTTAATAAACTGGGGCAA
*
52790511 AGCCCTTTTCAATAAACTAGGGCAA
1 AGCCCTTTT-AATAAACTGGGGCAA
*** *
52790536 AGCCCTTTCGGTAAACTGGGGCAT
1 AGCCCTTTTAATAAACTGGGGCAA
*
52790560 GGCCCTTTTA
1 AGCCCTTTTA
52790570 GCACTTCCTC
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
23 7 0.10
24 41 0.59
25 21 0.30
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:52790543 original size:49 final size:47
Alignment explanation
Indices: 52790463--52790569 Score: 133
Period size: 49 Copynumber: 2.2 Consensus size: 47
52790453 CTAGGGGCCT
* *
52790463 AGCCTCTTTTAATAACTGGGGAAAAGCCCTTTTGATAAACTGGGGCAA
1 AGCC-CTTTTAATAACTAGGGAAAAGCCCTTTCGATAAACTGGGGCAA
* * *
52790511 AGCCCTTTTCAATAAACTAGGGCAAAGCCCTTTCGGTAAACTGGGGCAT
1 AGCCCTTTT-AAT-AACTAGGGAAAAGCCCTTTCGATAAACTGGGGCAA
*
52790560 GGCCCTTTTA
1 AGCCCTTTTA
52790570 GCACTTCCTC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
47 5 0.10
48 8 0.16
49 38 0.75
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AGCCCTTTTAATAACTAGGGAAAAGCCCTTTCGATAAACTGGGGCAA
Found at i:52790901 original size:18 final size:18
Alignment explanation
Indices: 52790878--52790917 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
52790868 CTCAGGCTTT
*
52790878 TGGGCCCAAAACCTCTAA
1 TGGGCCAAAAACCTCTAA
*
52790896 TGGGCCAAAAACCTCTGA
1 TGGGCCAAAAACCTCTAA
52790914 TGGG
1 TGGG
52790918 ACCTATGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.28, G:0.25, T:0.17
Consensus pattern (18 bp):
TGGGCCAAAAACCTCTAA
Found at i:52791544 original size:26 final size:26
Alignment explanation
Indices: 52791512--52791564 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
52791502 TTAAATCTAC
52791512 AAACCAAGGGTATTTC-AGTAATTTTT
1 AAACCAAGGGTATTTCTA-TAATTTTT
*
52791538 AAACCAATGGTATTTCTATAATTTTT
1 AAACCAAGGGTATTTCTATAATTTTT
52791564 A
1 A
52791565 GAAAGTCAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (26 bp):
AAACCAAGGGTATTTCTATAATTTTT
Found at i:52791617 original size:27 final size:27
Alignment explanation
Indices: 52791584--52791704 Score: 138
Period size: 27 Copynumber: 4.5 Consensus size: 27
52791574 GAGTACTTCT
**
52791584 GTAATTTTGTAAATCTGGGGTATTTTG
1 GTAATTTTACAAATCTGGGGTATTTTG
*
52791611 GTAATTTTACAAAT-TGAGGGTATTTCG
1 GTAATTTTACAAATCTG-GGGTATTTTG
* * * * *
52791638 ATAATTTCACAAACCAGTGGTATTTTG
1 GTAATTTTACAAATCTGGGGTATTTTG
52791665 GTAATTTTACAAA-CTAGGGGTATTTTG
1 GTAATTTTACAAATCT-GGGGTATTTTG
52791692 GTAATTTTACAAA
1 GTAATTTTACAAA
52791705 CCAATTTTAG
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
26 3 0.04
27 74 0.95
28 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAATCTGGGGTATTTTG
Found at i:52791705 original size:27 final size:27
Alignment explanation
Indices: 52791600--52791801 Score: 161
Period size: 27 Copynumber: 7.7 Consensus size: 27
52791590 TTGTAAATCT
**
52791600 GGGGTATTTTGGTAATTTTACAAA-TT
1 GGGGTATTTTGGTAATTTTACAAACCA
* * *
52791626 GAGGGTATTTCGATAATTTCACAAACCA
1 G-GGGTATTTTGGTAATTTTACAAACCA
* *
52791654 GTGGTATTTTGGTAATTTTACAAACTA
1 GGGGTATTTTGGTAATTTTACAAACCA
52791681 GGGGTATTTTGGTAATTTTACAAACCA
1 GGGGTATTTTGGTAATTTTACAAACCA
* * *
52791708 -----ATTTTAGCAATTTTACAGACCA
1 GGGGTATTTTGGTAATTTTACAAACCA
** *
52791730 -GGGTATTTTGGTAATTTTACTGATC-
1 GGGGTATTTTGGTAATTTTACAAACCA
* **
52791755 GAAGGTATTTTGGTAATTTTGTAAACC-
1 G-GGGTATTTTGGTAATTTTACAAACCA
*
52791782 GAGGGTATTTTAGTAATTTT
1 G-GGGTATTTTGGTAATTTT
52791802 GTAAATCGAG
Statistics
Matches: 141, Mismatches: 27, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
22 19 0.13
26 18 0.13
27 103 0.73
28 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGGTATTTTGGTAATTTTACAAACCA
Found at i:52791802 original size:27 final size:27
Alignment explanation
Indices: 52791758--52791815 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
52791748 ACTGATCGAA
*
52791758 GGTATTTTGGTAATTTTGTAAACCGAG
1 GGTATTTTAGTAATTTTGTAAACCGAG
*
52791785 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTAGTAATTTTGTAAACCGAG
52791812 GGTA
1 GGTA
52791816 AAACAGTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.28, C:0.05, G:0.26, T:0.41
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTGTAAACCGAG
Found at i:52791823 original size:27 final size:27
Alignment explanation
Indices: 52791767--52791948 Score: 188
Period size: 27 Copynumber: 6.8 Consensus size: 27
52791757 AGGTATTTTG
* * ***
52791767 GTAATTTTGTAAACCGAGGGTATTTTA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* *
52791794 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATA
*
52791821 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* * *
52791848 GTAATTCTATAAATCAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATA
* *
52791875 GTAATTCTATAAATCGAGGGTAAAA-G
1 GTAATTCTGTAAATCGAGGGTAAAATA
* * **
52791901 GTAAATATGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATA
*
52791928 GTAATTATGTAAATCG-GGGTA
1 GTAATTCTGTAAATCGAGGGTA
52791949 TTTGGTAATT
Statistics
Matches: 139, Mismatches: 15, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
26 28 0.20
27 111 0.80
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATA
Found at i:52791825 original size:54 final size:53
Alignment explanation
Indices: 52791766--52791974 Score: 197
Period size: 54 Copynumber: 3.9 Consensus size: 53
52791756 AAGGTATTTT
* * * *
52791766 GGTAATTTTGTAAACCGAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTA-TATAGTAATTTTATAAATCGAGGGTAAAAC
* * * * * *
52791820 AGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGT-ATATAGTAATTTTATAAATCGAGGGTAAAAC
* * * * *
52791874 GGTAATTCTATAAATCGAGGGTA-AAAGGTAAATATGTAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTATATA-GTAATTTTATAAATCGAGGGTAAAAC
* * * * *
52791927 GGTAATTATGTAAATCG-GGGTATTTGGTAATTTTACAAGTCGAGGGTA
1 GGTAATTCTGTAAATCGAGGGTATATAGTAATTTTATAAATCGAGGGTA
52791975 TTTCAATAAT
Statistics
Matches: 123, Mismatches: 29, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
52 24 0.20
53 37 0.30
54 61 0.50
55 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.31
Consensus pattern (53 bp):
GGTAATTCTGTAAATCGAGGGTATATAGTAATTTTATAAATCGAGGGTAAAAC
Found at i:52794513 original size:24 final size:23
Alignment explanation
Indices: 52794486--52794567 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 23
52794476 CTGGAGGCCT
52794486 AGCCTCTTTTAATAACTGGGGAAA
1 AGCC-CTTTTAATAACTGGGGAAA
* *
52794510 AGCCCTTTTGATAAACTGGGGCAA
1 AGCCCTTTTAAT-AACTGGGGAAA
*
52794534 AGCCCTTTTCAATAAACT-AGGACAA
1 AGCCCTTTT-AAT-AACTGGGGA-AA
52794559 AGCCCTTTT
1 AGCCCTTTT
52794568 CGGTAAACTG
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.14
24 25 0.50
25 18 0.36
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (23 bp):
AGCCCTTTTAATAACTGGGGAAA
Found at i:52794559 original size:25 final size:25
Alignment explanation
Indices: 52794499--52794592 Score: 127
Period size: 25 Copynumber: 3.8 Consensus size: 25
52794489 CTCTTTTAAT
*
52794499 AACTGGGGAAAAGCCCTTTT-GATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
52794523 AACTGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* * *
52794548 AACTAGGACAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
52794573 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
52794593 AGCACTTCCT
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
24 19 0.32
25 41 0.68
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:52794925 original size:18 final size:18
Alignment explanation
Indices: 52794902--52794944 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
52794892 CTCGGGCTTT
*
52794902 TGGGCCCAAAACCTCTAA
1 TGGGCCCAAAACCGCTAA
52794920 TGGGCCCAAAACCGCTAA
1 TGGGCCCAAAACCGCTAA
52794938 TGGGCCC
1 TGGGCCC
52794945 TATGAATGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.28, C:0.35, G:0.23, T:0.14
Consensus pattern (18 bp):
TGGGCCCAAAACCGCTAA
Found at i:52795569 original size:26 final size:26
Alignment explanation
Indices: 52795537--52795589 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
52795527 TTAAATCTAC
52795537 AAACCAAGGGTATTTC-AGTAATTTTT
1 AAACCAAGGGTATTTCTA-TAATTTTT
*
52795563 AAACCAATGGTATTTCTATAATTTTT
1 AAACCAAGGGTATTTCTATAATTTTT
52795589 A
1 A
52795590 GAAAGTCAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (26 bp):
AAACCAAGGGTATTTCTATAATTTTT
Found at i:52795770 original size:26 final size:26
Alignment explanation
Indices: 52795626--52795825 Score: 185
Period size: 27 Copynumber: 7.7 Consensus size: 26
52795616 TGTAAATCTG
**
52795626 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAA-CCA
* * *
52795653 GGGTATTTCGATAATTTCACAAACCA
1 GGGTATTTTGGTAATTTTACAAACCA
*
52795679 GTGGTATTTTGGTAATTTTACAAACTA
1 G-GGTATTTTGGTAATTTTACAAACCA
52795706 GGGGTATTTTGGTAATTTTACAAACCA
1 -GGGTATTTTGGTAATTTTACAAACCA
* * *
52795733 ----ATTTTAGCAATTTTACAGACCA
1 GGGTATTTTGGTAATTTTACAAACCA
** *
52795755 GGGTATTTTGGTAATTTTACTGATC-
1 GGGTATTTTGGTAATTTTACAAACCA
**
52795780 GAGGTATTTTGGTAATTTTGTAAACCGA
1 G-GGTATTTTGGTAATTTTACAAACC-A
*
52795808 GGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
52795826 GTAAATCGAG
Statistics
Matches: 141, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
22 19 0.13
25 1 0.01
26 38 0.27
27 81 0.57
28 2 0.01
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACCA
Found at i:52795826 original size:27 final size:27
Alignment explanation
Indices: 52795782--52795839 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
52795772 TACTGATCGA
*
52795782 GGTATTTTGGTAATTTTGTAAACCGAG
1 GGTATTTTAGTAATTTTGTAAACCGAG
*
52795809 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTAGTAATTTTGTAAACCGAG
52795836 GGTA
1 GGTA
52795840 AAACAGTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.28, C:0.05, G:0.26, T:0.41
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTGTAAACCGAG
Found at i:52795847 original size:27 final size:27
Alignment explanation
Indices: 52795791--52795972 Score: 188
Period size: 27 Copynumber: 6.8 Consensus size: 27
52795781 AGGTATTTTG
* * ***
52795791 GTAATTTTGTAAACCGAGGGTATTTTA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* *
52795818 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATA
*
52795845 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* * *
52795872 GTAATTCTATAAATCAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATA
* *
52795899 GTAATTCTATAAATCGAGGGTAAAA-G
1 GTAATTCTGTAAATCGAGGGTAAAATA
* * **
52795925 GTAAATATGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATA
*
52795952 GTAATTATGTAAATCG-GGGTA
1 GTAATTCTGTAAATCGAGGGTA
52795973 GTTTGGTAAT
Statistics
Matches: 139, Mismatches: 15, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
26 28 0.20
27 111 0.80
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATA
Found at i:52795995 original size:53 final size:53
Alignment explanation
Indices: 52795790--52795999 Score: 190
Period size: 54 Copynumber: 3.9 Consensus size: 53
52795780 GAGGTATTTT
* * ** *
52795790 GGTAATTTTGTAAACCGAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTA-AATAGTAATTTTATAAATCGAGGGTAAAAC
* * * * *
52795844 AGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGT-AAATAGTAATTTTATAAATCGAGGGTAAAAC
* * * *
52795898 GGTAATTCTATAAATCGAGGGTAAA-AGGTAAATATGTAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAATA-GTAATTTTATAAATCGAGGGTAAAAC
* ** * * *
52795951 GGTAATTATGTAAATCG-GGGTAGTTTGGTAATTTTACAAGTCGAGGGTA
1 GGTAATTCTGTAAATCGAGGGTA-AATAGTAATTTTATAAATCGAGGGTA
52796000 TTTCAATAAT
Statistics
Matches: 124, Mismatches: 28, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
52 6 0.05
53 56 0.45
54 61 0.49
55 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (53 bp):
GGTAATTCTGTAAATCGAGGGTAAATAGTAATTTTATAAATCGAGGGTAAAAC
Found at i:52798573 original size:25 final size:24
Alignment explanation
Indices: 52798503--52798610 Score: 128
Period size: 25 Copynumber: 4.4 Consensus size: 24
52798493 CTGGAGGCCT
*
52798503 AGCCTCTTTTAAT-AACTGGGGAAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
52798527 AGCCCTTTTGATAAACTGGGGCAA
1 AGCCCTTTTAATAAACTGGGGCAA
*
52798551 AGCCCTTTTCAATAAACTAGGGCAA
1 AGCCCTTTT-AATAAACTGGGGCAA
** *
52798576 AGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTT-AATAAACTGGGGCAA
52798601 AGCCCTTTTA
1 AGCCCTTTTA
52798611 GCACTTCCTC
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
23 7 0.10
24 23 0.32
25 43 0.59
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:52798598 original size:50 final size:47
Alignment explanation
Indices: 52798503--52798610 Score: 144
Period size: 50 Copynumber: 2.2 Consensus size: 47
52798493 CTGGAGGCCT
*
52798503 AGCCTCTTTTAATAACTGGGGAAAAGCCCTTTTGATAAACTGGGGCAA
1 AGCC-CTTTTAATAACTAGGGAAAAGCCCTTTTGATAAACTGGGGCAA
* * *
52798551 AGCCCTTTTCAATAAACTAGGGCAAAGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTT-AAT-AACTAGGGAAAAGCCCTTTT-GATAAACTGGGGCAA
52798601 AGCCCTTTTA
1 AGCCCTTTTA
52798611 GCACTTCCTC
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
47 5 0.09
48 7 0.13
49 19 0.36
50 22 0.42
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (47 bp):
AGCCCTTTTAATAACTAGGGAAAAGCCCTTTTGATAAACTGGGGCAA
Found at i:52798939 original size:18 final size:18
Alignment explanation
Indices: 52798916--52798958 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
52798906 CTCGGGCTTT
*
52798916 TGGGCCCAAAACCTTTAA
1 TGGGCCCAAAACCTCTAA
52798934 TGGGCCCAAAACCTCTAA
1 TGGGCCCAAAACCTCTAA
52798952 TGGGCCC
1 TGGGCCC
52798959 TATGAATGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.28, C:0.33, G:0.21, T:0.19
Consensus pattern (18 bp):
TGGGCCCAAAACCTCTAA
Found at i:52799579 original size:27 final size:27
Alignment explanation
Indices: 52799549--52799601 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
52799539 TTAAATCTAC
52799549 AAACCAAGGGTATTTC-AGTAATTTTTT
1 AAACCAAGGGTATTTCTA-TAATTTTTT
*
52799576 AAACCAATGGTATTTCTATAATTTTT
1 AAACCAAGGGTATTTCTATAATTTTT
52799602 AGAAAGTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTTT
Found at i:52799655 original size:27 final size:27
Alignment explanation
Indices: 52799622--52799838 Score: 139
Period size: 27 Copynumber: 8.3 Consensus size: 27
52799612 GAGTACTTCT
**
52799622 GTAATTTTGTAAATCTGGGGTATTTTG
1 GTAATTTTACAAATCTGGGGTATTTTG
*
52799649 GTAATTTTACAAAT-TGAGGGTATTTCG
1 GTAATTTTACAAATCTG-GGGTATTTTG
* * * * *
52799676 ATAATTTCACAAACCAGTGGTATTTTG
1 GTAATTTTACAAATCTGGGGTATTTTG
52799703 GTAATTTTACAAA-CTAGGGGTATTTTG
1 GTAATTTTACAAATCT-GGGGTATTTTG
** *
52799730 GTAATTTTACAAA-C----CAATTTTA
1 GTAATTTTACAAATCTGGGGTATTTTG
* * **
52799752 GCAATTTTACAGA-CCAGGGTATTTTG
1 GTAATTTTACAAATCTGGGGTATTTTG
** *
52799778 GTAATTTTACTGATC-GAGGTA-TTTG
1 GTAATTTTACAAATCTGGGGTATTTTG
** * *
52799803 GTAATTTTGTAAACCTGAGGGTATTTTA
1 GTAATTTTACAAATCTG-GGGTATTTTG
52799831 GTAATTTT
1 GTAATTTT
52799839 GTAAATCGAG
Statistics
Matches: 147, Mismatches: 32, Indels: 21
0.74 0.16 0.10
Matches are distributed among these distances:
22 17 0.12
25 14 0.10
26 24 0.16
27 80 0.54
28 12 0.08
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (27 bp):
GTAATTTTACAAATCTGGGGTATTTTG
Found at i:52799701 original size:54 final size:54
Alignment explanation
Indices: 52799640--52799745 Score: 160
Period size: 54 Copynumber: 2.0 Consensus size: 54
52799630 GTAAATCTGG
*
52799640 GGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGATAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGATAATTTCACAAACCAGT
* * *
52799694 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCA
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGATAATTTCACAAACCA
52799746 ATTTTAGCAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
54 45 0.96
55 2 0.04
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGATAATTTCACAAACCAGT
Found at i:52799835 original size:28 final size:26
Alignment explanation
Indices: 52799795--52799852 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 26
52799785 TACTGATCGA
*
52799795 GGTATTTGGTAATTTTGTAAACCTGAG
1 GGTATTTAGTAATTTTGTAAACC-GAG
*
52799822 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTA-TTTAGTAATTTTGTAAACCGAG
52799849 GGTA
1 GGTA
52799853 AAACAGTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 11 0.39
28 17 0.61
ACGTcount: A:0.28, C:0.05, G:0.26, T:0.41
Consensus pattern (26 bp):
GGTATTTAGTAATTTTGTAAACCGAG
Found at i:52799849 original size:27 final size:27
Alignment explanation
Indices: 52799767--52799879 Score: 88
Period size: 27 Copynumber: 4.2 Consensus size: 27
52799757 TTTACAGACC
* * *
52799767 AGGGTATTTTGGTAATTTTACT-GATCG
1 AGGGTATTTTAGTAATTTT-GTAAATCG
* *
52799794 A-GGTA-TTTGGTAATTTTGTAAACCTG
1 AGGGTATTTTAGTAATTTTGTAAATC-G
52799820 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTAGTAATTTTGTAAATCG
**** * *
52799847 AGGGTAAAACAGTAATTCTGTAAATCA
1 AGGGTATTTTAGTAATTTTGTAAATCG
52799874 AGGGTA
1 AGGGTA
52799880 AAACAGTAAT
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
24 1 0.01
25 14 0.20
26 6 0.08
27 33 0.46
28 17 0.24
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (27 bp):
AGGGTATTTTAGTAATTTTGTAAATCG
Found at i:52799880 original size:27 final size:27
Alignment explanation
Indices: 52799830--52799980 Score: 187
Period size: 27 Copynumber: 5.6 Consensus size: 27
52799820 AGGGTATTTT
*
52799830 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
52799857 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
52799884 AGTAATTCTATAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
52799911 GGTAATTCTATAAATCGAGGGTAAAA-
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
52799937 GGTAAATATGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
52799964 GGTAATTATGTAAATCG
1 AGTAATTCTGTAAATCG
52799981 GGTACTTTGG
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
26 23 0.20
27 90 0.80
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:52802553 original size:23 final size:23
Alignment explanation
Indices: 52802527--52802606 Score: 81
Period size: 24 Copynumber: 3.3 Consensus size: 23
52802517 CTGGAGGCCT
52802527 AGCCTCTTTAAT-AACTGGGGAAA
1 AGCC-CTTTAATAAACTGGGGAAA
* *
52802550 AGCCCTTTTGATAAACTGGGGCAA
1 AGCCC-TTTAATAAACTGGGGAAA
* *
52802574 AGCCCTTTTCAATAAACTAGGGCAA
1 AGCCC-TTT-AATAAACTGGGGAAA
52802599 AGCCCTTT
1 AGCCCTTT
52802607 TCGGTAAACT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
22 1 0.02
23 9 0.18
24 22 0.44
25 18 0.36
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (23 bp):
AGCCCTTTAATAAACTGGGGAAA
Found at i:52802596 original size:25 final size:25
Alignment explanation
Indices: 52802539--52802632 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
52802529 CCTCTTTAAT
*
52802539 AACTGGGGAAAAGCCCTTTT-GATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
52802563 AACTGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
52802588 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
52802613 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
52802633 AGCACTTCCT
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
24 19 0.31
25 43 0.69
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:52802684 original size:16 final size:16
Alignment explanation
Indices: 52802663--52802693 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52802653 AACCCAACCC
*
52802663 ATGCAACATGTCATGT
1 ATGCAAAATGTCATGT
52802679 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
52802694 CCCATATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:52802965 original size:18 final size:18
Alignment explanation
Indices: 52802942--52802984 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
52802932 CTCGAGCTTT
52802942 TGGGCCCAAAACCTCTAA
1 TGGGCCCAAAACCTCTAA
*
52802960 TGGGCCTAAAACCTCTAA
1 TGGGCCCAAAACCTCTAA
52802978 TGGGCCC
1 TGGGCCC
52802985 TATGAATGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.28, C:0.33, G:0.21, T:0.19
Consensus pattern (18 bp):
TGGGCCCAAAACCTCTAA
Found at i:52803606 original size:27 final size:27
Alignment explanation
Indices: 52803576--52803826 Score: 142
Period size: 27 Copynumber: 9.4 Consensus size: 27
52803566 TTAAATCTAC
*
52803576 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTAT
* *
52803603 AAACCAATGGTATTTCTA-TAATTTTTAG
1 AAACCAAGGGTATTT-TAGTAA-TTTTAT
* * *
52803631 AAAGTCAAGGGTACTTCT-GTAATTTTGT
1 AAA-CCAAGGGTA-TTTTAGTAATTTTAT
* * ** * *
52803659 ATATCTGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTTAGTAATTTTAT
* * * *
52803686 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTTAGTAATTTTAT
* *
52803713 AAACC-A----ATTTTAGCAATTTTAC
1 AAACCAAGGGTATTTTAGTAATTTTAT
* *
52803735 AGACC-AGGGTATTTTGGTAATTTTACT
1 AAACCAAGGGTATTTTAGTAATTTTA-T
* * * *
52803762 GATCGAA-GGTATTTTGGTAATTTTAT
1 AAACCAAGGGTATTTTAGTAATTTTAT
* *
52803788 AAACCGAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTAT
* *
52803815 AAATCGAGGGTA
1 AAACCAAGGGTA
52803827 AAACAGTAAT
Statistics
Matches: 174, Mismatches: 37, Indels: 26
0.73 0.16 0.11
Matches are distributed among these distances:
22 19 0.11
26 20 0.11
27 106 0.61
28 16 0.09
29 11 0.06
30 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTTAGTAATTTTAT
Found at i:52803834 original size:27 final size:27
Alignment explanation
Indices: 52803804--52803960 Score: 172
Period size: 27 Copynumber: 5.9 Consensus size: 27
52803794 AGGGTATTTT
*
52803804 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
** *
52803831 AGTAATTCTGTAAATTAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
52803858 AGTAATTCTATAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
52803885 GGTAATTCTATAAATCGAGGGTAAAA-
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
52803911 GGTAAATATGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
52803938 GGTAATTATGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
52803961 GTTTGGTAAT
Statistics
Matches: 116, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
26 23 0.20
27 93 0.80
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:52803836 original size:54 final size:53
Alignment explanation
Indices: 52803777--52803987 Score: 172
Period size: 54 Copynumber: 3.9 Consensus size: 53
52803767 AAGGTATTTT
* * * *
52803777 GGTAATTTTATAAACCGAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTCTATAAATCGAGGGTA-TATAGTAATTTTATAAATCGAGGGTAAAAC
* * ** * * * *
52803831 AGTAATTCTGTAAATTAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAAT
1 GGTAATTCTATAAATCGAGGGT-ATATAGTAATTTTATAAATCGAGGGTAAAAC
* * * *
52803885 GGTAATTCTATAAATCGAGGGTA-AAAGGTAAATATGTAAATCGAGGGTAAAAC
1 GGTAATTCTATAAATCGAGGGTATATA-GTAATTTTATAAATCGAGGGTAAAAC
* * * * * * *
52803938 GGTAATTATGTAAATCGGGGGTAGTTTGGTAATTTTACAAGTCGAGGGTA
1 GGTAATTCTATAAATCGAGGGTA-TATAGTAATTTTATAAATCGAGGGTA
52803988 TTTCAATAAT
Statistics
Matches: 120, Mismatches: 33, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
52 2 0.02
53 42 0.35
54 75 0.62
55 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (53 bp):
GGTAATTCTATAAATCGAGGGTATATAGTAATTTTATAAATCGAGGGTAAAAC
Found at i:52803960 original size:80 final size:81
Alignment explanation
Indices: 52803805--52803987 Score: 197
Period size: 80 Copynumber: 2.3 Consensus size: 81
52803795 GGGTATTTTA
* * * * * *
52803805 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATTAAGGGTAAAATAGTAATTCTATA
1 GTAATTTTATAAATCGAGGGTAAAACAGTAAATATGTAAATCAAGGGTAAAACAGTAATTATATA
52803870 AATCAAGGGTAAAATG
66 AATCAAGGGTAAAATG
* * * * *
52803886 GTAATTCTATAAATCGAGGGTAAAA-GGTAAATATGTAAATCGAGGGTAAAACGGTAATTATGTA
1 GTAATTTTATAAATCGAGGGTAAAACAGTAAATATGTAAATCAAGGGTAAAACAGTAATTATATA
** ***
52803950 AATCGGGGGTAGTTTG
66 AATCAAGGGTAAAATG
* *
52803966 GTAATTTTACAAGTCGAGGGTA
1 GTAATTTTATAAATCGAGGGTA
52803988 TTTCAATAAT
Statistics
Matches: 83, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
80 60 0.72
81 23 0.28
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (81 bp):
GTAATTTTATAAATCGAGGGTAAAACAGTAAATATGTAAATCAAGGGTAAAACAGTAATTATATA
AATCAAGGGTAAAATG
Found at i:52806537 original size:40 final size:40
Alignment explanation
Indices: 52806492--52806658 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
52806482 CGGAATATAA
*
52806492 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
52806532 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
52806572 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
52806612 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
52806651 CCGGATAT
1 CCGGATAT
52806659 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 13 0.12
40 91 0.87
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:52806642 original size:80 final size:79
Alignment explanation
Indices: 52806508--52806658 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
52806498 ATAACCATGT
*
52806508 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
52806573 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
52806588 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
52806651 CCGGATAT
64 CCGGATAT
52806659 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:52814586 original size:40 final size:40
Alignment explanation
Indices: 52814541--52814707 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
52814531 CGGAATATAA
52814541 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
52814581 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
52814621 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
52814661 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
52814700 CCGGATAT
1 CCGGATAT
52814708 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 92 0.87
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:52814691 original size:80 final size:79
Alignment explanation
Indices: 52814541--52814707 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
52814531 CGGAATATAA
*
52814541 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
52814606 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
52814621 CCGGATATAGCCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
52814683 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
52814700 CCGGATAT
1 CCGGATAT
52814708 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:52816551 original size:21 final size:21
Alignment explanation
Indices: 52816527--52816569 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
52816517 TATCTATAGT
52816527 AGTTTCTCAATATAGCATTTC
1 AGTTTCTCAATATAGCATTTC
52816548 AGTTTCTCAATATAGCATTTC
1 AGTTTCTCAATATAGCATTTC
52816569 A
1 A
52816570 ATCTATAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (21 bp):
AGTTTCTCAATATAGCATTTC
Found at i:52817856 original size:24 final size:25
Alignment explanation
Indices: 52817816--52817922 Score: 139
Period size: 25 Copynumber: 4.4 Consensus size: 25
52817806 CTAGAGGCCT
52817816 AGCCACTTTT-AAT-AACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAA
*
52817840 AGCCCTTTT-GATAAACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
52817864 AGCCCTTTTCAATAAACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
** * *
52817889 AGCCCTTTTCGGTAAACTAGGGCAT
1 AGCCCTTTTCAATAAACTGGGGCAA
52817914 AGCCCTTTT
1 AGCCCTTTT
52817923 AGCACTTCCT
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
23 7 0.09
24 24 0.32
25 44 0.59
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGCAA
Found at i:52817882 original size:49 final size:48
Alignment explanation
Indices: 52817816--52817923 Score: 155
Period size: 49 Copynumber: 2.2 Consensus size: 48
52817806 CTAGAGGCCT
*
52817816 AGCCACTTTTAATAACTGGGGCAAAGCCCTTTT-GATAAACTGGGGCAA
1 AGCC-CTTTTAATAACTGGGGCAAAGCCCTTTTCGATAAACTAGGGCAA
* *
52817864 AGCCCTTTTCAATAAACTGGGGCAAAGCCCTTTTCGGTAAACTAGGGCAT
1 AGCCCTTTT-AAT-AACTGGGGCAAAGCCCTTTTCGATAAACTAGGGCAA
52817914 AGCCCTTTTA
1 AGCCCTTTTA
52817924 GCACTTCCTC
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
47 5 0.09
48 7 0.13
49 21 0.39
50 21 0.39
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCAAAGCCCTTTTCGATAAACTAGGGCAA
Found at i:52818749 original size:27 final size:26
Alignment explanation
Indices: 52818715--52818791 Score: 93
Period size: 27 Copynumber: 2.8 Consensus size: 26
52818705 GGCATATTCA
52818715 TCATTTTACCATACAGGGGTATTACGG
1 TCATTTTACC-TACAGGGGTATTACGG
52818742 TCATTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTA-CCTACAGGGG-TATTACGG
* *
52818769 TCTTTTTACCTAATAGGGGTATT
1 TCATTTTACCT-ACAGGGGTATT
52818792 TTAGTCATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
26 4 0.09
27 37 0.84
28 3 0.07
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (26 bp):
TCATTTTACCTACAGGGGTATTACGG
Found at i:52818862 original size:27 final size:27
Alignment explanation
Indices: 52818809--52819186 Score: 185
Period size: 27 Copynumber: 14.0 Consensus size: 27
52818799 TTTCACCCTA
* * * * *
52818809 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
52818836 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
52818863 CAATGGTATTTCTA-TAATTTT-TCGAAAGT
1 CAAGGGTATTT-TAGTAATTTTAT--AAA-C
* *
52818892 CAAGGGTATTTCTA-TAATTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTATAAAC
* * * *
52818919 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
** ** * *
52818946 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
*
52818973 C-AGTGGTATTTTAGTAATTTTACAAAC
1 CAAG-GGTATTTTAGTAATTTTATAAAC
* * * *
52819000 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * * *
52819027 CAGGGGTATTTTAGCAATTTTACAGAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * *
52819054 C-AGGGTATTTTGGTAAATTTTACT-GAT
1 CAAGGGTATTTTAGT-AATTTTA-TAAAC
* * *
52819081 C-GGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * * *
52819107 CATGGGTATTTTAGTAATTCTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
*** * * *
52819134 CAAGGGTAAAATAGTAATTCTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
*** *
52819161 CAAGGGTAAAATAGTAATTCTATAAA
1 CAAGGGTATTTTAGTAATTTTATAAA
52819187 TCGAGTGTAA
Statistics
Matches: 289, Mismatches: 50, Indels: 24
0.80 0.14 0.07
Matches are distributed among these distances:
25 1 0.00
26 22 0.08
27 237 0.82
28 8 0.03
29 20 0.07
30 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAC
Found at i:52819012 original size:81 final size:80
Alignment explanation
Indices: 52818894--52819117 Score: 231
Period size: 81 Copynumber: 2.8 Consensus size: 80
52818884 TCGAAAGTCA
** **
52818894 AGGGTATTTCTA-T-AATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATT
1 AGGGTATTT-TAGTAAATTTTACAAAT-AGGGGTATTTTGGTAATTTTACAAACCAG-GGGTATT
* *
52818956 TCGGTAATTTCACAAACC
63 TCAGCAATTTCACAAACC
52818974 AGTGGTATTTTAGT-AATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTT
1 AG-GGTATTTTAGTAAATTTTACAAA-TAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTT
* * *
52819038 TAGCAATTTTACAGACC
64 CAGCAATTTCACAAACC
* ** * ** *
52819055 AGGGTATTTTGGTAAATTTTACTGATCGGGGTATTTTGGTAATTTTGTAAACCATGGGTATTT
1 AGGGTATTTTAGTAAATTTTACAAATAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTT
52819118 TAGTAATTCT
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
80 48 0.39
81 73 0.59
82 2 0.02
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (80 bp):
AGGGTATTTTAGTAAATTTTACAAATAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTCA
GCAATTTCACAAACC
Found at i:52819117 original size:54 final size:54
Alignment explanation
Indices: 52818919--52819123 Score: 218
Period size: 54 Copynumber: 3.8 Consensus size: 54
52818909 TTTTGTAAAT
* ** * *
52818919 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGT-AATTTCACAAAC
1 CAGGGGTATTTTAGTAATTTTACAAA-CCAGGGTATTTTGGTAAATTTTACAAAC
* *
52818973 CAGTGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGT-AATTTTACAAAC
1 CAGGGGTATTTTAGTAATTTTACAAACCA-GGGTATTTTGGTAAATTTTACAAAC
* * ** *
52819027 CAGGGGTATTTTAGCAATTTTACAGACCAGGGTATTTTGGTAAATTTTACTGAT
1 CAGGGGTATTTTAGTAATTTTACAAACCAGGGTATTTTGGTAAATTTTACAAAC
* ** *
52819081 C-GGGGTATTTTGGTAATTTTGTAAACCATGGGTATTTTAGTAA
1 CAGGGGTATTTTAGTAATTTTACAAACCA-GGGTATTTTGGTAA
52819124 TTCTGTAAAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
53 35 0.27
54 94 0.73
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.40
Consensus pattern (54 bp):
CAGGGGTATTTTAGTAATTTTACAAACCAGGGTATTTTGGTAAATTTTACAAAC
Found at i:52819151 original size:54 final size:54
Alignment explanation
Indices: 52819093--52819225 Score: 140
Period size: 54 Copynumber: 2.5 Consensus size: 54
52819083 GGGTATTTTG
* * *** *
52819093 GTAATTTTGTAAACCATGGGTATTTTAGTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAATA
* * * **
52819147 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGTGTAAAACG
1 GTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAATA
* * *
52819201 GTAATTCTATAAATCGAGGGTAAAA
1 GTAATTCTGTAAACCAAGGGTAAAA
52819226 GATAATTATG
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (54 bp):
GTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAATA
Found at i:52819187 original size:27 final size:27
Alignment explanation
Indices: 52819118--52819225 Score: 153
Period size: 27 Copynumber: 4.0 Consensus size: 27
52819108 ATGGGTATTT
*
52819118 TAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTATAAATCAAGGGTAAAA
*
52819145 TAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTATAAATCAAGGGTAAAA
* *
52819172 TAGTAATTCTATAAATCGAGTGTAAAA
1 TAGTAATTCTATAAATCAAGGGTAAAA
** *
52819199 CGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCAAGGGTAAAA
52819226 GATAATTATG
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.30
Consensus pattern (27 bp):
TAGTAATTCTATAAATCAAGGGTAAAA
Found at i:52819256 original size:53 final size:54
Alignment explanation
Indices: 52819119--52819259 Score: 158
Period size: 54 Copynumber: 2.6 Consensus size: 54
52819109 TGGGTATTTT
* * * ** * *
52819119 AGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTATATAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAAG
* * *
52819173 AGTAATTCTATAAATCGAGTGTAAAACGGTAATTCTATAAATCGAGGGTAAAAG
1 AGTAATTATATAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAAG
* * *
52819227 A-TAATTATGTATATCGGGGGTAAAACGGTAATT
1 AGTAATTATATAAATCGAGGGTAAAACGGTAATT
52819260 ATGGAAATTG
Statistics
Matches: 74, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
53 27 0.36
54 47 0.64
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.30
Consensus pattern (54 bp):
AGTAATTATATAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAAG
Found at i:52819272 original size:27 final size:27
Alignment explanation
Indices: 52819120--52819275 Score: 116
Period size: 27 Copynumber: 5.8 Consensus size: 27
52819110 GGGTATTTTA
* ** **
52819120 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTATGTAAATCGGGGGTAAAACG
* ** **
52819147 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTATGTAAATCGGGGGTAAAACG
* * * *
52819174 GTAATTCTATAAATCGAGTGTAAAACG
1 GTAATTATGTAAATCGGGGGTAAAACG
* * *
52819201 GTAATTCTATAAATCGAGGGTAAAA-G
1 GTAATTATGTAAATCGGGGGTAAAACG
* *
52819227 ATAATTATGTATATCGGGGGTAAAACG
1 GTAATTATGTAAATCGGGGGTAAAACG
* *
52819254 GTAATTATGGAAATTGGGGGTA
1 GTAATTATGTAAATCGGGGGTA
52819276 CTTTGGTAAT
Statistics
Matches: 113, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
26 21 0.19
27 92 0.81
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTATGTAAATCGGGGGTAAAACG
Found at i:52822911 original size:26 final size:27
Alignment explanation
Indices: 52822881--52822941 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
52822871 TCACATACTC
*
52822881 TCACA-AATAGTCAATTATTACTAATT
1 TCACATAATAGTCAATTATTAATAATT
**
52822907 TCACATTGTCTAGTCAATTATTAATAATT
1 TCACA-T-AATAGTCAATTATTAATAATT
52822936 TCACAT
1 TCACAT
52822942 TGTCCAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 5 0.17
28 1 0.03
29 23 0.79
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.41
Consensus pattern (27 bp):
TCACATAATAGTCAATTATTAATAATT
Found at i:52822921 original size:29 final size:29
Alignment explanation
Indices: 52822888--52822945 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
52822878 CTCTCACAAA
*
52822888 TAGTCAATTATTACTAATTTCACATTGTC
1 TAGTCAATTATTAATAATTTCACATTGTC
52822917 TAGTCAATTATTAATAATTTCACATTGTC
1 TAGTCAATTATTAATAATTTCACATTGTC
52822946 CAAACATGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.45
Consensus pattern (29 bp):
TAGTCAATTATTAATAATTTCACATTGTC
Found at i:52826463 original size:40 final size:40
Alignment explanation
Indices: 52826419--52826609 Score: 166
Period size: 40 Copynumber: 4.8 Consensus size: 40
52826409 GGATATAGCT
* *
52826419 ACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTA
1 ACTCGATCAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
52826459 ACTCGCAT-AAATGCCTTCGGGACTTAACCCGGATTTAGTA
1 ACTCG-ATCAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
52826499 ACTCGCA-CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTA
1 ACTCG-ATCAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * * *
52826538 AATCGCA-CAAAT-ACTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCG-ATCAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
*
52826577 ACTTAGCA-CAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCG-ATCAAATGCCTTCGGGACTTAGCCCGGA
52826610 CATCATTCGA
Statistics
Matches: 128, Mismatches: 15, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.03
39 42 0.33
40 74 0.58
41 6 0.05
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
ACTCGATCAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Done.