Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 164 of 218
Found at i:49864664 original size:42 final size:42
Alignment explanation
Indices: 49864607--49864719 Score: 163
Period size: 42 Copynumber: 2.7 Consensus size: 42
49864597 TTAGTAAAAT
* * * * *
49864607 CGCCGCTAAAGGTCATGTTCTTTAGTGGTGTTTTTGGGGAAG
1 CGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAG
*
49864649 CGCCGCTAAAAGTCATGTTCTATAGCGGCGTTTGTGGGAAAG
1 CGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAG
*
49864691 CGCCGCTAAAGGTCATGTTCTATAACGGC
1 CGCCGCTAAAGGTCATGTTCTATAGCGGC
49864720 ATTTTTCCAC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.29
Consensus pattern (42 bp):
CGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAG
Found at i:49866242 original size:27 final size:27
Alignment explanation
Indices: 49866195--49866258 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
49866185 AAATATTCTC
*
49866195 TAAAATAAT-AAATGTTAATTTATCGA
1 TAAAATAATAAAATATTAATTTATCGA
* * *
49866221 TAAATTAATAAAATATTTATTTATTGA
1 TAAAATAATAAAATATTAATTTATCGA
*
49866248 TAAACTAATAA
1 TAAAATAATAA
49866259 TCTCAATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 8 0.25
27 24 0.75
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.41
Consensus pattern (27 bp):
TAAAATAATAAAATATTAATTTATCGA
Found at i:49870700 original size:26 final size:26
Alignment explanation
Indices: 49870671--49870764 Score: 75
Period size: 26 Copynumber: 3.7 Consensus size: 26
49870661 CCAACACACC
* * *
49870671 AGTATCGCAGCAGAGCTGCCAGTAAT
1 AGTAACGCAGCAAAGCTACCAGTAAT
*
49870697 AGTAACGCAGCAAAGCTACCAGT-AC
1 AGTAACGCAGCAAAGCTACCAGTAAT
* * * *
49870722 AGTAATGCAGTAGAGTTACCAGT-AT
1 AGTAACGCAGCAAAGCTACCAGTAAT
* *
49870747 CAGTAACACAACAAAGCT
1 -AGTAACGCAGCAAAGCT
49870765 GCTAGTAACA
Statistics
Matches: 52, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
25 21 0.40
26 31 0.60
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.18
Consensus pattern (26 bp):
AGTAACGCAGCAAAGCTACCAGTAAT
Found at i:49870731 original size:25 final size:25
Alignment explanation
Indices: 49870670--49870753 Score: 87
Period size: 26 Copynumber: 3.3 Consensus size: 25
49870660 GCCAACACAC
* *
49870670 CAGTATCGCAGCAGAGCTGCCAGTAA
1 CAGTAACGCAGCAGAGCTACCAGT-A
* *
49870696 TAGTAACGCAGCAAAGCTACCAGTA
1 CAGTAACGCAGCAGAGCTACCAGTA
* * *
49870721 CAGTAATGCAGTAGAGTTACCAGTA
1 CAGTAACGCAGCAGAGCTACCAGTA
49870746 TCAGTAAC
1 -CAGTAAC
49870754 ACAACAAAGC
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
25 21 0.45
26 26 0.55
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (25 bp):
CAGTAACGCAGCAGAGCTACCAGTA
Found at i:49871273 original size:27 final size:27
Alignment explanation
Indices: 49870973--49871264 Score: 349
Period size: 27 Copynumber: 10.8 Consensus size: 27
49870963 TATAACGATC
*
49870973 ATTTTACCCTATAG-GGGTA-TTCTGGTA
1 ATTTTACCC-ATCGAGGGTATTTC-GGTA
* *
49871000 ACTTTACCCATCGAGGGTATTTCAGTA
1 ATTTTACCCATCGAGGGTATTTCGGTA
* * *
49871027 ATTTTACCCTTCGAGGGTATTTCAGTT
1 ATTTTACCCATCGAGGGTATTTCGGTA
* *
49871054 ATTTTACCCTTCGAGGGTATTTCGGTT
1 ATTTTACCCATCGAGGGTATTTCGGTA
* **
49871081 ATTTTACCTATCGAGGGTATTTCAATA
1 ATTTTACCCATCGAGGGTATTTCGGTA
*
49871108 ATTTTACCCATCGAGGGTATTTCGATA
1 ATTTTACCCATCGAGGGTATTTCGGTA
49871135 ATTTTACCCATCGAGGGTATTTCGGT-
1 ATTTTACCCATCGAGGGTATTTCGGTA
*
49871161 ATCTTTACCCATCGAAGGTATTTCGGT-
1 AT-TTTACCCATCGAGGGTATTTCGGTA
*
49871188 ATCTTTACCCATCGAGGGTATTTCGATA
1 AT-TTTACCCATCGAGGGTATTTCGGTA
* * *
49871216 ATTTTACCCATCGGGGGTATTTTGGTC
1 ATTTTACCCATCGAGGGTATTTCGGTA
**
49871243 ATTTTACCCATTAAGGGTATTT
1 ATTTTACCCATCGAGGGTATTT
49871265 TAGTCATTTG
Statistics
Matches: 236, Mismatches: 25, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
26 5 0.02
27 226 0.96
28 5 0.02
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (27 bp):
ATTTTACCCATCGAGGGTATTTCGGTA
Found at i:49873261 original size:5 final size:5
Alignment explanation
Indices: 49873251--49873287 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
49873241 TTCAAACAAT
*
49873251 AATTA AATTA AATTA AATTA AATTA AATCA AATTA AA
1 AATTA AATTA AATTA AATTA AATTA AATTA AATTA AA
49873288 GTTAGAACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (5 bp):
AATTA
Found at i:49875533 original size:6 final size:6
Alignment explanation
Indices: 49875522--49875566 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
49875512 AAGTTAGTTA
* * *
49875522 TTTATT TTTATT TTTTAT -TTAAT TTTAAT TTTAAT TTTAAT TTTA
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTA
49875567 GAAAACTAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
5 4 0.11
6 31 0.89
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (6 bp):
TTTAAT
Found at i:49875552 original size:18 final size:17
Alignment explanation
Indices: 49875519--49875566 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
49875509 CAAAAGTTAG
* *
49875519 TTATTTATTTTTATTTT
1 TTATTTAATTTTAATTT
49875536 TTATTTAATTTTAATTT
1 TTATTTAATTTTAATTT
*
49875553 TAATTTTAATTTTA
1 TTA-TTTAATTTTA
49875567 GAAAACTAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 17 0.63
18 10 0.37
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTATTTAATTTTAATTT
Found at i:49879179 original size:17 final size:17
Alignment explanation
Indices: 49879157--49879190 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
49879147 TCAAAAGTCA
49879157 GTTA-TTTATTTTTAATT
1 GTTATTTTA-TTTTAATT
49879174 GTTATTTTATTTTAATT
1 GTTATTTTATTTTAATT
49879191 TTAGAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
GTTATTTTATTTTAATT
Found at i:49886277 original size:14 final size:14
Alignment explanation
Indices: 49886245--49886278 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
49886235 TTTTAATTTA
*
49886245 AAAAATAAAAATTG
1 AAAAATAAAAAATG
49886259 AAAAATAAAAAAATG
1 AAAAAT-AAAAAATG
49886274 AAAAA
1 AAAAA
49886279 GCTTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (14 bp):
AAAAATAAAAAATG
Found at i:49897969 original size:10 final size:10
Alignment explanation
Indices: 49897939--49898130 Score: 95
Period size: 10 Copynumber: 19.4 Consensus size: 10
49897929 TGGGTGGGGG
*
49897939 GAAGAGAAGGA
1 GAAGA-AAGAA
49897950 GAAGGAAAGAA
1 GAA-GAAAGAA
49897961 GAAGAAAG-A
1 GAAGAAAGAA
49897970 -AAGAAAGAA
1 GAAGAAAGAA
*
49897979 -AAGGAAAGGA
1 GAA-GAAAGAA
*
49897989 GAGGAAAG-A
1 GAAGAAAGAA
49897998 -AAGAAA-AA
1 GAAGAAAGAA
49898006 GAAGGAAAGAA
1 GAA-GAAAGAA
*
49898017 -AAGGAAATG-G
1 GAA-GAAA-GAA
*
49898027 GAAGAAAAAA
1 GAAGAAAGAA
49898037 GAAAGAAA-AA
1 G-AAGAAAGAA
49898047 GAAGGAAAGAA
1 GAA-GAAAGAA
*
49898058 -AAGGAAAGGA
1 GAA-GAAAGAA
*
49898068 GAAGAAAAAA
1 GAAGAAAGAA
*
49898078 AAAGAAAGAA
1 GAAGAAAGAA
**
49898088 GAAGACGGAA
1 GAAGAAAGAA
49898098 GGAAGGAAA-AA
1 -GAA-GAAAGAA
49898109 GAA-AAAGAA
1 GAAGAAAGAA
*
49898118 AAAGAAA-AA
1 GAAGAAAGAA
49898127 GAAG
1 GAAG
49898131 GTAATTTTTG
Statistics
Matches: 143, Mismatches: 19, Indels: 40
0.71 0.09 0.20
Matches are distributed among these distances:
8 16 0.11
9 18 0.13
10 74 0.52
11 31 0.22
12 4 0.03
ACGTcount: A:0.68, C:0.01, G:0.31, T:0.01
Consensus pattern (10 bp):
GAAGAAAGAA
Found at i:49898008 original size:6 final size:6
Alignment explanation
Indices: 49897997--49898129 Score: 59
Period size: 6 Copynumber: 20.0 Consensus size: 6
49897987 GAGAGGAAAG
* ** *
49897997 AAAGAA AAAGAA GGAAAGAA AAGGAA ATGGGAA GAAAAAA GAAAGAA AAAGAA
1 AAAGAA AAAGAA --AAAGAA AAAGAA A-AAGAA -AAAGAA -AAAGAA AAAGAA
* * * **
49898050 GGAAAGAA AAGGAA AGGAGAA GAAAAAA AAAGAA AGAAGAA GACGGAA
1 --AAAGAA AAAGAA A-AAGAA -AAAGAA AAAGAA A-AAGAA -AAAGAA
*
49898098 GGAAGGAA AAAGAA AAAGAA AAAGAA AAAGAA
1 --AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
49898130 GGTAATTTTT
Statistics
Matches: 100, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
6 53 0.53
7 26 0.26
8 21 0.21
ACGTcount: A:0.71, C:0.01, G:0.28, T:0.01
Consensus pattern (6 bp):
AAAGAA
Found at i:49898047 original size:41 final size:40
Alignment explanation
Indices: 49897955--49898091 Score: 181
Period size: 41 Copynumber: 3.4 Consensus size: 40
49897945 AAGGAGAAGG
* *
49897955 AAAGAAGAAGAAAGAAAGAAAGAAAAGGAAAGGAG-AGGAA
1 AAAGAAGAA-AAAGAAGGAAAGAAAAGGAAAGGAGAAGAAA
*
49897995 AGA-AAGAAAAAGAAGGAAAGAAAAGGAAATGG-GAAGAAA
1 AAAGAAGAAAAAGAAGGAAAGAAAAGGAAA-GGAGAAGAAA
49898034 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAA
1 AAAG-AAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAA
*
49898075 AAAAAAGAAAGAAGAAG
1 AAAGAAGAAA-AAGAAG
49898092 ACGGAAGGAA
Statistics
Matches: 86, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
38 21 0.24
39 13 0.15
40 10 0.12
41 42 0.49
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (40 bp):
AAAGAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAA
Found at i:49898100 original size:79 final size:78
Alignment explanation
Indices: 49897955--49898131 Score: 193
Period size: 79 Copynumber: 2.2 Consensus size: 78
49897945 AAGGAGAAGG
* * *
49897955 AAAG-AAGAAGAAAGAAAGAAAGAAAAGGAAAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAA
1 AAAGAAAGAA-AAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAGAAAAAAAAAGAAGGAAAGAAAA
*
49898019 GGAAATGG-GAAGAAA
65 GG-AA-GGAAAAGAAA
*
49898034 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAA-AAAAAAGAAAGAA-G-AAGACGG
1 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAGAAAAAA-AAAGAAGGAAAGA--A
49898096 AAGGAAGGAAAAAGAAA
63 AAGGAAGG-AAAAGAAA
*
49898113 AAGAAAAAGAAAAAGAAGG
1 AA-AGAAAGAAAAAGAAGG
49898132 TAATTTTTGT
Statistics
Matches: 85, Mismatches: 6, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
77 6 0.07
78 8 0.09
79 51 0.60
80 20 0.24
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.01
Consensus pattern (78 bp):
AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAGAAAAAAAAAGAAGGAAAGAAAAG
GAAGGAAAAGAAA
Found at i:49898119 original size:5 final size:6
Alignment explanation
Indices: 49898028--49898129 Score: 62
Period size: 6 Copynumber: 15.8 Consensus size: 6
49898018 AGGAAATGGG
* * * *
49898028 AAGAAA AA-AGA AAGAAA AAGAAGGA AAGAAA AGGAAA GGAGAAGA AAAAAA
1 AAGAAA AAGAAA AAGAAA AAGAA--A AAGAAA AAGAAA -AAGAA-A AAGAAA
** *
49898079 AAGAAA GAAGAAGA CGGAAGGA AGGAAA AAGAAA AAGAAA AAGAAA AAGAA
1 AAGAAA -AAGAA-A AAGAA--A AAGAAA AAGAAA AAGAAA AAGAAA AAGAA
49898130 GGTAATTTTT
Statistics
Matches: 76, Mismatches: 12, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
5 4 0.05
6 44 0.58
7 14 0.18
8 14 0.18
ACGTcount: A:0.73, C:0.01, G:0.26, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:49898822 original size:159 final size:153
Alignment explanation
Indices: 49898453--49899248 Score: 749
Period size: 159 Copynumber: 5.1 Consensus size: 153
49898443 AAAAATGGTA
* * * *
49898453 TATTTAAAAAACACACTAAATTAATAAATTTCAACCATAATGTACTAAAATAATGTAAAATAATA
1 TATTT-AAAAACACACTAAATTAATAAAATTCAAACATAATGTACTGAAATAATATAAAATAATA
* * * *
49898518 AAATTA-TAAATTATGATATTTTTTAAAGTAATAAAAAGCGGAGAAAAAAATACGAACAAATGGC
65 AAATTAGAAAATAATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGGC
* *
49898582 CGAAGTAAGAGTGTTTTACTAAAT
130 CGAAGTAAGGGTTTTTTACTAAAT
* * * * *
49898606 TTTTTAAAAATTCAGA-AATAATTAATACAAATATTTCAAACAAAATATACTGAAATAATATAAA
1 TATTTAAAAA--CACACTA-AATTAAT--AAA-A-TTCAAACATAATGTACTGAAATAATATAAA
* *
49898670 ATAATAAAA-TACGAAAATAAT-ATATTTTTCTTAAAAGTAATAAAATTCGG-GAAAATAATACG
59 ATAATAAAATTA-GAAAATAATGATA-TTTT-TT-AAAGTAATAAAATGCGGAGAAAAAAATACG
* *
49898732 AGCAAAGGGCAGGAA-TAAAGGGTTTTTTTACACTAAAT
120 AACAAAGGGC-CGAAGT-AAGGG-TTTTTT--ACTAAAT
* *
49898770 TAATTTAAAAACACACTAAATTAATAAAATTCAAACATAATGCACTGAAATAATATAAAATTATA
1 T-ATTTAAAAACACACTAAATTAATAAAATTCAAACATAATGTACTGAAATAATATAAAATAATA
* *
49898835 AAATTAG-AAATTATGATATTTTTTAAAGTAATAAAAAGCGGAGAAAAAAATACGAACAAA-GGC
65 AAATTAGAAAATAATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGGC
** *
49898898 CGAAGTAATAGTCTTTTACTAAAT
130 CGAAGTAAGGGTTTTTTACTAAAT
* * * * *
49898922 TTTTTAAAAATTTTGA-AAT-AATTAATACAAATATTTCAAACAAAATGTACTAAAATAATATAA
1 TATTTAAAAA----CACACTAAATTAAT--AAA-A-TTCAAACATAATGTACTGAAATAATATAA
* * *
49898985 AATAATAAAA-TACGAAAATAAT-ATATTTTTATTGAAAGTAATAAAATTCAG-GAAAATAATAC
58 AATAATAAAATTA-GAAAATAATGATA-TTTT-TT-AAAGTAATAAAATGCGGAGAAAAAAATAC
* *
49899047 GAGCAAAGGGCAGGAA-TAAGGGTTTTTTTACACTAAAT
119 GAACAAAGGGC-CGAAGTAAGGG-TTTTTT--ACTAAAT
* * * *
49899085 TAACTTTAAAAACACACTAAATTAATAAAATTCAAACATAATGCACTGAAATAATGTAAAATTAG
1 T-A-TTTAAAAACACACTAAATTAATAAAATTCAAACATAATGTACTGAAATAATATAAAATAAT
* *
49899150 AAAATTAGAAAAT-ATGATATTTTTTAAAGTAATAAAATGAGGAGAAAAAAATACGAAAAAAGGG
64 AAAATTAGAAAATAATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGG
* * *
49899214 TCGAAGTAAGAGTCTTTTACTAAAT
129 CCGAAGTAAGGGTTTTTTACTAAAT
*
49899239 TTTTTAAAAA
1 TATTTAAAAA
49899249 TTCGGGAAAA
Statistics
Matches: 522, Mismatches: 72, Indels: 99
0.75 0.10 0.14
Matches are distributed among these distances:
151 8 0.02
152 21 0.04
153 12 0.02
154 25 0.05
155 10 0.02
156 47 0.09
157 84 0.16
158 63 0.12
159 109 0.21
160 49 0.09
161 37 0.07
162 7 0.01
163 25 0.05
164 9 0.02
165 16 0.03
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.30
Consensus pattern (153 bp):
TATTTAAAAACACACTAAATTAATAAAATTCAAACATAATGTACTGAAATAATATAAAATAATAA
AATTAGAAAATAATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGGCC
GAAGTAAGGGTTTTTTACTAAAT
Found at i:49899033 original size:316 final size:316
Alignment explanation
Indices: 49898454--49899251 Score: 1355
Period size: 316 Copynumber: 2.5 Consensus size: 316
49898444 AAAATGGTAT
* * * * *
49898454 ATTTAAAAAACACACTAAATTAATAAATTTCAACCATAATGTACTAAAATAATGTAAAATAATAA
1 ATTT-AAAAACACACTAAATTAATAAAATTCAAACATAATGCACTGAAATAATGTAAAATTATAA
* *
49898519 AATTATAAATTATGATATTTTTTAAAGTAATAAAAAGCGGAGAAAAAAATACGAACAAATGGCCG
65 AATTAGAAATTATGATATTTTTTAAAGTAATAAAAAGCGGAGAAAAAAATACGAACAAAGGGCCG
*
49898584 AAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAA
130 AAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAA
* *
49898649 AATATACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTCTTAAAAGTAATAAA
195 AATATACTAAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTAAAAGTAATAAA
*
49898714 ATTCGGGAAAATAATACGAGCAAAGGGCAGGAATAAAGGGTTTTTTTACACTAAATTA
260 ATTCAGGAAAATAATACGAGCAAAGGGCAGGAAT-AAGGGTTTTTTTACACTAAATTA
*
49898772 ATTTAAAAACACACTAAATTAATAAAATTCAAACATAATGCACTGAAATAATATAAAATTATAAA
1 ATTTAAAAACACACTAAATTAATAAAATTCAAACATAATGCACTGAAATAATGTAAAATTATAAA
49898837 ATTAGAAATTATGATATTTTTTAAAGTAATAAAAAGCGGAGAAAAAAATACGAACAAA-GGCCGA
66 ATTAGAAATTATGATATTTTTTAAAGTAATAAAAAGCGGAGAAAAAAATACGAACAAAGGGCCGA
* **
49898901 AGTAATAGTCTTTTACTAAATTTTTTAAAAATTTTGAAATAATTAATACAAATATTTCAAACAAA
131 AGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAA
* *
49898966 ATGTACTAAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAA
196 ATATACTAAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTAAAAGTAATAAAA
49899031 TTCAGGAAAATAATACGAGCAAAGGGCAGGAATAAGGGTTTTTTTACACTAAATTA
261 TTCAGGAAAATAATACGAGCAAAGGGCAGGAATAAGGGTTTTTTTACACTAAATTA
*
49899087 ACTTTAAAAACACACTAAATTAATAAAATTCAAACATAATGCACTGAAATAATGTAAAATTAGAA
1 A-TTTAAAAACACACTAAATTAATAAAATTCAAACATAATGCACTGAAATAATGTAAAATTATAA
* * * * *
49899152 AATTAGAAAATATGATATTTTTTAAAGTAATAAAATGAGGAGAAAAAAATACGAAAAAAGGGTCG
65 AATTAGAAATTATGATATTTTTTAAAGTAATAAAAAGCGGAGAAAAAAATACGAACAAAGGGCCG
49899217 AAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTC
130 AAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTC
49899252 GGGAAAATAG
Statistics
Matches: 453, Mismatches: 25, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
315 24 0.05
316 276 0.61
317 149 0.33
318 4 0.01
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.30
Consensus pattern (316 bp):
ATTTAAAAACACACTAAATTAATAAAATTCAAACATAATGCACTGAAATAATGTAAAATTATAAA
ATTAGAAATTATGATATTTTTTAAAGTAATAAAAAGCGGAGAAAAAAATACGAACAAAGGGCCGA
AGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAAA
ATATACTAAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTAAAAGTAATAAAA
TTCAGGAAAATAATACGAGCAAAGGGCAGGAATAAGGGTTTTTTTACACTAAATTA
Found at i:49904623 original size:42 final size:40
Alignment explanation
Indices: 49904495--49904629 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 40
49904485 CCACTAACCC
*
49904495 TAATAACTAACACAATAACAATAATAATAGTTTTATACTCAAAA
1 TAAT-ACTAAC-C-ATAACAATAATAATAGTTTTTTACT-AAAA
**
49904539 TAATACTAA-C-TAACAATAATAATTAGGGTTTTACTAAAAA
1 TAATACTAACCATAACAATAATAA-TAGTTTTTTACT-AAAA
* *
49904579 TAATAACTAACCATAATAATAATACTAGTTTTTTACTAACAA
1 TAAT-ACTAACCATAACAATAATAATAGTTTTTTACTAA-AA
49904621 TAATACTAA
1 TAATACTAA
49904630 GTAAGATCTA
Statistics
Matches: 78, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
39 12 0.15
40 17 0.22
41 13 0.17
42 17 0.22
43 15 0.19
44 4 0.05
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.33
Consensus pattern (40 bp):
TAATACTAACCATAACAATAATAATAGTTTTTTACTAAAA
Found at i:49912710 original size:12 final size:12
Alignment explanation
Indices: 49912689--49912718 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
49912679 TGTTAGGATT
*
49912689 TTTGGTTATTGG
1 TTTGGGTATTGG
49912701 TTTGGGTATTGG
1 TTTGGGTATTGG
49912713 TTTGGG
1 TTTGGG
49912719 CCTTTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.00, G:0.40, T:0.53
Consensus pattern (12 bp):
TTTGGGTATTGG
Found at i:49913699 original size:111 final size:115
Alignment explanation
Indices: 49913493--49913711 Score: 358
Period size: 111 Copynumber: 1.9 Consensus size: 115
49913483 CTCATTCATC
49913493 CCTACACACCATGTTGTGGATGAACCATTAGTAATTACAGATGAACTGAACTACCAGTAATAAAA
1 CCTACACACCATGTTGTGGATGAACCATTAGTAATTACA-ATGAACTGAACTACCAGTAATAAAA
* *
49913558 GTTGTGGATGAACCATAAAAATTTATAGATAAAAAGTTTGCAGTTTAATAA
65 ATTGTGGATGAACCACAAAAATTTATAGATAAAAAGTTTGCAGTTTAATAA
*
49913609 CCTACACACCATGTTGTGGATGAATCATTAGTAATTAC-A-G-A-TGAACTACCAGTAATAAAAA
1 CCTACACACCATGTTGTGGATGAACCATTAGTAATTACAATGAACTGAACTACCAGTAATAAAAA
49913670 TTGTGGATGAACCACAAAAATTT-TCAGATAAAAAGTTTGCAG
66 TTGTGGATGAACCACAAAAATTTAT-AGATAAAAAGTTTGCAG
49913712 ACAAGCTGCC
Statistics
Matches: 99, Mismatches: 3, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
110 1 0.01
111 58 0.59
112 1 0.01
113 1 0.01
114 1 0.01
116 37 0.37
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (115 bp):
CCTACACACCATGTTGTGGATGAACCATTAGTAATTACAATGAACTGAACTACCAGTAATAAAAA
TTGTGGATGAACCACAAAAATTTATAGATAAAAAGTTTGCAGTTTAATAA
Found at i:49917089 original size:20 final size:21
Alignment explanation
Indices: 49917064--49917110 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
49917054 ACCAAAAAAT
*
49917064 CTTTTTCATAATTTTTG-AAA
1 CTTTTTCATAATGTTTGTAAA
*
49917084 CTTTTTTATAATGTTTGTAAA
1 CTTTTTCATAATGTTTGTAAA
*
49917105 TTTTTT
1 CTTTTT
49917111 TCTTTTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (21 bp):
CTTTTTCATAATGTTTGTAAA
Found at i:49919498 original size:18 final size:18
Alignment explanation
Indices: 49919454--49919501 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
49919444 TTTTTTTTCC
* *
49919454 AAATTTTATAATTTTTTA
1 AAATTTTATAAATTTTGA
**
49919472 AAA-AATATAAATTTTGA
1 AAATTTTATAAATTTTGA
49919489 AAATTTTATAAAT
1 AAATTTTATAAAT
49919502 ATTTTGAATT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AAATTTTATAAATTTTGA
Found at i:49919803 original size:16 final size:17
Alignment explanation
Indices: 49919782--49919817 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
49919772 TAAATTTTAA
49919782 AAAATA-AAAAATACAT
1 AAAATATAAAAATACAT
49919798 AAAATATAAAAATACAT
1 AAAATATAAAAATACAT
49919815 AAA
1 AAA
49919818 GATTACAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAATATAAAAATACAT
Found at i:49920916 original size:205 final size:212
Alignment explanation
Indices: 49920607--49921036 Score: 568
Period size: 205 Copynumber: 2.0 Consensus size: 212
49920597 GTAGAAAATG
* ** *
49920607 CCGCTATATCCCGCAATTAGCGGCGCTTAACTAAAAAATGCCGGAAAATTTTAAACCGAAATGCA
1 CCGCTATATCCCGCAATTAGCGGCGCTTAACTAAAAAACGCCAAAAAATTTTAAACCGAAACGCA
* * *
49920672 ACGTTTCGTCTTGAGCTATAGCGCCGTCAGCGACGCTTACCCGAAAA-C-GCCA-CTAT-A-TA-
66 ACGTTTCATCTTGAGCTATAGCACCGTCAGCGACGCTTACCCGAAAAGCTGCCATATATCATTAG
*
49920731 T-CAAGCGCCGCAAAAATTTTGACCAAAACGCATCGTTCTGGCTTGACCTATAGAGGCATTAGCG
131 TACAAGCGCCGCAAAAATTTTGAACAAAACGCATCGTTCTGGCTTGACCTATAGAGGCATTAGCG
49920795 ACGCTTACTTGAAAACA
196 ACGCTTACTTGAAAACA
*
49920812 CCGCTATATCCCTCAATTAGCGGCGCTTAACTAAAAAACGCCAAAAAATTTTAAACCGAAACGCA
1 CCGCTATATCCCGCAATTAGCGGCGCTTAACTAAAAAACGCCAAAAAATTTTAAACCGAAACGCA
* * * * *
49920877 ACGTTTCATCTTGAGCTATAGTATCGTTAGCGGCGCTTACCCGAAAATGCTGCTATATATCAGCT
66 ACGTTTCATCTTGAGCTATAGCACCGTCAGCGACGCTTACCCGAAAA-GCTGCCATATATCA---
* * *
49920942 TTTAGTAGAAGCGCTGCAAAAATTTTGAACAAAACGCATCGTTTTGGCTTGACCTATAGAGGCAT
127 -TTAGTACAAGCGCCGCAAAAATTTTGAACAAAACGCATCGTTCTGGCTTGACCTATAGAGGCAT
* * * *
49921007 TAGTGGCGCTTATTTGAAAACG
191 TAGCGACGCTTACTTGAAAACA
*
49921029 CCGTTATA
1 CCGCTATA
49921037 GAGCAACTTT
Statistics
Matches: 191, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
205 101 0.53
207 1 0.01
208 3 0.02
209 3 0.02
210 1 0.01
215 2 0.01
216 1 0.01
217 79 0.41
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (212 bp):
CCGCTATATCCCGCAATTAGCGGCGCTTAACTAAAAAACGCCAAAAAATTTTAAACCGAAACGCA
ACGTTTCATCTTGAGCTATAGCACCGTCAGCGACGCTTACCCGAAAAGCTGCCATATATCATTAG
TACAAGCGCCGCAAAAATTTTGAACAAAACGCATCGTTCTGGCTTGACCTATAGAGGCATTAGCG
ACGCTTACTTGAAAACA
Found at i:49921627 original size:46 final size:46
Alignment explanation
Indices: 49921575--49921669 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
49921565 ACAAAGATAG
49921575 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATATCCCAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATATCCCAATT
* *
49921621 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATATCCCAATT
49921667 AAA
1 AAA
49921670 AGAAAATAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.42, C:0.23, G:0.02, T:0.33
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATATCCCAATT
Found at i:49926185 original size:22 final size:22
Alignment explanation
Indices: 49926160--49926282 Score: 74
Period size: 22 Copynumber: 5.4 Consensus size: 22
49926150 CCAAAATATT
49926160 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
* * * *
49926182 ATCTCCT-AA-TTAAACCAAAATATT
1 ATCTCCTAAACTT-TAGC---ATCTA
49926206 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
* * * *
49926228 ATCTCCT-AA-TTAAACCAAAATATT
1 ATCTCCTAAACTT-TAGC---ATCTA
49926252 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
49926274 ATCTCCTAA
1 ATCTCCTAA
49926283 TTAAAAGAAA
Statistics
Matches: 73, Mismatches: 16, Indels: 24
0.65 0.14 0.21
Matches are distributed among these distances:
20 4 0.05
21 8 0.11
22 29 0.40
24 20 0.27
25 8 0.11
26 4 0.05
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.35
Consensus pattern (22 bp):
ATCTCCTAAACTTTAGCATCTA
Found at i:49926212 original size:24 final size:24
Alignment explanation
Indices: 49926182--49926260 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 24
49926172 TTAGCATCTA
49926182 ATCTCCTAATTAAACCAAAATATT
1 ATCTCCTAATTAAACCAAAATATT
* * * *
49926206 ATCTCCTAAACTT-TAGC---ATCTA
1 ATCTCCT-AA-TTAAACCAAAATATT
49926228 ATCTCCTAATTAAACCAAAATATT
1 ATCTCCTAATTAAACCAAAATATT
49926252 ATCTCCTAA
1 ATCTCCTAA
49926261 ACTTTAGCAT
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 2 0.05
21 4 0.10
22 10 0.24
24 19 0.46
25 4 0.10
26 2 0.05
ACGTcount: A:0.41, C:0.24, G:0.01, T:0.34
Consensus pattern (24 bp):
ATCTCCTAATTAAACCAAAATATT
Found at i:49926295 original size:46 final size:46
Alignment explanation
Indices: 49926147--49926287 Score: 282
Period size: 46 Copynumber: 3.1 Consensus size: 46
49926137 ACAAAGATAG
49926147 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
49926193 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
49926239 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
49926285 AAA
1 AAA
49926288 AGAAAATAGA
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 95 1.00
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.34
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Found at i:49926403 original size:22 final size:21
Alignment explanation
Indices: 49926375--49926417 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
49926365 TGGTGGTTAT
49926375 TGTTTATGGTTTACGAGTTTAA
1 TGTTTATGGTTTA-GAGTTTAA
*
49926397 TGTTTATGGTTTAGGGTTTAA
1 TGTTTATGGTTTAGAGTTTAA
49926418 GATTTTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.21, C:0.02, G:0.26, T:0.51
Consensus pattern (21 bp):
TGTTTATGGTTTAGAGTTTAA
Found at i:49926705 original size:15 final size:15
Alignment explanation
Indices: 49926685--49926714 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49926675 GATATTTTAG
*
49926685 AATATAAATGTAAAT
1 AATATAAATATAAAT
49926700 AATATAAATATAAAT
1 AATATAAATATAAAT
49926715 TATTATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AATATAAATATAAAT
Found at i:49926962 original size:21 final size:20
Alignment explanation
Indices: 49926922--49926959 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
49926912 AATATATTGA
*
49926922 TGTATTTATTTTTTAAAATG
1 TGTAATTATTTTTTAAAATG
49926942 TGTAATTATTTTTTAAAA
1 TGTAATTATTTTTTAAAA
49926960 ATGCATTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
TGTAATTATTTTTTAAAATG
Found at i:49927495 original size:19 final size:19
Alignment explanation
Indices: 49927473--49927517 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
49927463 CTGTCATCTC
*
49927473 CCCCAAATCCCTAAAATTT
1 CCCCAAATCCCTAAAAGTT
* *
49927492 CCCCTAATCCCTAACAGTT
1 CCCCAAATCCCTAAAAGTT
49927511 CCCCAAA
1 CCCCAAA
49927518 CCCGACGTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.33, C:0.42, G:0.02, T:0.22
Consensus pattern (19 bp):
CCCCAAATCCCTAAAAGTT
Found at i:49927882 original size:12 final size:12
Alignment explanation
Indices: 49927865--49927889 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49927855 CGTTGAAATT
49927865 TATATATATGTA
1 TATATATATGTA
49927877 TATATATATGTA
1 TATATATATGTA
49927889 T
1 T
49927890 TAAAACTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TATATATATGTA
Found at i:49929078 original size:21 final size:21
Alignment explanation
Indices: 49929052--49929092 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
49929042 ACTTAAAACT
49929052 GAGGCTGAAGCGAGGGAAGCG
1 GAGGCTGAAGCGAGGGAAGCG
*
49929073 GAGGCTGCAGCGAGGGAAGC
1 GAGGCTGAAGCGAGGGAAGC
49929093 AGAGCAGAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.17, G:0.51, T:0.05
Consensus pattern (21 bp):
GAGGCTGAAGCGAGGGAAGCG
Found at i:49929558 original size:43 final size:43
Alignment explanation
Indices: 49929510--49929895 Score: 486
Period size: 43 Copynumber: 9.0 Consensus size: 43
49929500 AGGAAAAAGT
* * * *
49929510 GCCGCTAAAGAACATGACCTTTAGAGGCGCTCGTGGGAAAAGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGGGATAAGC
* ** * * *
49929553 GCCGCTAAA-AGTCGGGATCTATAGCGGCGATTGTGGGATAAGC
1 GCCGCTAAAGA-ACATGACCTTTAGCGGCGTTTGTGGGATAAGC
** * * *
49929596 ATCGCTAAAGAACATGACCTTTAGAGGCGTTTTTGAGATAAGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGGGATAAGC
* * *
49929639 GCCGCTAAAGAACATGAGCTGTAGCGGTGTTTGTGGGATAAGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGGGATAAGC
* *
49929682 GCCGCTAAAGAACATGAGCTTTAGCGGTGTTTGTGGGATAAGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGGGATAAGC
* * *
49929725 GCCGCTAAAGAACATGAGCTTTAGCGGTGTTTGTGGAATAAGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGGGATAAGC
* *
49929768 GCCACTAAAGAACATGAGCTTTAGCGGCGTTTGTGGGATAAGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGGGATAAGC
**
49929811 GCTACTAAAGAACATGACCTTTAGCGGCGTTTGTGGGATAAGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGGGATAAGC
* * *
49929854 GCCGCTAAATAACATGACCTTTAGCAGCGTTTGTGGAATAAG
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGGGATAAG
49929896 TGCCTCAAAA
Statistics
Matches: 301, Mismatches: 40, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
42 1 0.00
43 299 0.99
44 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGGGATAAGC
Found at i:49929562 original size:87 final size:86
Alignment explanation
Indices: 49929455--49929877 Score: 215
Period size: 86 Copynumber: 4.9 Consensus size: 86
49929445 AGCGGCGTTT
* * * * **
49929455 GTGAGAAAAGTGCCACTAAAAGTCAAAATCTATTA-CGGCGTTTTTAGGAAAAAGTGCCGCTAAA
1 GTGAGAAAAGCGCCGCTAAAAGTCAAAATCTA-TAGCGGCGATTGT-GGAAAAAGCACCGCTAAA
49929519 GAACATGACCTTTAGAGGCGCTC
64 GAACATGACCTTTAGAGGCGCTC
* *** * * *
49929542 GTGGGAAAAGCGCCGCTAAAAGTCGGGATCTATAGCGGCGATTGTGGGATAAGCATCGCTAAAGA
1 GTGAGAAAAGCGCCGCTAAAAGTCAAAATCTATAGCGGCGATTGTGGAAAAAGCACCGCTAAAGA
* *
49929607 ACATGACCTTTAGAGGCGTTT
66 ACATGACCTTTAGAGGCGCTC
* * * ** * * * * * * *
49929628 TTGAGATAAGCGCCGCT-AAAGAACATGAGCTGTAGCGGTGTTTGTGGGATAAGCGCCGCTAAAG
1 GTGAGAAAAGCGCCGCTAAAAG-TCAAAATCTATAGCGGCGATTGTGGAAAAAGCACCGCTAAAG
* * * * *
49929692 AACATGAGCTTTAGCGGTGTTT
65 AACATGACCTTTAGAGGCGCTC
* * * ** * * * * * * *
49929714 GTGGGATAAGCGCCGCT-AAAGAACATGAGCTTTAGCGGTGTTTGTGGAATAAGCGCCACTAAAG
1 GTGAGAAAAGCGCCGCTAAAAG-TCAAAATCTATAGCGGCGATTGTGGAAAAAGCACCGCTAAAG
* * * *
49929778 AACATGAGCTTTAGCGGCGTTT
65 AACATGACCTTTAGAGGCGCTC
* * ** * ** * * * * * * *
49929800 GTGGGATAAGCGCTACT-AAAGAACATGACCTTTAGCGGCGTTTGTGGGATAAGCGCCGCTAAAT
1 GTGAGAAAAGCGCCGCTAAAAG-TCAAAATCTATAGCGGCGATTGTGGAAAAAGCACCGCTAAAG
49929864 AACATGACCTTTAG
65 AACATGACCTTTAG
49929878 CAGCGTTTGT
Statistics
Matches: 290, Mismatches: 44, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
85 4 0.01
86 252 0.87
87 34 0.12
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24
Consensus pattern (86 bp):
GTGAGAAAAGCGCCGCTAAAAGTCAAAATCTATAGCGGCGATTGTGGAAAAAGCACCGCTAAAGA
ACATGACCTTTAGAGGCGCTC
Found at i:49931821 original size:50 final size:50
Alignment explanation
Indices: 49931759--49931944 Score: 210
Period size: 51 Copynumber: 3.7 Consensus size: 50
49931749 TCATGCAATA
* * *
49931759 CACGTAGAAGCCTTCACATAGTACTACACACGTGATCAAGCTTTTCGGTT
1 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAGCTTTTCGGTT
* * *
49931809 CACGTAGTAGCCTACACATAGTACTACACACGTGACCAAGGCCTTCCGGTT
1 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCAA-GCTTTTCGGTT
* * **** * *
49931860 CACGTAGTAGCCTGCACTTAGTACTACACATGTGACCGTTATTTATCGATA
1 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAGCTTT-TCGGTT
* *
49931911 CACGTAGTAGCCTGCACTTAGTATTACACACGTG
1 CACGTAGTAGCCTGCACATAGTACTACACACGTG
49931945 TTCGCAGACA
Statistics
Matches: 116, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
50 38 0.33
51 78 0.67
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (50 bp):
CACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAGCTTTTCGGTT
Found at i:49939432 original size:50 final size:51
Alignment explanation
Indices: 49939373--49939503 Score: 158
Period size: 50 Copynumber: 2.6 Consensus size: 51
49939363 TCATTCGATA
* * *
49939373 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAA-GCTTTTCAG-TT
1 CACGTAGTAGCCTACACATAGTACTACACACGTGACCAAGGC-CTTCAGTTT
* * *
49939423 CACGTAGTAGCCTACGCATAGTACTATACACGTGACCAAGGCCTTCCGTTT
1 CACGTAGTAGCCTACACATAGTACTACACACGTGACCAAGGCCTTCAGTTT
* * *
49939474 CACGTAGTATCCTGCACTTAGTACTACACA
1 CACGTAGTAGCCTACACATAGTACTACACA
49939504 TTTGGCTTTT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 39 0.57
51 29 0.43
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (51 bp):
CACGTAGTAGCCTACACATAGTACTACACACGTGACCAAGGCCTTCAGTTT
Found at i:49943048 original size:17 final size:17
Alignment explanation
Indices: 49943023--49943056 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
49943013 TTAAAATCAG
*
49943023 ATTGAGAAATTTATTTA
1 ATTGAGAAATTAATTTA
*
49943040 ATTGGGAAATTAATTTA
1 ATTGAGAAATTAATTTA
49943057 TGATGTTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (17 bp):
ATTGAGAAATTAATTTA
Found at i:49944399 original size:43 final size:43
Alignment explanation
Indices: 49944351--49944434 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
49944341 TATCAGCATG
***
49944351 ATCTTGCTCAAAGTGATAGTTCCTTTTATCGACGATCAAATTT
1 ATCTTGCTCAAAGTGATAAAACCTTTTATCGACGATCAAATTT
*
49944394 ATCTTGCTCAAAGTGATAAAACTTTTTATCGACGATCAAAT
1 ATCTTGCTCAAAGTGATAAAACCTTTTATCGACGATCAAAT
49944435 AAATTCTCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (43 bp):
ATCTTGCTCAAAGTGATAAAACCTTTTATCGACGATCAAATTT
Found at i:49953892 original size:34 final size:35
Alignment explanation
Indices: 49953830--49953925 Score: 97
Period size: 34 Copynumber: 2.7 Consensus size: 35
49953820 TTATTCAAAT
* * * *
49953830 ACATATGCCAAAAGCATATATTTATACTTATCAAT-T
1 ACATATGCCAAATGCA-ACATATATACTTAT-AATCC
* *
49953866 ACATGTGCCGAATGC-ACATATATACTTATAATCC
1 ACATATGCCAAATGCAACATATATACTTATAATCC
49953900 ACATATGCCAAATGCATACATATATA
1 ACATATGCCAAATGCA-ACATATATA
49953926 TATCCAACAA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
33 3 0.06
34 25 0.51
36 21 0.43
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (35 bp):
ACATATGCCAAATGCAACATATATACTTATAATCC
Found at i:49954564 original size:76 final size:76
Alignment explanation
Indices: 49954463--49954652 Score: 195
Period size: 78 Copynumber: 2.5 Consensus size: 76
49954453 TACATTTAAC
* * *
49954463 ATTCGAATCTCACATATACCTATATAATTTCATAC-CCCATTTCAATACAAAAACTTATACATGT
1 ATTCGAATCTAACATATAACTATATAATTTCATACTCACATTTCAA-ACAAAAACTTATACATGT
* *
49954527 ACATATATACAT
65 ACACACATACAT
** * * ** *
49954539 ATTCGAATCTAACATATATACATATATAATTTTGTACTTACATTTGAAACAAGTACTTATACTTG
1 ATTCGAATCTAACATATA-AC-TATATAATTTCATACTCACATTTCAAACAAAAACTTATACATG
*
49954604 TATACACATACAT
64 TACACACATACAT
* *
49954617 TTTCGAATTTAACATAT-ACATATATAATTTCATACT
1 ATTCGAATCTAACATATAAC-TATATAATTTCATACT
49954653 TATACTCAAT
Statistics
Matches: 94, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
76 34 0.36
77 1 0.01
78 52 0.55
79 7 0.07
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (76 bp):
ATTCGAATCTAACATATAACTATATAATTTCATACTCACATTTCAAACAAAAACTTATACATGTA
CACACATACAT
Found at i:49954900 original size:78 final size:78
Alignment explanation
Indices: 49954798--49955148 Score: 616
Period size: 78 Copynumber: 4.5 Consensus size: 78
49954788 CTACTCAACA
* *
49954798 TTAACTAAATTCAA-AACTTATTCATGTATATACACATATATCTGAACTTTATATATATAAATAT
1 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATCTGAACTTTATATATATAAATAT
49954862 AACATACATACTT
66 AACATACATACTT
*
49954875 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATCAGAACTTTATATATATAAATAT
1 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATCTGAACTTTATATATATAAATAT
49954940 AACATACATACTT
66 AACATACATACTT
49954953 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATAT-TCGAACTTTATATATATAAATA
1 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATCT-GAACTTTATATATATAAATA
49955017 TAACATACATACTT
65 TAACATACATACTT
* *
49955031 TTAACTAAATTCAAGAATTTATTCATGCATATACATATATATCCGAACTTTATATATATAAATAT
1 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATCTGAACTTTATATATATAAATAT
49955096 AACATACATACTT
66 AACATACATACTT
* *
49955109 TTAACTAAATTCAAGAACTTATACATGTATATACATATAT
1 TTAACTAAATTCAAGAATTTATTCATGTATATACATATAT
49955149 TATCCACTAT
Statistics
Matches: 262, Mismatches: 9, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
77 14 0.05
78 248 0.95
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.39
Consensus pattern (78 bp):
TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATCTGAACTTTATATATATAAATAT
AACATACATACTT
Found at i:49962344 original size:19 final size:19
Alignment explanation
Indices: 49962320--49962356 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
49962310 TCTAAAACCA
49962320 AAAAAATTGTTGAAGAAGG
1 AAAAAATTGTTGAAGAAGG
49962339 AAAAAATTGTTGAAGAAG
1 AAAAAATTGTTGAAGAAG
49962357 ACTTTAGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.24, T:0.22
Consensus pattern (19 bp):
AAAAAATTGTTGAAGAAGG
Found at i:49962946 original size:19 final size:18
Alignment explanation
Indices: 49962919--49962960 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
49962909 GCATTATAAA
**
49962919 AAATTTAAAATTTTATAT
1 AAATTTAAAACCTTATAT
49962937 AAATTGTAAAACCTTATAT
1 AAATT-TAAAACCTTATAT
49962956 AAATT
1 AAATT
49962961 ATAATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (18 bp):
AAATTTAAAACCTTATAT
Found at i:49964306 original size:40 final size:40
Alignment explanation
Indices: 49964251--49964326 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
49964241 TTAAATTTCT
** *
49964251 TTTTGGATGTGCAATTTAAGCTTGTACTTAAGAGCATCTA
1 TTTTGGATGAACAATTTAAGCTCGTACTTAAGAGCATCTA
* *
49964291 TTTTGGATGAACAATTTAAGCTCGTGCTTAGGAGCA
1 TTTTGGATGAACAATTTAAGCTCGTACTTAAGAGCA
49964327 ATGTGACAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (40 bp):
TTTTGGATGAACAATTTAAGCTCGTACTTAAGAGCATCTA
Found at i:49977725 original size:51 final size:51
Alignment explanation
Indices: 49977639--49977745 Score: 187
Period size: 51 Copynumber: 2.1 Consensus size: 51
49977629 AAATTCATTT
*
49977639 TAATTACCCGATTTTACATATTTTACTTACCCATTAAACTTGAAATAGCTA
1 TAATTACCCGATTTTACATATTTTAATTACCCATTAAACTTGAAATAGCTA
*
49977690 TAATTACCCGATTTTACATATTTTAATTACTCATTAAACTTGAAATAGCTA
1 TAATTACCCGATTTTACATATTTTAATTACCCATTAAACTTGAAATAGCTA
*
49977741 CAATT
1 TAATT
49977746 CATTACCATA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.40
Consensus pattern (51 bp):
TAATTACCCGATTTTACATATTTTAATTACCCATTAAACTTGAAATAGCTA
Found at i:49978008 original size:40 final size:40
Alignment explanation
Indices: 49977961--49978072 Score: 156
Period size: 40 Copynumber: 2.8 Consensus size: 40
49977951 GCGTTTGGAC
* *
49977961 AAAAAACGCCACTAAAAATCAAGCATTAGTGGCAC-TTTT
1 AAAAAACGCCACTAAAAATCAAGCATTAGCGGCACATATT
* *
49978000 ACAAAAACGCCACTAAATATCGAGCATTAGCGGCACATATT
1 A-AAAAACGCCACTAAAAATCAAGCATTAGCGGCACATATT
*
49978041 AAAAAACGCCGCTAAAAAT-AAGCATTAGCGGC
1 AAAAAACGCCACTAAAAATCAAGCATTAGCGGC
49978073 GTTTTCCAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
39 13 0.20
40 47 0.73
41 4 0.06
ACGTcount: A:0.44, C:0.22, G:0.15, T:0.19
Consensus pattern (40 bp):
AAAAAACGCCACTAAAAATCAAGCATTAGCGGCACATATT
Found at i:49978084 original size:39 final size:40
Alignment explanation
Indices: 49977945--49978084 Score: 135
Period size: 40 Copynumber: 3.5 Consensus size: 40
49977935 AGCGGCATTT
*
49977945 TTAGCGGCGTTTGGACAAAAAACGCCACTAAAAATCAAGCA
1 TTAGCGGCGTTT-TACAAAAAACGCCACTAAAAATCAAGCA
* * * *
49977986 TTAGTGGCACTTTTAC-AAAAACGCCACTAAATATCGAGCA
1 TTAGCGGC-GTTTTACAAAAAACGCCACTAAAAATCAAGCA
* * *
49978026 TTAGCGGCACATATT--AAAAAACGCCGCTAAAAAT-AAGCA
1 TTAGCGG--CGTTTTACAAAAAACGCCACTAAAAATCAAGCA
*
49978065 TTAGCGGCGTTTTCCAAAAA
1 TTAGCGGCGTTTTACAAAAA
49978085 GCACCGCAAA
Statistics
Matches: 80, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
37 4 0.05
39 16 0.20
40 44 0.55
41 12 0.15
42 4 0.05
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.21
Consensus pattern (40 bp):
TTAGCGGCGTTTTACAAAAAACGCCACTAAAAATCAAGCA
Found at i:49978191 original size:41 final size:41
Alignment explanation
Indices: 49978145--49978261 Score: 164
Period size: 41 Copynumber: 2.9 Consensus size: 41
49978135 ATTTAGCGAC
*
49978145 GCTTTTAGCAGCGTTTTTTCAAAAGCGCCGCTAATGCTCGG
1 GCTTTTAGCGGCGTTTTTTCAAAAGCGCCGCTAATGCTCGG
* *
49978186 TCTTTTAGCGGCGTTTTTTCAAAAGCGCCGCTAATTCTCGG
1 GCTTTTAGCGGCGTTTTTTCAAAAGCGCCGCTAATGCTCGG
* * *
49978227 GCCTTTAGTGGCG-TTTTTGAAAATGCGCCGCTAAT
1 GCTTTTAGCGGCGTTTTTTCAAAA-GCGCCGCTAAT
49978262 AATAAAATTT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 9 0.13
41 59 0.87
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.34
Consensus pattern (41 bp):
GCTTTTAGCGGCGTTTTTTCAAAAGCGCCGCTAATGCTCGG
Found at i:49979326 original size:6 final size:7
Alignment explanation
Indices: 49979302--49979361 Score: 50
Period size: 7 Copynumber: 8.7 Consensus size: 7
49979292 TCAGTTTTGA
49979302 GTTTAGG
1 GTTTAGG
49979309 GTTTAGG
1 GTTTAGG
49979316 GTTTA-G
1 GTTTAGG
49979322 GTTTAGG
1 GTTTAGG
** *
49979329 ACTTGGG
1 GTTTAGG
* *
49979336 GATTGGG
1 GTTTAGG
*
49979343 GTTTAAG
1 GTTTAGG
*
49979350 GTTTAGA
1 GTTTAGG
49979357 GTTTA
1 GTTTA
49979362 CATTTTAGTG
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
6 6 0.14
7 36 0.86
ACGTcount: A:0.18, C:0.02, G:0.38, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:49979781 original size:20 final size:19
Alignment explanation
Indices: 49979756--49979827 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 19
49979746 TTTTTCGTGA
49979756 TTTAAAATTTTAAAAAGAAT
1 TTTAAAATTTTAAAAAG-AT
***
49979776 TTTAAAAGATTTT-AAATTTT
1 TTT-AAA-ATTTTAAAAAGAT
49979796 TTTAAAATTTTTAAAAAGAT
1 TTTAAAA-TTTTAAAAAGAT
*
49979816 TTTAAACTTTTA
1 TTTAAAATTTTA
49979828 TTTTTATAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
18 1 0.02
19 12 0.29
20 17 0.41
21 6 0.15
22 5 0.12
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (19 bp):
TTTAAAATTTTAAAAAGAT
Found at i:49979789 original size:10 final size:10
Alignment explanation
Indices: 49979762--49979821 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
49979752 GTGATTTAAA
49979762 ATTTTAAAAAG
1 ATTTT-AAAAG
49979773 AATTTTAAAAG
1 -ATTTTAAAAG
**
49979784 ATTTTAAATT
1 ATTTTAAAAG
*
49979794 TTTTTAAAA-
1 ATTTTAAAAG
*
49979803 TTTTTAAAAAG
1 ATTTT-AAAAG
49979814 ATTTTAAA
1 ATTTTAAA
49979822 CTTTTATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
9 5 0.12
10 22 0.54
11 9 0.22
12 5 0.12
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (10 bp):
ATTTTAAAAG
Found at i:49981974 original size:24 final size:24
Alignment explanation
Indices: 49981942--49981995 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
49981932 GGGAAAAGTA
* *
49981942 AGTTC-TTTCTGTATGTGTTGAAC
1 AGTTCATTTCTGCATGTATTGAAC
* *
49981965 GGTTCATTTCTGCATGTATTTAAC
1 AGTTCATTTCTGCATGTATTGAAC
49981989 AGTTCAT
1 AGTTCAT
49981996 CTTTCATTAG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.20, C:0.15, G:0.19, T:0.46
Consensus pattern (24 bp):
AGTTCATTTCTGCATGTATTGAAC
Found at i:49984092 original size:43 final size:43
Alignment explanation
Indices: 49984027--49984117 Score: 155
Period size: 43 Copynumber: 2.1 Consensus size: 43
49984017 GGCTCATTGT
* *
49984027 TTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTATTTAGCGGCG
1 TTTGTGGGAAAAGCGCCACTAAAGGTCTTAGTATTTAGCGGCG
*
49984070 TTTGTGGGAAAAGCGCCACTAAAGGTCTTAGTCTTTAGCGGCG
1 TTTGTGGGAAAAGCGCCACTAAAGGTCTTAGTATTTAGCGGCG
49984113 TTTGT
1 TTTGT
49984118 TTCTAAAAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.31
Consensus pattern (43 bp):
TTTGTGGGAAAAGCGCCACTAAAGGTCTTAGTATTTAGCGGCG
Found at i:49999596 original size:5 final size:5
Alignment explanation
Indices: 49999581--49999613 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
49999571 AGTTGATATA
49999581 TTATCT TTATT TTATT TTATT TTATT TTATT TT
1 TTAT-T TTATT TTATT TTATT TTATT TTATT TT
49999614 CTCAAAATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:50004255 original size:27 final size:27
Alignment explanation
Indices: 50004217--50004278 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
50004207 AGCTGCCAGT
*
50004217 ACAGT-ATATGTGGCAAAGCCACCAGTA
1 ACAGTAAT-TGTGGCAAAGCCACCAGAA
*
50004244 ATAGTAATTGTGGCAAAGCCACCAGAA
1 ACAGTAATTGTGGCAAAGCCACCAGAA
50004271 ACAGTAAT
1 ACAGTAAT
50004279 CTTCCATAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 29 0.94
28 2 0.06
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (27 bp):
ACAGTAATTGTGGCAAAGCCACCAGAA
Found at i:50004445 original size:27 final size:27
Alignment explanation
Indices: 50004406--50004525 Score: 127
Period size: 27 Copynumber: 4.5 Consensus size: 27
50004396 ACCCTAACGG
*
50004406 GGGTATTAT-GGTAATTTTACCCATCGA
1 GGGTATT-TCGGTAATTTTACCCATTGA
* *
50004433 GGGTGTTTCGGTAATTTTA-CCATTAA
1 GGGTATTTCGGTAATTTTACCCATTGA
* ** *
50004459 AGGTATTTCGAAAATTTTACCCATTGG
1 GGGTATTTCGGTAATTTTACCCATTGA
* * *
50004486 GGGTATTTCAGTAAGTTTACCTATTGA
1 GGGTATTTCGGTAATTTTACCCATTGA
50004513 GGGTATTTCGGTA
1 GGGTATTTCGGTA
50004526 TAGTTAACAA
Statistics
Matches: 74, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
26 21 0.28
27 53 0.72
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACCCATTGA
Found at i:50004475 original size:53 final size:54
Alignment explanation
Indices: 50004418--50004522 Score: 140
Period size: 53 Copynumber: 2.0 Consensus size: 54
50004408 GTATTATGGT
* * *
50004418 AATTTTACCCATCGAGGGTGTTTCGGTAATTTTACC-ATTAAAGGTATTTCGAA
1 AATTTTACCCATCGAGGGTATTTCAGTAAGTTTACCTATTAAAGGTATTTCGAA
* * * *
50004471 AATTTTACCCATTGGGGGTATTTCAGTAAGTTTACCTATTGAGGGTATTTCG
1 AATTTTACCCATCGAGGGTATTTCAGTAAGTTTACCTATTAAAGGTATTTCG
50004523 GTATAGTTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 31 0.70
54 13 0.30
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (54 bp):
AATTTTACCCATCGAGGGTATTTCAGTAAGTTTACCTATTAAAGGTATTTCGAA
Found at i:50009332 original size:16 final size:16
Alignment explanation
Indices: 50009310--50009348 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
50009300 TGAGATGTGT
* *
50009310 TTTTTTTATTTTTTTTA
1 TTTTTTT-TTGTTATTA
50009327 TTTTTTTTTGTTATTA
1 TTTTTTTTTGTTATTA
50009343 TTTTTT
1 TTTTTT
50009349 GGATTTGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (16 bp):
TTTTTTTTTGTTATTA
Found at i:50009335 original size:10 final size:9
Alignment explanation
Indices: 50009309--50009334 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
50009299 ATGAGATGTG
50009309 TTTTTTTTA
1 TTTTTTTTA
50009318 TTTTTTTTA
1 TTTTTTTTA
50009327 TTTTTTTT
1 TTTTTTTT
50009335 TGTTATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:50009349 original size:13 final size:13
Alignment explanation
Indices: 50009315--50009349 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
50009305 TGTGTTTTTT
50009315 TTATTTTTT-TTA
1 TTATTTTTTGTTA
*
50009327 TTTTTTTTTGTTA
1 TTATTTTTTGTTA
50009340 TTATTTTTTG
1 TTATTTTTTG
50009350 GATTTGTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (13 bp):
TTATTTTTTGTTA
Found at i:50019551 original size:39 final size:40
Alignment explanation
Indices: 50019421--50019557 Score: 129
Period size: 40 Copynumber: 3.5 Consensus size: 40
50019411 GGCGTTTGGA
* * * *
50019421 TAAAAAACGCCACTAAAAATTGAGCATTAGCGCCGCCTTT-
1 TAAAAAACGCCGCTAAAAA-TAAGCATTAGCGGCGCTTTTC
* * ** *
50019461 AAAAAAATGCCGCTAAAGGTAGAGCATTAGCGGCGCTTATC
1 TAAAAAACGCCGCTAAAAATA-AGCATTAGCGGCGCTTTTC
*
50019502 -CAAAAACGCCGCTAAAAATAAGCATTAGCGGCG-TTTTC
1 TAAAAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTTC
*
50019540 TAAAAAGCGCCGC-AAAAA
1 TAAAAAACGCCGCTAAAAA
50019558 GTCTAAGCCA
Statistics
Matches: 78, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
38 9 0.12
39 24 0.31
40 45 0.58
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (40 bp):
TAAAAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTTC
Found at i:50019654 original size:41 final size:40
Alignment explanation
Indices: 50019597--50019873 Score: 286
Period size: 41 Copynumber: 6.8 Consensus size: 40
50019587 TTTTTGGGGG
*
50019597 CTTTAGCGGCATTTTTGAATAAACGCCGCTAATGCTCTGGC
1 CTTTAGCGGCGTTTTTGAA-AAACGCCGCTAATGCTCTGGC
* *
50019638 CTTTAGCGGCGTTTTTGAGTAAGCGCCGCTAATGCTCTGGC
1 CTTTAGCGGCGTTTTTGA-AAAACGCCGCTAATGCTCTGGC
* * * *
50019679 CTTTAGCGACGTTTATTCAAAAGCGCCGCTAATGCTCTGTC
1 CTTTAGCGGCGTTT-TTGAAAAACGCCGCTAATGCTCTGGC
* *
50019720 TTTTAGCGGCGTTTTTGAAAAATCGCCGCTAATGCTCTGTC
1 CTTTAGCGGCGTTTTTGAAAAA-CGCCGCTAATGCTCTGGC
* * * * **
50019761 TTTTAGCGGCGTTTTTGAAGAACTACCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAC-GCCGCTAATGCTCTGGC
* * * * *
50019802 CTTTAGCGGCATTTTT-AAAGAAGCGTCGGTATTGCTGTGGC
1 CTTTAGCGGCGTTTTTGAAA-AA-CGCCGCTAATGCTCTGGC
*
50019843 CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTA
1 CTTTAGCGGCGTTTTTGAAAAA-CGCCGCTA
50019874 GTAATAATAA
Statistics
Matches: 199, Mismatches: 30, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
40 9 0.05
41 183 0.92
42 7 0.04
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTGAAAAACGCCGCTAATGCTCTGGC
Found at i:50019826 original size:123 final size:122
Alignment explanation
Indices: 50019597--50019873 Score: 326
Period size: 123 Copynumber: 2.2 Consensus size: 122
50019587 TTTTTGGGGG
*
50019597 CTTTAGCGGCATTTTTGAATAAACGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTGAGTAAGC
1 CTTTAGCGGCGTTTTTGAA-AAACGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTGAGTAAGC
* * * * * *
50019662 GCCGCTAATGCTCTGGCCTTTAGCGACGTTTATTCAAAAGCGCCGCTAATGCTCTGTC
65 ACCGCTAATGCTCAGACCTTTAGCGACATTTATTAAAAAGCGCCGCTAATGCTCTGGC
* * *
50019720 TTTTAGCGGCGTTTTTGAAAAATCGCCGCTAATGCTCTGTCTTTTAGCGGCGTTTTTGAAG-AA-
1 CTTTAGCGGCGTTTTTGAAAAA-CGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTG-AGTAAG
* * * * * *
50019783 CTACCGCTAATGCTCAGATCTTTAGCGGCATTT-TTAAAGAAGCGTCGGTATTGCTGTGGC
64 C-ACCGCTAATGCTCAGACCTTTAGCGACATTTATTAAA-AAGCGCCGCTAATGCTCTGGC
*
50019843 CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTA
1 CTTTAGCGGCGTTTTTGAAAAA-CGCCGCTA
50019874 GTAATAATAA
Statistics
Matches: 131, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
122 8 0.06
123 121 0.92
124 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (122 bp):
CTTTAGCGGCGTTTTTGAAAAACGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTGAGTAAGCA
CCGCTAATGCTCAGACCTTTAGCGACATTTATTAAAAAGCGCCGCTAATGCTCTGGC
Found at i:50020792 original size:14 final size:15
Alignment explanation
Indices: 50020755--50020797 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
50020745 GGGGATTATA
50020755 TATGGATTT-AGGGAT
1 TATGGATTTAAGGG-T
50020770 TATGG-TTTAAGGGT
1 TATGGATTTAAGGGT
50020784 TA-GGATTTAAGGGT
1 TATGGATTTAAGGGT
50020798 CGGGTTAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.08
14 15 0.58
15 9 0.35
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.40
Consensus pattern (15 bp):
TATGGATTTAAGGGT
Found at i:50021151 original size:19 final size:19
Alignment explanation
Indices: 50021127--50021170 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
50021117 AATTATAAGA
*
50021127 AAAAATAAAATACAAAAAT
1 AAAAATAAAATAAAAAAAT
*
50021146 AAAAATGAAATAAAAAAAT
1 AAAAATAAAATAAAAAAAT
50021165 AAAAAT
1 AAAAAT
50021171 TATAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (19 bp):
AAAAATAAAATAAAAAAAT
Found at i:50021876 original size:7 final size:7
Alignment explanation
Indices: 50021864--50021964 Score: 67
Period size: 7 Copynumber: 13.4 Consensus size: 7
50021854 GATATAAGGT
50021864 TTAGGGG
1 TTAGGGG
50021871 TTAGGGG
1 TTAGGGG
*
50021878 TTAGGGAT
1 TTAGGG-G
50021886 TTAGGGG
1 TTAGGGG
* *
50021893 CTAGGAGAT
1 TTAGG-G-G
50021902 TTAGGGG
1 TTAGGGG
*
50021909 TTAAGGG
1 TTAGGGG
*
50021916 TTAGGGAT
1 TTAGGG-G
*
50021924 TTAGGGAT
1 TTAGGG-G
50021932 TTAGGGG
1 TTAGGGG
* *
50021939 CTAGGAGA
1 TTAGG-GG
50021947 TCTAGGGG
1 T-TAGGGG
50021955 TTAGGGG
1 TTAGGGG
50021962 TTA
1 TTA
50021965 CGGATTTAGG
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
7 41 0.55
8 25 0.34
9 8 0.11
ACGTcount: A:0.22, C:0.03, G:0.46, T:0.30
Consensus pattern (7 bp):
TTAGGGG
Found at i:50021889 original size:8 final size:8
Alignment explanation
Indices: 50021878--50021937 Score: 54
Period size: 8 Copynumber: 7.8 Consensus size: 8
50021868 GGGTTAGGGG
50021878 TTAGGGAT
1 TTAGGGAT
*
50021886 TTAGGG-G
1 TTAGGGAT
*
50021893 CTAGGAGAT
1 TTAGG-GAT
*
50021902 TTAGGGGT
1 TTAGGGAT
*
50021910 TAAGGG--
1 TTAGGGAT
50021916 TTAGGGAT
1 TTAGGGAT
50021924 TTAGGGAT
1 TTAGGGAT
50021932 TTAGGG
1 TTAGGG
50021938 GCTAGGAGAT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
6 5 0.12
7 4 0.10
8 28 0.68
9 4 0.10
ACGTcount: A:0.23, C:0.02, G:0.43, T:0.32
Consensus pattern (8 bp):
TTAGGGAT
Found at i:50021904 original size:16 final size:15
Alignment explanation
Indices: 50021871--50021960 Score: 94
Period size: 16 Copynumber: 5.9 Consensus size: 15
50021861 GGTTTAGGGG
50021871 TTAGGGGTTAGGGAT
1 TTAGGGGTTAGGGAT
*
50021886 TTAGGGGCTAGGAGAT
1 TTAGGGGTTAGG-GAT
50021902 TTAGGGGTTAAGGG--
1 TTAGGGGTT-AGGGAT
*
50021916 TTAGGGATTTAGGGAT
1 TTAGGG-GTTAGGGAT
*
50021932 TTAGGGGCTAGGAGAT
1 TTAGGGGTTAGG-GAT
*
50021948 CTAGGGGTTAGGG
1 TTAGGGGTTAGGG
50021961 GTTACGGATT
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
14 10 0.16
15 18 0.29
16 31 0.50
17 3 0.05
ACGTcount: A:0.22, C:0.03, G:0.46, T:0.29
Consensus pattern (15 bp):
TTAGGGGTTAGGGAT
Found at i:50021932 original size:46 final size:46
Alignment explanation
Indices: 50021868--50021982 Score: 180
Period size: 46 Copynumber: 2.5 Consensus size: 46
50021858 TAAGGTTTAG
* *
50021868 GGGTTAGGG-GTTAGGGATTTAGGGGCTAGGAGATTTAGGGGTTAA
1 GGGTTAGGGATTTAGGGATTTAGGGGCTAGGAGATCTAGGGGTTAA
*
50021913 GGGTTAGGGATTTAGGGATTTAGGGGCTAGGAGATCTAGGGGTTAG
1 GGGTTAGGGATTTAGGGATTTAGGGGCTAGGAGATCTAGGGGTTAA
*
50021959 GGGTTACGGATTTAGGG-TTTAGGG
1 GGGTTAGGGATTTAGGGATTTAGGG
50021983 TGTCAATTAA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
45 16 0.25
46 49 0.75
ACGTcount: A:0.21, C:0.03, G:0.46, T:0.30
Consensus pattern (46 bp):
GGGTTAGGGATTTAGGGATTTAGGGGCTAGGAGATCTAGGGGTTAA
Found at i:50021958 original size:23 final size:23
Alignment explanation
Indices: 50021886--50021982 Score: 108
Period size: 23 Copynumber: 4.3 Consensus size: 23
50021876 GGTTAGGGAT
50021886 TTAGGGGCTAGGAGATTTAGGGG
1 TTAGGGGCTAGGAGATTTAGGGG
* * *
50021909 TTAAGGGTTAGG-GATTTAGGGAT
1 TTAGGGGCTAGGAGATTTAGGG-G
*
50021932 TTAGGGGCTAGGAGATCTAGGGG
1 TTAGGGGCTAGGAGATTTAGGGG
* * *
50021955 TTAGGGGTTACG-GATTTAGGGT
1 TTAGGGGCTAGGAGATTTAGGGG
50021977 TTAGGG
1 TTAGGG
50021983 TGTCAATTAA
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
22 23 0.38
23 30 0.49
24 8 0.13
ACGTcount: A:0.22, C:0.04, G:0.44, T:0.30
Consensus pattern (23 bp):
TTAGGGGCTAGGAGATTTAGGGG
Found at i:50021979 original size:7 final size:7
Alignment explanation
Indices: 50021843--50021983 Score: 61
Period size: 7 Copynumber: 19.0 Consensus size: 7
50021833 TATATGATTA
50021843 TTAGGGT
1 TTAGGGT
50021850 TT-GGGAT
1 TTAGGG-T
* *
50021857 ATAAGGT
1 TTAGGGT
*
50021864 TTAGGGG
1 TTAGGGT
*
50021871 TTAGGGG
1 TTAGGGT
50021878 TTAGGGAT
1 TTAGGG-T
*
50021886 TTAGGGG
1 TTAGGGT
*
50021893 CTAGGAGAT
1 TTAGG-G-T
50021902 TTAGGGGT
1 TTA-GGGT
*
50021910 TAAGGG-
1 TTAGGGT
50021916 TTAGGGAT
1 TTAGGG-T
50021924 TTAGGGAT
1 TTAGGG-T
*
50021932 TTAGGGG
1 TTAGGGT
*
50021939 CTAGGAGAT
1 TTAGG-G-T
* *
50021948 CTAGGGG
1 TTAGGGT
*
50021955 TTAGGGG
1 TTAGGGT
*
50021962 TTACGGAT
1 TTA-GGGT
50021970 TTAGGGT
1 TTAGGGT
50021977 TTAGGGT
1 TTAGGGT
50021984 GTCAATTAAT
Statistics
Matches: 103, Mismatches: 20, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
6 8 0.08
7 52 0.50
8 33 0.32
9 8 0.08
10 2 0.02
ACGTcount: A:0.21, C:0.03, G:0.44, T:0.32
Consensus pattern (7 bp):
TTAGGGT
Found at i:50025396 original size:29 final size:30
Alignment explanation
Indices: 50025355--50025414 Score: 68
Period size: 33 Copynumber: 1.9 Consensus size: 30
50025345 GATTAGTTTA
*
50025355 TTCGGTTTAATG-TGAATAAATTATCGATT
1 TTCGATTTAATGATGAATAAATTATCGATT
*
50025384 TTCGATTTTATGTCAATGAATAAATTATCGA
1 TTCGATTTAATG---ATGAATAAATTATCGA
50025415 CGTTATATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 10 0.40
33 15 0.60
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.43
Consensus pattern (30 bp):
TTCGATTTAATGATGAATAAATTATCGATT
Found at i:50025516 original size:11 final size:11
Alignment explanation
Indices: 50025496--50025528 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
50025486 ATTGATTGAC
*
50025496 TGTCAGTGAAT
1 TGTCAATGAAT
50025507 TGTCAATGAA-
1 TGTCAATGAAT
50025517 TGTCAATGAAT
1 TGTCAATGAAT
50025528 T
1 T
50025529 ATTAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.36
Consensus pattern (11 bp):
TGTCAATGAAT
Found at i:50025609 original size:13 final size:13
Alignment explanation
Indices: 50025563--50025654 Score: 73
Period size: 13 Copynumber: 6.9 Consensus size: 13
50025553 TATAACTTAC
50025563 ATTACTTAAATAT
1 ATTACTTAAATAT
* *
50025576 ATTAATTACTAAAAT
1 ATTACTTA--AATAT
50025591 -TTACTTAAATAT
1 ATTACTTAAATAT
*
50025603 ATTACTTAAATAC
1 ATTACTTAAATAT
* *
50025616 ATTACTT-ACTAGA
1 ATTACTTAAATA-T
50025629 ATTGGA-TTAAATAT
1 ATT--ACTTAAATAT
50025643 ATTACTTAAATA
1 ATTACTTAAATA
50025655 CATGACTTAC
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
12 8 0.13
13 35 0.56
14 11 0.18
15 8 0.13
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.42
Consensus pattern (13 bp):
ATTACTTAAATAT
Found at i:50025625 original size:40 final size:39
Alignment explanation
Indices: 50025546--50025801 Score: 197
Period size: 40 Copynumber: 6.5 Consensus size: 39
50025536 TATATATTTT
* * * *
50025546 TAAAATTTA-TAACTTACATTACTTAAATATATTAATTAC
1 TAAAATTTATTAA-ATATATTACTTAAATACATTACTTAC
50025585 TAAAATTTACTTAAATATATTACTTAAATACATTACTTAC
1 TAAAATTTA-TTAAATATATTACTTAAATACATTACTTAC
* * *
50025625 TAGAATTGGATTAAATATATTACTTAAATACATGACTTAC
1 TAAAATT-TATTAAATATATTACTTAAATACATTACTTAC
**
50025665 TAAAA-TTA--AAGTATATATTACATTACTTACATTACTTAC
1 TAAAATTTATTAA--ATATATTAC-TTAAATACATTACTTAC
* * *
50025704 TAAAA--TA-T-ATTACATTACTTAAATATATTACTTAC
1 TAAAATTTATTAAATATATTACTTAAATACATTACTTAC
* * * *
50025739 AAAAATTTA-TAACTTACATTACTTAAATATATTACATTAC
1 TAAAATTTATTAA-ATATATTACTTAAATACATTAC-TTAC
* *
50025779 TTAAACTTTATATATATATATTA
1 -TAAAATTTAT-TAAATATATTA
50025802 AAAATTTAGC
Statistics
Matches: 179, Mismatches: 23, Indels: 27
0.78 0.10 0.12
Matches are distributed among these distances:
35 18 0.10
36 9 0.05
37 3 0.02
38 14 0.08
39 51 0.28
40 65 0.36
41 11 0.06
42 6 0.03
43 2 0.01
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.42
Consensus pattern (39 bp):
TAAAATTTATTAAATATATTACTTAAATACATTACTTAC
Found at i:50025719 original size:22 final size:21
Alignment explanation
Indices: 50025691--50025781 Score: 72
Period size: 22 Copynumber: 4.6 Consensus size: 21
50025681 ATTACATTAC
50025691 TTACATTACTTACTAAAATATA
1 TTACATTACTTA-TAAAATATA
50025713 TTACATTAC-T-T-AAATATA
1 TTACATTACTTATAAAATATA
*
50025731 TTAC-TTAC--A-AAAATTTA
1 TTACATTACTTATAAAATATA
* *
50025748 TAAC-TTACATTACTTAAATATA
1 TTACATTAC-TTA-TAAAATATA
50025770 TTACATTACTTA
1 TTACATTACTTA
50025782 AACTTTATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
17 17 0.30
18 11 0.20
19 1 0.02
20 1 0.02
21 1 0.02
22 21 0.38
23 4 0.07
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.43
Consensus pattern (21 bp):
TTACATTACTTATAAAATATA
Found at i:50025744 original size:17 final size:17
Alignment explanation
Indices: 50025695--50025756 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
50025685 CATTACTTAC
*
50025695 ATTACTTACTAAAATAT
1 ATTACTTACAAAAATAT
**
50025712 ATTACATTACTTAAATAT
1 ATTAC-TTACAAAAATAT
*
50025730 ATTACTTACAAAAATTT
1 ATTACTTACAAAAATAT
*
50025747 ATAACTTACA
1 ATTACTTACA
50025757 TTACTTAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
17 23 0.59
18 16 0.41
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTACTTACAAAAATAT
Found at i:50025780 original size:18 final size:18
Alignment explanation
Indices: 50025695--50025783 Score: 101
Period size: 18 Copynumber: 4.8 Consensus size: 18
50025685 CATTACTTAC
*
50025695 ATTAC-TTACTAAAATAT
1 ATTACATTACTTAAATAT
50025712 ATTACATTACTTAAATAT
1 ATTACATTACTTAAATAT
**
50025730 ATTAC-TTACAAAAATTTAT
1 ATTACATTACTTAAA--TAT
50025749 AACTTACATTACTTAAATAT
1 -A-TTACATTACTTAAATAT
50025769 ATTACATTACTTAAA
1 ATTACATTACTTAAA
50025784 CTTTATATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
17 12 0.20
18 30 0.49
19 4 0.07
20 4 0.07
21 4 0.07
22 7 0.11
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTACATTACTTAAATAT
Found at i:50025916 original size:27 final size:27
Alignment explanation
Indices: 50025886--50025941 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
50025876 ATAATTGTAA
*
50025886 ATGTTATTTTTAAATATTAAAACCTAT
1 ATGTTATTTTAAAATATTAAAACCTAT
50025913 ATGTTATTTTAAAATATTAAAACCTAT
1 ATGTTATTTTAAAATATTAAAACCTAT
50025940 AT
1 AT
50025942 TTTTAATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (27 bp):
ATGTTATTTTAAAATATTAAAACCTAT
Found at i:50026008 original size:121 final size:120
Alignment explanation
Indices: 50025883--50026183 Score: 417
Period size: 121 Copynumber: 2.5 Consensus size: 120
50025873 AAAATAATTG
* *
50025883 TAAATGTTAT-TTTTAAATATTAAAACCTATATGTTATTTTAAAATATTAAAACCTATATTTTTA
1 TAAATGTTATATTTTAAA-AAT-AAACCTAAATGTTATTTTAAAATATTAAAACCTATATTTTTA
50025947 ATATATCACCCCATATATGGTATGGATATATAACCTATATTTCAATTTTATTGTCAA
64 ATATATCACCCCATATATGGTATGGATATATAACCTATATTTCAATTTTATTGTCAA
* *** *
50026004 TAAATTTTATAATTTTAAAAATAATTGTAAATGTTATTTTTAAATATTAAAACCTATATTTTTAA
1 TAAATGTTAT-ATTTTAAAAATAAACCTAAATGTTATTTTAAAATATTAAAACCTATATTTTTAA
*
50026069 TATATCACCCCATATATGGTATGGATATATAACCTATATTTCAATTTTATTAG-AAA
65 TATATCACCCCATATATGGTATGGATATATAACCTATATTTCAATTTTATT-GTCAA
* *** * *
50026125 TAAATTTTATAATTTTAAAAATAATTGTAAATGCTATTTTTAAATATTAAAACCTATAT
1 TAAATGTTAT-ATTTTAAAAATAAACCTAAATGTTATTTTAAAATATTAAAACCTATAT
50026184 GTTATTTTTA
Statistics
Matches: 168, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
121 158 0.94
122 3 0.02
123 7 0.04
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (120 bp):
TAAATGTTATATTTTAAAAATAAACCTAAATGTTATTTTAAAATATTAAAACCTATATTTTTAAT
ATATCACCCCATATATGGTATGGATATATAACCTATATTTCAATTTTATTGTCAA
Found at i:50026192 original size:27 final size:27
Alignment explanation
Indices: 50026159--50026210 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
50026149 TTGTAAATGC
50026159 TATTTTTAAATATTAAAACCTATATGT
1 TATTTTTAAATATTAAAACCTATATGT
50026186 TATTTTTAAATATTAAAACCTATAT
1 TATTTTTAAATATTAAAACCTATAT
50026211 TTCTAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (27 bp):
TATTTTTAAATATTAAAACCTATATGT
Found at i:50026296 original size:25 final size:25
Alignment explanation
Indices: 50026267--50026548 Score: 194
Period size: 25 Copynumber: 11.2 Consensus size: 25
50026257 TCAATTTTTA
*
50026267 ATAACTTACATAATACACAACTTAC
1 ATAACTTACATAATACATAACTTAC
* *
50026292 ATAACTTAAATAGAAACACATAA--TAC
1 ATAACTTACAT---AATACATAACTTAC
** *
50026318 ATAACTTTGATAACTAACATTA--TAC
1 ATAACTTACATAA-T-ACATAACTTAC
* *
50026343 ACAACTTACATAATACATTACTTAC
1 ATAACTTACATAATACATAACTTAC
* * *
50026368 TTAACATACATAGCCTACATAACTTAC
1 ATAACTTACATA--ATACATAACTTAC
* ** * *
50026395 ATAATTTACATGTTACATATCTTAA
1 ATAACTTACATAATACATAACTTAC
**
50026420 ATAACTTACATAATACATAACTTTG
1 ATAACTTACATAATACATAACTTAC
* * *
50026445 ATAACTAACATTATACACAACTTAC
1 ATAACTTACATAATACATAACTTAC
* ** *
50026470 ATAATTTACATGTTACATAACTTAA
1 ATAACTTACATAATACATAACTTAC
**
50026495 ATAACTTACATAATACATAACTTTG
1 ATAACTTACATAATACATAACTTAC
* * * *
50026520 ACAACTAACATTATACACAACTTAC
1 ATAACTTACATAATACATAACTTAC
50026545 ATAA
1 ATAA
50026549 TACATTACTT
Statistics
Matches: 197, Mismatches: 51, Indels: 18
0.74 0.19 0.07
Matches are distributed among these distances:
23 8 0.04
24 1 0.01
25 150 0.76
26 12 0.06
27 19 0.10
28 7 0.04
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.32
Consensus pattern (25 bp):
ATAACTTACATAATACATAACTTAC
Found at i:50026395 original size:9 final size:9
Alignment explanation
Indices: 50026267--50026628 Score: 152
Period size: 9 Copynumber: 43.0 Consensus size: 9
50026257 TCAATTTTTA
50026267 ATAACTTAC
1 ATAACTTAC
50026276 ATAA--TAC
1 ATAACTTAC
*
50026283 ACAACTTAC
1 ATAACTTAC
*
50026292 ATAACTTAA
1 ATAACTTAC
***
50026301 ATAGAAACAC
1 ATA-ACTTAC
50026311 ATAA--TAC
1 ATAACTTAC
**
50026318 ATAACTTTG
1 ATAACTTAC
*
50026327 ATAACTAAC
1 ATAACTTAC
*
50026336 ATTA--TAC
1 ATAACTTAC
*
50026343 ACAACTTAC
1 ATAACTTAC
50026352 ATAA--TAC
1 ATAACTTAC
*
50026359 ATTACTTAC
1 ATAACTTAC
* *
50026368 TTAACATAC
1 ATAACTTAC
* *
50026377 ATAGCCTAC
1 ATAACTTAC
50026386 ATAACTTAC
1 ATAACTTAC
*
50026395 ATAATTTAC
1 ATAACTTAC
*
50026404 AT--GTTAC
1 ATAACTTAC
* *
50026411 ATATCTTAA
1 ATAACTTAC
50026420 ATAACTTAC
1 ATAACTTAC
50026429 ATAA--TAC
1 ATAACTTAC
**
50026436 ATAACTTTG
1 ATAACTTAC
*
50026445 ATAACTAAC
1 ATAACTTAC
*
50026454 ATTA--TAC
1 ATAACTTAC
*
50026461 ACAACTTAC
1 ATAACTTAC
*
50026470 ATAATTTAC
1 ATAACTTAC
*
50026479 AT--GTTAC
1 ATAACTTAC
*
50026486 ATAACTTAA
1 ATAACTTAC
50026495 ATAACTTAC
1 ATAACTTAC
50026504 ATAA--TAC
1 ATAACTTAC
**
50026511 ATAACTTTG
1 ATAACTTAC
* *
50026520 ACAACTAAC
1 ATAACTTAC
*
50026529 ATTA--TAC
1 ATAACTTAC
*
50026536 ACAACTTAC
1 ATAACTTAC
50026545 ATAA--TAC
1 ATAACTTAC
*
50026552 ATTACTTAC
1 ATAACTTAC
50026561 ATAACTTAAAGC
1 ATAACTT--A-C
50026573 ATAA--TA-
1 ATAACTTAC
50026579 ATAACTTAC
1 ATAACTTAC
50026588 ATAA--TAC
1 ATAACTTAC
*
50026595 ACAACTTAC
1 ATAACTTAC
*
50026604 ATAGCTTAC
1 ATAACTTAC
*
50026613 ACAA--TAC
1 ATAACTTAC
50026620 ATAACTTAC
1 ATAACTTAC
50026629 CCGTGCAATT
Statistics
Matches: 252, Mismatches: 68, Indels: 66
0.65 0.18 0.17
Matches are distributed among these distances:
6 4 0.02
7 74 0.29
8 3 0.01
9 159 0.63
10 6 0.02
11 1 0.00
12 5 0.02
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:50026478 original size:75 final size:75
Alignment explanation
Indices: 50026383--50026570 Score: 308
Period size: 75 Copynumber: 2.5 Consensus size: 75
50026373 ATACATAGCC
* * *
50026383 TACATAACTTACATAATTTACATGTTACATATCTTAAATAACTTACATAATACATAACTTTGATA
1 TACACAACTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTGACA
50026448 ACTAACATTA
66 ACTAACATTA
50026458 TACACAACTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTGACA
1 TACACAACTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTGACA
50026523 ACTAACATTA
66 ACTAACATTA
*
50026533 TACACAACTTACATAA--TACATTACTTACATAACTTAAA
1 TACACAACTTACATAATTTACA-T-GTTACATAACTTAAA
50026571 GCATAATAAT
Statistics
Matches: 107, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
73 4 0.04
74 1 0.01
75 102 0.95
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (75 bp):
TACACAACTTACATAATTTACATGTTACATAACTTAAATAACTTACATAATACATAACTTTGACA
ACTAACATTA
Found at i:50026505 original size:118 final size:119
Alignment explanation
Indices: 50026267--50026514 Score: 317
Period size: 118 Copynumber: 2.1 Consensus size: 119
50026257 TCAATTTTTA
50026267 ATAACTTACATAATACACAACTTACATAACTTAAATAGAAACACATAATACATAACTTTGATAAC
1 ATAACTTACATAATACACAACTTACATAACTTAAATAGAAACACATAATACATAACTTTGATAAC
* * *
50026332 TAACATTATACACAACTTACATAATACATTACTTACTTAACATACATAGCCTAC
66 TAACATTATACACAACTTACATAATACATTACTTACATAACATAAATAACCTAC
** ** * ***
50026386 ATAACTTACATAATTTACATGTTACATATCTTAAATA-ACTTACATAATACATAACTTTGATAAC
1 ATAACTTACATAATACACAACTTACATAACTTAAATAGAAACACATAATACATAACTTTGATAAC
* * *
50026450 TAACATTATACACAACTTACATAATTTACA-T-GTTACATAACTTAAATAACTTAC
66 TAACATTATACACAACTTACATAA--TACATTACTTACATAACATAAATAACCTAC
50026504 ATAA--TACATAA
1 ATAACTTACATAA
50026515 CTTTGACAAC
Statistics
Matches: 113, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
116 7 0.06
118 69 0.61
119 33 0.29
120 4 0.04
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (119 bp):
ATAACTTACATAATACACAACTTACATAACTTAAATAGAAACACATAATACATAACTTTGATAAC
TAACATTATACACAACTTACATAATACATTACTTACATAACATAAATAACCTAC
Found at i:50032163 original size:66 final size:66
Alignment explanation
Indices: 50032020--50032189 Score: 209
Period size: 66 Copynumber: 2.6 Consensus size: 66
50032010 AGCAAGTTAC
* * *
50032020 ACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGC
1 ACAACTTAAAGCAGATGCAACAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGC
50032085 T
66 T
* *
50032086 ACAACTGAAAGCAGATGCAACAGCGAGAGAAGCTGAGGTTCAATGAAAG-TATGAAGAACTCCAG
1 ACAACTTAAAGCAGATGCAACAGCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAG
50032150 C-
65 CT
* * ** * *
50032151 AGCAGCTTAAAGCAAATGCGGCAGCAAGAGAAGCAGAGG
1 A-CAACTTAAAGCAGATGCAACAGCGAGAGAAGCTGAGG
50032190 CGGTAGCAAG
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
65 1 0.01
66 85 0.94
67 4 0.04
ACGTcount: A:0.42, C:0.18, G:0.27, T:0.13
Consensus pattern (66 bp):
ACAACTTAAAGCAGATGCAACAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGC
T
Found at i:50032192 original size:21 final size:21
Alignment explanation
Indices: 50032171--50032272 Score: 87
Period size: 21 Copynumber: 4.9 Consensus size: 21
50032161 AGCAAATGCG
* *
50032171 GCAGCAAGAGAAGCAGAGGCG
1 GCAGCGAGAGAAGCAGAGGCT
* * * *
50032192 GTAGCAAGAGAAGTACAGGCT
1 GCAGCGAGAGAAGCAGAGGCT
* * *
50032213 ACAGCGAGGGAAGCAGAAGCT
1 GCAGCGAGAGAAGCAGAGGCT
** *
50032234 AAAGTGAGAGAAGCAGAGGCT
1 GCAGCGAGAGAAGCAGAGGCT
*
50032255 GCAGCGAGGGAAGCAGAG
1 GCAGCGAGAGAAGCAGAG
50032273 CAGCGTTAAA
Statistics
Matches: 62, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.38, C:0.16, G:0.40, T:0.06
Consensus pattern (21 bp):
GCAGCGAGAGAAGCAGAGGCT
Found at i:50032729 original size:86 final size:86
Alignment explanation
Indices: 50032580--50032830 Score: 326
Period size: 86 Copynumber: 2.9 Consensus size: 86
50032570 ATCTGCCAAA
* * * *
50032580 TTTAGTGGTGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCT-TTAGCGGTGTTTGTA-GGGA
1 TTTAGTGGTGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTG-AGGGGA
50032643 AAGCACCGCTAAAGATTAGGTTC
64 AAGCACCGCTAAAGATTAGGTTC
* *
50032666 TTTAGTGGTGTTTGTGGTCAAAGCGCAGCTATAGATCAGGGTCTATTGCGGCATTTGAGGGGAAA
1 TTTAGTGGTGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGGGAAA
**
50032731 GTGCCGCTAAAGATTAGGTTC
66 GCACCGCTAAAGATTAGGTTC
* ** * ***
50032752 TTTCGTGGCATTTGTGGTCAAAGTGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGAAAAAA
1 TTTAGTGGTGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGGGAAA
*
50032817 ACACCGCTAAAGAT
66 GCACCGCTAAAGAT
50032831 CCTGATCTTT
Statistics
Matches: 143, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
85 1 0.01
86 140 0.98
87 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (86 bp):
TTTAGTGGTGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGGGAAA
GCACCGCTAAAGATTAGGTTC
Found at i:50032776 original size:43 final size:43
Alignment explanation
Indices: 50032594--50032911 Score: 178
Period size: 43 Copynumber: 7.4 Consensus size: 43
50032584 GTGGTGTTTT
* **
50032594 TGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGTGTTTG
1 TGGTCAAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCATTTG
* * * * **
50032637 TAGG-GAAAGCACCGCTAAAGATTAGGTTCTTTAGTGGTGTTTG
1 T-GGTCAAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCATTTG
* * *
50032680 TGGTCAAAGCGCAGCTATAGATCAGGGTCTATT-GCGGCATTTG
1 TGGTCAAAGCGCCGCTAAAGATTAGGGTCT-TTAGCGGCATTTG
* ** * * * *
50032723 AGGGGAAAGTGCCGCTAAAGATTAGGTTCTTTCGTGGCATTTG
1 TGGTCAAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCATTTG
* * * *
50032766 TGGTCAAAGTGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTG
1 TGGTCAAAGCGCCGCTAAAGATTAGGGTCT-TTAGCGGCATTTG
* *** * * *** * ** *
50032809 AGAAAAAAACACCGCTAAAGATCCTGATCTTTAGCGGCGCTTC
1 TGGTCAAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCATTTG
** * * *
50032852 T-CCCAAAAACGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTG
1 TGGTC-AAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCATTTG
*
50032895 TGCT-AGAAGCGCCGCTA
1 TGGTCA-AAGCGCCGCTA
50032912 TAGAACAACA
Statistics
Matches: 210, Mismatches: 56, Indels: 18
0.74 0.20 0.06
Matches are distributed among these distances:
42 7 0.03
43 196 0.93
44 7 0.03
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (43 bp):
TGGTCAAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCATTTG
Found at i:50033058 original size:22 final size:22
Alignment explanation
Indices: 50033030--50033073 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
50033020 CTGCGGCACT
*
50033030 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
50033052 AAAAAGCGCCGCTAAAAGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
50033074 TTTTGGTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.27, G:0.20, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:50034599 original size:15 final size:15
Alignment explanation
Indices: 50034555--50034606 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
50034545 TAATGAGTAC
50034555 TCGTGGTACGTGAGG
1 TCGTGGTACGTGAGG
* *
50034570 TCATGGTA-TTCGAGG
1 TCGTGGTACGT-GAGG
50034585 TCGTGGTACGTGAGG
1 TCGTGGTACGTGAGG
*
50034600 GCGTGGT
1 TCGTGGT
50034607 GGACATCATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 1 0.03
15 28 0.93
16 1 0.03
ACGTcount: A:0.13, C:0.13, G:0.44, T:0.29
Consensus pattern (15 bp):
TCGTGGTACGTGAGG
Found at i:50037737 original size:29 final size:29
Alignment explanation
Indices: 50037695--50037877 Score: 204
Period size: 29 Copynumber: 6.3 Consensus size: 29
50037685 GTGCTAAGCA
** *
50037695 ATGGTCAGAACCATCCCTTTTCATATTTG
1 ATGGTCATCACCATCCCTTTTCATATTCG
*
50037724 ATGGTCATCACCATCCCTTGTCATATTCG
1 ATGGTCATCACCATCCCTTTTCATATTCG
** * *
50037753 ATGGTTGTCACCAACCCTTTTCATATTCA
1 ATGGTCATCACCATCCCTTTTCATATTCG
** *
50037782 ATGGTCAAAACTATCCCTTTTCATATTCG
1 ATGGTCATCACCATCCCTTTTCATATTCG
* *
50037811 ATGGCCGTCACCATCCCTTTTCATATTCG
1 ATGGTCATCACCATCCCTTTTCATATTCG
* * * *
50037840 ATGGCCGTCACCATCTCTTTTCATATTCA
1 ATGGTCATCACCATCCCTTTTCATATTCG
*
50037869 ATGGGCATC
1 ATGGTCATC
50037878 GATACATCGT
Statistics
Matches: 129, Mismatches: 25, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 129 1.00
ACGTcount: A:0.22, C:0.28, G:0.13, T:0.36
Consensus pattern (29 bp):
ATGGTCATCACCATCCCTTTTCATATTCG
Found at i:50037839 original size:87 final size:87
Alignment explanation
Indices: 50037693--50037872 Score: 270
Period size: 87 Copynumber: 2.1 Consensus size: 87
50037683 GTGTGCTAAG
* * * *
50037693 CAATGGTCAGAACCATCCCTTTTCATATTTGATGGTCATCACCATCCCTTGTCATATTCGATGGT
1 CAATGGTCAAAACCATCCCTTTTCATATTCGATGGCCATCACCATCCCTTGTCATATTCGATGGC
*
50037758 TGTCACCAACCCTTTTCATATT
66 CGTCACCAACCCTTTTCATATT
* * *
50037780 CAATGGTCAAAACTATCCCTTTTCATATTCGATGGCCGTCACCATCCCTTTTCATATTCGATGGC
1 CAATGGTCAAAACCATCCCTTTTCATATTCGATGGCCATCACCATCCCTTGTCATATTCGATGGC
* *
50037845 CGTCACCATCTCTTTTCATATT
66 CGTCACCAACCCTTTTCATATT
50037867 CAATGG
1 CAATGG
50037873 GCATCGATAC
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 83 1.00
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (87 bp):
CAATGGTCAAAACCATCCCTTTTCATATTCGATGGCCATCACCATCCCTTGTCATATTCGATGGC
CGTCACCAACCCTTTTCATATT
Found at i:50039804 original size:43 final size:43
Alignment explanation
Indices: 50039715--50039919 Score: 288
Period size: 43 Copynumber: 4.8 Consensus size: 43
50039705 AAACCAATCC
* *
50039715 CTTTAGCGGCACTTTTCCCA-AAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAA
* *
50039757 CTTTAGCGGCACTTTTCCCACAAACGCCGCTAAAGACTAAGAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAA
* * * *
50039800 CTTTAGCAGCGCTTTTCCCGA-AAACACCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTCCC-ACAAACGCCGCTAAAGACCAAGAA
* *
50039843 CTTTAGCGGCGCTTTTCCCACAAACGCCACTGAAGACCAAGAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAA
*
50039886 CTTTAGCGGCGCTTTTCCCACAAACGTCGCTAAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
50039920 AACATGACTT
Statistics
Matches: 143, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
42 21 0.15
43 121 0.85
44 1 0.01
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAA
Found at i:50040143 original size:18 final size:18
Alignment explanation
Indices: 50040120--50040178 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
50040110 TTAAAACAAG
50040120 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
50040138 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
50040155 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
50040173 TTACAT
1 TTACAT
50040179 AAGTTCTGTT
Statistics
Matches: 28, Mismatches: 10, Indels: 6
0.64 0.23 0.14
Matches are distributed among these distances:
16 4 0.14
17 7 0.25
18 13 0.46
19 4 0.14
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:50044264 original size:16 final size:16
Alignment explanation
Indices: 50044243--50044274 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
50044233 AAACAAAGGG
50044243 TTTGAGATGCCTAAAC
1 TTTGAGATGCCTAAAC
50044259 TTTGAGATGCCTAAAC
1 TTTGAGATGCCTAAAC
50044275 AAAGGGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (16 bp):
TTTGAGATGCCTAAAC
Found at i:50045087 original size:14 final size:14
Alignment explanation
Indices: 50045062--50045097 Score: 63
Period size: 14 Copynumber: 2.5 Consensus size: 14
50045052 CCCTAACCCG
50045062 ACCCTGAATCCCTAA
1 ACCCT-AATCCCTAA
50045077 ACCCTAATCCCTAA
1 ACCCTAATCCCTAA
50045091 ACCCTAA
1 ACCCTAA
50045098 CTCGACCCCG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.36, C:0.42, G:0.03, T:0.19
Consensus pattern (14 bp):
ACCCTAATCCCTAA
Found at i:50045994 original size:18 final size:17
Alignment explanation
Indices: 50045971--50046018 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 17
50045961 GATTAACTAA
50045971 ATATAAAATTATTTTTGG
1 ATATAAAATTATTTTT-G
50045989 ATATAAAATTATTTTTG
1 ATATAAAATTATTTTTG
*
50046006 TTAATAAAATTAT
1 AT-ATAAAATTAT
50046019 CAATATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 2 0.07
18 26 0.93
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
ATATAAAATTATTTTTG
Found at i:50046521 original size:41 final size:41
Alignment explanation
Indices: 50046457--50046574 Score: 173
Period size: 41 Copynumber: 2.9 Consensus size: 41
50046447 TTATTAGCGG
*
50046457 CGCTTTTTCAAAAACGTCGCTAAAGGCCCGAGCATTACCGA
1 CGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTACCGA
* * * *
50046498 CGCTTTTTCAAAAACGCCACTAAAGGTCCTAGCATTAGCGA
1 CGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTACCGA
* *
50046539 TGCCTTTTCAAAAACGCCGCTAAAGGCCCGAGCATT
1 CGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCATT
50046575 GGAAAAACGC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.23
Consensus pattern (41 bp):
CGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTACCGA
Found at i:50046590 original size:29 final size:29
Alignment explanation
Indices: 50046548--50046603 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
50046538 ATGCCTTTTC
*
50046548 AAAAACGCCGCTAAAGGCCCGAGCATTGG
1 AAAAACGCCGCTAAAGGCCCAAGCATTGG
*
50046577 AAAAACGCCGCTAAAGGCTCAAGCATT
1 AAAAACGCCGCTAAAGGCCCAAGCATT
50046604 AGCGTCGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.38, C:0.27, G:0.23, T:0.12
Consensus pattern (29 bp):
AAAAACGCCGCTAAAGGCCCAAGCATTGG
Found at i:50046620 original size:70 final size:70
Alignment explanation
Indices: 50046507--50046644 Score: 208
Period size: 70 Copynumber: 2.0 Consensus size: 70
50046497 ACGCTTTTTC
*
50046507 AAAAACGCCACTAAAGGTCCTAGCATTAGCGATGCCTTTTCAAAAACGCCGCTAAAGGCCCGAGC
1 AAAAACGCCACTAAAGGTCCAAGCATTAGCGATGCCTTTTCAAAAACGCCGCTAAAGGCCCGAGC
50046572 ATTGG
66 ATTGG
* * *
50046577 AAAAACGCCGCTAAAGG-CTCAAGCATTAGCG-TCGCTTTTTCAAAAACGTCGCTAAAGGCCCGA
1 AAAAACGCCACTAAAGGTC-CAAGCATTAGCGAT-GCCTTTTCAAAAACGCCGCTAAAGGCCCGA
50046640 GCATT
64 GCATT
50046645 AGCGGCGCTT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
69 2 0.03
70 60 0.97
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.20
Consensus pattern (70 bp):
AAAAACGCCACTAAAGGTCCAAGCATTAGCGATGCCTTTTCAAAAACGCCGCTAAAGGCCCGAGC
ATTGG
Found at i:50046634 original size:41 final size:41
Alignment explanation
Indices: 50046577--50046678 Score: 150
Period size: 41 Copynumber: 2.5 Consensus size: 41
50046567 CGAGCATTGG
* *
50046577 AAAAACGCCGCTAAAGGCTCAAGCATTAGCGTCGCTTTTTC
1 AAAAACGCCGCTAAAGGCCCAAGCATTAGCGGCGCTTTTTC
* * *
50046618 AAAAACGTCGCTAAAGGCCCGAGCATTAGCGGCGCTTTTTT
1 AAAAACGCCGCTAAAGGCCCAAGCATTAGCGGCGCTTTTTC
*
50046659 AAAAACGCCGCTAAATGCCC
1 AAAAACGCCGCTAAAGGCCC
50046679 CCAAAACTCA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGGCCCAAGCATTAGCGGCGCTTTTTC
Found at i:50046663 original size:111 final size:111
Alignment explanation
Indices: 50046466--50046678 Score: 300
Period size: 111 Copynumber: 1.9 Consensus size: 111
50046456 GCGCTTTTTC
* * * *
50046466 AAAAACGTCGCTAAAGGCCCGAGCATTACCGACGCTTTTTCAAAAACGCCACTAAAGGTCCTAGC
1 AAAAACGCCGCTAAAGGCCCAAGCATTACCGACGCTTTTTCAAAAACGCCACTAAAGGCCCGAGC
*
50046531 ATTAGCGATGCCTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTGG
66 ATTAGCGACGCCTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTGG
* * * * *
50046577 AAAAACGCCGCTAAAGGCTCAAGCATTAGCGTCGCTTTTTCAAAAACGTCGCTAAAGGCCCGAGC
1 AAAAACGCCGCTAAAGGCCCAAGCATTACCGACGCTTTTTCAAAAACGCCACTAAAGGCCCGAGC
* * * *
50046642 ATTAGCGGCGCTTTTTTAAAAACGCCGCTAAATGCCC
66 ATTAGCGACGCCTTTTCAAAAACGCCGCTAAAGGCCC
50046679 CCAAAACTCA
Statistics
Matches: 88, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
111 88 1.00
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (111 bp):
AAAAACGCCGCTAAAGGCCCAAGCATTACCGACGCTTTTTCAAAAACGCCACTAAAGGCCCGAGC
ATTAGCGACGCCTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTGG
Found at i:50046786 original size:39 final size:38
Alignment explanation
Indices: 50046726--50046847 Score: 118
Period size: 40 Copynumber: 3.1 Consensus size: 38
50046716 TTTGCGACGC
* * * * *
50046726 TTTTCAAAAAACACCGTTAATGCTTATTTTTAGCTGTG
1 TTTTCAAAAAGCGCCGCTAATGCTTATTTTTAGCGGCG
* **
50046764 TTTTCCAAAAAGCGCCGCTAATGCTCGACCTTTAGCGGCG
1 TTTT-CAAAAAGCGCCGCTAATGCT-TATTTTTAGCGGCG
* *
50046804 TTTTTATAAAAGCGCCGCTAATGCTTGATTTTTAGTGGCG
1 TTTTCA-AAAAGCGCCGCTAATGCTT-ATTTTTAGCGGCG
50046844 TTTT
1 TTTT
50046848 TTGTCCAAAC
Statistics
Matches: 67, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
38 4 0.06
39 18 0.27
40 45 0.67
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.38
Consensus pattern (38 bp):
TTTTCAAAAAGCGCCGCTAATGCTTATTTTTAGCGGCG
Found at i:50046865 original size:41 final size:40
Alignment explanation
Indices: 50046771--50046848 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
50046761 GTGTTTTCCA
50046771 AAAAGCGCCGCTAATGCTCGACCTTTAGCGGCGTTTTTAT
1 AAAAGCGCCGCTAATGCTCGACCTTTAGCGGCGTTTTTAT
* ** *
50046811 AAAAGCGCCGCTAATGCTTGATTTTTAGTGGCGTTTTT
1 AAAAGCGCCGCTAATGCTCGACCTTTAGCGGCGTTTTT
50046849 TGTCCAAACG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.35
Consensus pattern (40 bp):
AAAAGCGCCGCTAATGCTCGACCTTTAGCGGCGTTTTTAT
Found at i:50054937 original size:70 final size:72
Alignment explanation
Indices: 50054823--50054973 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
50054813 GGGGAATCAT
* *
50054823 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-TCATTTCAAATATACAATG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
50054887 GATATCG
66 GATATCG
***
50054894 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
50054958 GATATCG
66 GATATCG
50054965 CACTTAGCA
1 CACTTAGCA
50054974 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 28 0.38
71 46 0.62
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (72 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
GATATCG
Found at i:50055077 original size:104 final size:103
Alignment explanation
Indices: 50054893--50055115 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
50054883 AATGGATATC
50054893 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
50054958 GATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
50054996 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
50055061 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
65 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
50055100 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
50055116 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 17 0.15
104 94 0.84
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:50055477 original size:29 final size:29
Alignment explanation
Indices: 50055444--50055507 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
50055434 TAATCCACCA
50055444 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
50055473 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
50055503 CCCAA
1 CCCAA
50055508 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:50055481 original size:30 final size:30
Alignment explanation
Indices: 50055451--50055507 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
50055441 CCACCCAACT
50055451 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
50055480 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
50055508 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:50062493 original size:71 final size:72
Alignment explanation
Indices: 50062377--50062529 Score: 254
Period size: 71 Copynumber: 2.1 Consensus size: 72
50062367 CGGGGAATCA
* *
50062377 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-TCATTTCAAATATACAAT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAAT
50062441 GGATATC
66 GGATATC
***
50062448 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAAT
50062513 GGATATC
66 GGATATC
50062520 GCACTTAGCA
1 GCACTTAGCA
50062530 CCACCAATGA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 46 0.61
72 30 0.39
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (72 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAAT
GGATATC
Found at i:50062574 original size:104 final size:104
Alignment explanation
Indices: 50062448--50062671 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
50062438 AATGGATATC
50062448 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
50062513 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
50062552 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
50062617 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
50062656 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
50062672 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:50063033 original size:29 final size:29
Alignment explanation
Indices: 50063000--50063063 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
50062990 TAATCCACCA
50063000 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
50063029 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
50063059 CCCAA
1 CCCAA
50063064 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:50063037 original size:30 final size:30
Alignment explanation
Indices: 50063007--50063063 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
50062997 CCACCCAACT
50063007 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
50063036 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
50063064 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:50064232 original size:12 final size:12
Alignment explanation
Indices: 50064217--50064244 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
50064207 GTCTTGAATC
50064217 AAGTCATTCATT
1 AAGTCATTCATT
50064229 AAGTCATTCATT
1 AAGTCATTCATT
50064241 AAGT
1 AAGT
50064245 GTTTTCTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (12 bp):
AAGTCATTCATT
Found at i:50064270 original size:14 final size:13
Alignment explanation
Indices: 50064251--50064395 Score: 79
Period size: 13 Copynumber: 11.2 Consensus size: 13
50064241 AAGTGTTTTC
50064251 TTTCATCAAGTGTT
1 TTTCATCAAGT-TT
50064265 TTTCATCAAGTTCT
1 TTTCATCAAGTT-T
50064279 TTT-ATCAAGTTT
1 TTTCATCAAGTTT
* * *
50064291 TTAATTACCAATTTT
1 TT--TCATCAAGTTT
* *
50064306 TTTTATTAAG-TT
1 TTTCATCAAGTTT
*
50064318 TTGCATCAAGTTCT
1 TTTCATCAAGTT-T
*
50064332 TTT--T-AAG-AT
1 TTTCATCAAGTTT
* *
50064341 TTTCGTCAAGTCT
1 TTTCATCAAGTTT
50064354 TTTCATCAAG-TT
1 TTTCATCAAGTTT
*
50064366 TTCCATCAAGTTT
1 TTTCATCAAGTTT
*
50064379 TTAATCATTAAGTTT
1 TT--TCATCAAGTTT
50064394 TT
1 TT
50064396 CAATTAAGCT
Statistics
Matches: 102, Mismatches: 16, Indels: 25
0.71 0.11 0.17
Matches are distributed among these distances:
9 4 0.04
11 4 0.04
12 26 0.25
13 29 0.28
14 19 0.19
15 20 0.20
ACGTcount: A:0.25, C:0.14, G:0.09, T:0.52
Consensus pattern (13 bp):
TTTCATCAAGTTT
Found at i:50064385 original size:12 final size:12
Alignment explanation
Indices: 50064251--50064385 Score: 76
Period size: 12 Copynumber: 10.7 Consensus size: 12
50064241 AAGTGTTTTC
50064251 TTTCATCAAGTGTT
1 TTTCATCAA--GTT
50064265 TTTCATCAAGTT
1 TTTCATCAAGTT
*
50064277 CTTTTATCAAGTT
1 -TTTCATCAAGTT
* *
50064290 TTTAATTACCAATTTT
1 TTTCA-T--CAA-GTT
* *
50064306 TTTTATTAAGTT
1 TTTCATCAAGTT
*
50064318 TTGCATCAAGTT
1 TTTCATCAAGTT
* *
50064330 CTTT--TTAAGAT
1 -TTTCATCAAGTT
*
50064341 TTTCGTCAAGTCT
1 TTTCATCAAGT-T
50064354 TTTCATCAAGTT
1 TTTCATCAAGTT
*
50064366 TTCCATCAAGTT
1 TTTCATCAAGTT
*
50064378 TTTAATCA
1 TTTCATCA
50064386 TTAAGTTTTT
Statistics
Matches: 94, Mismatches: 18, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
10 3 0.03
11 5 0.05
12 40 0.43
13 27 0.29
14 9 0.10
15 4 0.04
16 6 0.06
ACGTcount: A:0.25, C:0.15, G:0.09, T:0.51
Consensus pattern (12 bp):
TTTCATCAAGTT
Found at i:50065208 original size:22 final size:20
Alignment explanation
Indices: 50065157--50065210 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
50065147 AAAGCTGAGC
*
50065157 TTATTTTAATTAATTTTTCT
1 TTATTTTATTTAATTTTTCT
*
50065177 TTATATTTATTTAAATTTTTTT
1 TTAT-TTTATTT-AATTTTTCT
50065199 ATTATTTTATTT
1 -TTATTTTATTT
50065211 TTAGCTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 4 0.14
21 6 0.21
22 15 0.52
23 4 0.14
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (20 bp):
TTATTTTATTTAATTTTTCT
Found at i:50066498 original size:115 final size:113
Alignment explanation
Indices: 50066296--50066508 Score: 349
Period size: 115 Copynumber: 1.9 Consensus size: 113
50066286 AAGATCGACT
*
50066296 TAAGGCTGCTTCTAACAGATATAAATCCTACACAGATCTTAAAAGAAGATATTGAGTTTGATGTG
1 TAAGGCTGCTTCTAACAGATATAAATCCTACACAGATCTTAAAAAAAGATATTGAGTTTGATGTG
* *
50066361 GGGGATCGGATTTTTCTTAAGGTTTTTCCGTGAAAAAAAGTTTTAAGG
66 GGGGATCAGATTTTTCTTAAGGTTTCTCCGTGAAAAAAAGTTTTAAGG
50066409 TAAGGCTGCTTCTAACAGATATAAATCCTAC-CTAGATCTTAAGAGAAAAGATATTGAGTTTGAT
1 TAAGGCTGCTTCTAACAGATATAAATCCTACAC-AGATCTTAA-A-AAAAGATATTGAGTTTGAT
50066473 GTGGGGGATCA-AGTTTTTCTTAAGGTTTCTCCGTGA
63 GTGGGGGATCAGA-TTTTTCTTAAGGTTTCTCCGTGA
50066509 GAAAGGTTTT
Statistics
Matches: 93, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
112 1 0.01
113 40 0.43
114 2 0.02
115 50 0.54
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (113 bp):
TAAGGCTGCTTCTAACAGATATAAATCCTACACAGATCTTAAAAAAAGATATTGAGTTTGATGTG
GGGGATCAGATTTTTCTTAAGGTTTCTCCGTGAAAAAAAGTTTTAAGG
Done.