Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 191 of 202
Found at i:58231890 original size:14 final size:14
Alignment explanation
Indices: 58231868--58231903 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
58231858 CATGCATGTT
58231868 ATAAAATAATAATA
1 ATAAAATAATAATA
*
58231882 ATAATATAATAATA
1 ATAAAATAATAATA
*
58231896 ATAGAATA
1 ATAAAATA
58231904 GTATAACATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
ATAAAATAATAATA
Found at i:58234354 original size:199 final size:200
Alignment explanation
Indices: 58233898--58234437 Score: 554
Period size: 192 Copynumber: 2.8 Consensus size: 200
58233888 AAATTAAAAC
* * ** * * * *
58233898 TCATAATCTAGCAAAATCTACATTATAGGGCTATTAGTAATAGATAACAACCTGTACTTGACGAT
1 TCATAATCCAGCAAAATCAACATTATAGGGCTATTAACAATGGATAACAACTTGTACTTGCCAAT
* * * * * * *
58233963 GATCAATTAACA-A--AT-ACTGATC-CTTAATTGAGAGCTAA-ATTAATG-CTGATTTTACTGA
66 GATCAATCAACACATGTTGATTGATCTC-TAATTGAGAGCCAAGA-TAATGTC-GACTTTGCTAA
** * * * * * * *
58234021 ATTATGAGTCTAGTTTTCCTTTTATTGCCATGCAATCATTAGTTGATGAAGAG-------ATAAA
128 ATTATGACCCTAATTTTCCTTTCATCGGCATACAATCTTTAGTTGATGAAGAGAAAAAAAAAAAA
58234079 AACTAGGT
193 AACTAGGT
* ** *
58234087 TCATAATCTAGCAAAATCAGTATTATAGGGCTATTAGCAATGGATAACAACTTGTACTTGCCAAT
1 TCATAATCCAGCAAAATCAACATTATAGGGCTATTAACAATGGATAACAACTTGTACTTGCCAAT
* * *
58234152 GATC-ATCAACGCATGTTGATTGATCTCTAATTGAGAGCCAAGATAATGTCGGCTTTGCTGAATT
66 GATCAATCAACACATGTTGATTGATCTCTAATTGAGAGCCAAGATAATGTCGACTTTGCTAAATT
*
58234216 ATGACCCTAGTTTTCCTTTCATCGGCATACAATCTTTAGTTGATGAAGAGAAAAAAAAAAAAAAC
131 ATGACCCTAATTTTCCTTTCATCGGCATACAATCTTTAGTTGATGAAGAGAAAAAAAAAAAAAAC
58234281 TAGGT
196 TAGGT
* * * * *
58234286 TCATAATCCAGCAAAGTGAACATTATGGGGCTATTAACAATGGATAGCAACTTGTA-TTTCCAAA
1 TCATAATCCAGCAAAATCAACATTATAGGGCTATTAACAATGGATAACAACTTGTACTTGCC-AA
**
58234350 TGATCAATCAACACATGTTGATTGATCTCTAATTGAGAGCCAATTTAATGTCGACTTTGCTAAAT
65 TGATCAATCAACACATGTTGATTGATCTCTAATTGAGAGCCAAGATAATGTCGACTTTGCTAAAT
** *
58234415 TATGAGTCTAATTTTTCTTTCAT
130 TATGACCCTAATTTTCCTTTCAT
58234438 TTACAAGCAA
Statistics
Matches: 293, Mismatches: 42, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
188 5 0.02
189 62 0.21
191 1 0.00
192 78 0.27
193 3 0.01
198 4 0.01
199 67 0.23
200 73 0.25
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (200 bp):
TCATAATCCAGCAAAATCAACATTATAGGGCTATTAACAATGGATAACAACTTGTACTTGCCAAT
GATCAATCAACACATGTTGATTGATCTCTAATTGAGAGCCAAGATAATGTCGACTTTGCTAAATT
ATGACCCTAATTTTCCTTTCATCGGCATACAATCTTTAGTTGATGAAGAGAAAAAAAAAAAAAAC
TAGGT
Found at i:58235401 original size:2 final size:2
Alignment explanation
Indices: 58235394--58235420 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
58235384 ACCTATAATC
58235394 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
58235421 GGGTAAACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:58235561 original size:31 final size:31
Alignment explanation
Indices: 58235486--58235567 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
58235476 CAACTATGAA
* *
58235486 AATTTTTAATTTAGTCACTAACATTTTAGAT
1 AATTTTTAATTTGGTCACTCACATTTTAGAT
** *
58235517 AATTACTATTTTGGTCACTCACATTTTAGAT
1 AATTTTTAATTTGGTCACTCACATTTTAGAT
** *
58235548 CGTTTTTAGTTTGGTCACTC
1 AATTTTTAATTTGGTCACTC
58235568 TCTATTAAAT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.48
Consensus pattern (31 bp):
AATTTTTAATTTGGTCACTCACATTTTAGAT
Found at i:58240372 original size:43 final size:42
Alignment explanation
Indices: 58240263--58240372 Score: 102
Period size: 44 Copynumber: 2.5 Consensus size: 42
58240253 TTTTAAAGAG
58240263 TAAAAATATTATAAAATTATT--TTTTTACATTTTTATACTTTT
1 TAAAAAT-TTA-AAAATTATTAATTTTTACATTTTTATACTTTT
* * *
58240305 TAAATAATTTTAATAA-TATGTAATTTTTA-ATATTTTTTATTTTT
1 TAAA-AA-TTTAAAAATTAT-TAATTTTTACAT-TTTTATACTTTT
58240349 TAAAAATTTAAAAATTAATTAATT
1 TAAAAATTTAAAAATT-ATTAATT
58240373 GCTGATGTGA
Statistics
Matches: 56, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
41 3 0.05
42 15 0.27
43 15 0.27
44 23 0.41
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (42 bp):
TAAAAATTTAAAAATTATTAATTTTTACATTTTTATACTTTT
Found at i:58241878 original size:177 final size:184
Alignment explanation
Indices: 58241580--58242089 Score: 678
Period size: 193 Copynumber: 2.8 Consensus size: 184
58241570 AGAGTTGGAC
* * * * *
58241580 CCAAGTTAATGTCGACTTTGCTGAATTATGAGTCTAGTTTTCCTTTCATTGGCACGCAACCATTA
1 CCAAGTTAATGTTGACTTTGTTGAATTATGAGTCTAGTTTTCCTTTCATTAGCATGCAATCATTA
*
58241645 GTTGATGAAAAGATAAAAACTAGGATCATAATCTAGCAAAGTCAGCATTATAGGGCTATTAGCAA
66 GTTGATGAAGAGATAAAAACTAGGATCATAATCTAGCAAAGTCAGCATTATAGGGCTATTAGCAA
* *
58241710 CGGATGGCAA-T-TTG-T-TC-TT-GC-CATGTTGATTGATCTCTAATTGAGAG
131 CGGATAGCAATTATTGATATCATTAACACATGTTGATTGATCTCTAATTGAGAG
* *
58241757 CCAAGTTAATGTTGGCTTTGTTGAATTATGAGTCTAGTTTTCCTTTCATTAGCTTGCAATCATTA
1 CCAAGTTAATGTTGACTTTGTTGAATTATGAGTCTAGTTTTCCTTTCATTAGCATGCAATCATTA
* * *
58241822 GTTGATGAAGAGATAAAAACTAGGCTCATAATCGAGCAAAGTCAGCATTCTAGGGCTATTAGCAA
66 GTTGATGAAGAGATAAAAACTAGGATCATAATCTAGCAAAGTCAGCATTATAGGGCTATTAGCAA
* *
58241887 CGGACAACAACTTGTACTTGCCAATGATCAATTAACACATGTTGATTGATCTCTAATTGAGAG
131 CGGATAGCAA--T-TA-TTG---AT-ATC-ATTAACACATGTTGATTGATCTCTAATTGAGAG
* *
58241950 CCAAGTTAATTTTGACTTTGCTTCG--TTATGAGTCTAGTTTTCCTTTCATTAGCATACAATCAT
1 CCAAGTTAATGTTGACTTTG-TT-GAATTATGAGTCTAGTTTTCCTTTCATTAGCATGCAATCAT
* * *
58242013 TATTTGATGAAGAGATAAAAACTAGGGTCATAATCTAGCAAAGTCAACATTATAGGGCTATTAGC
64 TAGTTGATGAAGAGATAAAAACTAGGATCATAATCTAGCAAAGTCAGCATTATAGGGCTATTAGC
58242078 AACGGATAGCAA
129 AACGGATAGCAA
58242090 CCTGTATTTG
Statistics
Matches: 289, Mismatches: 26, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
177 126 0.44
181 1 0.00
183 3 0.01
187 1 0.00
189 2 0.01
191 2 0.01
192 1 0.00
193 150 0.52
194 2 0.01
195 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (184 bp):
CCAAGTTAATGTTGACTTTGTTGAATTATGAGTCTAGTTTTCCTTTCATTAGCATGCAATCATTA
GTTGATGAAGAGATAAAAACTAGGATCATAATCTAGCAAAGTCAGCATTATAGGGCTATTAGCAA
CGGATAGCAATTATTGATATCATTAACACATGTTGATTGATCTCTAATTGAGAG
Found at i:58242192 original size:193 final size:193
Alignment explanation
Indices: 58241731--58242192 Score: 636
Period size: 193 Copynumber: 2.4 Consensus size: 193
58241721 TTGTTCTTGC
* *
58241731 CATGTTGATTGATCTCTAATTGAGAGCCAAGTTAATGTTGGCTTTGTTGAATTATGAGTCTAGTT
1 CATGTTGATTGATCTCTAATTGAGAGCCAAGTTAATGTTGACTTTGCTGAATTATGAGTCTAGTT
* *
58241796 TTCCTTTCATTAGCTTGCAATCATTAGTTGATGAAGAGATAAAAACTAGGCTCATAATCGAGCAA
66 TTCCTTTCATTAGCATACAATCATTAGTTGATGAAGAGATAAAAACTAGGCTCATAATCGAGCAA
* * * * *
58241861 AGTCAGCATTCTAGGGCTATTAGCAACGGACAACAACTTGTACTTGCCAATGATCAATTAACA
131 AGTCAACATTATAGGGCTATTAGCAACGGACAACAACCTGTACTTGCAAATGATCAATCAACA
* ***
58241924 CATGTTGATTGATCTCTAATTGAGAGCCAAGTTAATTTTGACTTTGCTTCGTTATGAGTCTAGTT
1 CATGTTGATTGATCTCTAATTGAGAGCCAAGTTAATGTTGACTTTGCTGAATTATGAGTCTAGTT
* * *
58241989 TTCCTTTCATTAGCATACAATCATTATTTGATGAAGAGATAAAAACTAGGGTCATAATCTAGCAA
66 TTCCTTTCATTAGCATACAATCATTAGTTGATGAAGAGATAAAAACTAGGCTCATAATCGAGCAA
* * * *
58242054 AGTCAACATTATAGGGCTATTAGCAACGGATAGCAACCTGTATTTGTAAATGATCAATCAACA
131 AGTCAACATTATAGGGCTATTAGCAACGGACAACAACCTGTACTTGCAAATGATCAATCAACA
** * * * * ** * *
58242117 TGTGTTGATTGATCTCTAATTGAGAACTAATTTAATGTCGACTTCACTGAATTATAAGTCTAATT
1 CATGTTGATTGATCTCTAATTGAGAGCCAAGTTAATGTTGACTTTGCTGAATTATGAGTCTAGTT
**
58242182 TTTTTTTCATT
66 TTCCTTTCATT
58242193 TGCAAGTAAC
Statistics
Matches: 233, Mismatches: 36, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
193 233 1.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (193 bp):
CATGTTGATTGATCTCTAATTGAGAGCCAAGTTAATGTTGACTTTGCTGAATTATGAGTCTAGTT
TTCCTTTCATTAGCATACAATCATTAGTTGATGAAGAGATAAAAACTAGGCTCATAATCGAGCAA
AGTCAACATTATAGGGCTATTAGCAACGGACAACAACCTGTACTTGCAAATGATCAATCAACA
Found at i:58244563 original size:2 final size:2
Alignment explanation
Indices: 58244556--58244580 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
58244546 AATAAATCAT
58244556 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
58244581 CAATCTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:58247670 original size:241 final size:241
Alignment explanation
Indices: 58247164--58248424 Score: 1822
Period size: 241 Copynumber: 5.3 Consensus size: 241
58247154 CTCTAACAAT
* * * *
58247164 TAGATTGATTGAAATTGACTATGATCAATCTATTAATTAGTACCCATTTATCTAGTTTTAACACA
1 TAGATCGATTGAAACTGACCATGATCAATCTATTAATTAGTACCCATTTATCTAGTTTTAACAAA
* * *
58247229 TATAAGATGCTTTCCAATGCTCATTGCTTTATAATGTCAACTTTTCTGGATTATGAGCCTAATTT
66 TATAAGATGCTTTCCAATGCTCGTAGCTTTATAATGTCAACTTTGCTGGATTATGAGCCTAATTT
* * *
58247294 TTATTTC-T--T--T-GCATGCAAATGAAAGGAACATTAGACTCATAATTTAGCAAAGTCGACAT
131 TCATTTCTTCATCATCGCATGCAAATGAAAGGAAAATTAGACTCATAATTCAGCAAAGTCGACAT
*
58247353 TAATTTGGCTCTCAATTAAGGATCAACATTTATTAGATAAACAAAC
196 TAATTTGGCTCTCAATTAAGGATCAGCATTTATTAGATAAACAAAC
* * *
58247399 TAGATCGATTGAAACCGACCATGATCAATCTATTAATTAGTACCCGTTTATCTAGTTTTAACACA
1 TAGATCGATTGAAACTGACCATGATCAATCTATTAATTAGTACCCATTTATCTAGTTTTAACAAA
* * *
58247464 TATAAGATGCTTTCCAATGCTTGTGGCTTTATAATGACAACTTTGCTGGATTATGAGCCTAATTT
66 TATAAGATGCTTTCCAATGCTCGTAGCTTTATAATGTCAACTTTGCTGGATTATGAGCCTAATTT
* * * * *
58247529 TCATTTCTTCATCATCAG-ATGCAAATAAAAGGAAAGTTAGACTCGTAATTTAGCAAAGTCGATA
131 TCATTTCTTCATCATC-GCATGCAAATGAAAGGAAAATTAGACTCATAATTCAGCAAAGTCGACA
* *
58247593 TTAATTTGACTCTAAATTAAGGATC-GACATTTATTAGATAAACAAAC
195 TTAATTTGGCTCTCAATTAAGGATCAG-CATTTATTAGATAAACAAAC
58247640 TAGATCGATTGAAACTGACCATGATCAATCTATTAATTAGTACCCATTTATCTAGTTTTAACAAA
1 TAGATCGATTGAAACTGACCATGATCAATCTATTAATTAGTACCCATTTATCTAGTTTTAACAAA
* * * * * * * *
58247705 TATAAGATGCTTTCTAATGCTCGTAGCCTTATAATGTCAATTTTGTTGGATTGTGAACGTAGTTT
66 TATAAGATGCTTTCCAATGCTCGTAGCTTTATAATGTCAACTTTGCTGGATTATGAGCCTAATTT
* * * * *
58247770 TCATTTCTTCATCATTGCATGCAAATGAAAGGAAAACTAAACTCATAATTCAACAAAGTCAACAT
131 TCATTTCTTCATCATCGCATGCAAATGAAAGGAAAATTAGACTCATAATTCAGCAAAGTCGACAT
*
58247835 TAATTTGGCTCTCAATTAAGGATCAGCTTTTATTAGATAAACAAAC
196 TAATTTGGCTCTCAATTAAGGATCAGCATTTATTAGATAAACAAAC
* * * *
58247881 TAAATCGATTGAAACCGACCACGATCAATCTATTAATTAGCACCCATTTATCTAGTTTTAACAAA
1 TAGATCGATTGAAACTGACCATGATCAATCTATTAATTAGTACCCATTTATCTAGTTTTAACAAA
*
58247946 TATAAGATGCTTTCCAATACTCGTAGCTTTATAATGTCAACTTTGCTGGATTATGAGCCTAATTT
66 TATAAGATGCTTTCCAATGCTCGTAGCTTTATAATGTCAACTTTGCTGGATTATGAGCCTAATTT
*
58248011 TCATTTCATCATCATCGCATGCAAATGAAAGGAAAATTAGACTCATAATTCAGCAAAGTCGACAT
131 TCATTTCTTCATCATCGCATGCAAATGAAAGGAAAATTAGACTCATAATTCAGCAAAGTCGACAT
*
58248076 TAATTTGACTCTCAATTAAGGATCAGCATTTATTAGATAAACAAAC
196 TAATTTGGCTCTCAATTAAGGATCAGCATTTATTAGATAAACAAAC
* * *
58248122 TCGGTCGATTGAAA-TCGACCATGATCAATCCATTAATTAGTACCCATTTATCTAGTTTTAACAA
1 TAGATCGATTGAAACT-GACCATGATCAATCTATTAATTAGTACCCATTTATCTAGTTTTAACAA
* * * * * * * * *
58248186 ATATAAGATGCTTTCTAATGCTTGTAGCCTTATAATGTCAATTTTGTTGGATTGTGAACGTAGTT
65 ATATAAGATGCTTTCCAATGCTCGTAGCTTTATAATGTCAACTTTGCTGGATTATGAGCCTAATT
* * * *
58248251 TTCATTTCTTCATCATTGCATGCAAATGAAAGGAAAACTAAACTCATAATTCAGCAAAGTCAACA
130 TTCATTTCTTCATCATCGCATGCAAATGAAAGGAAAATTAGACTCATAATTCAGCAAAGTCGACA
* * *
58248316 TTAATTTGGCTTTCAATTAAGCATCAGCTTTTATTAGATAAACAAAC
195 TTAATTTGGCTCTCAATTAAGGATCAGCATTTATTAGATAAACAAAC
* *
58248363 TAAATCGATT-AAGACTGACCATGATCCATCTATTAATTAGTACCCATTTATCTAGTTTTAAC
1 TAGATCGATTGAA-ACTGACCATGATCAATCTATTAATTAGTACCCATTTATCTAGTTTTAAC
58248425 TATTTTCTAA
Statistics
Matches: 915, Mismatches: 98, Indels: 20
0.89 0.09 0.02
Matches are distributed among these distances:
235 126 0.14
236 1 0.00
238 1 0.00
240 4 0.00
241 780 0.85
242 3 0.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (241 bp):
TAGATCGATTGAAACTGACCATGATCAATCTATTAATTAGTACCCATTTATCTAGTTTTAACAAA
TATAAGATGCTTTCCAATGCTCGTAGCTTTATAATGTCAACTTTGCTGGATTATGAGCCTAATTT
TCATTTCTTCATCATCGCATGCAAATGAAAGGAAAATTAGACTCATAATTCAGCAAAGTCGACAT
TAATTTGGCTCTCAATTAAGGATCAGCATTTATTAGATAAACAAAC
Found at i:58249976 original size:17 final size:17
Alignment explanation
Indices: 58249938--58249976 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
58249928 GTATGAATCG
58249938 ATTTAAAGATTTTAATT
1 ATTTAAAGATTTTAATT
*
58249955 TTTTAAAGAATTTT-ATT
1 ATTTAAAG-ATTTTAATT
58249972 ATTTA
1 ATTTA
58249977 TAACTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (17 bp):
ATTTAAAGATTTTAATT
Found at i:58256397 original size:14 final size:16
Alignment explanation
Indices: 58256368--58256408 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
58256358 TAATTTTTAA
58256368 TATTTTTGAAACTTAT
1 TATTTTTGAAACTTAT
*
58256384 T-TTTTTGTAA-TTAT
1 TATTTTTGAAACTTAT
58256398 TATTTTATGAA
1 TATTTT-TGAA
58256409 TTTCTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
14 5 0.24
15 12 0.57
16 4 0.19
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.61
Consensus pattern (16 bp):
TATTTTTGAAACTTAT
Found at i:58257177 original size:23 final size:22
Alignment explanation
Indices: 58257151--58257199 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
58257141 AATTCAGGGT
58257151 TAATATTTGATACACTAGCAGTG
1 TAATATTT-ATACACTAGCAGTG
* * *
58257174 TAATCTTTTTCCACTAGCAGTG
1 TAATATTTATACACTAGCAGTG
58257196 TAAT
1 TAAT
58257200 TTTTTTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (22 bp):
TAATATTTATACACTAGCAGTG
Found at i:58257217 original size:25 final size:22
Alignment explanation
Indices: 58257163--58257205 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
58257153 ATATTTGATA
58257163 CACTAGCAGTGTAATCTTTTTC
1 CACTAGCAGTGTAATCTTTTTC
*
58257185 CACTAGCAGTGTAATTTTTTT
1 CACTAGCAGTGTAATCTTTTT
58257206 TTTCCACTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (22 bp):
CACTAGCAGTGTAATCTTTTTC
Found at i:58264916 original size:16 final size:16
Alignment explanation
Indices: 58264878--58264916 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
58264868 ATGCCTATTC
58264878 TATTATATATAATTTAA
1 TATT-TATATAATTTAA
* *
58264895 TTTTTATATAATTTGA
1 TATTTATATAATTTAA
58264911 TATTTA
1 TATTTA
58264917 AACTTTTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TATTTATATAATTTAA
Found at i:58265210 original size:20 final size:20
Alignment explanation
Indices: 58265172--58265217 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
58265162 CTCTGACACT
*
58265172 AAAACAAAAACAAAGCTGATG
1 AAAA-AAAAACAAAACTGATG
*
58265193 AAAAAAAAATAAAACTGATG
1 AAAAAAAAACAAAACTGATG
58265213 AAAAA
1 AAAAA
58265218 TAGGTGATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.70, C:0.09, G:0.11, T:0.11
Consensus pattern (20 bp):
AAAAAAAAACAAAACTGATG
Found at i:58265482 original size:4 final size:4
Alignment explanation
Indices: 58265473--58265497 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
58265463 GGGAAGGGAA
58265473 AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG A
58265498 GAAGCATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:58265527 original size:14 final size:14
Alignment explanation
Indices: 58265483--58265534 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
58265473 AAAGAAAGAA
* *
58265483 AGAAAGAAAGAAAG
1 AGAAGGAAAGAGAG
* *
58265497 AGAAGCATAATAGAG
1 AGAAGGA-AAGAGAG
*
58265512 AGAGGGAAAGAGAG
1 AGAAGGAAAGAGAG
58265526 AGAAGGAAA
1 AGAAGGAAA
58265535 AAATAAGTAG
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 19 0.66
15 10 0.34
ACGTcount: A:0.60, C:0.02, G:0.35, T:0.04
Consensus pattern (14 bp):
AGAAGGAAAGAGAG
Found at i:58265918 original size:49 final size:50
Alignment explanation
Indices: 58265813--58265921 Score: 120
Period size: 49 Copynumber: 2.2 Consensus size: 50
58265803 AAGAATGTTT
** * *
58265813 TATTTTTTTATGTAATTTATTTGTTATGTGTGTTTTAGGTTGATTAGATA
1 TATTTTTTTATGTAATTTATTTGGCATGTGTATTTTAGATTGATTAGATA
58265863 TA-TTTTTTATGTAATTTATTTGGCATGT-TATTTT-GATT-ATTTTA-ATA
1 TATTTTTTTATGTAATTTATTTGGCATGTGTATTTTAGATTGA--TTAGATA
58265910 TAATTTTTTTAT
1 T-ATTTTTTTAT
58265922 TTTTTATGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
46 1 0.02
47 7 0.14
48 9 0.18
49 32 0.63
50 2 0.04
ACGTcount: A:0.24, C:0.01, G:0.13, T:0.62
Consensus pattern (50 bp):
TATTTTTTTATGTAATTTATTTGGCATGTGTATTTTAGATTGATTAGATA
Found at i:58269027 original size:14 final size:14
Alignment explanation
Indices: 58269008--58269042 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
58268998 ACATTTTTTT
* *
58269008 TTCTAATGATATTA
1 TTCTAACGATACTA
58269022 TTCTAACGATACTA
1 TTCTAACGATACTA
58269036 TTCTAAC
1 TTCTAAC
58269043 ATGTAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:58270304 original size:65 final size:62
Alignment explanation
Indices: 58270200--58270421 Score: 221
Period size: 56 Copynumber: 3.6 Consensus size: 62
58270190 AGATTAATTG
* **
58270200 CAACATTAAAACTTGGAACAAACTTTGTGGTCATAAATTAGATTAATTGCAACATTACAACATTA
1 CAACATTAAAATTTGGAACAAACTTTGTAAT-ATAAATTA-ATTAATTG-AACATTACAACATTA
* *
58270265 CAACATTAAAATTTGGAGCAAACTTTGTAGTCAT--A--AATT-A--GAACATTACAACATTA
1 CAACATTAAAATTTGGAACAAACTTTGTAAT-ATAAATTAATTAATTGAACATTACAACATTA
* * *
58270321 CAACATTAAAATTTGGAACAAACTTTATAATATAAATT-TTGTAATAT-AA-ATTAAATACATTA
1 CAACATTAAAATTTGGAACAAACTTTGTAATATAAATTAAT-TAAT-TGAACATTACA-ACATTA
* *
58270383 CAATATTAAAAATTGGAACAAACTTTGTAATATAAATTA
1 CAACATTAAAATTTGGAACAAACTTTGTAATATAAATTA
58270422 GGTACATTAG
Statistics
Matches: 135, Mismatches: 11, Indels: 24
0.79 0.06 0.14
Matches are distributed among these distances:
55 2 0.01
56 43 0.32
57 2 0.01
58 1 0.01
59 2 0.01
60 4 0.03
61 6 0.04
62 43 0.32
63 1 0.01
65 31 0.23
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.33
Consensus pattern (62 bp):
CAACATTAAAATTTGGAACAAACTTTGTAATATAAATTAATTAATTGAACATTACAACATTA
Found at i:58271699 original size:11 final size:11
Alignment explanation
Indices: 58271683--58271709 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
58271673 TCCATCTGGT
58271683 TGACTTGTTGC
1 TGACTTGTTGC
58271694 TGACTTGTTGC
1 TGACTTGTTGC
58271705 TGACT
1 TGACT
58271710 CATTCTTGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.11, C:0.19, G:0.26, T:0.44
Consensus pattern (11 bp):
TGACTTGTTGC
Found at i:58272029 original size:22 final size:22
Alignment explanation
Indices: 58272001--58272043 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
58271991 TTTATTGTTC
58272001 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTG
58272023 AAACATGAGAGCTTAGTACGT
1 AAACATGAGAGCTTAGTACGT
58272044 TAGCCTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTG
Found at i:58274122 original size:33 final size:33
Alignment explanation
Indices: 58274084--58274150 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
58274074 TTATTCTATT
58274084 TGAAAATAACAATAAAAATAATAATACATTTTC
1 TGAAAATAACAATAAAAATAATAATACATTTTC
58274117 TGAAAATAACAATAAAAATAATAATACATTTTC
1 TGAAAATAACAATAAAAATAATAATACATTTTC
58274150 T
1 T
58274151 TTCTTTCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (33 bp):
TGAAAATAACAATAAAAATAATAATACATTTTC
Found at i:58274155 original size:4 final size:4
Alignment explanation
Indices: 58274146--58274181 Score: 54
Period size: 4 Copynumber: 8.5 Consensus size: 4
58274136 AATAATACAT
58274146 TTTC TTTC TTTC TTTC TTCTC TTTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TT-TC -TTTC TTTC TTTC TT
58274182 CTGCTATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 24 0.80
5 4 0.13
6 2 0.07
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:58280429 original size:11 final size:11
Alignment explanation
Indices: 58280415--58280464 Score: 50
Period size: 10 Copynumber: 4.7 Consensus size: 11
58280405 CCCAAATAAA
*
58280415 AATAATAAAAT
1 AATAATAAAAC
58280426 AATAAT-AAAC
1 AATAATAAAAC
* *
58280436 AGTAGTAAAAC
1 AATAATAAAAC
58280447 AATAAT-AAAC
1 AATAATAAAAC
*
58280457 AGTAATAA
1 AATAATAA
58280465 TAAACAATTG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
10 16 0.52
11 15 0.48
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.22
Consensus pattern (11 bp):
AATAATAAAAC
Found at i:58280450 original size:21 final size:21
Alignment explanation
Indices: 58280420--58280460 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
58280410 ATAAAAATAA
*
58280420 TAAAATAATAATAAACAGTAG
1 TAAAACAATAATAAACAGTAG
58280441 TAAAACAATAATAAACAGTA
1 TAAAACAATAATAAACAGTA
58280461 ATAATAAACA
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:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (21 bp):
TAAAACAATAATAAACAGTAG
Found at i:58280467 original size:34 final size:32
Alignment explanation
Indices: 58280415--58280479 Score: 94
Period size: 34 Copynumber: 2.0 Consensus size: 32
58280405 CCCAAATAAA
*
58280415 AATAATAAAATAATAATAAACAGTAGTAAAAC
1 AATAATAAAATAATAATAAACAATAGTAAAAC
*
58280447 AATAATAAACAGTAATAATAAACAATTGTAAAA
1 AATAATAAA-A-TAATAATAAACAATAGTAAAA
58280480 AATTTTAAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 9 0.31
33 1 0.03
34 19 0.66
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (32 bp):
AATAATAAAATAATAATAAACAATAGTAAAAC
Found at i:58282084 original size:22 final size:21
Alignment explanation
Indices: 58282059--58282104 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
58282049 CTGATTAATA
*
58282059 TAATTTTAATATTTTAAAGATT
1 TAATTATAATATTTTAAA-ATT
* *
58282081 TAATTATAATTTTTTCAAATT
1 TAATTATAATATTTTAAAATT
58282102 TAA
1 TAA
58282105 GAACCATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TAATTATAATATTTTAAAATT
Found at i:58282210 original size:21 final size:21
Alignment explanation
Indices: 58282184--58282223 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
58282174 TAAGAAAGAA
58282184 CTCAAAATATAATATTTATTG
1 CTCAAAATATAATATTTATTG
*
58282205 CTCAAAATATAGTATTTAT
1 CTCAAAATATAATATTTAT
58282224 AGCATGATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (21 bp):
CTCAAAATATAATATTTATTG
Found at i:58286486 original size:5 final size:5
Alignment explanation
Indices: 58286476--58286500 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
58286466 TTTTAAAAAA
58286476 TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT
58286501 GAAGTTGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:58292611 original size:3 final size:3
Alignment explanation
Indices: 58292603--58292661 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
58292593 ATAATGCGAC
58292603 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
58292651 AAT AAT AAT AA
1 AAT AAT AAT AA
58292662 ATCTAAGTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:58292859 original size:3 final size:3
Alignment explanation
Indices: 58292851--58293040 Score: 104
Period size: 3 Copynumber: 63.7 Consensus size: 3
58292841 TACAAGAAAT
* * *
58292851 ATA ATA ATA ATG GTA ATGA A-A GATA ATA ATA ATT ATA ATA ATA AT-
1 ATA ATA ATA ATA ATA AT-A ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
58292896 ATCA ATA ATA ATA TTA ATA ATA TTA ATA AGA A-A AAA ATA ATA ATA
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** * * * * * *
58292941 GCA TTA ATA ATA AT- TTA TATA ATA ATG TTA ATA GTA ATA A-A AGA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * ** *
58292985 ACA ATA A-A ACTT ATA ATA ACA AGG CTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
58293030 ATA ATA ATA AT
1 ATA ATA ATA AT
58293041 GATGATGATG
Statistics
Matches: 140, Mismatches: 36, Indels: 22
0.71 0.18 0.11
Matches are distributed among these distances:
2 10 0.07
3 122 0.87
4 8 0.06
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:58293045 original size:3 final size:3
Alignment explanation
Indices: 58293039--58293067 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
58293029 AATAATAATA
58293039 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
58293068 AAATTAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:58293697 original size:6 final size:6
Alignment explanation
Indices: 58293680--58293718 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
58293670 TCTAAAGCAA
* **
58293680 AAAAAA AAAAAG AAAAAG AAAGGG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
58293719 CAAAAACCCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:58321907 original size:100 final size:100
Alignment explanation
Indices: 58321696--58322110 Score: 566
Period size: 100 Copynumber: 4.2 Consensus size: 100
58321686 TTTACATTAG
* * *
58321696 GAATCTTACTTCCCTGGC-GATGCAGTGGAGCAGATTAAAGCTACAACGACGAATCTTG-TTCCC
1 GAATCTTACTTCCCTGGCAG-TACAGTAGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCC
* *
58321759 CGACATTGCAA-TTAAATAGATTGAAGCCGCAACGGC
65 CAACATTGCAATTTAAA-AGATTGAAGCCACAACGGC
* * * *
58321795 GAATCTCACTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCT
1 GAATCTTACTTCCCTGGCAGTACAGTAGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCC
* * *
58321860 AATATTGCAATTTAAAATATTGAAGCCACAACGGT
66 AACATTGCAATTTAAAAGATTGAAGCCACAACGGC
* * * * *
58321895 GAATCTCACTTCCCTAGCAGTACAGTAGAGCAGATTAAAGTTACGACGGCGAATCTTGCTTCCCT
1 GAATCTTACTTCCCTGGCAGTACAGTAGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCC
* *
58321960 AATATTGCAATTTAAAAGATTGAAGCCACAACGGT
66 AACATTGCAATTTAAAAGATTGAAGCCACAACGGC
* * *
58321995 GAATCTTACTTTCCTGGCAATGCAGTAGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCC
1 GAATCTTACTTCCCTGGCAGTACAGTAGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCC
* * *
58322060 GACATTGTAATTTAAAAGATTGAAGCCGCAACGGC
66 AACATTGCAATTTAAAAGATTGAAGCCACAACGGC
58322095 GAATCTTACTTCCCTG
1 GAATCTTACTTCCCTG
58322111 AGGTTGCAGT
Statistics
Matches: 285, Mismatches: 28, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
99 52 0.18
100 228 0.80
101 5 0.02
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (100 bp):
GAATCTTACTTCCCTGGCAGTACAGTAGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCC
AACATTGCAATTTAAAAGATTGAAGCCACAACGGC
Found at i:58322080 original size:50 final size:50
Alignment explanation
Indices: 58321727--58322111 Score: 254
Period size: 50 Copynumber: 7.7 Consensus size: 50
58321717 GCAGTGGAGC
* * * *
58321727 AGATTAAAGCTACAACGACGAATCTT-GTTCCCCGACATTGCAA-TTAAA
1 AGATTAAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAATTTAAA
* * * * * * * ** **
58321775 TAGATTGAAGCCGCAACGGCGAATCTCACTTCCCTGGCAGTACAGTGGAGC
1 -AGATTAAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAATTTAAA
* * * * *
58321826 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTAATATTGCAATTTAAA
1 AGATTAAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAATTTAAA
* * * * * * * ** **
58321876 ATATTGAAGCCACAACGGTGAATCTCACTTCCCT-AGCAGTACAGTAGAGC
1 AGATTAAAGCCACAACGGCGAATCTTACTTCCCTGA-CATTGCAATTTAAA
** * * * *
58321926 AGATTAAAGTTACGACGGCGAATCTTGCTTCCCTAATATTGCAATTTAAA
1 AGATTAAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAATTTAAA
* * * * * * ** **
58321976 AGATTGAAGCCACAACGGTGAATCTTACTTTCCTGGCAATGCAGTAGAGC
1 AGATTAAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAATTTAAA
* * * *
58322026 AGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGTAATTTAAA
1 AGATTAAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAATTTAAA
* *
58322076 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGA
1 AGATTAAAGCCACAACGGCGAATCTTACTTCCCTGA
58322112 GGTTGCAGTA
Statistics
Matches: 235, Mismatches: 97, Indels: 7
0.69 0.29 0.02
Matches are distributed among these distances:
49 22 0.09
50 211 0.90
51 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25
Consensus pattern (50 bp):
AGATTAAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAATTTAAA
Found at i:58327323 original size:27 final size:26
Alignment explanation
Indices: 58327293--58327351 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
58327283 CGGTGGAGGT
58327293 AAAAAAAACCAAAAACACAAAAACAAA
1 AAAAAAAACCAAAAACACAAAAA-AAA
* * * *
58327320 AAAAAGAACCAAAGAGACAAAAAAAT
1 AAAAAAAACCAAAAACACAAAAAAAA
58327346 AAAAAA
1 AAAAAA
58327352 CCTCTATTGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.80, C:0.14, G:0.05, T:0.02
Consensus pattern (26 bp):
AAAAAAAACCAAAAACACAAAAAAAA
Found at i:58327813 original size:20 final size:20
Alignment explanation
Indices: 58327784--58327829 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
58327774 CACTTCACTT
*
58327784 GAAAAAAAGAAACGCAAA-AA
1 GAAAAAAAGAAA-GAAAAGAA
*
58327804 GAAAAGAAGAAAGAAAAGAA
1 GAAAAAAAGAAAGAAAAGAA
58327824 GAAAAA
1 GAAAAA
58327830 TGAAAAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.76, C:0.04, G:0.20, T:0.00
Consensus pattern (20 bp):
GAAAAAAAGAAAGAAAAGAA
Found at i:58327841 original size:12 final size:11
Alignment explanation
Indices: 58327787--58327841 Score: 58
Period size: 12 Copynumber: 4.9 Consensus size: 11
58327777 TTCACTTGAA
*
58327787 AAAAAGAAACG
1 AAAAAGAAAAG
58327798 CAAAAAGAAAAG
1 -AAAAAGAAAAG
58327810 AAGAAAGAAAAG
1 AA-AAAGAAAAG
* *
58327822 AAGAA-AAATG
1 AAAAAGAAAAG
58327832 AAAAAGAAAA
1 AAAAAGAAAA
58327842 AGGTGAGGCC
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
10 8 0.22
11 7 0.19
12 21 0.58
ACGTcount: A:0.76, C:0.04, G:0.18, T:0.02
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:58328314 original size:108 final size:108
Alignment explanation
Indices: 58328179--58328374 Score: 297
Period size: 108 Copynumber: 1.8 Consensus size: 108
58328169 TTTGTATTCT
* *
58328179 AGCAAAATTTTGTATCTTGATTAATTTGTTCATTTAGAGCTTTGTTCTCAACAAATTTTC-TTCT
1 AGCAAAATTTTGTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATT-T
58328243 TATCCATTGTGATAATCTTTTTCATCTTATTCATCTCATATCTC
65 TATCCATTGTGATAATCTTTTTCATCTTATTCATCTCATATCTC
* **
58328287 AGCAAAA-TTTGCTATCTTGATTGATTTGTTTGTTTAGAGCTTTGCTCTCAACAAAATTTCATTT
1 AGCAAAATTTTG-TATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATTT
* *
58328351 TGTCCATTTTGATAATCTTTTTCA
65 TATCCATTGTGATAATCTTTTTCA
58328375 AGTATTTTTC
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 4 0.05
108 73 0.92
109 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.10, T:0.48
Consensus pattern (108 bp):
AGCAAAATTTTGTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATTTT
ATCCATTGTGATAATCTTTTTCATCTTATTCATCTCATATCTC
Found at i:58328944 original size:44 final size:44
Alignment explanation
Indices: 58328860--58329077 Score: 192
Period size: 44 Copynumber: 5.0 Consensus size: 44
58328850 AGTCATTAAA
*** ** *
58328860 GCAGATCTTGTCTTCATGTATTGGCAG-GAAGTGGATCGAAGAT
1 GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAT
* * *
58328903 GTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
1 GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAG-AT
*** * * *
58328948 GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGAT
1 GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAT
* * * *
58328991 AGCA-AGTTTTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT
1 -GCAGA-TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAT
* *
58329035 GCATATCTTGTCTTCCCATATTGGTGGCGAAGTAGATTGAAGA
1 GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGA
58329078 AAATAGATCT
Statistics
Matches: 139, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
43 44 0.32
44 74 0.53
45 21 0.15
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (44 bp):
GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAT
Found at i:58329023 original size:88 final size:88
Alignment explanation
Indices: 58328857--58329049 Score: 241
Period size: 88 Copynumber: 2.2 Consensus size: 88
58328847 TGAAGTCATT
* * *
58328857 AAAGCAGATCTTGTCTTCATGTATTGGCAGGAAGTGGATCGAAGATGTAGATCTTGTCTTCCCAT
1 AAAGCAGATCTTGTCTTCATGTATTGGCAGGAAGTAGATCAAAGATGAAGATCTTGTCTTCCCAT
*
58328922 ACTGGTGGCGAAGTAGATCGAAG
66 ACTGGTAGCGAAGTAGATCGAAG
*
58328945 AAAGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCAAAGATAGCAAG-TTTTGTCTTCC
1 AAAGCAGATCTTGTCTTCATGTATTGGCAG-GAAGTAGATCAAAGAT-G-AAGATCTTGTCTTCC
* * *
58329008 TATATTGGTAG-GAAGTGGATCGAAG
63 CATACTGGTAGCGAAGTAGATCGAAG
* *
58329033 -ATGCATATCTTGTCTTC
1 AAAGCAGATCTTGTCTTC
58329050 CCATATTGGT
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
87 16 0.17
88 55 0.60
89 19 0.21
90 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (88 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCAGGAAGTAGATCAAAGATGAAGATCTTGTCTTCCCAT
ACTGGTAGCGAAGTAGATCGAAG
Found at i:58329067 original size:88 final size:89
Alignment explanation
Indices: 58328857--58329071 Score: 215
Period size: 88 Copynumber: 2.4 Consensus size: 89
58328847 TGAAGTCATT
** * * * *
58328857 AAAGCAGATCTTGTCTTCATGTATTGGCAG-GAAGTGGATCGAAGAT-G-TAGATCTTGTCTTCC
1 AAAGCAGATCTTGTCTTCACATATTGGC-GCGAAGTAGATCAAAGATAGCAAG-TTTTGTCTTCC
*
58328919 CATACTGGTGGCGAAGTAGATCGAAG
64 CATACTGGTAGCGAAGTAGATCGAAG
** * *
58328945 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAAGTTTTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCACATATTGGCGCGAAGTAGATCAAAGATAGCAAGTTTTGTCTTCCCA
* *
58329010 TATTGGTAG-GAAGTGGATCGAAG
66 TACTGGTAGCGAAGTAGATCGAAG
* * * *
58329033 -ATGCATATCTTGTCTTCCCATATTGGTGGCGAAGTAGAT
1 AAAGCAGATCTTGTCTTCACATATTGG-CGCGAAGTAGAT
58329072 TGAAGAAAAT
Statistics
Matches: 108, Mismatches: 15, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
87 22 0.20
88 65 0.60
89 19 0.18
90 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (89 bp):
AAAGCAGATCTTGTCTTCACATATTGGCGCGAAGTAGATCAAAGATAGCAAGTTTTGTCTTCCCA
TACTGGTAGCGAAGTAGATCGAAG
Found at i:58329277 original size:50 final size:50
Alignment explanation
Indices: 58329223--58329685 Score: 268
Period size: 50 Copynumber: 9.3 Consensus size: 50
58329213 CACAACGACC
* *
58329223 AATCTTACTTCCCTGGCGGTGCAGTAGAGCAGATTAAAGCTACGACGGTG
1 AATCTTACTTCCCTGGCGTTGCAGTAGAGCAGATTAAAGCTACAACGGTG
* * * * * ** * **
58329273 AATCTTGCTTCTCTGACATTGCAATTA-AAAAGATTGAAGCCGCAACGGTG
1 AATCTTACTTCCCTGGCGTTGC-AGTAGAGCAGATTAAAGCTACAACGGTG
* * * * *
58329323 AATCTTACTTCCCTGGTGATGCTGTAGAGCAGATTAAATCTACGACGGTG
1 AATCTTACTTCCCTGGCGTTGCAGTAGAGCAGATTAAAGCTACAACGGTG
* * * * * * ** **
58329373 AATCTTGCTTCTCCT-ACATTGCAATTTGA-AAGATCGAAGCGGCAACGGTG
1 AATCTTACTTC-CCTGGCGTTGC-AGTAGAGCAGATTAAAGCTACAACGGTG
** * * *
58329423 AATCTTACTTCCCAAGCGGTGCAGTAGAGCAGATTAAAGCTACGATGGTG
1 AATCTTACTTCCCTGGCGTTGCAGTAGAGCAGATTAAAGCTACAACGGTG
** * * ** ** * * ** *
58329473 AATCTTACTTCCCCAGCATTGCAATTTAAAAAATTGAAGCCGCAACGGCG
1 AATCTTACTTCCCTGGCGTTGCAGTAGAGCAGATTAAAGCTACAACGGTG
* * * *
58329523 AATCTTACTTCCATGGCGATACAGTGGAGCTA-ATTAAAGCTACAACGGTG
1 AATCTTACTTCCCTGGCGTTGCAGTAGAGC-AGATTAAAGCTACAACGGTG
* * * * * ** ** * * *
58329573 AATCTTGCTTCCCCGACATTGCAATCTAAAATATTGAAGCTGCAACGGTG
1 AATCTTACTTCCCTGGCGTTGCAGTAGAGCAGATTAAAGCTACAACGGTG
* * * *
58329623 AATCTTACTTCCATGGCGATGCAGTGGAGCAGATTAAAGCTACAACGGCG
1 AATCTTACTTCCCTGGCGTTGCAGTAGAGCAGATTAAAGCTACAACGGTG
*
58329673 AATCTTGCTTCCC
1 AATCTTACTTCCC
58329686 CGACATTGCA
Statistics
Matches: 288, Mismatches: 117, Indels: 16
0.68 0.28 0.04
Matches are distributed among these distances:
49 9 0.03
50 269 0.93
51 10 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (50 bp):
AATCTTACTTCCCTGGCGTTGCAGTAGAGCAGATTAAAGCTACAACGGTG
Found at i:58329327 original size:100 final size:100
Alignment explanation
Indices: 58329173--58329722 Score: 696
Period size: 100 Copynumber: 5.5 Consensus size: 100
58329163 CCACAACAGC
* * ***
58329173 GAATCTTG-TTCCCCGACATTACAATTAAAAAGATTGAAGCCACAACGACCAATCTTACTTCCCT
1 GAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGGTGAATCTTACTTCCCT
*
58329237 GGCGGTGCAGTAGAGCAGATTAAAGCTACGACGGT
66 GGCGATGCAGTAGAGCAGATTAAAGCTACGACGGT
* *
58329272 GAATCTTGCTTCTCTGACATTGCAATTAAAAAGATTGAAGCCGCAACGGTGAATCTTACTTCCCT
1 GAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGGTGAATCTTACTTCCCT
* * *
58329337 GGTGATGCTGTAGAGCAGATTAAATCTACGACGGT
66 GGCGATGCAGTAGAGCAGATTAAAGCTACGACGGT
* * ** * * *
58329372 GAATCTTGCTTCTCCTACATTGCAATTTGAAAGATCGAAGCGGCAACGGTGAATCTTACTTCCCA
1 GAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGGTGAATCTTACTTCCCT
* * *
58329437 AGCGGTGCAGTAGAGCAGATTAAAGCTACGATGGT
66 GGCGATGCAGTAGAGCAGATTAAAGCTACGACGGT
* *
58329472 GAATCTTACTTCCCC-AGCATTGCAATTTAAAAA-ATTGAAGCCGCAACGGCGAATCTTACTTCC
1 GAATCTTGCTTCCCCGA-CATTGCAA-TTAAAAAGATTGAAGCCGCAACGGTGAATCTTACTTCC
* * * *
58329535 ATGGCGATACAGTGGAGCTA-ATTAAAGCTACAACGGT
64 CTGGCGATGCAGTAGAGC-AGATTAAAGCTACGACGGT
* * *
58329572 GAATCTTGCTTCCCCGACATTGCAATCT-AAAATATTGAAGCTGCAACGGTGAATCTTACTTCCA
1 GAATCTTGCTTCCCCGACATTGCAAT-TAAAAAGATTGAAGCCGCAACGGTGAATCTTACTTCCC
* * *
58329636 TGGCGATGCAGTGGAGCAGATTAAAGCTACAACGGC
65 TGGCGATGCAGTAGAGCAGATTAAAGCTACGACGGT
* * * *
58329672 GAATCTTGCTTCCCCGACATTGCAATTTAAAAGATTAAAACCGCAATGGTG
1 GAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGGTG
58329723 GGGCAGATTA
Statistics
Matches: 393, Mismatches: 49, Indels: 17
0.86 0.11 0.04
Matches are distributed among these distances:
99 16 0.04
100 370 0.94
101 7 0.02
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (100 bp):
GAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGGTGAATCTTACTTCCCT
GGCGATGCAGTAGAGCAGATTAAAGCTACGACGGT
Found at i:58329707 original size:50 final size:50
Alignment explanation
Indices: 58329154--58329710 Score: 232
Period size: 50 Copynumber: 11.2 Consensus size: 50
58329144 GTAGTGGATC
* * * * * * *
58329154 AGATTGAAGCCACAACAGCGAATCTT-GTTCCCCGACATTACAATTAAAA
1 AGATTAAAGCTACAACGGTGAATCTTACTTCCCCGACATTGCAATTTAAA
* * *** * * ** * ** **
58329203 AGATTGAAGCCACAACGACCAATCTTACTTCCCTGGCGGTGCAGTAGAGC
1 AGATTAAAGCTACAACGGTGAATCTTACTTCCCCGACATTGCAATTTAAA
* * * * *
58329253 AGATTAAAGCTACGACGGTGAATCTTGCTTCTCTGACATTGCAATTAAAA
1 AGATTAAAGCTACAACGGTGAATCTTACTTCCCCGACATTGCAATTTAAA
* ** * ** * *
58329303 AGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGTGA-TGC--TGTAGAGC
1 AGATTAAAGCTACAACGGTGAATCTTACTTCCC-CGACATTGCAATTTA-A-A
* * * * * *
58329353 AGATTAAATCTACGACGGTGAATCTTGCTTCTCCTACATTGCAATTTGAA
1 AGATTAAAGCTACAACGGTGAATCTTACTTCCCCGACATTGCAATTTAAA
** ** * ** * ** **
58329403 AGATCGAAGCGGCAACGGTGAATCTTACTT-CCCAAGCGGTGCAGTAGAGC
1 AGATTAAAGCTACAACGGTGAATCTTACTTCCCCGA-CATTGCAATTTAAA
* *
58329453 AGATTAAAGCTACGATGGTGAATCTTACTTCCCC-AGCATTGCAATTTAAA
1 AGATTAAAGCTACAACGGTGAATCTTACTTCCCCGA-CATTGCAATTTAAA
* * ** * ** * * * ** **
58329503 AAATTGAAGCCGCAACGGCGAATCTTACTTCCATGGCGA-TACAGTGGAGCT
1 AGATTAAAGCTACAACGGTGAATCTTACTTCCCCGAC-ATTGCAATTTA-AA
* *
58329554 A-ATTAAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATCTAAA
1 AGATTAAAGCTACAACGGTGAATCTTACTTCCCCGACATTGCAATTTAAA
* * * ** * * ** **
58329603 ATATTGAAGCTGCAACGGTGAATCTTACTTCCATGGCGA-TGCAGTGGAGC
1 AGATTAAAGCTACAACGGTGAATCTTACTTCCCCGAC-ATTGCAATTTAAA
* *
58329653 AGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTTAAA
1 AGATTAAAGCTACAACGGTGAATCTTACTTCCCCGACATTGCAATTTAAA
58329703 AGATTAAA
1 AGATTAAA
58329711 ACCGCAATGG
Statistics
Matches: 352, Mismatches: 140, Indels: 31
0.67 0.27 0.06
Matches are distributed among these distances:
48 2 0.01
49 31 0.09
50 308 0.88
51 9 0.03
52 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (50 bp):
AGATTAAAGCTACAACGGTGAATCTTACTTCCCCGACATTGCAATTTAAA
Found at i:58329740 original size:74 final size:74
Alignment explanation
Indices: 58329646--58329791 Score: 229
Period size: 74 Copynumber: 2.0 Consensus size: 74
58329636 TGGCGATGCA
* *
58329646 GTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTTAAAAGATTAAA
1 GTGGAGCAGATTAAAGCTACAACGGCGAATCTTCCTTCCCCAACATTGCAATTTAAAAGATTAAA
58329711 ACCGCAATG
66 ACCGCAATG
* * * *
58329720 GTGGGGCAGATTAAAGCTACAACGGTGAATCTTCCTTCCCCAACATTGCAATTTAAAATATTGAA
1 GTGGAGCAGATTAAAGCTACAACGGCGAATCTTCCTTCCCCAACATTGCAATTTAAAAGATTAAA
*
58329785 GCCGCAA
66 ACCGCAA
58329792 CGGCGAATCT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
74 65 1.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (74 bp):
GTGGAGCAGATTAAAGCTACAACGGCGAATCTTCCTTCCCCAACATTGCAATTTAAAAGATTAAA
ACCGCAATG
Found at i:58329921 original size:99 final size:98
Alignment explanation
Indices: 58329720--58329995 Score: 376
Period size: 99 Copynumber: 2.8 Consensus size: 98
58329710 AACCGCAATG
* * *
58329720 GTGGGGCAGATTAAAGCTACAACGGTGAATCTTCCTTCCCCAACATTGCAATTTAAA-ATATTGA
1 GTGGGGCAGATTAAAGCTACAACGGTGAATCTT-GTTCCCCGACATTGCAA-TTAAAGAGATTGA
* *
58329784 AGCCGCAACGGCGAATCTACTTCCATGGCGATGCA
64 AGCCACAACGGCGAATCTACTTCCATGGCGATACA
*
58329819 GTGGGGCAGATTAAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAG
1 GTGGGGCAGATTAAAGCTACAACGGTGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAG
* *
58329884 CCACAACGGCGAATCTCATTTCCCTGGC-AGTACA
66 CCACAACGGCGAATCT-ACTTCCATGGCGA-TACA
* * * * *
58329918 GTGGAGCGGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGATATTGCAATTAAAGAGATTGAA
1 GTGGGGCAGATTAAAGCTACAACGGTGAATCTTG-TTCCCCGACATTGCAATTAAAGAGATTGAA
58329983 GCCACAACGGCGA
65 GCCACAACGGCGA
58329996 GATTGAAGCC
Statistics
Matches: 159, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
97 5 0.03
98 39 0.25
99 74 0.47
100 41 0.26
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (98 bp):
GTGGGGCAGATTAAAGCTACAACGGTGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAG
CCACAACGGCGAATCTACTTCCATGGCGATACA
Found at i:58329999 original size:20 final size:20
Alignment explanation
Indices: 58329974--58330013 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
58329964 TGCAATTAAA
58329974 GAGATTGAAGCCACAACGGC
1 GAGATTGAAGCCACAACGGC
58329994 GAGATTGAAGCCACAACGGC
1 GAGATTGAAGCCACAACGGC
58330014 AAATCTTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.25, G:0.30, T:0.10
Consensus pattern (20 bp):
GAGATTGAAGCCACAACGGC
Found at i:58330041 original size:219 final size:218
Alignment explanation
Indices: 58329779--58330211 Score: 697
Period size: 219 Copynumber: 2.0 Consensus size: 218
58329769 AATTTAAAAT
* * * * *
58329779 ATTGAAGCCGCAACGGCGAATCTACTTCCATGGCGATGCAGTGGGGCAGATTAAAGCTACAACGG
1 ATTGAAGCCACAACGGCAAATCTACTTCCATGGCGATGCAGTGGAGCACATTAAAGCTACAACGA
* * *
58329844 CGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTCATTTCCCT
66 CGAATCTTATTCCCCAACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTCCCT
* * *
58329909 GGCAGTACAGTGGAGCGGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGATATTGCAATT-AA
131 GGCAGTACAGTGGAGCAGATTAAAGCTACGACGGTGAATCTTACTTCCCTAATATTGCAATTCAA
58329973 AGAGATTGAAGCCACAACGGCGAG
196 A-AGATTGAAGCCACAACGGCGAG
*
58329997 ATTGAAGCCACAACGGCAAATCTTACTTCCCTGGCGATGCAGTGGAGCACATTAAAGCTACAACG
1 ATTGAAGCCACAACGGCAAATC-TACTTCCATGGCGATGCAGTGGAGCACATTAAAGCTACAACG
* *
58330062 ATGAATCTTATTCCCCAACATTGCAATTAAAGAGATTGAAGCCGCAACGGCGAATCTCACTTCCC
65 ACGAATCTTATTCCCCAACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTCCC
* *
58330127 TGGCAGTACAGTGGAGTAGATTAAAGCTACGACGGTGAATCTTACTTCCTTAATATTGCAATTCA
130 TGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGTGAATCTTACTTCCCTAATATTGCAATTCA
58330192 AAAGATTGAAGCCACAACGG
195 AAAGATTGAAGCCACAACGG
58330212 TGAATCTCAC
Statistics
Matches: 197, Mismatches: 16, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
218 20 0.10
219 174 0.88
220 3 0.02
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (218 bp):
ATTGAAGCCACAACGGCAAATCTACTTCCATGGCGATGCAGTGGAGCACATTAAAGCTACAACGA
CGAATCTTATTCCCCAACATTGCAATTAAAGAGATTGAAGCCACAACGGCGAATCTCACTTCCCT
GGCAGTACAGTGGAGCAGATTAAAGCTACGACGGTGAATCTTACTTCCCTAATATTGCAATTCAA
AAGATTGAAGCCACAACGGCGAG
Found at i:58330298 original size:50 final size:50
Alignment explanation
Indices: 58330047--58330427 Score: 255
Period size: 50 Copynumber: 7.6 Consensus size: 50
58330037 AGTGGAGCAC
* * *
58330047 ATTAAAGCTACAACGATGAATCTTA-TTCCCCAACATTGCAATT-AAAGAG
1 ATTAAAGCTACAACGGTGAATCTTACTTCCCTAATATTGCAATTGAAA-AG
* ** * * *** * * * * **
58330096 ATTGAAGCCGCAACGGCGAATCTCACTTCCCTGGCAGTACAGTGGAGTAG
1 ATTAAAGCTACAACGGTGAATCTTACTTCCCTAATATTGCAATTGAAAAG
* * *
58330146 ATTAAAGCTACGACGGTGAATCTTACTTCCTTAATATTGCAATTCAAAAG
1 ATTAAAGCTACAACGGTGAATCTTACTTCCCTAATATTGCAATTGAAAAG
* * * ** * * * * **
58330196 ATTGAAGCCACAACGGTGAATCTCACTTCCCTGGTAGTACAGTGGAGTAG
1 ATTAAAGCTACAACGGTGAATCTTACTTCCCTAATATTGCAATTGAAAAG
* * * *
58330246 ATTAAAGTTACGACGGTGAATCTTGCTTCCCTAATATTGCAATTTAAAAG
1 ATTAAAGCTACAACGGTGAATCTTACTTCCCTAATATTGCAATTGAAAAG
* * * ** * * *
58330296 ATTGAAGCCACAACGGTGAATCTTACTTTCCTAGCGA-TGCAGTAGAACAG
1 ATTAAAGCTACAACGGTGAATCTTACTTCCCTA-ATATTGCAATTGAAAAG
* ** * *
58330346 ATTAAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTTAAAAG
1 ATTAAAGCTACAACGGTGAATCTTACTTCCCTAATATTGCAATTGAAAAG
* ** *
58330396 ATTGAAGCCGCAACGGCGAATCTTACTTCCCT
1 ATTAAAGCTACAACGGTGAATCTTACTTCCCT
58330428 GAGGTTGCAG
Statistics
Matches: 237, Mismatches: 91, Indels: 7
0.71 0.27 0.02
Matches are distributed among these distances:
49 20 0.08
50 215 0.91
51 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (50 bp):
ATTAAAGCTACAACGGTGAATCTTACTTCCCTAATATTGCAATTGAAAAG
Found at i:58330436 original size:50 final size:50
Alignment explanation
Indices: 58329995--58330436 Score: 248
Period size: 50 Copynumber: 8.9 Consensus size: 50
58329985 CACAACGGCG
** * * ** **
58329995 AGATTGAAGCCACAACGGCAAATCTTACTTCCCTGGCGA-TGCAGTGGAGC
1 AGATTGAAGCCACAACGGTGAATCTTACTTCCCT-GAGATTGCAATTTAAA
* * * * ** *
58330045 ACATTAAAGCTACAACGATGAATCTTA-TTCCCCAACATTGCAA-TTAAA
1 AGATTGAAGCCACAACGGTGAATCTTACTTCCCTGAGATTGCAATTTAAA
* * * * * * ** **
58330093 GAGATTGAAGCCGCAACGGCGAATCTCACTTCCCTG-GCAGTACAGTGGAGT
1 -AGATTGAAGCCACAACGGTGAATCTTACTTCCCTGAG-ATTGCAATTTAAA
* * * * * * *
58330144 AGATTAAAGCTACGACGGTGAATCTTACTTCCTTAATATTGCAATTCAAA
1 AGATTGAAGCCACAACGGTGAATCTTACTTCCCTGAGATTGCAATTTAAA
* * * * ** **
58330194 AGATTGAAGCCACAACGGTGAATCTCACTTCCCTG-GTAGTACAGTGGAGT
1 AGATTGAAGCCACAACGGTGAATCTTACTTCCCTGAG-ATTGCAATTTAAA
* ** * * * *
58330244 AGATTAAAGTTACGACGGTGAATCTTGCTTCCCTAATATTGCAATTTAAA
1 AGATTGAAGCCACAACGGTGAATCTTACTTCCCTGAGATTGCAATTTAAA
* * * ** *
58330294 AGATTGAAGCCACAACGGTGAATCTTACTTTCCTAGCGA-TGCAGTAGAAC
1 AGATTGAAGCCACAACGGTGAATCTTACTTCCCT-GAGATTGCAATTTAAA
* * * * *
58330344 AGATTAAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGCAATTTAAA
1 AGATTGAAGCCACAACGGTGAATCTTACTTCCCTGAGATTGCAATTTAAA
* * *
58330394 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGAGGTTGCA
1 AGATTGAAGCCACAACGGTGAATCTTACTTCCCTGAGATTGCA
58330437 GTAAAACAGA
Statistics
Matches: 273, Mismatches: 109, Indels: 20
0.68 0.27 0.05
Matches are distributed among these distances:
48 2 0.01
49 31 0.11
50 238 0.87
51 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGTGAATCTTACTTCCCTGAGATTGCAATTTAAA
Found at i:58330446 original size:100 final size:100
Alignment explanation
Indices: 58329995--58330428 Score: 543
Period size: 100 Copynumber: 4.3 Consensus size: 100
58329985 CACAACGGCG
* *
58329995 AGATTGAAGCCACAACGGCAAATCTTACTTCCCTGGCGATGCAGTGGAGCACATTAAAGCTACAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCTACAA
* *
58330060 CGATGAATCTT-ATTCCCCAACATTGCAA-TTAAA
66 CGGTGAATCTTGCTTCCCCAACATTGCAATTTAAA
* * * *
58330093 GAGATTGAAGCCGCAACGGCGAATCTCACTTCCCTGGC-AGTACAGTGGAGTAGATTAAAGCTAC
1 -AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGA-TGCAGTGGAGCAGATTAAAGCTAC
* * ** * *
58330157 GACGGTGAATCTTACTTCCTTAATATTGCAATTCAAA
64 AACGGTGAATCTTGCTTCCCCAACATTGCAATTTAAA
* * * * * * *
58330194 AGATTGAAGCCACAACGGTGAATCTCACTTCCCTGG-TAGTACAGTGGAGTAGATTAAAGTTACG
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGA-TGCAGTGGAGCAGATTAAAGCTACA
* *
58330258 ACGGTGAATCTTGCTTCCCTAATATTGCAATTTAAA
65 ACGGTGAATCTTGCTTCCCCAACATTGCAATTTAAA
* * * * *
58330294 AGATTGAAGCCACAACGGTGAATCTTACTTTCCTAGCGATGCAGTAGAACAGATTAAAGCTACAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCTACAA
*
58330359 CGGTGAATCTTGCTTCCCCGACATTGCAATTTAAA
66 CGGTGAATCTTGCTTCCCCAACATTGCAATTTAAA
*
58330394 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTG
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTG
58330429 AGGTTGCAGT
Statistics
Matches: 294, Mismatches: 36, Indels: 9
0.87 0.11 0.03
Matches are distributed among these distances:
98 1 0.00
99 66 0.22
100 222 0.76
101 5 0.02
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (100 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCTACAA
CGGTGAATCTTGCTTCCCCAACATTGCAATTTAAA
Found at i:58334307 original size:75 final size:75
Alignment explanation
Indices: 58334218--58334367 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
58334208 TATATATAGT
58334218 GCCATGTACATGAAATGAAATTCTTTGGAAATTAAAGAGAAATTTGGTTGTAAATTGTTATCTGT
1 GCCATGTACATGAAATGAAATTCTTTGGAAATTAAAGAGAAATTTGGTTGTAAATTGTTATCTGT
58334283 ACACCGCATG
66 ACACCGCATG
*
58334293 GCCATGTACATGAAATGAAATTCTTTGGAAATTAAAGAGAAATTTGGTTGTAAATTGTTCTCTGT
1 GCCATGTACATGAAATGAAATTCTTTGGAAATTAAAGAGAAATTTGGTTGTAAATTGTTATCTGT
58334358 ACACCGCATG
66 ACACCGCATG
58334368 TTTTACTTGC
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (75 bp):
GCCATGTACATGAAATGAAATTCTTTGGAAATTAAAGAGAAATTTGGTTGTAAATTGTTATCTGT
ACACCGCATG
Found at i:58335207 original size:100 final size:100
Alignment explanation
Indices: 58334996--58335410 Score: 541
Period size: 100 Copynumber: 4.2 Consensus size: 100
58334986 TTTACATTAG
* * *
58334996 GAATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCTACAACGACGAATCTTG-TTCCCC
1 GAATCTTACTTCCCTGGCGATACAGTAGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCC
* *
58335060 GACATTGCAA-TTAAATAGATTGAAGCCGCAACGGC
66 AACATTGCAATTTAAA-AGATTGAAGCCACAACGGC
* * *
58335095 GAATCTCACTTCCCTGGC-AGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCC
1 GAATCTTACTTCCCTGGCGA-TACAGTAGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCC
* * * *
58335159 TAATATTGCAATTTAAAATATTGAAGCCACAACGGT
65 CAACATTGCAATTTAAAAGATTGAAGCCACAACGGC
* * * *
58335195 GAATCTCACTTCCCTAGC-AGTACAGTAGAGCAGATTAAAGTTACGACGGCGAATCTTGCTTCCC
1 GAATCTTACTTCCCTGGCGA-TACAGTAGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCC
* * *
58335259 TAATATTGCAATTTAAAAGATTGAAGCCACAACGGT
65 CAACATTGCAATTTAAAAGATTGAAGCCACAACGGC
* * * **
58335295 GAATCTTACTTTCCTAGCGATGCAGTAGAGCAGATTAAAGCTACAACGGTAAATCTTGCTTCCCC
1 GAATCTTACTTCCCTGGCGATACAGTAGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCC
* *
58335360 GACATTGCAATTTAAAAGATTGAAGCCGCAACGGC
66 AACATTGCAATTTAAAAGATTGAAGCCACAACGGC
58335395 GAATCTTACTTCCCTG
1 GAATCTTACTTCCCTG
58335411 AGGTTGCAGT
Statistics
Matches: 284, Mismatches: 28, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
98 1 0.00
99 52 0.18
100 225 0.79
101 6 0.02
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (100 bp):
GAATCTTACTTCCCTGGCGATACAGTAGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCC
AACATTGCAATTTAAAAGATTGAAGCCACAACGGC
Found at i:58335280 original size:50 final size:50
Alignment explanation
Indices: 58335126--58335409 Score: 183
Period size: 50 Copynumber: 5.7 Consensus size: 50
58335116 ACAGTGGAGC
58335126 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTAATATTGCAATTTAAA
1 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTAATATTGCAATTTAAA
* * * * * ** ** * * * ** **
58335176 ATATTGAAGCCACAACGGTGAATCTCACTTCCCTAGCAGTACAGTAGAGC
1 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTAATATTGCAATTTAAA
*
58335226 AGATTAAAGTTACGACGGCGAATCTTGCTTCCCTAATATTGCAATTTAAA
1 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTAATATTGCAATTTAAA
* * * * * * ** * ** **
58335276 AGATTGAAGCCACAACGGTGAATCTTACTTTCCTAGCGA-TGCAGTAGAGC
1 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTA-ATATTGCAATTTAAA
* ** ** *
58335326 AGATTAAAGCTACAACGGTAAATCTTGCTTCCCCGACATTGCAATTTAAA
1 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTAATATTGCAATTTAAA
* ** * *
58335376 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCT
1 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCT
58335410 GAGGTTGCAG
Statistics
Matches: 164, Mismatches: 68, Indels: 4
0.69 0.29 0.02
Matches are distributed among these distances:
49 1 0.01
50 162 0.99
51 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (50 bp):
AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTAATATTGCAATTTAAA
Found at i:58335418 original size:50 final size:50
Alignment explanation
Indices: 58335027--58335418 Score: 177
Period size: 50 Copynumber: 7.9 Consensus size: 50
58335017 GCAGTGGAGC
* * * * * **
58335027 AGATTAAAGCTACAACGACGAATCTT-GTTCCCCGACATTGCAA-TTAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGAGGTTGCAATTTAAA
* * * * ** **
58335075 TAGATTGAAGCCGCAACGGCGAATCTCACTTCCCTG-GCAG-TACAGTGGAGC
1 -AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGAG--GTTGCAATTTAAA
* * * * * **
58335126 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTAATATTGCAATTTAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGAGGTTGCAATTTAAA
* * * * * ** **
58335176 ATATTGAAGCCACAACGGTGAATCTCACTTCCCT-AGCAG-TACAGTAGAGC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGAG--GTTGCAATTTAAA
* ** * * * **
58335226 AGATTAAAGTTACGACGGCGAATCTTGCTTCCCTAATATTGCAATTTAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGAGGTTGCAATTTAAA
* * * * ** **
58335276 AGATTGAAGCCACAACGGTGAATCTTACTTTCCT-AGCGATGCAGTAGAGC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGAG-GTTGCAATTTAAA
* * ** * * **
58335326 AGATTAAAGCTACAACGGTAAATCTTGCTTCCCCGACATTGCAATTTAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGAGGTTGCAATTTAAA
*
58335376 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGAGGTTGCA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGAGGTTGCA
58335419 GTAGAACAGA
Statistics
Matches: 232, Mismatches: 99, Indels: 23
0.66 0.28 0.06
Matches are distributed among these distances:
49 23 0.10
50 206 0.89
51 3 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGAGGTTGCAATTTAAA
Found at i:58340634 original size:28 final size:28
Alignment explanation
Indices: 58340586--58340646 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
58340576 CATGGGAGGT
58340586 AAAAAAACCAAAAACACAAAAACAAA-AA
1 AAAAAAACCAAAAACACAAAAA-AAACAA
* *
58340614 AAAAGAACCAAAGGACA-AAAAAAAACAA
1 AAAAAAACCAAA-AACACAAAAAAAACAA
58340642 AAAAA
1 AAAAA
58340647 CTCTACTAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
27 3 0.11
28 22 0.79
29 3 0.11
ACGTcount: A:0.80, C:0.15, G:0.05, T:0.00
Consensus pattern (28 bp):
AAAAAAACCAAAAACACAAAAAAAACAA
Found at i:58341114 original size:12 final size:12
Alignment explanation
Indices: 58341094--58341136 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
58341084 AAGAAACGCA
58341094 AAAAGAAAAGAAG
1 AAAA-AAAAGAAG
58341107 AAAAAAAAGAAG
1 AAAAAAAAGAAG
58341119 AAAAATGAAA-AAG
1 AAAAA--AAAGAAG
58341132 AAAAA
1 AAAAA
58341137 GGTGAGGCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 13 0.46
13 12 0.43
14 3 0.11
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.02
Consensus pattern (12 bp):
AAAAAAAAGAAG
Found at i:58341123 original size:13 final size:14
Alignment explanation
Indices: 58341093--58341137 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
58341083 AAAGAAACGC
58341093 AAAAAGAAAAGAAG
1 AAAAAGAAAAGAAG
58341107 -AAAA-AAAAGAAG
1 AAAAAGAAAAGAAG
58341119 AAAAATG-AAA-AAG
1 AAAAA-GAAAAGAAG
58341132 AAAAAG
1 AAAAAG
58341138 GTGAGGCCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 9 0.32
13 16 0.57
14 3 0.11
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (14 bp):
AAAAAGAAAAGAAG
Found at i:58341589 original size:99 final size:99
Alignment explanation
Indices: 58341473--58341657 Score: 289
Period size: 99 Copynumber: 1.9 Consensus size: 99
58341463 TTTGTATTCT
* * *
58341473 AGCAAAATTTTCTATCTTGATTAATTTGTTCATTTAGAGCTTTGTTCTCAACAAATTTTCATCTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
58341538 ATCCATTGTGATAATCTTTTTCATCTCATATCTC
66 ATCCATTGTGATAATCTTTTTCATCTCATATCTC
* ** *
58341572 AGCAAAATTTGCTATCTTGATTGATTTGTTTGTTTAGAGCTTTGCTCTCAACAAAATTTCATTTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
* *
58341637 GTCCATTTTGATAATCTTTTT
66 ATCCATTGTGATAATCTTTTT
58341658 GAAGCATTTT
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 77 1.00
ACGTcount: A:0.25, C:0.16, G:0.10, T:0.48
Consensus pattern (99 bp):
AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
ATCCATTGTGATAATCTTTTTCATCTCATATCTC
Found at i:58342251 original size:88 final size:87
Alignment explanation
Indices: 58342143--58342335 Score: 246
Period size: 88 Copynumber: 2.2 Consensus size: 87
58342133 TGAAGTCATT
* *
58342143 AAAGCAGATCTTGTCTTCATGTATTGGCAG-GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCC
1 AAAGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCC
*
58342206 ATACTGGTGGCGAAGTAGATCGAA
65 ATACTGGTAG-GAAGTAGATCGAA
* * *
58342230 GAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGGTTTTGTCTTCCT
1 -AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCC
* *
58342295 ATATTGGTAGGAAGTGGATCGAA
65 ATACTGGTAGGAAGTAGATCGAA
* * *
58342318 TATGCATATCTTGTCTTC
1 AAAGCAGATCTTGTCTTC
58342336 CCATATTGGT
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
87 16 0.17
88 54 0.59
89 22 0.24
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (87 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCA
TACTGGTAGGAAGTAGATCGAA
Found at i:58342265 original size:44 final size:44
Alignment explanation
Indices: 58342143--58342361 Score: 185
Period size: 44 Copynumber: 5.0 Consensus size: 44
58342133 TGAAGTCATT
* *
58342143 AAAGCAGATCTTGTCTTCATGTATTGG-CAGGAAGTGGATCGAAG
1 AAAGCAGATCTTGTCTTCATATATTGGTC-GGAAGTAGATCGAAG
* ** * *
58342187 -ATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCATATATTGGTCG-GAAGTAGATCGAAG
* *
58342231 AAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAG
1 AAAGCAGATCTTGTCTTCATATATTGGTCG-GAAGTAGATCGAAG
* * * * * *
58342275 ATAGCAGGTTTTGTCTTCCTATATTGGTAGGAAGTGGATCGAA-
1 AAAGCAGATCTTGTCTTCATATATTGGTCGGAAGTAGATCGAAG
* * * ** *
58342318 TATGCATATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAA
1 AAAGCAGATCTTGTCTTCATATATTGGTCG-GAAGTAGATCGAA
58342362 CAAAATAGAT
Statistics
Matches: 138, Mismatches: 32, Indels: 10
0.77 0.18 0.06
Matches are distributed among these distances:
43 44 0.32
44 72 0.52
45 22 0.16
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (44 bp):
AAAGCAGATCTTGTCTTCATATATTGGTCGGAAGTAGATCGAAG
Found at i:58342353 original size:88 final size:88
Alignment explanation
Indices: 58342143--58342358 Score: 222
Period size: 88 Copynumber: 2.5 Consensus size: 88
58342133 TGAAGTCATT
** * *
58342143 AAAGCAGATCTTGTCTTCATGTATTGGCAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCA
1 AAAGCAGATCTTGTCTTCACATATTGGC-GCGAAGTAGATCAAAGATGCAGATCTTGTCTTCCCA
*
58342207 TACTGGTGGCGAAGTAGATCGAAG
65 TACTGGTAGCGAAGTAGATCGAAG
** * * * *
58342231 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGGTTTTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCACATATTGGCGCGAAGTAGATCAAAGAT-GCAGATCTTGTCTTCCCA
* *
58342296 TATTGGTAG-GAAGTGGATCGAA-
65 TACTGGTAGCGAAGTAGATCGAAG
* * * * *
58342318 TATGCATATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
1 AAAGCAGATCTTGTCTTCACATATTGG-CGCGAAGTAGATC
58342359 GAACAAAATA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
87 22 0.20
88 65 0.60
89 22 0.20
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (88 bp):
AAAGCAGATCTTGTCTTCACATATTGGCGCGAAGTAGATCAAAGATGCAGATCTTGTCTTCCCAT
ACTGGTAGCGAAGTAGATCGAAG
Found at i:58342605 original size:100 final size:100
Alignment explanation
Indices: 58342427--58343108 Score: 877
Period size: 100 Copynumber: 6.8 Consensus size: 100
58342417 TCTCTCTAGT
* * * * * * *
58342427 GATGCAGTGGATCAGATTGAAGCCACAACGGCGAATCTTG-TTCCCCGACATTACAATTAAAAAG
1 GATGCAGTAGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAG
* *
58342491 ATTGAAGCCACAACGGTGAATCTTACCTCCCTGGC
66 ATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGC
* * * *
58342526 GGTGCAGTAGAGCAGATTAAAGCTACGATGGTGAATCTTGCTTCTCTGACATTGCAATTAAAAAG
1 GATGCAGTAGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAG
*
58342591 ATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGT
66 ATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGC
* *
58342626 GATGCAGTAGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCTCTGACATTGCAATTAAAAAG
1 GATGCAGTAGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAG
* *
58342691 ATTGAAGCCTCAACGGTGAATCTTACTTCCCTGGT
66 ATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGC
* **
58342726 GATGCAGTAGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCTCCGACATTGCAATTTGAAAG
1 GATGCAGTAGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAG
* *
58342791 ATCGAAGCCGCAACGGTGAATCTTACTTCCCAGGC
66 ATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGC
* * * * *
58342826 GGTGCTGTAGAGTAGATTAAAGCTACGATGGTGAATCTTACTTCCCC-AGCATTGCAATTTAAAA
1 GATGCAGTAGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCCGA-CATTGCAA-TTAAAA
* * *
58342890 A-ATTGAAGCCGCAACGGCGAATCCTACTTCCATGGC
64 AGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGC
* * * *
58342926 GATGCAGTGGAGCTGATTAAAGCTACAATGGTGAATCTTGCTTCCCCGACATTGCAATCT-AAAA
1 GATGCAGTAGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGCAAT-TAAAAA
* * *
58342990 TATTGAAGCTGCAACGGTGAATCTTACTTCCATGGC
65 GATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGC
* * *** * * *
58343026 GATGCAGTGGAGCAGATTAAAGCTACAACGACAAATCTTGCTTCCCTGACATTGTAATTTAAAAG
1 GATGCAGTAGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAG
* *
58343091 ATTAAAACCGCAACGGTG
66 ATTGAAGCCGCAACGGTG
58343109 GGGCAGATTA
Statistics
Matches: 518, Mismatches: 58, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
99 39 0.08
100 473 0.91
101 6 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (100 bp):
GATGCAGTAGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAG
ATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGC
Found at i:58343055 original size:50 final size:50
Alignment explanation
Indices: 58342488--58343073 Score: 337
Period size: 50 Copynumber: 11.7 Consensus size: 50
58342478 TACAATTAAA
* * * *
58342488 AAGATTGAAGCCACAACGGTGAATCTTACCTCCCTGGCGGTGCAGTAGAG
1 AAGATTAAAGCTACAACGGTGAATCTTACTTCCCTGGCGATGCAGTAGAG
* * * * * * * *
58342538 CAGATTAAAGCTACGATGGTGAATCTTGCTTCTCTGAC-ATTGCAATTA-AA
1 AAGATTAAAGCTACAACGGTGAATCTTACTTCCCTGGCGA-TGC-AGTAGAG
* ** *
58342588 AAGATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGTGATGCAGTAGAG
1 AAGATTAAAGCTACAACGGTGAATCTTACTTCCCTGGCGATGCAGTAGAG
* * * * * * *
58342638 CAGATTAAAGCTACGACGGTGAATCTTGCTTCTCTGAC-ATTGCAATTA-AA
1 AAGATTAAAGCTACAACGGTGAATCTTACTTCCCTGGCGA-TGC-AGTAGAG
* *
58342688 AAGATTGAAGCCT-CAACGGTGAATCTTACTTCCCTGGTGATGCAGTAGAG
1 AAGATTAAAG-CTACAACGGTGAATCTTACTTCCCTGGCGATGCAGTAGAG
* * * * * *
58342738 CAGATTAAAGCTACGACGGTGAATCTTGCTTCTCC-GAC-ATTGCAATTTGA-
1 AAGATTAAAGCTACAACGGTGAATCTTACTTC-CCTGGCGA-TGC-AGTAGAG
** ** * * *
58342788 AAGATCGAAGCCGCAACGGTGAATCTTACTTCCCAGGCGGTGCTGTAGAG
1 AAGATTAAAGCTACAACGGTGAATCTTACTTCCCTGGCGATGCAGTAGAG
* * * ** * ** *
58342838 TAGATTAAAGCTACGATGGTGAATCTTACTTCCCCAGC-ATTGCAATTTAA
1 AAGATTAAAGCTACAACGGTGAATCTTACTTCCCTGGCGA-TGCAGTAGAG
* * ** * * * *
58342888 AAAATTGAAGCCGCAACGGCGAATCCTACTTCCATGGCGATGCAGTGGAG
1 AAGATTAAAGCTACAACGGTGAATCTTACTTCCCTGGCGATGCAGTAGAG
** * * * * * ** *
58342938 CTGATTAAAGCTACAATGGTGAATCTTGCTTCCCCGAC-ATTGCAATCTAA
1 AAGATTAAAGCTACAACGGTGAATCTTACTTCCCTGGCGA-TGCAGTAGAG
* * * * *
58342988 AATATTGAAGCTGCAACGGTGAATCTTACTTCCATGGCGATGCAGTGGAG
1 AAGATTAAAGCTACAACGGTGAATCTTACTTCCCTGGCGATGCAGTAGAG
* *** *
58343038 CAGATTAAAGCTACAACGACAAATCTTGCTTCCCTG
1 AAGATTAAAGCTACAACGGTGAATCTTACTTCCCTG
58343074 ACATTGTAAT
Statistics
Matches: 381, Mismatches: 135, Indels: 40
0.69 0.24 0.07
Matches are distributed among these distances:
49 16 0.04
50 347 0.91
51 18 0.05
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (50 bp):
AAGATTAAAGCTACAACGGTGAATCTTACTTCCCTGGCGATGCAGTAGAG
Found at i:58343159 original size:74 final size:74
Alignment explanation
Indices: 58343032--58343182 Score: 239
Period size: 74 Copynumber: 2.0 Consensus size: 74
58343022 TGGCGATGCA
* *
58343032 GTGGAGCAGATTAAAGCTACAACGACAAATCTTGCTTCCCTGACATTGTAATTTAAAAGATTAAA
1 GTGGAGCAGATTAAAGCTACAACGACAAATCTTGCTTCCCCGACATTGCAATTTAAAAGATTAAA
58343097 ACCGCAACG
66 ACCGCAACG
* * * *
58343106 GTGGGGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTTAAAAGATTGAA
1 GTGGAGCAGATTAAAGCTACAACGACAAATCTTGCTTCCCCGACATTGCAATTTAAAAGATTAAA
*
58343171 GCCGCAACG
66 ACCGCAACG
58343180 GTG
1 GTG
58343183 AATCTACTTC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (74 bp):
GTGGAGCAGATTAAAGCTACAACGACAAATCTTGCTTCCCCGACATTGCAATTTAAAAGATTAAA
ACCGCAACG
Found at i:58343319 original size:99 final size:101
Alignment explanation
Indices: 58343106--58343597 Score: 622
Period size: 99 Copynumber: 4.9 Consensus size: 101
58343096 AACCGCAACG
* * *
58343106 GTGGGGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTTAAAAGATTGAA
1 GTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAA
* * *
58343171 GCCGCAACGGTGAATCT-ACTTCCATGGC-GATGCA
66 GCCGCAACGGCGAATCTCACTTCCCTGGCAGATACA
* *
58343205 GTAGG-GCAGATTAAAGCTATAACGGCGAATCTTG-TTCCCCGACATTGCAATTAAAAAGATTGA
1 GT-GGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGA
* *
58343268 AGCCACAACGGCGAATCTCATTTCCCTGGCAG-TACA
65 AGCCGCAACGGCGAATCTCACTTCCCTGGCAGATACA
* * * * *
58343304 GTGGAGCGGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGATATTGCAATTAAACAGATTGAA
1 GTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAA
* *
58343369 GCCGCAACGGCGAATCTTACTTCCCTGGC-GATATA
66 GCCGCAACGGCGAATCTCACTTCCCTGGCAGATACA
* * * * *
58343404 GTTGAGCAGATTAAAGCTACAACGGTGAATCTT-ATTCCCTGGCATTGCAATTAAAGAGATTGAA
1 GTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAA
*
58343468 GTCGCAACGGCGAATCTCACTTCCCTGGCAG-TACA
66 GCCGCAACGGCGAATCTCACTTCCCTGGCAGATACA
* * * * * * * *
58343503 GTGGAGTAGATTAAAGCTACGACGTCGAATCTTGCTTCCTTAATATTACAATTTAAAAGATTGAA
1 GTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAA
* *
58343568 GCCACAACGGTGAATCTCACTTCCCTGGCA
66 GCCGCAACGGCGAATCTCACTTCCCTGGCA
58343598 ATGTCGAGGA
Statistics
Matches: 341, Mismatches: 44, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
98 46 0.13
99 155 0.45
100 140 0.41
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (101 bp):
GTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAA
GCCGCAACGGCGAATCTCACTTCCCTGGCAGATACA
Found at i:58343384 original size:50 final size:50
Alignment explanation
Indices: 58343112--58343594 Score: 264
Period size: 50 Copynumber: 9.7 Consensus size: 50
58343102 AACGGTGGGG
* * * *
58343112 CAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTTAAA
1 CAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAA-TTAAA
* * * * * **
58343163 -AGATTGAAGCCGCAACGGTGAATC-TACTTCCATGGCGA-TGC-AGTAGGG
1 CAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGAC-ATTGCAATTA-AA
* * * * *
58343211 CAGATTAAAGCTATAACGGCGAATCTT-GTTCCCCGACATTGCAATTAAA
1 CAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAATTAAA
* * * * * * * ** *
58343260 AAGATTGAAGCCACAACGGCGAATCTCATTTCCCTGGCAGTACAGTGGAG
1 CAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAATTAAA
* * * * * * *
58343310 CGGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGATATTGCAATTAAA
1 CAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAATTAAA
* * * * *
58343360 CAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATAT--AGTTGAG
1 CAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGAC-AT-TGCAATTAAA
* * * *
58343410 CAGATTAAAGCTACAACGGTGAATCTTA-TTCCCTGGCATTGCAATTAAA
1 CAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAATTAAA
* * * * * * * * ** *
58343459 GAGATTGAAGTCGCAACGGCGAATCTCACTTCCCTGGCAGTACAGTGGAG
1 CAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAATTAAA
* * * * * * * * * *
58343509 TAGATTAAAGCTACGACGTCGAATCTTGCTTCCTTAATATTACAATTTAAA
1 CAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAA-TTAAA
* *
58343560 -AGATTGAAGCCACAACGGTGAATCTCACTTCCCTG
1 CAGATTGAAGCCACAACGGCGAATCTTACTTCCCTG
58343595 GCAATGTCGA
Statistics
Matches: 306, Mismatches: 113, Indels: 27
0.69 0.25 0.06
Matches are distributed among these distances:
47 3 0.01
48 4 0.01
49 95 0.31
50 199 0.65
51 4 0.01
52 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (50 bp):
CAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACATTGCAATTAAA
Found at i:58343466 original size:199 final size:199
Alignment explanation
Indices: 58343106--58343596 Score: 700
Period size: 199 Copynumber: 2.5 Consensus size: 199
58343096 AACCGCAACG
* * * * *
58343106 GTGGGGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTTAAAAGATTGAA
1 GTGGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAA
* * * *
58343171 GCCGCAACGGTGAATC-TACTTCCATGGCGATGCAGTAGGGCAGATTAAAGCTATAACGGCGAAT
66 GCCGCAACGGTGAATCTTACTTCCCTGGCGATACAGTAGAGCAGATTAAAGCTACAACGGCGAAT
* *
58343235 CTTGTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTCATTTCCCTGGCAG
131 CTTATTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTCACTTCCCTGGCAG
58343300 TACA
196 TACA
*
58343304 GTGGAGCGGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGATATTGCAA-TTAAACAGATTGA
1 GTGGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGATATTGCAATTTAAA-AGATTGA
* * * *
58343368 AGCCGCAACGGCGAATCTTACTTCCCTGGCGATATAGTTGAGCAGATTAAAGCTACAACGGTGAA
65 AGCCGCAACGGTGAATCTTACTTCCCTGGCGATACAGTAGAGCAGATTAAAGCTACAACGGCGAA
* * * * *
58343433 TCTTATTCCCTGGCATTGCAATTAAAGAGATTGAAGTCGCAACGGCGAATCTCACTTCCCTGGCA
130 TCTTATTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTCACTTCCCTGGCA
58343498 GTACA
195 GTACA
* * * *
58343503 GTGGAGTAGATTAAAGCTACGAC-GTCGAATCTTGCTTCCTTAATATTACAATTTAAAAGATTGA
1 GTGGAGCAGATTAAAGCTACGACGGT-GAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGA
* *
58343567 AGCCACAACGGTGAATCTCACTTCCCTGGC
65 AGCCGCAACGGTGAATCTTACTTCCCTGGC
58343597 AATGTCGAGG
Statistics
Matches: 260, Mismatches: 29, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
197 5 0.02
198 70 0.27
199 180 0.69
200 5 0.02
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (199 bp):
GTGGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAA
GCCGCAACGGTGAATCTTACTTCCCTGGCGATACAGTAGAGCAGATTAAAGCTACAACGGCGAAT
CTTATTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTCACTTCCCTGGCAG
TACA
Found at i:58346730 original size:75 final size:75
Alignment explanation
Indices: 58346607--58346756 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
58346597 TATATATAGT
58346607 GCCATGTACATGAAATGAAATTCTTTGGAAATTAAAGAGAAATTTGGTTGTAAATTGTTATCTGT
1 GCCATGTACATGAAATGAAATTCTTTGGAAATTAAAGAGAAATTTGGTTGTAAATTGTTATCTGT
58346672 ACACCGCATG
66 ACACCGCATG
*
58346682 GCCATGTACATGAAATGAAATTCTTTGGAAATTAAAGAGAAATTTGGTTGTAAATTGTTCTCTGT
1 GCCATGTACATGAAATGAAATTCTTTGGAAATTAAAGAGAAATTTGGTTGTAAATTGTTATCTGT
58346747 ACACCGCATG
66 ACACCGCATG
58346757 TTTTACTTGC
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (75 bp):
GCCATGTACATGAAATGAAATTCTTTGGAAATTAAAGAGAAATTTGGTTGTAAATTGTTATCTGT
ACACCGCATG
Found at i:58347321 original size:18 final size:18
Alignment explanation
Indices: 58347263--58347323 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 18
58347253 TTTTTATTTT
* *
58347263 TATTTTTTAATTTTAAAA
1 TATTTTTTATTTTTAATA
** *
58347281 TACTTTTAAATTTTT-TTA
1 TA-TTTTTTATTTTTAATA
58347299 T-TTTTTTATTTTTAATA
1 TATTTTTTATTTTTAATA
58347316 TATTTTTT
1 TATTTTTT
58347324 TTGTGTTTAT
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
16 10 0.31
17 3 0.09
18 10 0.31
19 9 0.28
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (18 bp):
TATTTTTTATTTTTAATA
Found at i:58347333 original size:34 final size:32
Alignment explanation
Indices: 58347244--58347334 Score: 85
Period size: 34 Copynumber: 2.7 Consensus size: 32
58347234 GAATATAATA
58347244 AATATATTATTTTTATTTTTA-TTTTTTAATTTT
1 AATATATT-TTTTT-TTTTTATTTTTTTAATTTT
* * *
58347277 AAAATACTTTTAAATTTTTTTATTTTTTTATTTTT
1 AATATA-TTTT--TTTTTTTTATTTTTTTAATTTT
58347312 AATATATTTTTTTTGTGTTTATT
1 AATATATTTTTTTT-T-TTTATT
58347335 AAAAACTGGG
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
32 3 0.06
33 8 0.17
34 18 0.38
35 18 0.38
ACGTcount: A:0.26, C:0.01, G:0.02, T:0.70
Consensus pattern (32 bp):
AATATATTTTTTTTTTTTATTTTTTTAATTTT
Found at i:58347954 original size:50 final size:50
Alignment explanation
Indices: 58347881--58348065 Score: 145
Period size: 50 Copynumber: 3.7 Consensus size: 50
58347871 GCAATTAAAT
* * * * * * *
58347881 AGATTGAAGCTGCAACGGTGAATCTCAATTCCCTGGCAGTACAGTGGAGC
1 AGATTAAAGCTACGACGGCGAATCTCACTTCCCTAGCACTACAGTGGAGC
* * ** * * * ** **
58347931 AGATTAAAGCTACGACGACGAATCTTACTTCCCTAATATTGCAATTTAAA
1 AGATTAAAGCTACGACGGCGAATCTCACTTCCCTAGCACTACAGTGGAGC
* * * *
58347981 AGATTGAAGCCACAACGGTGAATCTCACTTCCCTAGCACTACAGTGGAGC
1 AGATTAAAGCTACGACGGCGAATCTCACTTCCCTAGCACTACAGTGGAGC
* **
58348031 AGATTAAAGTTACGACGGCGAATCTTGCTTCCCTA
1 AGATTAAAGCTACGACGGCGAATCTCACTTCCCTA
58348066 ATATTGCAAT
Statistics
Matches: 96, Mismatches: 39, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
50 96 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (50 bp):
AGATTAAAGCTACGACGGCGAATCTCACTTCCCTAGCACTACAGTGGAGC
Found at i:58348085 original size:50 final size:50
Alignment explanation
Indices: 58347931--58348214 Score: 192
Period size: 50 Copynumber: 5.7 Consensus size: 50
58347921 ACAGTGGAGC
*
58347931 AGATTAAAGCTACGACGACGAATCTTACTTCCCTAATATTGCAATTTAAA
1 AGATTAAAGCTACGACGGCGAATCTTACTTCCCTAATATTGCAATTTAAA
* * * * * ** * * * ** **
58347981 AGATTGAAGCCACAACGGTGAATCTCACTTCCCTAGCACTACAGTGGAGC
1 AGATTAAAGCTACGACGGCGAATCTTACTTCCCTAATATTGCAATTTAAA
* *
58348031 AGATTAAAGTTACGACGGCGAATCTTGCTTCCCTAATATTGCAATTTAAA
1 AGATTAAAGCTACGACGGCGAATCTTACTTCCCTAATATTGCAATTTAAA
* * * * * ** * ** **
58348081 AGATTGAAGCCACAACGGTGAATCTTACTTTCCTAGCGA-TGCAGTAGAGC
1 AGATTAAAGCTACGACGGCGAATCTTACTTCCCTA-ATATTGCAATTTAAA
* ** * ** *
58348131 AGATTAAAGCTACAACGGTAAATCTTGCTTCCCCGACATTGCAATTTAAA
1 AGATTAAAGCTACGACGGCGAATCTTACTTCCCTAATATTGCAATTTAAA
* ** *
58348181 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCT
1 AGATTAAAGCTACGACGGCGAATCTTACTTCCCT
58348215 GAGGTTGTAG
Statistics
Matches: 166, Mismatches: 66, Indels: 4
0.70 0.28 0.02
Matches are distributed among these distances:
49 1 0.01
50 164 0.99
51 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (50 bp):
AGATTAAAGCTACGACGGCGAATCTTACTTCCCTAATATTGCAATTTAAA
Found at i:58348228 original size:100 final size:101
Alignment explanation
Indices: 58347801--58348217 Score: 526
Period size: 100 Copynumber: 4.2 Consensus size: 101
58347791 TTTACATTAG
*
58347801 GAATCTTACTTCCCTGA-CGATGTAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTG-TTCCC
1 GAATCTTACTTCCCTGAGCGATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCC
* **
58347864 CGACATTGCAA-TTAAATAGATTGAAGCTGCAACGGT
66 CAACATTGCAATTTAAA-AGATTGAAGCCACAACGGT
* * * * * *
58347900 GAATCTCAATTCCCTG-GC-AGTACAGTGGAGCAGATTAAAGCTACGACGACGAATCTTACTTCC
1 GAATCTTACTTCCCTGAGCGA-TGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCC
* *
58347963 CTAATATTGCAATTTAAAAGATTGAAGCCACAACGGT
65 CCAACATTGCAATTTAAAAGATTGAAGCCACAACGGT
* * * *
58348000 GAATCTCACTTCCCT-AGC-ACTACAGTGGAGCAGATTAAAGTTACGACGGCGAATCTTGCTTCC
1 GAATCTTACTTCCCTGAGCGA-TGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCC
* *
58348063 CTAATATTGCAATTTAAAAGATTGAAGCCACAACGGT
65 CCAACATTGCAATTTAAAAGATTGAAGCCACAACGGT
* * **
58348100 GAATCTTACTTTCCT-AGCGATGCAGTAGAGCAGATTAAAGCTACAACGGTAAATCTTGCTTCCC
1 GAATCTTACTTCCCTGAGCGATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCC
* * *
58348164 CGACATTGCAATTTAAAAGATTGAAGCCGCAACGGC
66 CAACATTGCAATTTAAAAGATTGAAGCCACAACGGT
58348200 GAATCTTACTTCCCTGAG
1 GAATCTTACTTCCCTGAG
58348218 GTTGTAGTAG
Statistics
Matches: 280, Mismatches: 31, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
98 1 0.00
99 48 0.17
100 223 0.80
101 8 0.03
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.26
Consensus pattern (101 bp):
GAATCTTACTTCCCTGAGCGATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCC
CAACATTGCAATTTAAAAGATTGAAGCCACAACGGT
Found at i:58355229 original size:51 final size:52
Alignment explanation
Indices: 58355166--58355292 Score: 186
Period size: 52 Copynumber: 2.5 Consensus size: 52
58355156 CGGATACCCG
* *
58355166 GTGGCCTACACATAGTACCACCCTTGT-ATCCAAAGCTA-CCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATCCTTCTTCACAAA
* *
58355217 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCAGAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCCTTCTTCACAAA
*
58355269 GTGGCCATCACATAGTACCACACT
1 GTGGCCTTCACATAGTACCACACT
58355293 CGAGTCACTA
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
51 34 0.49
52 35 0.51
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (52 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCCTTCTTCACAAA
Found at i:58359680 original size:51 final size:52
Alignment explanation
Indices: 58359617--58359741 Score: 198
Period size: 51 Copynumber: 2.4 Consensus size: 52
58359607 CGGATACCCG
* **
58359617 GTGGCCTACACATAGTACCACCTTTGTAACCAAAGCTA-CCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACAGTTGTAACCAAAGCTATCCTTCTTCACAAA
* *
58359668 GTGGCCTTCACATAGTACCACAGTTGTGACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACAGTTGTAACCAAAGCTATCCTTCTTCACAAA
58359720 GTGGCCTTCACATAGTACCACA
1 GTGGCCTTCACATAGTACCACA
58359742 CTTGAGTCAC
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
51 34 0.50
52 34 0.50
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (52 bp):
GTGGCCTTCACATAGTACCACAGTTGTAACCAAAGCTATCCTTCTTCACAAA
Found at i:58361145 original size:51 final size:51
Alignment explanation
Indices: 58360970--58361137 Score: 216
Period size: 52 Copynumber: 3.3 Consensus size: 51
58360960 TAGTGACTCT
* * * *
58360970 AGTGTGGCACTATGTGAAGGCCACTTTGAGAAG-AGCTAGC-TTGATCACA
1 AGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCACA
*
58361019 AGTGTGGTACTATGGGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCACA
1 AGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGGTCACA
* *
58361071 AGTGTGGTACTATGTGAAGGTCACTTTGTGAAGAAGGTAGCTTTGG-CTACA
1 AGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTC-ACA
* *
58361122 AGGGTTGTACTATGTG
1 AGTGTGGTACTATGTG
58361138 CAGGTCACCG
Statistics
Matches: 105, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
49 30 0.29
50 1 0.01
51 35 0.33
52 39 0.37
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.29
Consensus pattern (51 bp):
AGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCACA
Found at i:58367506 original size:41 final size:41
Alignment explanation
Indices: 58367425--58367503 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 41
58367415 ACCCCACTCA
* * *
58367425 AAAGCAACCCCAAACTATAAGTAAATGCCTTGATTAAAAGT
1 AAAGCAACCCCAAACTATAACTAAATACCTTAATTAAAAGT
*
58367466 AAAGCAA-CCCTAACTATAACTAAATACCTTAATTAAAA
1 AAAGCAACCCCAAACTATAACTAAATACCTTAATTAAAA
58367504 AGTGAATCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
40 27 0.79
41 7 0.21
ACGTcount: A:0.49, C:0.20, G:0.08, T:0.23
Consensus pattern (41 bp):
AAAGCAACCCCAAACTATAACTAAATACCTTAATTAAAAGT
Found at i:58374621 original size:46 final size:46
Alignment explanation
Indices: 58374569--58374873 Score: 315
Period size: 46 Copynumber: 6.6 Consensus size: 46
58374559 TTTGAGTACT
* *
58374569 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* * *
58374615 TCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-AGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
58374660 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCAGCTACACTTA
* * *
58374712 TCTGATCAAGAGACAAAGTGATAAGTGATAGTTTCGGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
58374758 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
58374810 TCTGATCAAGAGACAAAGTGATAA--G-T-G-----GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
58374847 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
58374874 GCTACACTTA
Statistics
Matches: 228, Mismatches: 16, Indels: 37
0.81 0.06 0.13
Matches are distributed among these distances:
37 34 0.15
39 1 0.00
42 1 0.00
43 1 0.00
44 1 0.00
45 24 0.11
46 84 0.37
51 18 0.08
52 64 0.28
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
Found at i:58374712 original size:52 final size:52
Alignment explanation
Indices: 58374621--58374825 Score: 262
Period size: 52 Copynumber: 4.1 Consensus size: 52
58374611 CTTATCTGAT
* * *
58374621 CAAGTGGCAAAGTGATAAGTGGTAGCCT-AGCTACACTTATCTGATCAAGTGA
1 CAAGTGG-AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGA
* *
58374673 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 CAAGTGGAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGA
* * *
58374725 C------AAAGTGATAAGTGATAGTTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGGAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGA
* *
58374771 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 CAAGTGGAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGA
58374823 CAA
1 CAA
58374826 AGTGATAAGT
Statistics
Matches: 134, Mismatches: 12, Indels: 14
0.84 0.08 0.09
Matches are distributed among these distances:
46 43 0.32
51 18 0.13
52 73 0.54
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (52 bp):
CAAGTGGAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGA
Found at i:58374789 original size:98 final size:97
Alignment explanation
Indices: 58374575--58374836 Score: 407
Period size: 98 Copynumber: 2.7 Consensus size: 97
58374565 TACTTCTGAT
* * *
58374575 CAAGTGATAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGGCAAAGTGATAAG
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAAGTGATAAG
*
58374640 TGGTAGCCTAGCTACACTTATCTGATCAAGTGA
65 TGATAGCCTAGCTACACTTATCTGATCAAGTGA
* * *
58374673 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
** *
58374738 GATAGTTTCGGCTACACTTATCTGATCAAGTGA
66 GATAGCCT-AGCTACACTTATCTGATCAAGTGA
*
58374771 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
58374836 G
66 G
58374837 GCTACACTTA
Statistics
Matches: 149, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
97 58 0.39
98 91 0.61
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (97 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
GATAGCCTAGCTACACTTATCTGATCAAGTGA
Found at i:58374844 original size:37 final size:37
Alignment explanation
Indices: 58374800--58374908 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
58374790 GATAGCTTTA
58374800 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
58374837 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
58374874 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
58374909 ATCATACGTA
Statistics
Matches: 71, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
35 12 0.17
36 5 0.07
37 54 0.76
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:58382388 original size:29 final size:29
Alignment explanation
Indices: 58382356--58382482 Score: 86
Period size: 29 Copynumber: 4.4 Consensus size: 29
58382346 TTAGAATAAC
58382356 AAATATTATAAAAATTTAAATATAATTTT
1 AAATATTATAAAAATTTAAATATAATTTT
* * *
58382385 AAATATTATAAATAA-AT-AATAAAAATTT
1 AAATATTATAAA-AATTTAAATATAATTTT
* ** * *
58382413 AAAAAGAATTAAAAACGTTTCAATA-AA---C
1 AAATATTA-TAAAAA--TTTAAATATAATTTT
**
58382441 CGATATTATAAAAATTTAAATATAATTTT
1 AAATATTATAAAAATTTAAATATAATTTT
58382470 AAATATTATAAAA
1 AAATATTATAAAA
58382483 CAAATAATAA
Statistics
Matches: 71, Mismatches: 17, Indels: 20
0.66 0.16 0.19
Matches are distributed among these distances:
25 7 0.10
26 2 0.03
27 6 0.08
28 19 0.27
29 28 0.39
30 2 0.03
31 3 0.04
32 4 0.06
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.36
Consensus pattern (29 bp):
AAATATTATAAAAATTTAAATATAATTTT
Found at i:58382407 original size:40 final size:40
Alignment explanation
Indices: 58382353--58382493 Score: 131
Period size: 45 Copynumber: 3.3 Consensus size: 40
58382343 AGTTTAGAAT
58382353 AACAAATATTATAAAAATTTAAATATAATTTTAAATATTATA
1 AACAAATA--ATAAAAATTTAAATATAATTTTAAATATTATA
* * * **
58382395 AATAAATAATAAAAATTTAAAAAGAATTAAAAACGT-TTCAATA
1 AACAAATAATAAAAATTTAAATATAATTTTAAA--TATT--ATA
* *
58382438 AACCGATATTATAAAAATTTAAATATAATTTTAAATATTATAA
1 AA-C-AAATAATAAAAATTTAAATATAATTTTAAATATTAT-A
58382481 AACAAATAATAAA
1 AACAAATAATAAA
58382494 CAAATAAAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 17
0.71 0.13 0.16
Matches are distributed among these distances:
40 21 0.27
41 10 0.13
42 11 0.14
43 9 0.12
44 2 0.03
45 24 0.31
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (40 bp):
AACAAATAATAAAAATTTAAATATAATTTTAAATATTATA
Found at i:58384310 original size:3 final size:3
Alignment explanation
Indices: 58384302--58384327 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
58384292 CATATAACGC
58384302 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
58384328 CCGTGATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:58385258 original size:27 final size:26
Alignment explanation
Indices: 58385210--58385264 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
58385200 ATGATTTAGA
58385210 AATTAAAAATATTAATAAAATAAATTT
1 AATTAAAAATATTAATAAAAT-AATTT
* *
58385237 AATTAAAATTATTTAA-ATAATAATTT
1 AATTAAAAATA-TTAATAAAATAATTT
58385263 AA
1 AA
58385265 AAATAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.28
27 14 0.56
28 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
AATTAAAAATATTAATAAAATAATTT
Found at i:58385381 original size:24 final size:26
Alignment explanation
Indices: 58385345--58385394 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
58385335 AATTAAAAAT
*
58385345 ATTTAACTTTTACTAGTTTAT-TATA
1 ATTTAACTTTTACTAGTATATATATA
58385370 ATTTAA-TTTTACTAGTATATATATA
1 ATTTAACTTTTACTAGTATATATATA
58385395 TATTCTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (26 bp):
ATTTAACTTTTACTAGTATATATATA
Found at i:58385914 original size:2 final size:2
Alignment explanation
Indices: 58385909--58385945 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
58385899 TTTTTAATGT
58385909 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
58385946 TGCAAATCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:58410900 original size:38 final size:36
Alignment explanation
Indices: 58410839--58410916 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 36
58410829 ATACCCATGA
* *
58410839 TTTAACTTTAAAAATTTATTTTTATACAATAATAATAT
1 TTTAACTTTAAAAATATATTTTTACA-AATAA-AATAT
* *
58410877 TTTAA-TTTTAAAATATATATTTTACAAATTAAATAT
1 TTTAACTTTAAAAATATAT-TTTTACAAATAAAATAT
58410913 TTTA
1 TTTA
58410917 TTCACATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
36 9 0.26
37 15 0.43
38 11 0.31
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (36 bp):
TTTAACTTTAAAAATATATTTTTACAAATAAAATAT
Found at i:58411233 original size:31 final size:31
Alignment explanation
Indices: 58411195--58411255 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
58411185 ACTACAAAAA
*
58411195 TAGTCACTTTTGTTTG-CCTCATATTACATTT
1 TAGTCACTTATGTTTGACCTCAT-TTACATTT
*
58411226 TAGTCACTTATGTTTGACGTCATTTACATT
1 TAGTCACTTATGTTTGACCTCATTTACATT
58411256 GTCGTTTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 22 0.81
32 5 0.19
ACGTcount: A:0.21, C:0.18, G:0.11, T:0.49
Consensus pattern (31 bp):
TAGTCACTTATGTTTGACCTCATTTACATTT
Found at i:58420859 original size:384 final size:383
Alignment explanation
Indices: 58420144--58420897 Score: 1078
Period size: 384 Copynumber: 2.0 Consensus size: 383
58420134 AAACAAAGTT
58420144 TAAACCAAGCTACCTGTGAGTGTCAAATACAAGTCTAAGTCCTACATAGGTATGTTCAATATTCT
1 TAAACCAAGCTACCTGTGAGTGTCAAATACAAGTCTAAGTCCTACATAGGTATGTTCAATATTCT
* * * * *
58420209 TTTTTCTAATTTTTAAAATATATTTGGGGAACCGTATCCTCGTATCCATTTTTCAATGTGTTGGA
66 ATTTTCTAATTTTTAAAATATATTTGGGGAACCATATCCTCGTATCCATGTCTCAATGTGTCGGA
** * * * *
58420274 TATGGGTGTTGGGCCCAACACACTTCAAAGAAACTGAAAAATCTGAGCAACATAGCGAACTACAA
131 TATGGGTGCAGGACACAACACACTTCAAAGAAAATGAAAAATCTGAGCAACATAGCAAACTACAA
* * *
58420339 CACCAGTTATGACATCACATAAACGAAGTTGAATCTAAAACGGCACCATTGACTTCTCATGGAAC
196 CACCAGTTATGACATCACATAAACGAAGTTGAATCTAAAACAGCAACATTGACTTCTCATGAAAC
* ** *
58420404 ATAGGAGAAAAAGAATAGTGAAAGAGAAATTACATAATTAATCAAATAATTAGCAATTACATATC
261 ATAAGAGAAAAAGAATAGT-AAAGAGAAAGGACATAATTAATAAAATAATTAGCAATTACATATC
*
58420469 AGTTTCTTCTTTTCTTTGTACTGTGAAAAGCCCATGCAGACAAAGCTTATATCCACATC
325 AGTTTCTTCTTTTCTTTGTACTGTAAAAAGCCCATGCAGACAAAGCTTATATCCACATC
* *
58420528 TAAACCAGGCTACCTGTGAGTGTCAAATACAAGTCTGAGTCCTACATAGGTATGTTC-A-A-T-T
1 TAAACCAAGCTACCTGTGAGTGTCAAATACAAGTCTAAGTCCTACATAGGTATGTTCAATATTCT
* * *
58420589 ATTTTCTAAATTTTT-AAATATATTTGGGGAACCATATGCTTGTATCCATGTCTGAATGTGTCGG
66 ATTTTCT-AATTTTTAAAATATATTTGGGGAACCATATCCTCGTATCCATGTCTCAATGTGTCGG
*
58420653 ATATGGGTGCAGGACAC-A-ACACTTCAAAGAAAATGAAAACT-TGGAGCAACATAGCAAACTAC
130 ATATGGGTGCAGGACACAACACACTTCAAAGAAAATGAAAAATCT-GAGCAACATAGCAAACTAC
*
58420715 AACACCAGTTATGACATCACATAAATGAAGTTGAAATCTAAAACAGCAACATTGACTTCTCATGA
194 AACACCAGTTATGACATCACATAAACGAAGTTG-AATCTAAAACAGCAACATTGACTTCTCATGA
*
58420780 AACATAAGAGAACAAA-AATAGT-AAGAGAAAGGATATAATTTTAATAAAATAATTAGCTATCAT
258 AACATAAGAGAA-AAAGAATAGTAAAGAGAAAGGACATAA--TTAATAAAATAATTAGC-A--A-
*
58420843 TTTACATATTAGTTTCTTCTTTTCTTTGTACTGTAAAAAGCCCATGCAGACAAAG
316 -TTACATATCAGTTTCTTCTTTTCTTTGTACTGTAAAAAGCCCATGCAGACAAAG
58420898 TAGAAAGCTT
Statistics
Matches: 331, Mismatches: 28, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
377 14 0.04
378 71 0.21
379 62 0.19
380 66 0.20
381 8 0.02
382 2 0.01
383 1 0.00
384 107 0.32
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (383 bp):
TAAACCAAGCTACCTGTGAGTGTCAAATACAAGTCTAAGTCCTACATAGGTATGTTCAATATTCT
ATTTTCTAATTTTTAAAATATATTTGGGGAACCATATCCTCGTATCCATGTCTCAATGTGTCGGA
TATGGGTGCAGGACACAACACACTTCAAAGAAAATGAAAAATCTGAGCAACATAGCAAACTACAA
CACCAGTTATGACATCACATAAACGAAGTTGAATCTAAAACAGCAACATTGACTTCTCATGAAAC
ATAAGAGAAAAAGAATAGTAAAGAGAAAGGACATAATTAATAAAATAATTAGCAATTACATATCA
GTTTCTTCTTTTCTTTGTACTGTAAAAAGCCCATGCAGACAAAGCTTATATCCACATC
Found at i:58423394 original size:36 final size:36
Alignment explanation
Indices: 58423354--58423425 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
58423344 ATAAATGGTC
*
58423354 ACAAGAGTATCCAATGTATTGCAACCAAGCAACACA
1 ACAAGAGTATCCAATGTATTGCAACCAAACAACACA
*
58423390 ACAAGAGTATCTAATGTATTGCAACCAAACAACACA
1 ACAAGAGTATCCAATGTATTGCAACCAAACAACACA
58423426 GCCAAGCAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.46, C:0.24, G:0.12, T:0.18
Consensus pattern (36 bp):
ACAAGAGTATCCAATGTATTGCAACCAAACAACACA
Found at i:58423756 original size:62 final size:63
Alignment explanation
Indices: 58423653--58423777 Score: 180
Period size: 62 Copynumber: 2.0 Consensus size: 63
58423643 ATTATTGTAC
* * * * *
58423653 TTTAATTTATTAAAGTATGAGTAAGTTATGGTTTACTAGATGAGTCATCGTTC-TTTATAAAT
1 TTTAATTTATTAAAGTATGAGTAAGTCATAGTTTACGAGATGAGTCATCATCCTTTTATAAAT
* *
58423715 TTTACTTTATTAAAGTATGAGTGAGTCATAGTTTACGAGATGAGTCATCATCCTTTTATAAAT
1 TTTAATTTATTAAAGTATGAGTAAGTCATAGTTTACGAGATGAGTCATCATCCTTTTATAAAT
58423778 CATTGAACTT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
62 46 0.84
63 9 0.16
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (63 bp):
TTTAATTTATTAAAGTATGAGTAAGTCATAGTTTACGAGATGAGTCATCATCCTTTTATAAAT
Found at i:58424490 original size:17 final size:17
Alignment explanation
Indices: 58424465--58424497 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
58424455 CACGTCATAT
58424465 TTACACTTTCATTTTGG
1 TTACACTTTCATTTTGG
*
58424482 TTACGCTTTCATTTTG
1 TTACACTTTCATTTTG
58424498 ATCACCCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.18, G:0.12, T:0.55
Consensus pattern (17 bp):
TTACACTTTCATTTTGG
Found at i:58425418 original size:19 final size:18
Alignment explanation
Indices: 58425379--58425419 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
58425369 TTCGATGTAC
*
58425379 TATTTTTAAATTTATTGA
1 TATTTTTAAATTTATTCA
*
58425397 TATTTTTAAATATTTTTCA
1 TATTTTTAAAT-TTATTCA
58425416 TATT
1 TATT
58425420 CAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
TATTTTTAAATTTATTCA
Found at i:58427493 original size:21 final size:21
Alignment explanation
Indices: 58427467--58427509 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
58427457 GGAATGAGGC
58427467 TTCAAGACAGGTAGAAACCTA
1 TTCAAGACAGGTAGAAACCTA
58427488 TTCAAGACAGGTAGAAACCTA
1 TTCAAGACAGGTAGAAACCTA
58427509 T
1 T
58427510 CTTATCCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (21 bp):
TTCAAGACAGGTAGAAACCTA
Found at i:58428756 original size:19 final size:19
Alignment explanation
Indices: 58428732--58428772 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
58428722 TATTTTAAAG
58428732 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
58428751 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
58428770 TTA
1 TTA
58428773 GAATAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.44
Consensus pattern (19 bp):
TTATTTAGGTAGATAAATC
Found at i:58439152 original size:14 final size:14
Alignment explanation
Indices: 58439133--58439159 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
58439123 AAATTTATCA
58439133 ATTTTTTTAAAAAT
1 ATTTTTTTAAAAAT
58439147 ATTTTTTTAAAAA
1 ATTTTTTTAAAAA
58439160 ATCACCATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTTTTTTAAAAAT
Found at i:58440279 original size:7 final size:7
Alignment explanation
Indices: 58440269--58440298 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
58440259 TTTAAATGTC
58440269 TTTTATT
1 TTTTATT
58440276 TTTTATT
1 TTTTATT
58440283 TTATTATT
1 TT-TTATT
58440291 TTTTATT
1 TTTTATT
58440298 T
1 T
58440299 GGGAAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTATT
Found at i:58450087 original size:107 final size:109
Alignment explanation
Indices: 58449941--58450174 Score: 325
Period size: 109 Copynumber: 2.2 Consensus size: 109
58449931 TTCCTTTTGG
* * *
58449941 CATATTCTCAACATAAAATGCTCATTTATATTTACATTTACTTTTCCTA-TA-ATATATTTGTGG
1 CATATTCTTAAAATAAAATGCTCATTTATATTTACATTTACTTTTCCAATTATATATATTTGT-G
** * *
58450004 GAA-GTAATGGCATTTGGTCATTGAAATTAGTGGTAAATAGTGTT
65 GAAGGTAACCGCATTTGGTCATTCAAATTAGTGGTAAATAATGTT
58450048 CATATTCTTAAAATAAAATGCTCATTTATATTTACATTTACTTTTCCAATTATATATATTTGTGG
1 CATATTCTTAAAATAAAATGCTCATTTATATTTACATTTACTTTTCCAATTATATATATTTGTGG
* * *
58450113 AAGGTAGCCGCATTTGGTGATTCAACTTAGTGGTAAATAATGTT
66 AAGGTAACCGCATTTGGTCATTCAAATTAGTGGTAAATAATGTT
58450157 CATAGTT-TTAAAA-AAAAT
1 CATA-TTCTTAAAATAAAAT
58450175 AATATTATTA
Statistics
Matches: 113, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
107 46 0.41
108 11 0.10
109 54 0.48
110 2 0.02
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (109 bp):
CATATTCTTAAAATAAAATGCTCATTTATATTTACATTTACTTTTCCAATTATATATATTTGTGG
AAGGTAACCGCATTTGGTCATTCAAATTAGTGGTAAATAATGTT
Found at i:58457093 original size:3 final size:3
Alignment explanation
Indices: 58457085--58457143 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
58457075 CAAAATTTAA
58457085 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
58457133 AAT AAT AAT AA
1 AAT AAT AAT AA
58457144 ACATACACTC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:58458191 original size:2 final size:2
Alignment explanation
Indices: 58458184--58458238 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
58458174 CCATACAATT
58458184 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
58458226 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
58458239 TGCAGCTATG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:58461975 original size:32 final size:30
Alignment explanation
Indices: 58461901--58461975 Score: 82
Period size: 32 Copynumber: 2.5 Consensus size: 30
58461891 TAAGTTTTAG
* *
58461901 GAGTTTAATTGAA-ATTTTAAAAATTTTAA
1 GAGTTTAATTGAATATTTAAAAAATTTGAA
*
58461930 GGGTTTTAA-TGAATATTCTAAAAAAATTTGAA
1 GAG-TTTAATTGAATATT-T-AAAAAATTTGAA
58461962 GAGTTTAATTGAAT
1 GAGTTTAATTGAAT
58461976 TTTTTTGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
29 6 0.16
30 8 0.22
31 6 0.16
32 17 0.46
ACGTcount: A:0.43, C:0.01, G:0.15, T:0.41
Consensus pattern (30 bp):
GAGTTTAATTGAATATTTAAAAAATTTGAA
Found at i:58462842 original size:19 final size:19
Alignment explanation
Indices: 58462818--58462855 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
58462808 TTCCCTTTTA
*
58462818 CTAAAAAATTTAATTAATT
1 CTAAAAAATATAATTAATT
58462837 CTAAAAAATATAATTAATT
1 CTAAAAAATATAATTAATT
58462856 TTTTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (19 bp):
CTAAAAAATATAATTAATT
Found at i:58462985 original size:30 final size:30
Alignment explanation
Indices: 58462951--58463020 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
58462941 AGGTACGACC
* * *
58462951 AAAATAAAAACTTATTAAAGTTAGGTGACT
1 AAAATGAAAACTTATTAAAGTTAAGTAACT
58462981 AAAATGAAAACTTATTAAAGTTAAGTAACT
1 AAAATGAAAACTTATTAAAGTTAAGTAACT
58463011 AAAATGAAAA
1 AAAATGAAAA
58463021 TTGTTGTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.56, C:0.06, G:0.11, T:0.27
Consensus pattern (30 bp):
AAAATGAAAACTTATTAAAGTTAAGTAACT
Found at i:58464182 original size:39 final size:42
Alignment explanation
Indices: 58464094--58464191 Score: 103
Period size: 39 Copynumber: 2.4 Consensus size: 42
58464084 GTCACTTCGG
* * * * * *
58464094 TCACGGTTCCCTTGAGAGTTATCATCTTGAGTAACACTTTGG
1 TCACGGTTCCCTTGAGAGATATCATCTGGAGCAACACCTCGC
*
58464136 TCGCGGTTCCCTTGAGA-AT-TC-TCTGGAGCAACACCTCGC
1 TCACGGTTCCCTTGAGAGATATCATCTGGAGCAACACCTCGC
*
58464175 TCACGGTTCCCTCGAGA
1 TCACGGTTCCCTTGAGA
58464192 TTTTCGGAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
39 28 0.60
40 2 0.04
41 1 0.02
42 16 0.34
ACGTcount: A:0.19, C:0.29, G:0.22, T:0.30
Consensus pattern (42 bp):
TCACGGTTCCCTTGAGAGATATCATCTGGAGCAACACCTCGC
Found at i:58464520 original size:22 final size:22
Alignment explanation
Indices: 58464492--58464538 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
58464482 ACACCATCAT
58464492 TCATAGGTAACTCATTCCAAAA
1 TCATAGGTAACTCATTCCAAAA
58464514 TCATAGGTAACTCATTCCAAAA
1 TCATAGGTAACTCATTCCAAAA
58464536 TCA
1 TCA
58464539 AATTCAGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (22 bp):
TCATAGGTAACTCATTCCAAAA
Found at i:58466470 original size:36 final size:36
Alignment explanation
Indices: 58466319--58466481 Score: 118
Period size: 36 Copynumber: 4.6 Consensus size: 36
58466309 TGAACATTCG
* * * ** *
58466319 GGTGACTTTTGCTGGTCCCATGAATTATTAATTGTA
1 GGTGACTTTTGCTGATCCCAAGAACTATTTGTTGCA
* *
58466355 GGTGACTTTT-CTTGGTCCCAAGAACTA--T-TTGCT
1 GGTGACTTTTGC-TGATCCCAAGAACTATTTGTTGCA
* * * ** *
58466388 GGTGGCTTTTGTTGATCCCAAGAATTATTTGCCGTA
1 GGTGACTTTTGCTGATCCCAAGAACTATTTGTTGCA
* * *
58466424 GATGATTTTTGCCGATCCCAAGAACTATTTGTTGCA
1 GGTGACTTTTGCTGATCCCAAGAACTATTTGTTGCA
* *
58466460 GGTGACTTTTGTTGGTCCCAAG
1 GGTGACTTTTGCTGATCCCAAG
58466482 CATTATTCAT
Statistics
Matches: 95, Mismatches: 27, Indels: 10
0.72 0.20 0.08
Matches are distributed among these distances:
33 25 0.26
35 2 0.02
36 68 0.72
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (36 bp):
GGTGACTTTTGCTGATCCCAAGAACTATTTGTTGCA
Found at i:58467368 original size:153 final size:153
Alignment explanation
Indices: 58467090--58467379 Score: 472
Period size: 153 Copynumber: 1.9 Consensus size: 153
58467080 TTTTGGAGAG
* * * *
58467090 ACATCTTGTGATTTAGATTTGCTCATCCCCCAATCAGACCACTCGCTTTGCTTCTTTGAACTGGA
1 ACATCTTGTGATTTAGATTTGCTCACCCCCCAATCAGAACACTCACTTTGCTTCTTCGAACTGGA
* * *
58467155 TGCAGCTGCTGCAAAATTGTCACCATCCTCTGCATTTTTATGCCATGCAGACAAGGCATCCCAAC
66 TGCAGCAGCTGCAAAATTGTCACCATCCTCTGCATTTTTATGCCATCCAGACAAAGCATCCCAAC
58467220 CAACATCCACTTTTGGAGAGACA
131 CAACATCCACTTTTGGAGAGACA
* * *
58467243 ACATCTTGTGATTTAGATTTGCTCGCCCCCCAATCAGAACACTCATTTTGCTTCTTCGAACTGGT
1 ACATCTTGTGATTTAGATTTGCTCACCCCCCAATCAGAACACTCACTTTGCTTCTTCGAACTGGA
* *
58467308 TGCAGCAGCTGCAAATTTGTCACCATCCTCTGCATTTTTATTCCATCCAGACAAAGCATCCCAAC
66 TGCAGCAGCTGCAAAATTGTCACCATCCTCTGCATTTTTATGCCATCCAGACAAAGCATCCCAAC
58467373 CAACATC
131 CAACATC
58467380 TTGTGAGTTA
Statistics
Matches: 125, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
153 125 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (153 bp):
ACATCTTGTGATTTAGATTTGCTCACCCCCCAATCAGAACACTCACTTTGCTTCTTCGAACTGGA
TGCAGCAGCTGCAAAATTGTCACCATCCTCTGCATTTTTATGCCATCCAGACAAAGCATCCCAAC
CAACATCCACTTTTGGAGAGACA
Found at i:58467421 original size:132 final size:129
Alignment explanation
Indices: 58467241--58467509 Score: 412
Period size: 132 Copynumber: 2.1 Consensus size: 129
58467231 TTTGGAGAGA
* * * *
58467241 CAACATCTTGTGATTTAGATTTGCTCGCCCCCCAATCAGAACACTCATTTTGCTTCTTCGAACTG
1 CAACATCTTGTGAGTTAGATTTGCTCGCACCCCAACCAGAACACTCATTTTGCTTCTCCGAACTG
* * * *
58467306 GTTGCAGCAGCTGCAAATTTGTCACCATCCTCTGCATTTTTATTCCATCCAGACAAAGCATCCCA
66 GTCGCAGCAGCAGCAAATTTGTCAACATCCTCAGCATTTTTATTCCATCCAG---AAGCATCCCA
58467371 AC
128 AC
*
58467373 CAACATCTTGTGAGTTAGATTTGCTCGCACCCCAACCAGACCACTCATTTTGCTTCTCCGAACTG
1 CAACATCTTGTGAGTTAGATTTGCTCGCACCCCAACCAGAACACTCATTTTGCTTCTCCGAACTG
* *
58467438 GTCGCAGCTGCAGCAAATTTGTCAACATCCTCAGCATTTTTATTCCATCCAGATGCATCCCAAC
66 GTCGCAGCAGCAGCAAATTTGTCAACATCCTCAGCATTTTTATTCCATCCAGAAGCATCCCAAC
58467502 CAACATCT
1 CAACATCT
58467510 GACACCTTGT
Statistics
Matches: 126, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
129 19 0.15
132 107 0.85
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (129 bp):
CAACATCTTGTGAGTTAGATTTGCTCGCACCCCAACCAGAACACTCATTTTGCTTCTCCGAACTG
GTCGCAGCAGCAGCAAATTTGTCAACATCCTCAGCATTTTTATTCCATCCAGAAGCATCCCAAC
Found at i:58479539 original size:17 final size:18
Alignment explanation
Indices: 58479506--58479540 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
58479496 TATTTAATAA
58479506 TATTTTTATCTCAAAAAG
1 TATTTTTATCTCAAAAAG
58479524 TATTTTT-TCTTCAAAAA
1 TATTTTTATC-TCAAAAA
58479541 AATACTCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.49
Consensus pattern (18 bp):
TATTTTTATCTCAAAAAG
Found at i:58479728 original size:28 final size:29
Alignment explanation
Indices: 58479688--58479745 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 29
58479678 AAATATTTTA
58479688 AAAAAATTATATAAA-A-TATATTTTATTT
1 AAAAAATTATATAAAGATTAT-TTTTATTT
*
58479716 AAAATATTATATAAAGATTATTTTTATTT
1 AAAAAATTATATAAAGATTATTTTTATTT
58479745 A
1 A
58479746 TTTAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 14 0.52
29 10 0.37
30 3 0.11
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (29 bp):
AAAAAATTATATAAAGATTATTTTTATTT
Found at i:58481639 original size:21 final size:21
Alignment explanation
Indices: 58481615--58481665 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
58481605 AAAAAAAAAG
* *
58481615 AAATAGCAAGAAAATAGTAAA
1 AAATAGCAAGAAAACAATAAA
*
58481636 AAATAGAAAGAAAACAATAAA
1 AAATAGCAAGAAAACAATAAA
58481657 AAAGTAGCA
1 AAA-TAGCA
58481666 TATTTTTTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.69, C:0.06, G:0.14, T:0.12
Consensus pattern (21 bp):
AAATAGCAAGAAAACAATAAA
Found at i:58497409 original size:15 final size:16
Alignment explanation
Indices: 58497389--58497418 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
58497379 AAATCATCCC
58497389 TTTGTTTTT-TTTTTT
1 TTTGTTTTTGTTTTTT
58497404 TTTGTTTTTGTTTTT
1 TTTGTTTTTGTTTTT
58497419 AGTAATGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (16 bp):
TTTGTTTTTGTTTTTT
Found at i:58500537 original size:20 final size:20
Alignment explanation
Indices: 58500514--58500551 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
58500504 TGTTTATATG
* *
58500514 TACATGTATATGTATATACA
1 TACATATATATATATATACA
58500534 TACATATATATATATATA
1 TACATATATATATATATA
58500552 TATAAGTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (20 bp):
TACATATATATATATATACA
Found at i:58504265 original size:23 final size:23
Alignment explanation
Indices: 58504239--58504286 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
58504229 GAAAAGTAAG
*
58504239 TATACAGGCAACAGATTCATACT
1 TATACAGGCAACAGACTCATACT
58504262 TATACAGGCAACAGACTCATACT
1 TATACAGGCAACAGACTCATACT
58504285 TA
1 TA
58504287 AATACAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (23 bp):
TATACAGGCAACAGACTCATACT
Found at i:58510155 original size:17 final size:18
Alignment explanation
Indices: 58510123--58510156 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
58510113 GATTTTAATG
*
58510123 TATTTTCATGTTATGTTA
1 TATTTTCATATTATGTTA
58510141 TATTTT-ATATTATGTT
1 TATTTTCATATTATGTT
58510157 TTTTATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.24, C:0.03, G:0.09, T:0.65
Consensus pattern (18 bp):
TATTTTCATATTATGTTA
Found at i:58517297 original size:4 final size:4
Alignment explanation
Indices: 58517290--58517320 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
58517280 TCTATCTATA
58517290 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
58517321 TTATACCTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Done.