Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold25
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: 9553305
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 6276 characters in sequence are not A, C, G, or T
File 29 of 56
Found at i:4938149 original size:30 final size:28
Alignment explanation
Indices: 4938107--4938164 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 28
4938097 TTATTAATAA
4938107 TTTTAAAAATAATTATTA-ATAATTATATT
1 TTTTAAAAATAA-TATTACATAATT-TATT
4938136 TTTTAATAAATAATATTACATAATTTATT
1 TTTTAA-AAATAATATTACATAATTTATT
4938165 AATAATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
TTTTAAAAATAATATTACATAATTTATT
Found at i:4939073 original size:16 final size:17
Alignment explanation
Indices: 4939054--4939087 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4939044 TATTATAATC
4939054 ATATTTAAATT-ATTTT
1 ATATTTAAATTAATTTT
*
4939070 ATATTTATATTAATTTT
1 ATATTTAAATTAATTTT
4939087 A
1 A
4939088 ATATATCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATTTAAATTAATTTT
Found at i:4939079 original size:22 final size:21
Alignment explanation
Indices: 4939030--4939093 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
4939020 GTGTTTTGAT
*
4939030 TTTATATTTTATTATATTATA
1 TTTATATTTAATTATATTATA
* * *
4939051 ATCATATTTAAATTATTTTATA
1 TTTATATTT-AATTATATTATA
* *
4939073 TTTATA-TTAATTTTAATATA
1 TTTATATTTAATTATATTATA
4939093 T
1 T
4939094 CAAAAATTTA
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
20 10 0.30
21 9 0.27
22 14 0.42
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTATATTTAATTATATTATA
Found at i:4939101 original size:37 final size:37
Alignment explanation
Indices: 4939028--4939101 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 37
4939018 CTGTGTTTTG
**
4939028 ATTTTATATTTTATTATATTATAATCATATTTAAATT
1 ATTTTATATTTTATTATATTATAATCATATAAAAATT
*
4939065 ATTTTATATTTATATTA-ATTTTAAT-ATATCAAAAATT
1 ATTTTATATTT-TATTATATTATAATCATAT-AAAAATT
4939102 TATATTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 4 0.12
37 23 0.72
38 5 0.16
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (37 bp):
ATTTTATATTTTATTATATTATAATCATATAAAAATT
Found at i:4939590 original size:174 final size:179
Alignment explanation
Indices: 4939385--4939729 Score: 506
Period size: 180 Copynumber: 1.9 Consensus size: 179
4939375 TTTTTTTTTA
4939385 AAAAAAAAAAATAAATAGTTATGATTTTATAAATTTTTACTTTAAAAATAAAATTT-AAA-TT-A
1 AAAAAAAAAAATAAATAGTTATGATTTTATAAATTTTTACTTTAAAAAT-AAATTTGAAATTTAA
* * *
4939447 -T-TC-AAAATTAATGTT-AGATTTGTTAAAATTCAAATTTATTTTTTTATTTAACATCCAAATA
65 GTATCTAAAATTAATGTTGA-ATTTATTAAAATTCAAATTTAGTTTTTTATTTAACATCCAAACA
* ** * *
4939508 CAAGTTTTTAAATTTTAAATCCAAACTCATTTTGACTCAAATTCAGATTTC
129 AAAAATTTTAAATTTTAAATCCAAACCCATTTGGACTCAAATTCAGATTTC
* * *
4939559 AAAAAAAATATTAAATAGTTATGATTTTATAAATTTTTACTTTAAAAATGAATTTGAAATTTAAG
1 AAAAAAAAAAATAAATAGTTATGATTTTATAAATTTTTACTTTAAAAATAAATTTGAAATTTAAG
4939624 TTATCTAAAATTAATGTTGAATTTATTAAAATTCAAATTTAGTTTTTTATTTAACATCCAAACAA
66 -TATCTAAAATTAATGTTGAATTTATTAAAATTCAAATTTAGTTTTTTATTTAACATCCAAACAA
*
4939689 AAAATTTTAAATTTTAAATTCAAACCCATTTGGACTCAAAT
130 AAAATTTTAAATTTTAAATCCAAACCCATTTGGACTCAAAT
4939730 CCAAATTTTT
Statistics
Matches: 151, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
173 5 0.03
174 50 0.33
175 2 0.01
176 1 0.01
178 1 0.01
179 2 0.01
180 89 0.59
181 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (179 bp):
AAAAAAAAAAATAAATAGTTATGATTTTATAAATTTTTACTTTAAAAATAAATTTGAAATTTAAG
TATCTAAAATTAATGTTGAATTTATTAAAATTCAAATTTAGTTTTTTATTTAACATCCAAACAAA
AAATTTTAAATTTTAAATCCAAACCCATTTGGACTCAAATTCAGATTTC
Found at i:4943391 original size:2 final size:2
Alignment explanation
Indices: 4943379--4943423 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
4943369 GGAGTTGAAA
* *
4943379 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AG A- AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4943419 AT AT A
1 AT AT A
4943424 GTCCATCATT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:4944312 original size:3 final size:3
Alignment explanation
Indices: 4944306--4944349 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
4944296 TAATAATAAT
*
4944306 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG CAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
4944350 TCGCTTTCCC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.66, C:0.02, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:4945830 original size:93 final size:93
Alignment explanation
Indices: 4945664--4945878 Score: 242
Period size: 93 Copynumber: 2.3 Consensus size: 93
4945654 GAGATGCAGT
* * *
4945664 GGTGGTGGTAACTTAACTAGAGGAGGCAACTGCGGAGGTGGTGAATGAACAGGTGGTGGATGTGA
1 GGTGGTGGTAACTTAACTAGAGGAGGCAACT--GGAGGTGGTGAATAAACAGGCGGAGGATGTGA
* *
4945729 TCGTGGTGGTGGAGATTTGTAAGCATA-ATGA
64 TCGCGGTGGTGGAGATTTGT-AG-ATATAGGA
*
4945760 GGTGGTGGTAACTTAACTAGAGGAGGCAGA-T-GTGGTGGTGAATAAACAGGCGGAGCG-TGTGA
1 GGTGGTGGTAACTTAACTAGAGGAGGCA-ACTGGAGGTGGTGAATAAACAGGCGGAG-GATGTGA
4945822 -CGGCGGTGGTGGAGATTTGTAGATATTAGGA
64 TC-GCGGTGGTGGAGATTTGTAGATA-TAGGA
* * *
4945853 GGAGGTTGTAACTTAACGAGAGGAGG
1 GGTGGTGGTAACTTAACTAGAGGAGG
4945879 AGGTGCATTG
Statistics
Matches: 105, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
91 3 0.03
92 3 0.03
93 68 0.65
94 1 0.01
96 29 0.28
97 1 0.01
ACGTcount: A:0.27, C:0.08, G:0.41, T:0.24
Consensus pattern (93 bp):
GGTGGTGGTAACTTAACTAGAGGAGGCAACTGGAGGTGGTGAATAAACAGGCGGAGGATGTGATC
GCGGTGGTGGAGATTTGTAGATATAGGA
Found at i:4946061 original size:147 final size:145
Alignment explanation
Indices: 4945760--4946035 Score: 358
Period size: 147 Copynumber: 1.9 Consensus size: 145
4945750 AGCATAATGA
*
4945760 GGTGGTGGTAACTTAACTAGAGGAGGCAGATGTGGTGGTGAATAAACAGGCGGAGCGTGTGACGG
1 GGTGGTGGTAACTTAACTAGAGGAGGCAGATGTGGTGGTGAATAAACAGGCGGAGCGTGCGACGG
* * * * *
4945825 CGGTGGTGGAGATTTGTAGATATTAGGAGGAGGTTGTAACTTAACGAGAGGAGGAGGTGCATTGT
66 AGGTGGTGGAGATTTGTAGATATTAGGAAGAGGTGGTAACTTAACGAGAGGAGGAGATG-ATGGT
* *
4945890 AAGGCTTGGGAAGCAAT
130 -AGGCGTGCGAAGCAAT
* * * * *
4945907 GGTGGTGGTAACTTAACTGGAGGAGGCAGATGTGGTGGTGAATAAACGGGTGGTGCGTGCGATGG
1 GGTGGTGGTAACTTAACTAGAGGAGGCAGATGTGGTGGTGAATAAACAGGCGGAGCGTGCGACGG
* * *
4945972 AGGTGGTGGAGATTTGTAGATATTA-TATAGTGGTGGTAACTTAACTAGAGGAGGTAGATG-TGG
66 AGGTGGTGGAGATTTGTAGATATTAGGA-AGAGGTGGTAACTTAACGAGAGGAGG-AGATGATGG
4946035 T
129 T
4946036 GGTCGGTGCG
Statistics
Matches: 113, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
146 4 0.04
147 105 0.93
148 4 0.04
ACGTcount: A:0.26, C:0.08, G:0.41, T:0.25
Consensus pattern (145 bp):
GGTGGTGGTAACTTAACTAGAGGAGGCAGATGTGGTGGTGAATAAACAGGCGGAGCGTGCGACGG
AGGTGGTGGAGATTTGTAGATATTAGGAAGAGGTGGTAACTTAACGAGAGGAGGAGATGATGGTA
GGCGTGCGAAGCAAT
Found at i:4946214 original size:132 final size:133
Alignment explanation
Indices: 4946001--4946589 Score: 826
Period size: 132 Copynumber: 4.3 Consensus size: 133
4945991 ATATTATATA
4946001 GTGGTGGTAACTTAACTAGAGGAGGTAGATGTGGTGGTCGGTGCGATGGTGGTGGTGGTGGAGAT
1 GTGGTGGTAACTTAACTAGAGGAGGTAGATGTGGTGGTCGGTGCGA--GTGGTGGTGGTGGAGAT
**
4946066 TTATAGACATAATGAGATGGTGGTAATGTAACTACAGGAGGTGGTGCATTGTAGGGCTTGGGATG
64 TTGCAGACATAATGAGATGGTGGTAATGTAACTACAGGAGGTGGTGCATTGTAGGGCTTGGGATG
4946131 CAGTG
129 CAGTG
4946136 GTGGTGGTAACTTAACTAGAGGAGGTAGATGTGGTGGTCGGTGCGA-TGGTGGTGGTGGAGATTT
1 GTGGTGGTAACTTAACTAGAGGAGGTAGATGTGGTGGTCGGTGCGAGTGGTGGTGGTGGAGATTT
4946200 GCAGACATAATGAGATGGTGGTAATGTAACTACAGGAGGTGGTGCATTGTAGGGCTTGGGATGCA
66 GCAGACATAATGAGATGGTGGTAATGTAACTACAGGAGGTGGTGCATTGTAGGGCTTGGGATGCA
4946265 GTG
131 GTG
*
4946268 GTGGTGGTAACTTAACTCGAGGAGGTAGATGTGGTGGTCGGTGCGA-TGGTGGTGGTGGAGATTT
1 GTGGTGGTAACTTAACTAGAGGAGGTAGATGTGGTGGTCGGTGCGAGTGGTGGTGGTGGAGATTT
4946332 GCAGACATAATGAGATGGTGGTAATGTAACTACAGGAGGTGGTGCATTGTAGGGCTTGGGATGCA
66 GCAGACATAATGAGATGGTGGTAATGTAACTACAGGAGGTGGTGCATTGTAGGGCTTGGGATGCA
4946397 GTG
131 GTG
* * * * *
4946400 GTGGTGGTAACTTAACTAGAGGAGGCAGATATGGTAGTGGTGAATGAACAGGTGGTGGGTGTGAC
1 GTGGTGGTAACTTAACTAGAGGA-G--G-TA-GAT-GTGGTG---G-TC-GGT-GCGAGTG-G-T
* * * * * * *
4946465 GGTGGTGGTGGAGTTGTAAACATAATGAGGTGGTGGTAACT-TAACTAGAGGAGGTGGTGCCTTG
52 GGTGGTGG-AGATTTGCAGACATAATGAGATGGTGGTAA-TGTAACTACAGGAGGTGGTGCATTG
* *
4946529 TAGGTCTTGGGATGCAATG
115 TAGGGCTTGGGATGCAGTG
*
4946548 GTGGTGGTAACTTAACTAGAGGAGGAAGATGTGGTGGT-GGTG
1 GTGGTGGTAACTTAACTAGAGGAGGTAGATGTGGTGGTCGGTG
4946590 AATGAACATG
Statistics
Matches: 416, Mismatches: 21, Indels: 34
0.88 0.04 0.07
Matches are distributed among these distances:
132 237 0.57
133 1 0.00
135 48 0.12
136 5 0.01
137 2 0.00
138 6 0.01
139 1 0.00
141 1 0.00
142 7 0.02
143 5 0.01
144 3 0.01
145 3 0.01
146 1 0.00
147 9 0.02
148 86 0.21
149 1 0.00
ACGTcount: A:0.23, C:0.08, G:0.42, T:0.27
Consensus pattern (133 bp):
GTGGTGGTAACTTAACTAGAGGAGGTAGATGTGGTGGTCGGTGCGAGTGGTGGTGGTGGAGATTT
GCAGACATAATGAGATGGTGGTAATGTAACTACAGGAGGTGGTGCATTGTAGGGCTTGGGATGCA
GTG
Found at i:4946510 original size:148 final size:149
Alignment explanation
Indices: 4946300--4946722 Score: 600
Period size: 148 Copynumber: 2.8 Consensus size: 149
4946290 AGGTAGATGT
* * * * * *
4946300 GGTGGTCGGTGCGATGGTGGTGGTGGAGATTTGCAGACATAATGAGATGGTGGTAA-TGTAACTA
1 GGTGGTGGGTGTGACGGTGGTGGTGGAGA-TTGTAAACATAATGAGGTGGTGGTAACT-TAACTA
* * *
4946364 CAGGAGGTGGTGCATTGTAGGGCTTGGGATGCAGTGGTGGTGGTAACTTAACTAGAGGAGGCAGA
64 GAGGAGGTGGTGCATTGTAGGGCTTGGGATGCAATGGTGGTGGTAACTTAACTAGAGGAGGAAGA
4946429 TATGGTAGTGGTGAATGAACA
129 TATGGTAGTGGTGAATGAACA
4946450 GGTGGTGGGTGTGACGGTGGTGGTGGAG-TTGTAAACATAATGAGGTGGTGGTAACTTAACTAGA
1 GGTGGTGGGTGTGACGGTGGTGGTGGAGATTGTAAACATAATGAGGTGGTGGTAACTTAACTAGA
* * *
4946514 GGAGGTGGTGCCTTGTAGGTCTTGGGATGCAATGGTGGTGGTAACTTAACTAGAGGAGGAAGATG
66 GGAGGTGGTGCATTGTAGGGCTTGGGATGCAATGGTGGTGGTAACTTAACTAGAGGAGGAAGATA
*
4946579 TGGTGGTGGTGAATGAACA
131 TGGTAGTGGTGAATGAACA
* * * * * *
4946598 TGTAGTGGGTGTGACGG-GGTTGATGGAGACCTATAAACAGAATGAGGTGGTGGTAACTTAACTA
1 GGTGGTGGGTGTGACGGTGG-TGGTGGAGA-TTGTAAACATAATGAGGTGGTGGTAACTTAACTA
* *
4946662 GAGGAGGTGGAGCATTGTAGGGCTTGGGCTGCAATGGTGGTGGTAACTTAACTAGAGGAGG
64 GAGGAGGTGGTGCATTGTAGGGCTTGGGATGCAATGGTGGTGGTAACTTAACTAGAGGAGG
4946723 TGGGGCTTGA
Statistics
Matches: 246, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
147 2 0.01
148 130 0.53
149 1 0.00
150 113 0.46
ACGTcount: A:0.25, C:0.09, G:0.41, T:0.26
Consensus pattern (149 bp):
GGTGGTGGGTGTGACGGTGGTGGTGGAGATTGTAAACATAATGAGGTGGTGGTAACTTAACTAGA
GGAGGTGGTGCATTGTAGGGCTTGGGATGCAATGGTGGTGGTAACTTAACTAGAGGAGGAAGATA
TGGTAGTGGTGAATGAACA
Found at i:4946724 original size:54 final size:54
Alignment explanation
Indices: 4946643--4946759 Score: 200
Period size: 54 Copynumber: 2.2 Consensus size: 54
4946633 AACAGAATGA
*
4946643 GGTGGTGGTAACTTAACTAGAGGAGGTGGAGCATTG-TAGGGCTTGGGCTGCAAT
1 GGTGGTGGTAACTTAACTAGAGGAGGTGGAGC-TTGATAGGGCTTGGGATGCAAT
*
4946697 GGTGGTGGTAACTTAACTAGAGGAGGTGGGGCTTGATAGGGCTTGGGATGCAAT
1 GGTGGTGGTAACTTAACTAGAGGAGGTGGAGCTTGATAGGGCTTGGGATGCAAT
4946751 GGTGGTGGT
1 GGTGGTGGT
4946760 GGAGATTGGT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
53 3 0.05
54 57 0.95
ACGTcount: A:0.21, C:0.09, G:0.44, T:0.26
Consensus pattern (54 bp):
GGTGGTGGTAACTTAACTAGAGGAGGTGGAGCTTGATAGGGCTTGGGATGCAAT
Found at i:4947093 original size:16 final size:15
Alignment explanation
Indices: 4947072--4947122 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
4947062 AATAAAAATT
4947072 AAAACTAAAAATATAA
1 AAAACTAAAAATA-AA
4947088 AAAACT-AAAATAAA
1 AAAACTAAAAATAAA
* *
4947102 ATAAATTAAAACTAAA
1 A-AAACTAAAAATAAA
4947118 AAAAC
1 AAAAC
4947123 ACATTGTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 3 0.10
15 13 0.43
16 14 0.47
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAACTAAAAATAAA
Found at i:4947097 original size:15 final size:14
Alignment explanation
Indices: 4947072--4947122 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
4947062 AATAAAAATT
4947072 AAAACTAAAAATATAA
1 AAAACT-AAAATA-AA
4947088 AAAACTAAAATAAA
1 AAAACTAAAATAAA
*
4947102 ATAAATTAAAACTAAA
1 A-AAACTAAAA-TAAA
4947118 AAAAC
1 AAAAC
4947123 ACATTGTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 3 0.10
15 17 0.55
16 11 0.35
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.18
Consensus pattern (14 bp):
AAAACTAAAATAAA
Found at i:4947101 original size:21 final size:20
Alignment explanation
Indices: 4947065--4947118 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 20
4947055 TTTTATAAAT
*
4947065 AAAAATTAAAACTAAAAATATA
1 AAAAACTAAAACT-AAAATA-A
4947087 AAAAACTAAAA-TAAAATAA
1 AAAAACTAAAACTAAAATAA
4947106 ATTAAAACTAAAA
1 A--AAAACTAAAA
4947119 AAACACATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 2 0.07
20 6 0.21
21 11 0.38
22 10 0.34
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (20 bp):
AAAAACTAAAACTAAAATAA
Found at i:4947473 original size:21 final size:22
Alignment explanation
Indices: 4947434--4947477 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4947424 TAATACCTTA
4947434 AAAAATAATACTTATAACAATT
1 AAAAATAATACTTATAACAATT
* *
4947456 AAAAATATTATTTA-AACAATT
1 AAAAATAATACTTATAACAATT
4947477 A
1 A
4947478 TATTATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAAATAATACTTATAACAATT
Found at i:4948788 original size:48 final size:48
Alignment explanation
Indices: 4948730--4948898 Score: 169
Period size: 48 Copynumber: 3.5 Consensus size: 48
4948720 ATGTGATGGG
* * *
4948730 GGTGGTGGGGACCTGTAGATATACGGAAGAGGTGGGGAGTGAACTGGT
1 GGTGGTGGAGACTTGTAGATATAAGGAAGAGGTGGGGAGTGAACTGGT
* * * * * * * *
4948778 GGTGGAGGGGACTTGTAAATGTAAGGCAGAGGTGGTGAGTTG-ACTAGA
1 GGTGGTGGAGACTTGTAGATATAAGGAAGAGGTGGGGAG-TGAACTGGT
* * * * *
4948826 GGTGGTGGAGTCTTGTAGACATAAGGAGGAGGTGGGCAGTGAACAGGT
1 GGTGGTGGAGACTTGTAGATATAAGGAAGAGGTGGGGAGTGAACTGGT
*
4948874 GGTGGTGGAGACTTGTAGATGTAAG
1 GGTGGTGGAGACTTGTAGATATAAG
4948899 AAGGTGGTGG
Statistics
Matches: 94, Mismatches: 25, Indels: 4
0.76 0.20 0.03
Matches are distributed among these distances:
47 2 0.02
48 90 0.96
49 2 0.02
ACGTcount: A:0.25, C:0.07, G:0.46, T:0.22
Consensus pattern (48 bp):
GGTGGTGGAGACTTGTAGATATAAGGAAGAGGTGGGGAGTGAACTGGT
Found at i:4948906 original size:30 final size:30
Alignment explanation
Indices: 4948870--4948936 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
4948860 GGCAGTGAAC
4948870 AGGTGGTGGTGGAGACTTGTAGATGTAAGA
1 AGGTGGTGGTGGAGACTTGTAGATGTAAGA
*
4948900 AGGTGGTGGTGGAGACTTGTAGATGTAAGG
1 AGGTGGTGGTGGAGACTTGTAGATGTAAGA
4948930 AGGTGGT
1 AGGTGGT
4948937 AGTGAATGGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.24, C:0.03, G:0.46, T:0.27
Consensus pattern (30 bp):
AGGTGGTGGTGGAGACTTGTAGATGTAAGA
Found at i:4948955 original size:48 final size:48
Alignment explanation
Indices: 4948901--4949849 Score: 674
Period size: 48 Copynumber: 19.8 Consensus size: 48
4948891 GATGTAAGAA
* * * *
4948901 GGTGGTGGTGGAGACTTGTAGATGTAAGGAGGTGGTAGTGAATGGATT
1 GGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAGTGGACT
* * * * * *
4948949 GATGGTGGAGGGGACTTGTAAATGTAGGGAGGAGGTGGGGAGTGGACT
1 GGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAGTGGACT
* * ** * * *
4948997 GGAGGTGGTGGAGACTTATAGACATAGGGAGGAGGTAGG-GAGTGAACA
1 GGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGT-GGTGAGTGGACT
* * * *
4949045 GGTGGTGGTGGAGACTTATA-ACTGTAAGGAGGAAGTGGTGAATGGACC
1 GGTGGTGGTGGAGACTTGTAGA-TGTAAGGAGGAGGTGGTGAGTGGACT
* * * * * * * *
4949093 GGGGGTGGAGGGGACTTGTAAATATAGGGGGGAGGTGGTGAGTGGATT
1 GGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAGTGGACT
* ** * *
4949141 GGAGGTGGTGGAGACTTGTAGACATAGGGAGGAGGTGGGGAGTGGACT
1 GGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAGTGGACT
* * * *
4949189 GGCGGTGGTGGAGACTTGTAGATGTAAGAAGGAGGTGGTGAGTGAATT
1 GGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAGTGGACT
* ** * * *
4949237 GGAGGTGGTGGAGACTTGTAGACATAGGGAAGAGGTGGAGAGTGGACT
1 GGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAGTGGACT
* * * ** *
4949285 GGTGGGGGAGGAGACTTGTAAAAATAGGGAGGAGGTGGTGAGTGGACT
1 GGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAGTGGACT
*** ** * ** * * * * *
4949333 AAAGGTGACGGAGACTTGTAAACATAGGGTGTAGGTGGTGCGTAGACT
1 GGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAGTGGACT
* * * *
4949381 GGTGGTGGTGGAGACTTATAAATGTAGGGAAGG-GGTGGTGAGTGGATT
1 GGTGGTGGTGGAGACTTGTAGATGTAAGG-AGGAGGTGGTGAGTGGACT
* * * * * *
4949429 GGAGGTGGCGAAGACTTATAGATGTAAGGAGGAGGTGGTGAATGAACT
1 GGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAGTGGACT
* * * * * * * *
4949477 GGTGGAGGAGGGGACTTATAAATGTACGGAGAAGGTGCTGAGTGGACT
1 GGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAGTGGACT
* * * ** ** * * * *
4949525 GGAGGTGGTGGAGAATTGTGGACATAAAAAGGAAGTGGGGAATGGATT
1 GGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAGTGGACT
** * * * *
4949573 GGTGGTGGTGGAGACTTGTAGACAT-AGGAAGGAGGTGGGGACTGAACA
1 GGTGGTGGTGGAGACTTGTAGATGTAAGG-AGGAGGTGGTGAGTGGACT
* * *
4949621 GGTGGTGGTGGAGACCTGTAGATGTATGGAGGAGGTGGTGAATGGA-T
1 GGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAGTGGACT
** * * * * *
4949668 CGACGGTGGAGGGGACTTGTAAATGTAAGGAGGAGGTGATGAGTGGACA
1 -GGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAGTGGACT
* ** * * * *
4949717 GGAGGTGGTGGAGACTTGTAGACAT-A-GA-GAGGTGGGGAATGAACA
1 GGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAGTGGACT
* *
4949762 GGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGATGAATGGA-T
1 GGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAGTGGACT
* * * * * *
4949809 CGGTGGTGGAGGGGACTTATAAATGTAGGGAGCAGGTGGTG
1 -GGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTG
4949850 GAGACTTGTA
Statistics
Matches: 701, Mismatches: 186, Indels: 28
0.77 0.20 0.03
Matches are distributed among these distances:
45 35 0.05
46 3 0.00
47 10 0.01
48 647 0.92
49 6 0.01
ACGTcount: A:0.26, C:0.05, G:0.46, T:0.22
Consensus pattern (48 bp):
GGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAGTGGACT
Found at i:4949058 original size:144 final size:144
Alignment explanation
Indices: 4948900--4949852 Score: 871
Period size: 144 Copynumber: 6.6 Consensus size: 144
4948890 AGATGTAAGA
* * *
4948900 AGGTGGTGGTGGAGACTTGTAGATGTAAGGAGGTGGTAGTGAATGGATTGATGGTGGAGGGGACT
1 AGGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAATGGATCGATGGTGGAGGGGACT
*
4948965 TGTAAATGTAGGGAGGAGGTGGGGAGTGGACTGGAGGTGGTGGAGACTTATAGACATAGGGAGGA
66 TGTAAATGTAGGGAGGAGGTGGGGAGTGGACTGGAGGTGGTGGAGACTTGTAGACATAGGGAGGA
*
4949030 GGTAGGGAGTGAAC
131 GGTGGGGAGTGAAC
* * * **
4949044 AGGTGGTGGTGGAGACTTATA-ACTGTAAGGAGGAAGTGGTGAATGGACCGGGGGTGGAGGGGAC
1 AGGTGGTGGTGGAGACTTGTAGA-TGTAAGGAGGAGGTGGTGAATGGATCGATGGTGGAGGGGAC
* * * *
4949108 TTGTAAATATAGGGGGGAGGTGGTGAGTGGATTGGAGGTGGTGGAGACTTGTAGACATAGGGAGG
65 TTGTAAATGTAGGGAGGAGGTGGGGAGTGGACTGGAGGTGGTGGAGACTTGTAGACATAGGGAGG
*
4949173 AGGTGGGGAGTGGAC
130 AGGTGGGGAGTGAAC
* * * * * * * *
4949188 TGGCGGTGGTGGAGACTTGTAGATGTAAGAAGGAGGTGGTGAGTGAATTGGA-GGTGGTGGAGAC
1 AGGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAATGGA-TCGATGGTGGAGGGGAC
* ** * * * * * * *
4949252 TTGTAGACATAGGGAAGAGGTGGAGAGTGGACTGGTGGGGGAGGAGACTTGTAAAAATAGGGAGG
65 TTGTAAATGTAGGGAGGAGGTGGGGAGTGGACTGGAGGTGGTGGAGACTTGTAGACATAGGGAGG
* *
4949317 AGGTGGTGAGTGGAC
130 AGGTGGGGAGTGAAC
** ** * ** * * * ** * * * *
4949332 TA-AAGGTGACGGAGACTTGTAAACATAGGGTGTAGGTGGTGCGTAGA-CTGGTGGTGGTGGAGA
1 -AGGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAATGGATC-GATGGTGGAGGGGA
* * * * * * ** *
4949395 CTTATAAATGTAGGGAAGG-GGTGGTGAGTGGATTGGAGGTGGCGAAGACTTATAGATGTAAGGA
64 CTTGTAAATGTAGGG-AGGAGGTGGGGAGTGGACTGGAGGTGGTGGAGACTTGTAGACATAGGGA
* *
4949459 GGAGGTGGTGAATGAAC
128 GGAGGTGGGGAGTGAAC
* * * * * * * * * * * * * *
4949476 TGGTGGAGGAGGGGACTTATAAATGTACGGAGAAGGTGCTGAGTGGACTGGA-GGTGGTGGAGAA
1 AGGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAATGGA-TCGATGGTGGAGGGGAC
** ** *** * * * * *
4949540 TTGTGGACATAAAAAGGAAGTGGGGAATGGATTGGTGGTGGTGGAGACTTGTAGACATAGGAAGG
65 TTGTAAATGTAGGGAGGAGGTGGGGAGTGGACTGGAGGTGGTGGAGACTTGTAGACATAGGGAGG
*
4949605 AGGTGGGGACTGAAC
130 AGGTGGGGAGTGAAC
* * *
4949620 AGGTGGTGGTGGAGACCTGTAGATGTATGGAGGAGGTGGTGAATGGATCGACGGTGGAGGGGACT
1 AGGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAATGGATCGATGGTGGAGGGGACT
* ** *
4949685 TGTAAATGTAAGGAGGAGGTGATGAGTGGACAGGAGGTGGTGGAGACTTGTAGACATA--GA-GA
66 TGTAAATGTAGGGAGGAGGTGGGGAGTGGACTGGAGGTGGTGGAGACTTGTAGACATAGGGAGGA
*
4949747 GGTGGGGAATGAAC
131 GGTGGGGAGTGAAC
* *
4949761 AGGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGATGAATGGATCGGTGGTGGAGGGGACT
1 AGGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAATGGATCGATGGTGGAGGGGACT
* *
4949826 TATAAATGTAGGGAGCAGGTGGTGGAG
66 TGTAAATGTAGGGAGGAGGTGG-GGAG
4949853 ACTTGTAGAT
Statistics
Matches: 642, Mismatches: 154, Indels: 28
0.78 0.19 0.03
Matches are distributed among these distances:
141 93 0.14
142 4 0.01
143 8 0.01
144 532 0.83
145 5 0.01
ACGTcount: A:0.26, C:0.05, G:0.46, T:0.22
Consensus pattern (144 bp):
AGGTGGTGGTGGAGACTTGTAGATGTAAGGAGGAGGTGGTGAATGGATCGATGGTGGAGGGGACT
TGTAAATGTAGGGAGGAGGTGGGGAGTGGACTGGAGGTGGTGGAGACTTGTAGACATAGGGAGGA
GGTGGGGAGTGAAC
Found at i:4949171 original size:27 final size:27
Alignment explanation
Indices: 4949141--4949277 Score: 73
Period size: 27 Copynumber: 5.5 Consensus size: 27
4949131 TGAGTGGATT
*
4949141 GGAGGTGGTGGAGACTTGTAGACATAG
1 GGAGGAGGTGGAGACTTGTAGACATAG
* *
4949168 GGAGGAGGTGGGGA---GTGGAC-T--
1 GGAGGAGGTGGAGACTTGTAGACATAG
* * ** *
4949189 GGCGGTGGTGGAGACTTGTAGATGTAA
1 GGAGGAGGTGGAGACTTGTAGACATAG
* * *
4949216 GAAGGAGGTGGTGA---GT-GA-AT-T
1 GGAGGAGGTGGAGACTTGTAGACATAG
*
4949237 GGAGGTGGTGGAGACTTGTAGACATAG
1 GGAGGAGGTGGAGACTTGTAGACATAG
*
4949264 GGAAGAGGTGGAGA
1 GGAGGAGGTGGAGA
4949278 GTGGACTGGT
Statistics
Matches: 78, Mismatches: 20, Indels: 24
0.64 0.16 0.20
Matches are distributed among these distances:
21 22 0.28
22 1 0.01
23 3 0.04
24 13 0.17
25 3 0.04
26 2 0.03
27 34 0.44
ACGTcount: A:0.26, C:0.05, G:0.49, T:0.20
Consensus pattern (27 bp):
GGAGGAGGTGGAGACTTGTAGACATAG
Found at i:4949892 original size:141 final size:141
Alignment explanation
Indices: 4949581--4949846 Score: 361
Period size: 141 Copynumber: 1.9 Consensus size: 141
4949571 TTGGTGGTGG
* * *
4949581 TGGAGACTTGTAGACATAGGAAGGAGGTGGGGACTGAACAGGTGGTGGTGGAGACCTGTAGATGT
1 TGGAGACGTGTAGACATA-G-A-CAGGTGGGGAATGAACAGGTGGTGGTGGAGACCTGTAGATGT
* * * *
4949646 ATGGAGGAGGTGGTGAATGGATCGACGGTGGAGGGGACTTGTAAATGTAAGGAGGAGGTGATGAG
63 AAGGAGGAGGTGATGAATGGATCGACGGTGGAGGGGACTTATAAATGTAAGGAGCAGGTGATGAG
* * *
4949711 TGGACAGGAGGTGG
128 TAGACAGGAGATGA
* * *
4949725 TGGAGACTTGTAGACATAGAGAGGTGGGGAATGAACAGGTGGTGGTGGAGACTTGTAGATGTAAG
1 TGGAGACGTGTAGACATAGACAGGTGGGGAATGAACAGGTGGTGGTGGAGACCTGTAGATGTAAG
** *
4949790 GAGGAGGTGATGAATGGATCGGTGGTGGAGGGGACTTATAAATGTAGGGAGCAGGTG
66 GAGGAGGTGATGAATGGATCGACGGTGGAGGGGACTTATAAATGTAAGGAGCAGGTG
4949847 GTGGAGACTT
Statistics
Matches: 113, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
141 93 0.82
142 1 0.01
143 1 0.01
144 18 0.16
ACGTcount: A:0.27, C:0.06, G:0.45, T:0.21
Consensus pattern (141 bp):
TGGAGACGTGTAGACATAGACAGGTGGGGAATGAACAGGTGGTGGTGGAGACCTGTAGATGTAAG
GAGGAGGTGATGAATGGATCGACGGTGGAGGGGACTTATAAATGTAAGGAGCAGGTGATGAGTAG
ACAGGAGATGA
Found at i:4952066 original size:2 final size:2
Alignment explanation
Indices: 4952059--4952087 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4952049 AAGAGGGAAT
4952059 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 T
4952088 GAAGAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4953022 original size:48 final size:48
Alignment explanation
Indices: 4952962--4953376 Score: 345
Period size: 48 Copynumber: 8.6 Consensus size: 48
4952952 AATGAAGGGT
* * * *
4952962 GGAGGTGGTGAGTAGATTGGTGGGGGTGGAGACTTGTAAATGTAAGGA
1 GGAGGTGGTGAGTGGACTGGTGGTGGTGGAGACTTGTAGATGTAAGGA
* ** * * ** *
4953010 GGAGGTGGTGAGTGGATTGGAAGTGGCGGAGATTTGTAGGCGT-AGTGT
1 GGAGGTGGTGAGTGGACTGGTGGTGGTGGAGACTTGTAGATGTAAG-GA
*
4953058 GGAGGTGAG-GAATGGACTGGTGGTGG-GGAGGACTTGTAGATGTAAGGA
1 GGAGGTG-GTGAGTGGACTGGTGGTGGTGGA-GACTTGTAGATGTAAGGA
* ** ** * * * *
4953106 GGAGGTGGTGAATGGACAAGCAGTGGAGGGGACTTGTAAATGTAGGGA
1 GGAGGTGGTGAGTGGACTGGTGGTGGTGGAGACTTGTAGATGTAAGGA
* * * **
4953154 GGAGGTGGGGAGTGGACTGGAGGTGGTGGAGACTTATAGACATAAGGA
1 GGAGGTGGTGAGTGGACTGGTGGTGGTGGAGACTTGTAGATGTAAGGA
* * * * *
4953202 GGAGGTGGGGAGTGAACGGGTGGTGGTGGGGACTTGTAGATGTAAAGA
1 GGAGGTGGTGAGTGGACTGGTGGTGGTGGAGACTTGTAGATGTAAGGA
* * * * * *
4953250 GGAGGTGGTGAATGGACTGGTAGTGGAAGGA-ACTTGTAAATTTAGGGA
1 GGAGGTGGTGAGTGGACTGGTGGTGG-TGGAGACTTGTAGATGTAAGGA
* * * * *
4953298 GGAGGTAGTGAGTGGACCGGAGGTAGTGGAGACTTGTAGACGTAAGGA
1 GGAGGTGGTGAGTGGACTGGTGGTGGTGGAGACTTGTAGATGTAAGGA
* *
4953346 GGAGATAGG-GAGTGGACTGGTGGTGGAGGAG
1 GGAGGT-GGTGAGTGGACTGGTGGTGGTGGAG
4953377 GCGCATACTT
Statistics
Matches: 284, Mismatches: 74, Indels: 18
0.76 0.20 0.05
Matches are distributed among these distances:
47 9 0.03
48 267 0.94
49 8 0.03
ACGTcount: A:0.25, C:0.05, G:0.48, T:0.21
Consensus pattern (48 bp):
GGAGGTGGTGAGTGGACTGGTGGTGGTGGAGACTTGTAGATGTAAGGA
Found at i:4953224 original size:144 final size:145
Alignment explanation
Indices: 4952992--4953377 Score: 499
Period size: 144 Copynumber: 2.7 Consensus size: 145
4952982 TGGGGGTGGA
* * * * * *
4952992 GACTTGTAAATGTAAGGAGGAGGTGGTGAGTGGATTGGAAGTGGCGGAGATTTGTAGGCGT-AGT
1 GACTTGTAAATGTAGGGAGGAGGTGGTGAGTGGACTGGAGGTGGTGGAGACTTGTAGACGTAAG-
* * * *
4953056 GTGGAGGTGAGGAATGGACTGGTGGTGG-GGAGGACTTGTAGATGTAAGGAGGAGGTGGTGAATG
65 GAGGAGGTGGGGAGTGGACTGGTGGTGGAGGAGGACTTGTAGATGTAAAGAGGAGGTGGTGAATG
*
4953120 GACAAGCAGTGGAGGG
130 GACAAGCAGTGGAAGG
* * *
4953136 GACTTGTAAATGTAGGGAGGAGGTGGGGAGTGGACTGGAGGTGGTGGAGACTTATAGACATAAGG
1 GACTTGTAAATGTAGGGAGGAGGTGGTGAGTGGACTGGAGGTGGTGGAGACTTGTAGACGTAAGG
* * *
4953201 AGGAGGTGGGGAGTGAACGGGTGGTGGTGG-GGACTTGTAGATGTAAAGAGGAGGTGGTGAATGG
66 AGGAGGTGGGGAGTGGACTGGTGGTGGAGGAGGACTTGTAGATGTAAAGAGGAGGTGGTGAATGG
** *
4953265 ACTGGTAGTGGAAGG
131 ACAAGCAGTGGAAGG
* * * * *
4953280 AACTTGTAAATTTAGGGAGGAGGTAGTGAGTGGACCGGAGGTAGTGGAGACTTGTAGACGTAAGG
1 GACTTGTAAATGTAGGGAGGAGGTGGTGAGTGGACTGGAGGTGGTGGAGACTTGTAGACGTAAGG
* *
4953345 AGGAGATAGGGAGTGGACTGGTGGTGGAGGAGG
66 AGGAGGTGGGGAGTGGACTGGTGGTGGAGGAGG
4953378 CGCATACTTG
Statistics
Matches: 207, Mismatches: 32, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
144 201 0.97
145 6 0.03
ACGTcount: A:0.26, C:0.05, G:0.48, T:0.21
Consensus pattern (145 bp):
GACTTGTAAATGTAGGGAGGAGGTGGTGAGTGGACTGGAGGTGGTGGAGACTTGTAGACGTAAGG
AGGAGGTGGGGAGTGGACTGGTGGTGGAGGAGGACTTGTAGATGTAAAGAGGAGGTGGTGAATGG
ACAAGCAGTGGAAGG
Found at i:4959668 original size:48 final size:47
Alignment explanation
Indices: 4959547--4959721 Score: 152
Period size: 48 Copynumber: 3.7 Consensus size: 47
4959537 ATAAACATAA
* * * * *
4959547 GGAGGTGGTGGTGAGTTGTACACATATGGAAGAGGTGCTGAAGGTGAT
1 GGAGGTGGTGGAGACTTGTACACATAAGGAGGAGGTG-GGAAGGTGAT
* * * * * * * *
4959595 AGTGGTGGTGGAGATTTATAAACATAAGGAGGTGGTAGGGATGGAGAT
1 GGAGGTGGTGGAGACTTGTACACATAAGGAGGAGGT-GGGAAGGTGAT
* * *
4959643 GGAGGTGGTGGTGACTTGTACACATATGGAGGAGATGGTGAAGGTGAT
1 GGAGGTGGTGGAGACTTGTACACATAAGGAGGAGGTGG-GAAGGTGAT
* * *
4959691 GGTGGAGGTGGAGACTTGTAGACATAAGGAG
1 GGAGGTGGTGGAGACTTGTACACATAAGGAG
4959722 ATGGAGGTGG
Statistics
Matches: 97, Mismatches: 28, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
47 2 0.02
48 94 0.97
49 1 0.01
ACGTcount: A:0.27, C:0.05, G:0.43, T:0.24
Consensus pattern (47 bp):
GGAGGTGGTGGAGACTTGTACACATAAGGAGGAGGTGGGAAGGTGAT
Found at i:4959670 original size:96 final size:96
Alignment explanation
Indices: 4959547--4959721 Score: 269
Period size: 96 Copynumber: 1.8 Consensus size: 96
4959537 ATAAACATAA
* * * *
4959547 GGAGGTGGTGGTGAGTTGTACACATATGGAAGAGGTGCTGAAGGTGATAGTGGTGGTGGAGATTT
1 GGAGGTGGTGGTGACTTGTACACATATGGAAGAGATGCTGAAGGTGATAGTGGAGGTGGAGACTT
4959612 ATAAACATAAGGAGGTGGTAGGGATGGAGAT
66 ATAAACATAAGGAGGTGGTAGGGATGGAGAT
* * *
4959643 GGAGGTGGTGGTGACTTGTACACATATGGAGGAGATGGTGAAGGTGATGGTGGAGGTGGAGACTT
1 GGAGGTGGTGGTGACTTGTACACATATGGAAGAGATGCTGAAGGTGATAGTGGAGGTGGAGACTT
* *
4959708 GTAGACATAAGGAG
66 ATAAACATAAGGAG
4959722 ATGGAGGTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 70 1.00
ACGTcount: A:0.27, C:0.05, G:0.43, T:0.24
Consensus pattern (96 bp):
GGAGGTGGTGGTGACTTGTACACATATGGAAGAGATGCTGAAGGTGATAGTGGAGGTGGAGACTT
ATAAACATAAGGAGGTGGTAGGGATGGAGAT
Found at i:4959732 original size:81 final size:81
Alignment explanation
Indices: 4959637--4959785 Score: 244
Period size: 81 Copynumber: 1.8 Consensus size: 81
4959627 TGGTAGGGAT
* *
4959637 GGAGATGGAGGTGGTGGTGACTTGTACACATATGGAGGAGATGGTGAAGGTGATGGTGGAGGTGG
1 GGAGATGGAGGTGGTGGAGACTTGTACACATATGGAGGAGATGGTAAAGGTGATGGTGGAGGTGG
4959702 AGACTTGTAGACATAA
66 AGACTTGTAGACATAA
* * * *
4959718 GGAGATGGAGGTGGTGGAGACTTGTAGACATATGGATGAGGTGGTAAAGGTGATGGTGGTGGTGG
1 GGAGATGGAGGTGGTGGAGACTTGTACACATATGGAGGAGATGGTAAAGGTGATGGTGGAGGTGG
4959783 AGA
66 AGA
4959786 TTTATAAATA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 62 1.00
ACGTcount: A:0.26, C:0.05, G:0.46, T:0.23
Consensus pattern (81 bp):
GGAGATGGAGGTGGTGGAGACTTGTACACATATGGAGGAGATGGTAAAGGTGATGGTGGAGGTGG
AGACTTGTAGACATAA
Found at i:4959762 original size:30 final size:33
Alignment explanation
Indices: 4959683--4959749 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
4959673 GGAGATGGTG
* * *
4959683 AAGGTGATGGTGGAGGTGGAGACTTGTAGACAT
1 AAGGAGATGGAGGTGGTGGAGACTTGTAGACAT
4959716 AAGGAGATGGAGGTGGTGGAGACTTGTAGACAT
1 AAGGAGATGGAGGTGGTGGAGACTTGTAGACAT
4959749 A
1 A
4959750 TGGATGAGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.06, G:0.42, T:0.22
Consensus pattern (33 bp):
AAGGAGATGGAGGTGGTGGAGACTTGTAGACAT
Found at i:4959779 original size:48 final size:48
Alignment explanation
Indices: 4959716--4960306 Score: 519
Period size: 48 Copynumber: 12.4 Consensus size: 48
4959706 TTGTAGACAT
* * * *
4959716 AAGGAGATGGAGGTGGTGGAGACTTGTAGACATATGGATGAGGTGGTA
1 AAGGTGATGGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGTG
* * * * * * * *
4959764 AAGGTGATGGTGGTGGTGGAGATTTATAAATATAAGGACGTGGTGGGG
1 AAGGTGATGGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGTG
* * * * *
4959812 ATGGAGATGGAGGTGGTGGTGACTTGTACACATATGGAGGAGGTGGTG
1 AAGGTGATGGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGTG
** * * * * *
4959860 AAAATGATGGTGGAGGTGGAGACTTGTAGAGATAAGGAGGTGGAGGTG
1 AAGGTGATGGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGTG
* * * * * * *
4959908 ATGGAGATGGAGGTGGTGGAGACTTGTGGACATGTAGAAGAGGTGGTG
1 AAGGTGATGGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGTG
* *
4959956 AAGGTGATGGTGGAGGTGGAGACTTGTAGAC--AT--A--AGGTGGAG
1 AAGGTGATGGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGTG
* * * * * * * *
4959998 GAGGTGATGGTGGTGGTGGAGATTTATAAATATAAGGAGGTGGTGGGG
1 AAGGTGATGGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGTG
* * *
4960046 AAGGTGATGGAGGTGGTGGAGACTTGTACACATGTGGAGGAGGTGGTG
1 AAGGTGATGGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGTG
* * * * *
4960094 AAGGTGATGGTAGAGGAGGAGACTTGTAGACATATGGAGGTGGTGGGG
1 AAGGTGATGGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGTG
* * * * *
4960142 ATGGAGATGGAGGTGGTGGAGACTTATAGATATATGGAGGAGGTGGTG
1 AAGGTGATGGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGTG
* * * * * * * * *
4960190 AAGGTGATGGTGGAGGTGAAGATTTATAAATATAAGGAGGTGGTGGGG
1 AAGGTGATGGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGTG
* * ** *
4960238 ATGGAGATGGTGGTGGCAGAGACTTATAGACATATGGAGGAGGTGGTG
1 AAGGTGATGGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGTG
*
4960286 AAGGTGATGGTGGAGGTGGAG
1 AAGGTGATGGTGGTGGTGGAG
4960307 GTGGAGATAT
Statistics
Matches: 417, Mismatches: 120, Indels: 12
0.76 0.22 0.02
Matches are distributed among these distances:
42 32 0.08
44 2 0.00
46 2 0.00
48 381 0.91
ACGTcount: A:0.27, C:0.03, G:0.46, T:0.24
Consensus pattern (48 bp):
AAGGTGATGGTGGTGGTGGAGACTTGTAGACATATGGAGGAGGTGGTG
Found at i:4959779 original size:177 final size:175
Alignment explanation
Indices: 4959469--4959915 Score: 599
Period size: 177 Copynumber: 2.6 Consensus size: 175
4959459 GGAAGGAGGT
* ** * *
4959469 GATGGAGATGAAGGTGGTGAAGACTTGTAGACATATGGA-G-GTGGTGAACGTGATGGT---GGT
1 GATGGAGATGGAGGTGGTGGTGACTTGTACACATATGGAGGAGTGGTGAAAGTGATGGTGGAGGT
* * * * *
4959529 GGAGATTTATAAACATAA-G-GA-GGTGGTGGT-GAG-TTGTACACATATGGAAGAGGTGCTGAA
66 GGAGACTTGTAGACATAAGGAGATGGAGGTGGTGGAGATTGTACACATATGGAAGAGGTGCTAAA
*
4959589 GGTGATAGTGGTGGTGGAGATTTATAAACATAAGGAGGTGGTAGG
131 GGTGATAGTGGTGGTGGAGATTTATAAACATAAGGACGTGGTAGG
*
4959634 GATGGAGATGGAGGTGGTGGTGACTTGTACACATATGGAGGAGATGGTGAAGGTGATGGTGGAGG
1 GATGGAGATGGAGGTGGTGGTGACTTGTACACATATGGAGGAG-TGGTGAAAGTGATGGTGGAGG
* * *
4959699 TGGAGACTTGTAGACATAAGGAGATGGAGGTGGTGGAGACTTGTAGACATATGGATGAGGTGGTA
65 TGGAGACTTGTAGACATAAGGAGATGGAGGTGGTGGAGA-TTGTACACATATGGAAGAGGTGCTA
* * *
4959764 AAGGTGATGGTGGTGGTGGAGATTTATAAATATAAGGACGTGGTGGG
129 AAGGTGATAGTGGTGGTGGAGATTTATAAACATAAGGACGTGGTAGG
*
4959811 GATGGAGATGGAGGTGGTGGTGACTTGTACACATATGGAGGAGGTGGTGAAAATGATGGTGGAGG
1 GATGGAGATGGAGGTGGTGGTGACTTGTACACATATGGAGGA-GTGGTGAAAGTGATGGTGGAGG
* * *
4959876 TGGAGACTTGTAGAGATAAGGAGGTGGAGGTGATGGAGAT
65 TGGAGACTTGTAGACATAAGGAGATGGAGGTGGTGGAGAT
4959916 GGAGGTGGTG
Statistics
Matches: 247, Mismatches: 22, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
165 35 0.14
166 1 0.00
167 1 0.00
168 15 0.06
171 18 0.07
172 1 0.00
173 2 0.01
174 8 0.03
175 3 0.01
176 1 0.00
177 161 0.65
178 1 0.00
ACGTcount: A:0.28, C:0.04, G:0.43, T:0.25
Consensus pattern (175 bp):
GATGGAGATGGAGGTGGTGGTGACTTGTACACATATGGAGGAGTGGTGAAAGTGATGGTGGAGGT
GGAGACTTGTAGACATAAGGAGATGGAGGTGGTGGAGATTGTACACATATGGAAGAGGTGCTAAA
GGTGATAGTGGTGGTGGAGATTTATAAACATAAGGACGTGGTAGG
Found at i:4959918 original size:15 final size:15
Alignment explanation
Indices: 4959895--4959929 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4959885 GTAGAGATAA
*
4959895 GGAGGTGGAGGTGAT
1 GGAGATGGAGGTGAT
*
4959910 GGAGATGGAGGTGGT
1 GGAGATGGAGGTGAT
4959925 GGAGA
1 GGAGA
4959930 CTTGTGGACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.60, T:0.17
Consensus pattern (15 bp):
GGAGATGGAGGTGAT
Found at i:4960019 original size:234 final size:234
Alignment explanation
Indices: 4959765--4960207 Score: 715
Period size: 234 Copynumber: 1.9 Consensus size: 234
4959755 GAGGTGGTAA
*
4959765 AGGTGATGGTGGTGGTGGAGATTTATAAATATAAGGACGTGGTGGGGATGGAGATGGAGGTGGTG
1 AGGTGATGGTGGTGGTGGAGATTTATAAATATAAGGACGTGGTGGGGAAGGAGATGGAGGTGGTG
* * * *
4959830 GTGACTTGTACACATATGGAGGAGGTGGTGAAAATGATGGTGGAGGTGGAGACTTGTAGAGATAA
66 GAGACTTGTACACATATGGAGGAGGTGGTGAAAATGATGGTAGAGGAGGAGACTTGTAGACATAA
* * * *
4959895 GGAGGTGGAGGTGATGGAGATGGAGGTGGTGGAGACTTGTGGACATGTAGAAGAGGTGGTGAAGG
131 GGAGGTGGAGGGGATGGAGATGGAGGTGGTGGAGACTTATAGACATATAGAAGAGGTGGTGAAGG
4959960 TGATGGTGGAGGTGGAGACTTGTAGACATAAGGTGGAGG
196 TGATGGTGGAGGTGGAGACTTGTAGACATAAGGTGGAGG
* *
4959999 AGGTGATGGTGGTGGTGGAGATTTATAAATATAAGGAGGTGGTGGGGAAGGTGATGGAGGTGGTG
1 AGGTGATGGTGGTGGTGGAGATTTATAAATATAAGGACGTGGTGGGGAAGGAGATGGAGGTGGTG
* ** *
4960064 GAGACTTGTACACATGTGGAGGAGGTGGTGAAGGTGATGGTAGAGGAGGAGACTTGTAGACATAT
66 GAGACTTGTACACATATGGAGGAGGTGGTGAAAATGATGGTAGAGGAGGAGACTTGTAGACATAA
* * * *
4960129 GGAGGTGGTGGGGATGGAGATGGAGGTGGTGGAGACTTATAGATATATGGAGGAGGTGGTGAAGG
131 GGAGGTGGAGGGGATGGAGATGGAGGTGGTGGAGACTTATAGACATATAGAAGAGGTGGTGAAGG
4960194 TGATGGTGGAGGTG
196 TGATGGTGGAGGTG
4960208 AAGATTTATA
Statistics
Matches: 190, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
234 190 1.00
ACGTcount: A:0.26, C:0.03, G:0.47, T:0.24
Consensus pattern (234 bp):
AGGTGATGGTGGTGGTGGAGATTTATAAATATAAGGACGTGGTGGGGAAGGAGATGGAGGTGGTG
GAGACTTGTACACATATGGAGGAGGTGGTGAAAATGATGGTAGAGGAGGAGACTTGTAGACATAA
GGAGGTGGAGGGGATGGAGATGGAGGTGGTGGAGACTTATAGACATATAGAAGAGGTGGTGAAGG
TGATGGTGGAGGTGGAGACTTGTAGACATAAGGTGGAGG
Found at i:4960200 original size:96 final size:96
Alignment explanation
Indices: 4959730--4960408 Score: 496
Period size: 96 Copynumber: 7.1 Consensus size: 96
4959720 AGATGGAGGT
* * * ** * * * *
4959730 GGTGGAGACTTGTAGACATATGGATGAGGTGGTAAAGGTGATGGTGGTGGTGGAGATTTATAAAT
1 GGTGGAGACTTGTAAACATATGGAGGTGGTGGGGAAGGAGATGGTGGTGGTGGAGACTTATAGAC
* * * * * * *
4959795 ATAAGGACGTGGTGGGGATGGAGATGG-AGGT
66 ATATGGAGGAGGTGGTGAAGGTGATGGTA-GA
* * * * * * *
4959826 GGTGGTGACTTGTACACATATGGAGGAGGTGGTGAA-AATGATGGTGGAGGTGGAGACTTGTAGA
1 GGTGGAGACTTGTAAACATATGGAGGTGGTGGGGAAGGA-GATGGTGGTGGTGGAGACTTATAGA
* * * * * * *
4959890 GATAAGGAGGTGGAGGTGATGGAGATGG-AGGT
65 CATATGGAGGAGGTGGTGAAGGTGATGGTA-GA
** * * * * * * * *
4959922 GGTGGAGACTTGTGGACATGTAGAAGAGGTGGTGAAGGTGATGGTGGAGGTGGAGACTTGTAGAC
1 GGTGGAGACTTGTAAACATATGGAGGTGGTGGGGAAGGAGATGGTGGTGGTGGAGACTTATAGAC
* * * *
4959987 --AT--A--AGGTGGAGGAGGTGATGGTGGT
66 ATATGGAGGAGGTGGTGAAGGTGATGGTAGA
* * * * * * * *
4960012 GGTGGAGATTTATAAATATAAGGAGGTGGTGGGGAAGGTGATGGAGGTGGTGGAGACTTGTACAC
1 GGTGGAGACTTGTAAACATATGGAGGTGGTGGGGAAGGAGATGGTGGTGGTGGAGACTTATAGAC
*
4960077 ATGTGGAGGAGGTGGTGAAGGTGATGGTAGA
66 ATATGGAGGAGGTGGTGAAGGTGATGGTAGA
* * * * *
4960108 GGAGGAGACTTGTAGACATATGGAGGTGGTGGGGATGGAGATGGAGGTGGTGGAGACTTATAGAT
1 GGTGGAGACTTGTAAACATATGGAGGTGGTGGGGAAGGAGATGGTGGTGGTGGAGACTTATAGAC
*
4960173 ATATGGAGGAGGTGGTGAAGGTGATGGTGGA
66 ATATGGAGGAGGTGGTGAAGGTGATGGTAGA
* * * * * * **
4960204 GGTGAAGATTTATAAATATAAGGAGGTGGTGGGGATGGAGATGGTGGTGGCAGAGACTTATAGAC
1 GGTGGAGACTTGTAAACATATGGAGGTGGTGGGGAAGGAGATGGTGGTGGTGGAGACTTATAGAC
4960269 ATATGGAGGAGGTGGTGAAGGTGATGGTGGAGGTGGA
66 ATATGGAGGAGGTGGTGAAGGTGATGGT--A----GA
* * * * * *** *
4960306 GGTGGAGA-TATATAAATATAAGGAGGTGGTGGGGATGGAGATGGAGGTGGCACAGCCTTATAGA
1 GGTGGAGACT-TGTAAACATATGGAGGTGGTGGGGAAGGAGATGGTGGTGGTGGAGACTTATAGA
* *
4960370 GATATGGAGGAGGTGGTGAAGGTGATGGTGGA
65 CATATGGAGGAGGTGGTGAAGGTGATGGTAGA
4960402 GGTGGAG
1 GGTGGAG
4960409 GTGGAGGTGG
Statistics
Matches: 486, Mismatches: 81, Indels: 32
0.81 0.14 0.05
Matches are distributed among these distances:
90 65 0.13
92 2 0.00
94 2 0.00
96 328 0.67
101 1 0.00
102 88 0.18
ACGTcount: A:0.27, C:0.04, G:0.46, T:0.23
Consensus pattern (96 bp):
GGTGGAGACTTGTAAACATATGGAGGTGGTGGGGAAGGAGATGGTGGTGGTGGAGACTTATAGAC
ATATGGAGGAGGTGGTGAAGGTGATGGTAGA
Found at i:4960300 original size:234 final size:233
Alignment explanation
Indices: 4959769--4960295 Score: 631
Period size: 234 Copynumber: 2.2 Consensus size: 233
4959759 TGGTAAAGGT
** * * * * * * *
4959769 GATGGTGGTGGTGGAGATTTATAAATATAAGGACGTGGTGGGGATGGAGATGGAGGTGGTGGTGA
1 GATGGTGGTGGCAGAGACTTATAAACATAAGGAGGAGGTGGGGAAGGTGATGGA-GTGGTGGAGA
* * *
4959834 CTTGTACACATATGGAGGAGGTGGTGAAAATGATGGTGGAGGTGGAGACTTGTAGAGATAAGGAG
65 CTTGTACACATATGGAGGAGGTGGTGAAAATGATGGTAGAGGAGGAGACTTGTAGACATAAGGAG
* * * *
4959899 GTGGAGGTGATGGAGATGGAGGTGGTGGAGACTTGTGGACATGTAGAAGAGGTGGTGAAGGTGAT
130 GTGGAGGGGATGGAGATGGAGGTGGTGGAGACTTATAGACATATAGAAGAGGTGGTGAAGGTGAT
* * * *
4959964 GGTGGAGGTGGAGACTTGTAGACATAAGGTGGAGGAGGT
195 GGTGGAGGTGAAGACTTATAAACATAAGGTGGAGGAGGA
** * * *
4960003 GATGGTGGTGGTGGAGATTTATAAATATAAGGAGGTGGTGGGGAAGGTGATGGAGGTGGTGGAGA
1 GATGGTGGTGGCAGAGACTTATAAACATAAGGAGGAGGTGGGGAAGGTGATGGA-GTGGTGGAGA
* ** *
4960068 CTTGTACACATGTGGAGGAGGTGGTGAAGGTGATGGTAGAGGAGGAGACTTGTAGACATATGGAG
65 CTTGTACACATATGGAGGAGGTGGTGAAAATGATGGTAGAGGAGGAGACTTGTAGACATAAGGAG
* * * *
4960133 GTGGTGGGGATGGAGATGGAGGTGGTGGAGACTTATAGATATATGGAGGAGGTGGTGAAGGTGAT
130 GTGGAGGGGATGGAGATGGAGGTGGTGGAGACTTATAGACATATAGAAGAGGTGGTGAAGGTGAT
* * *
4960198 GGTGGAGGTGAAGATTTATAAATATAAGGAGGTGGTGGGGATGGA
195 GGTGGAGGTGAAGACTTATAAACAT-A--AGGT-G-GAGGA-GGA
* * *
4960243 GATGGTGGTGGCAGAGACTTATAGACATATGGAGGAGGTGGTGAAGGTGATGG
1 GATGGTGGTGGCAGAGACTTATAAACATAAGGAGGAGGTGGGGAAGGTGATGG
4960296 TGGAGGTGGA
Statistics
Matches: 253, Mismatches: 34, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
234 196 0.77
235 1 0.00
237 4 0.02
238 1 0.00
239 4 0.02
240 47 0.19
ACGTcount: A:0.27, C:0.03, G:0.46, T:0.24
Consensus pattern (233 bp):
GATGGTGGTGGCAGAGACTTATAAACATAAGGAGGAGGTGGGGAAGGTGATGGAGTGGTGGAGAC
TTGTACACATATGGAGGAGGTGGTGAAAATGATGGTAGAGGAGGAGACTTGTAGACATAAGGAGG
TGGAGGGGATGGAGATGGAGGTGGTGGAGACTTATAGACATATAGAAGAGGTGGTGAAGGTGATG
GTGGAGGTGAAGACTTATAAACATAAGGTGGAGGAGGA
Found at i:4960335 original size:102 final size:102
Alignment explanation
Indices: 4960006--4960414 Score: 536
Period size: 96 Copynumber: 4.1 Consensus size: 102
4959996 AGGAGGTGAT
* * * **
4960006 GGTGGTGGTGGAGATTTATAAATATAAGGAGGTGGTGGGGAAGGTGATGGAGGTGGTGGAGACTT
1 GGTGGAGGTGGAGATTTATAAATATAAGGAGGTGGTGGGGATGGAGATGGAGGTGGCAGAGACTT
* * *
4960071 GTACACATGTGGAGGAGGTGGTGAAGGTGATGGT--A
66 ATAGACATATGGAGGAGGTGGTGAAGGTGATGGTGGA
* * * * * * **
4960106 ----GAGGAGGAGACTTGTAGACATATGGAGGTGGTGGGGATGGAGATGGAGGTGGTGGAGACTT
1 GGTGGAGGTGGAGATTTATAAATATAAGGAGGTGGTGGGGATGGAGATGGAGGTGGCAGAGACTT
*
4960167 ATAGATATATGGAGGAGGTGGTGAAGGTGATGGTGGA
66 ATAGACATATGGAGGAGGTGGTGAAGGTGATGGTGGA
*
4960204 GGT-GA-----AGATTTATAAATATAAGGAGGTGGTGGGGATGGAGATGGTGGTGGCAGAGACTT
1 GGTGGAGGTGGAGATTTATAAATATAAGGAGGTGGTGGGGATGGAGATGGAGGTGGCAGAGACTT
4960263 ATAGACATATGGAGGAGGTGGTGAAGGTGATGGTGGA
66 ATAGACATATGGAGGAGGTGGTGAAGGTGATGGTGGA
* * *
4960300 GGTGGAGGTGGAGATATATAAATATAAGGAGGTGGTGGGGATGGAGATGGAGGTGGCACAGCCTT
1 GGTGGAGGTGGAGATTTATAAATATAAGGAGGTGGTGGGGATGGAGATGGAGGTGGCAGAGACTT
*
4960365 ATAGAGATATGGAGGAGGTGGTGAAGGTGATGGTGGA
66 ATAGACATATGGAGGAGGTGGTGAAGGTGATGGTGGA
4960402 GGTGGAGGTGGAG
1 GGTGGAGGTGGAG
4960415 GTGGAGACTT
Statistics
Matches: 271, Mismatches: 27, Indels: 20
0.85 0.08 0.06
Matches are distributed among these distances:
96 167 0.62
97 2 0.01
98 1 0.00
101 2 0.01
102 99 0.37
ACGTcount: A:0.27, C:0.03, G:0.47, T:0.23
Consensus pattern (102 bp):
GGTGGAGGTGGAGATTTATAAATATAAGGAGGTGGTGGGGATGGAGATGGAGGTGGCAGAGACTT
ATAGACATATGGAGGAGGTGGTGAAGGTGATGGTGGA
Found at i:4960405 original size:6 final size:6
Alignment explanation
Indices: 4960374--4960420 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
4960364 TATAGAGATA
* * *
4960374 TGGAGG AGGTGG TGAAGG T-GATGG TGGAGG TGGAGG TGGAGG TGGAG
1 TGGAGG TGGAGG TGGAGG TGGA-GG TGGAGG TGGAGG TGGAGG TGGAG
4960421 ACTTGTAGAC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
5 1 0.03
6 30 0.91
7 2 0.06
ACGTcount: A:0.19, C:0.00, G:0.62, T:0.19
Consensus pattern (6 bp):
TGGAGG
Found at i:4960447 original size:30 final size:30
Alignment explanation
Indices: 4960411--4960498 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 30
4960401 AGGTGGAGGT
4960411 GGAGGTGGAGACTTGTAGACATAAGAAGGA
1 GGAGGTGGAGACTTGTAGACATAAGAAGGA
* * *
4960441 GGAGGT---GA----TAGAGAT--GGAGGT
1 GGAGGTGGAGACTTGTAGACATAAGAAGGA
4960462 GGAGGTGGAGACTTGTAGACATAAGAAGGA
1 GGAGGTGGAGACTTGTAGACATAAGAAGGA
4960492 GGAGGTG
1 GGAGGTG
4960499 ATAGAGATGG
Statistics
Matches: 43, Mismatches: 6, Indels: 18
0.64 0.09 0.27
Matches are distributed among these distances:
21 10 0.23
23 6 0.14
24 2 0.05
27 2 0.05
28 6 0.14
30 17 0.40
ACGTcount: A:0.33, C:0.05, G:0.45, T:0.17
Consensus pattern (30 bp):
GGAGGTGGAGACTTGTAGACATAAGAAGGA
Found at i:4960456 original size:108 final size:102
Alignment explanation
Indices: 4960138--4960463 Score: 331
Period size: 102 Copynumber: 3.2 Consensus size: 102
4960128 TGGAGGTGGT
* *** *
4960138 GGGGATGGAGATGGAGGTGGTGGAGACTTATAGATATATGGAGGAGGTGGTGAAGGTGATGGTGG
1 GGGGATAGAGATGGAGGTGGCACAGACTTATAGACATATGGAGGAGGTGGTGAAGGTGATGGTGG
** * * * *
4960203 AGGT-GA-----AGATTTATAAATATAAGGAGGTGGT
66 AGGTGGAGGTGGAGAGATATAAACATAAGAAGGAGGA
* * *
4960234 GGGGATGGAGATGGTGGTGGCAGAGACTTATAGACATATGGAGGAGGTGGTGAAGGTGATGGTGG
1 GGGGATAGAGATGGAGGTGGCACAGACTTATAGACATATGGAGGAGGTGGTGAAGGTGATGGTGG
* * * * *
4960299 AGGTGGAGGTGGAGATATATAAATATAAGGAGGTGGT
66 AGGTGGAGGTGGAGAGATATAAACATAAGAAGGAGGA
* * *
4960336 GGGGATGGAGATGGAGGTGGCACAGCCTTATAGAGATATGGAGGAGGTGGTGAAGGTGATGGTGG
1 GGGGATAGAGATGGAGGTGGCACAGACTTATAGACATATGGAGGAGGTGGTGAAGGTGATGGTGG
* *
4960401 AGGTGGAGGTGGAGGTGGAGACTTGTAGACATAAGAAGGAGGA
66 AGGTGGAGGTGGA----GAGA--TATAAACATAAGAAGGAGGA
*
4960444 GGTGATAGAGATGGAGGTGG
1 GGGGATAGAGATGGAGGTGG
4960464 AGGTGGAGAC
Statistics
Matches: 200, Mismatches: 18, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
96 65 0.32
97 2 0.01
102 98 0.49
106 3 0.01
108 32 0.16
ACGTcount: A:0.28, C:0.03, G:0.47, T:0.22
Consensus pattern (102 bp):
GGGGATAGAGATGGAGGTGGCACAGACTTATAGACATATGGAGGAGGTGGTGAAGGTGATGGTGG
AGGTGGAGGTGGAGAGATATAAACATAAGAAGGAGGA
Found at i:4960461 original size:57 final size:55
Alignment explanation
Indices: 4960389--4960526 Score: 205
Period size: 51 Copynumber: 2.6 Consensus size: 55
4960379 GAGGTGGTGA
*
4960389 AGGTGAT-GGTGGAGGTGGAGGTGGAGGTGGAGACTTGTAGACATAAGAAGGAGG
1 AGGTGATAGATGGAGGTGGAGGTGGAGGTGGAGACTTGTAGACATAAGAAGGAGG
4960443 AGGTGATAGA--GA--TGGAGGTGGAGGTGGAGACTTGTAGACATAAGAAGGAGG
1 AGGTGATAGATGGAGGTGGAGGTGGAGGTGGAGACTTGTAGACATAAGAAGGAGG
*
4960494 AGGTGATAGAGATGGAGGTGGAGGTGGTGGTGG
1 AGGTGAT--AGATGGAGGTGGAGGTGGAGGTGG
4960527 TGGTGGTGGT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
51 46 0.61
53 5 0.07
54 7 0.09
55 3 0.04
57 14 0.19
ACGTcount: A:0.28, C:0.03, G:0.50, T:0.19
Consensus pattern (55 bp):
AGGTGATAGATGGAGGTGGAGGTGGAGGTGGAGACTTGTAGACATAAGAAGGAGG
Found at i:4960464 original size:51 final size:51
Alignment explanation
Indices: 4960404--4960520 Score: 234
Period size: 51 Copynumber: 2.3 Consensus size: 51
4960394 ATGGTGGAGG
4960404 TGGAGGTGGAGGTGGAGACTTGTAGACATAAGAAGGAGGAGGTGATAGAGA
1 TGGAGGTGGAGGTGGAGACTTGTAGACATAAGAAGGAGGAGGTGATAGAGA
4960455 TGGAGGTGGAGGTGGAGACTTGTAGACATAAGAAGGAGGAGGTGATAGAGA
1 TGGAGGTGGAGGTGGAGACTTGTAGACATAAGAAGGAGGAGGTGATAGAGA
4960506 TGGAGGTGGAGGTGG
1 TGGAGGTGGAGGTGG
4960521 TGGTGGTGGT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.31, C:0.03, G:0.48, T:0.18
Consensus pattern (51 bp):
TGGAGGTGGAGGTGGAGACTTGTAGACATAAGAAGGAGGAGGTGATAGAGA
Found at i:4960492 original size:27 final size:27
Alignment explanation
Indices: 4960411--4960493 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 27
4960401 AGGTGGAGGT
4960411 GGAGGTGGAGACTTGTAGACATAAGAA
1 GGAGGTGGAGACTTGTAGACATAAGAA
* * * * **
4960438 GGAGGAGGTGA----TAGAGATGGAGGT
1 GGAGGTGGAGACTTGTAGACAT-AAGAA
4960462 GGAGGTGGAGACTTGTAGACATAAGAA
1 GGAGGTGGAGACTTGTAGACATAAGAA
4960489 GGAGG
1 GGAGG
4960494 AGGTGATAGA
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
23 6 0.15
24 11 0.28
27 16 0.41
28 6 0.15
ACGTcount: A:0.34, C:0.05, G:0.45, T:0.17
Consensus pattern (27 bp):
GGAGGTGGAGACTTGTAGACATAAGAA
Found at i:4960524 original size:3 final size:3
Alignment explanation
Indices: 4960510--4960541 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
4960500 TAGAGATGGA
*
4960510 GGT GGA GGT GGT GGT GGT GGT GGT GGT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
4960542 AGACTTATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.69, T:0.28
Consensus pattern (3 bp):
GGT
Found at i:4962136 original size:2 final size:2
Alignment explanation
Indices: 4962129--4962153 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4962119 GAAACGTATG
4962129 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
4962154 GTATTGAAGT
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:4966611 original size:2 final size:2
Alignment explanation
Indices: 4966604--4966633 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4966594 CTTAGCCAAC
4966604 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4966634 GGAAATCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4969880 original size:2 final size:2
Alignment explanation
Indices: 4969873--4969907 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4969863 AAAGAAAATA
4969873 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4969908 CCTCGTAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4971023 original size:2 final size:2
Alignment explanation
Indices: 4971016--4971044 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4971006 TTACTTCATG
4971016 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4971045 AAAGAGGAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4972984 original size:14 final size:16
Alignment explanation
Indices: 4972965--4972998 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
4972955 TATAGTGCGG
4972965 TAAAA-TATTAAAA-A
1 TAAAATTATTAAAAGA
4972979 TAAAATTATTAAAAGA
1 TAAAATTATTAAAAGA
4972995 TAAA
1 TAAA
4972999 GGGCAGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 8 0.44
16 5 0.28
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
TAAAATTATTAAAAGA
Found at i:4973151 original size:8 final size:8
Alignment explanation
Indices: 4973138--4973261 Score: 57
Period size: 8 Copynumber: 15.9 Consensus size: 8
4973128 ATGATCGTTT
4973138 TATATTTA
1 TATATTTA
4973146 TATATTT-
1 TATATTTA
*
4973153 T-TATTAA
1 TATATTTA
**
4973160 T-TATAAA
1 TATATTTA
4973167 TATATTTA
1 TATATTTA
*
4973175 -AAATTTTA
1 TATA-TTTA
4973183 TATATTTA
1 TATATTTA
4973191 TATAAATTT-
1 TAT--ATTTA
4973200 TA-ATTTA
1 TATATTTA
* *
4973207 TTTATGTA
1 TATATTTA
* *
4973215 TTTATAT-
1 TATATTTA
4973222 TATATTTA
1 TATATTTA
*
4973230 TATTTTTA
1 TATATTTA
4973238 TATTATATTA
1 TA-TAT-TTA
*
4973248 TATTTTTA
1 TATATTTA
4973256 T-TATTT
1 TATATTT
4973262 TTTAAATATT
Statistics
Matches: 90, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
6 8 0.09
7 20 0.22
8 45 0.50
9 8 0.09
10 9 0.10
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (8 bp):
TATATTTA
Found at i:4973196 original size:20 final size:20
Alignment explanation
Indices: 4973145--4973232 Score: 62
Period size: 19 Copynumber: 4.6 Consensus size: 20
4973135 TTTTATATTT
* * *
4973145 ATATATTTTTATTAATTATA
1 ATATATTTATATAAATTTTA
4973165 A-ATATATT-TA-AAATTTT-
1 ATATAT-TTATATAAATTTTA
4973182 ATATATTTATATAAATTTTA
1 ATATATTTATATAAATTTTA
* *
4973202 ATTTATTTATGT--ATTTATA
1 ATATATTTATATAAATTT-TA
*
4973221 TTATATTTATAT
1 ATATATTTATAT
4973233 TTTTATATTA
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
17 3 0.05
18 15 0.27
19 24 0.44
20 13 0.24
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (20 bp):
ATATATTTATATAAATTTTA
Found at i:4973229 original size:11 final size:11
Alignment explanation
Indices: 4973213--4973281 Score: 66
Period size: 11 Copynumber: 5.8 Consensus size: 11
4973203 TTTATTTATG
4973213 TATTTATATTA
1 TATTTATATTA
*
4973224 TATTTATATTTT
1 TATTTATA-TTA
4973236 TATATTATATTA
1 TAT-TTATATTA
*
4973248 TATTTTTATTA
1 TATTTATATTA
*
4973259 TTTTTTAAATATTA
1 -TATTT--ATATTA
4973273 TATTTATAT
1 TATTTATAT
4973282 AAAAAATTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
11 19 0.40
12 14 0.30
13 9 0.19
14 5 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TATTTATATTA
Found at i:4973229 original size:55 final size:57
Alignment explanation
Indices: 4973167--4973316 Score: 136
Period size: 53 Copynumber: 2.7 Consensus size: 57
4973157 TAATTATAAA
4973167 TATATTTAAAATTTTATATATTTATATAAATTTTAATTTATTTATGT-AT-TTATA-T
1 TATATTTAAAATTTTATATATTTATATAAATTTTAATTTATTT-TGTAATATTATATT
* * * *
4973222 TATATTT-ATATTTT-TATA-TTATATTATATTTTTA-TTATTTTTTAAATATTATATT
1 TATATTTAAAATTTTATATATTTATA-TAAATTTTAATTTATTTTGT-AATATTATATT
** * * *
4973277 TATATAAAAAATTATATATATTT-TTTAAAATTTAATTTAT
1 TATATTTAAAATTTTATATATTTATATAAATTTTAATTTAT
4973317 ATTTTTTAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 16
0.73 0.12 0.16
Matches are distributed among these distances:
51 2 0.03
52 11 0.15
53 14 0.19
54 11 0.15
55 13 0.18
56 12 0.16
57 9 0.12
58 2 0.03
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.61
Consensus pattern (57 bp):
TATATTTAAAATTTTATATATTTATATAAATTTTAATTTATTTTGTAATATTATATT
Found at i:4973260 original size:19 final size:19
Alignment explanation
Indices: 4973167--4973256 Score: 82
Period size: 19 Copynumber: 4.9 Consensus size: 19
4973157 TAATTATAAA
* *
4973167 TATATTTAAAATTTTATA-
1 TATATTTATATTTTTATAT
*
4973185 TAT-TTATATAAATTTTA-AT
1 TATATT-TAT-ATTTTTATAT
* *
4973204 T-TATTTATGTATTTATAT
1 TATATTTATATTTTTATAT
4973222 TATATTTATATTTTTATAT
1 TATATTTATATTTTTATAT
4973241 TATA-TTATATTTTTAT
1 TATATTTATATTTTTAT
4973257 TATTTTTTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
17 6 0.10
18 25 0.42
19 29 0.48
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (19 bp):
TATATTTATATTTTTATAT
Found at i:4973279 original size:20 final size:19
Alignment explanation
Indices: 4973256--4973328 Score: 60
Period size: 19 Copynumber: 3.7 Consensus size: 19
4973246 TATATTTTTA
4973256 TTATTTTTTAAATATTATAT
1 TTATTTTTTAAA-ATTATAT
* **
4973276 TTA-TATAAAAAATTATAT
1 TTATTTTTTAAAATTATAT
*
4973294 ATATTTTTTAAAATT-TAATT
1 TTATTTTTTAAAATTAT-A-T
4973314 TATATTTTTTAAAAT
1 T-TATTTTTTAAAAT
4973329 AAAATATAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
18 10 0.24
19 14 0.34
20 4 0.10
21 13 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTATTTTTTAAAATTATAT
Found at i:4973336 original size:19 final size:20
Alignment explanation
Indices: 4973292--4973346 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
4973282 AAAAAATTAT
*
4973292 ATATATTTTTTAAAATTTAAT
1 ATATATTTTTTAAAA-TTAAA
*
4973313 TTATATTTTTTAAAA-TAAA
1 ATATATTTTTTAAAATTAAA
* *
4973332 ATATAATATTTAAAA
1 ATATATTTTTTAAAA
4973347 ATAATTATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 15 0.52
21 14 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATATTTTTTAAAATTAAA
Found at i:4973367 original size:15 final size:14
Alignment explanation
Indices: 4973349--4973408 Score: 56
Period size: 15 Copynumber: 4.4 Consensus size: 14
4973339 ATTTAAAAAT
4973349 AATTATAAATTATAA
1 AATTAT-AATTATAA
*
4973364 AATTTTAATTTATAA
1 AATTATAA-TTATAA
4973379 AA-TATAA-TATAA
1 AATTATAATTATAA
4973391 AA--ATAATTATATA
1 AATTATAATTATA-A
4973404 AATTA
1 AATTA
4973409 ACTAAATTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 4 0.11
12 11 0.29
13 3 0.08
14 6 0.16
15 14 0.37
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AATTATAATTATAA
Found at i:4974016 original size:16 final size:16
Alignment explanation
Indices: 4973992--4974106 Score: 72
Period size: 16 Copynumber: 7.2 Consensus size: 16
4973982 TTTAGGTTGT
*
4973992 TTTTAGGTTCGAGTCA
1 TTTTGGGTTCGAGTCA
*
4974008 TTTTGGGTTCAAGTCA
1 TTTTGGGTTCGAGTCA
* * *
4974024 TTTTGAGCTCGGGTCA
1 TTTTGGGTTCGAGTCA
**
4974040 -TTTGAAATTCGAGTCA
1 TTTTG-GGTTCGAGTCA
* * *
4974056 TTTCGGGTTTGAATCA
1 TTTTGGGTTCGAGTCA
* *
4974072 TTTTAGGTTC-AGGTTA
1 TTTTGGGTTCGA-GTCA
* *
4974088 TTTCGGGTTCGGGTCA
1 TTTTGGGTTCGAGTCA
4974104 TTT
1 TTT
4974107 CGAGTTCGGG
Statistics
Matches: 72, Mismatches: 23, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
15 5 0.07
16 64 0.89
17 3 0.04
ACGTcount: A:0.17, C:0.13, G:0.26, T:0.43
Consensus pattern (16 bp):
TTTTGGGTTCGAGTCA
Found at i:4974105 original size:32 final size:32
Alignment explanation
Indices: 4973997--4974106 Score: 87
Period size: 32 Copynumber: 3.4 Consensus size: 32
4973987 GTTGTTTTTA
* * *
4973997 GGTTCGAGTCATTTTGGGTTCAAGTCATTTTG
1 GGTTCGAGTCATTTTAGGTTCAGGTCATTTCG
* * * * **
4974029 AGCTCGGGTCATTTGAAATTC-GAGTCATTTCG
1 GGTTCGAGTCATTTTAGGTTCAG-GTCATTTCG
* * *
4974061 GGTTTGAATCATTTTAGGTTCAGGTTATTTCG
1 GGTTCGAGTCATTTTAGGTTCAGGTCATTTCG
*
4974093 GGTTCGGGTCATTT
1 GGTTCGAGTCATTT
4974107 CGAGTTCGGG
Statistics
Matches: 55, Mismatches: 21, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
32 54 0.98
33 1 0.02
ACGTcount: A:0.17, C:0.14, G:0.27, T:0.42
Consensus pattern (32 bp):
GGTTCGAGTCATTTTAGGTTCAGGTCATTTCG
Found at i:4974107 original size:16 final size:16
Alignment explanation
Indices: 4973997--4974119 Score: 70
Period size: 16 Copynumber: 7.7 Consensus size: 16
4973987 GTTGTTTTTA
*
4973997 GGTTCGAGTCATTTTG
1 GGTTCGAGTCATTTCG
* *
4974013 GGTTCAAGTCATTTTG
1 GGTTCGAGTCATTTCG
* * *
4974029 AGCTCGGGTCATTT-G
1 GGTTCGAGTCATTTCG
**
4974044 AAATTCGAGTCATTTCG
1 -GGTTCGAGTCATTTCG
* * **
4974061 GGTTTGAATCATTTTA
1 GGTTCGAGTCATTTCG
*
4974077 GGTTC-AGGTTATTTCG
1 GGTTCGA-GTCATTTCG
*
4974093 GGTTCGGGTCATTTCG
1 GGTTCGAGTCATTTCG
* *
4974109 AGTTCGGGTCA
1 GGTTCGAGTCA
4974120 ATCGGGTTTA
Statistics
Matches: 81, Mismatches: 22, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
15 2 0.02
16 78 0.96
17 1 0.01
ACGTcount: A:0.17, C:0.15, G:0.28, T:0.40
Consensus pattern (16 bp):
GGTTCGAGTCATTTCG
Found at i:4975176 original size:16 final size:15
Alignment explanation
Indices: 4975155--4975225 Score: 70
Period size: 16 Copynumber: 4.5 Consensus size: 15
4975145 AATTATTTGG
*
4975155 ATCATTTTGAGTTTAA
1 ATCATTTT-AGTTCAA
*
4975171 ATCATTTTAGATTCGA
1 ATCATTTTAG-TTCAA
*
4975187 ATCATTTTAAGTTCAG
1 ATCATTTT-AGTTCAA
*
4975203 ATCATTTTAGATTCAG
1 ATCATTTTAG-TTCAA
4975219 ATCATTT
1 ATCATTT
4975226 CGATTCTAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.08
16 42 0.88
17 2 0.04
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (15 bp):
ATCATTTTAGTTCAA
Found at i:4975191 original size:32 final size:32
Alignment explanation
Indices: 4975154--4975225 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 32
4975144 TAATTATTTG
* *
4975154 GATCATTTTGAGTTTAAATCATTTTAGATTC-
1 GATCATTTTAAGTTCAAATCATTTTAGATTCA
*
4975185 GAATCATTTTAAGTTCAGATCATTTTAGATTCA
1 G-ATCATTTTAAGTTCAAATCATTTTAGATTCA
4975218 GATCATTT
1 GATCATTT
4975226 CGATTCTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 1 0.03
32 34 0.94
33 1 0.03
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (32 bp):
GATCATTTTAAGTTCAAATCATTTTAGATTCA
Found at i:4975902 original size:6 final size:6
Alignment explanation
Indices: 4975884--4975915 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
4975874 TTAATAATTT
4975884 TAAATA T-AATA TAAATA TAAATA -AAATA TAAA
1 TAAATA TAAATA TAAATA TAAATA TAAATA TAAA
4975916 AATTTTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.42
6 14 0.58
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
TAAATA
Found at i:4975948 original size:22 final size:22
Alignment explanation
Indices: 4975906--4975950 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
4975896 AAATATAAAT
*
4975906 AAAATATAAAAATTTTTATATA
1 AAAATATAAAAATTTTAATATA
*
4975928 AAAATAT-AATATTTTAAATATA
1 AAAATATAAAAATTTT-AATATA
4975950 A
1 A
4975951 TTATAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATATAAAAATTTTAATATA
Found at i:4975948 original size:58 final size:58
Alignment explanation
Indices: 4975856--4975974 Score: 156
Period size: 58 Copynumber: 2.1 Consensus size: 58
4975846 TTTAGAACTT
*
4975856 AATTTTTATTAAAAGAATTTAATAATTTTAAATATAA-TATAAATATAAATAAAATATAAA
1 AATTTTTATTAAAAGAATATAATAATTTTAAATATAATTAT-AATA-AAA-AAAATATAAA
*
4975916 AATTTTTA-TATAAA-AATATAAT-ATTTTAAATATAATTATAATAAAAAAATTATAAA
1 AATTTTTATTA-AAAGAATATAATAATTTTAAATATAATTATAATAAAAAAAATATAAA
4975972 AAT
1 AAT
4975975 AATACGAATA
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
56 12 0.22
57 3 0.05
58 17 0.31
59 12 0.22
60 11 0.20
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (58 bp):
AATTTTTATTAAAAGAATATAATAATTTTAAATATAATTATAATAAAAAAAATATAAA
Found at i:4975955 original size:20 final size:20
Alignment explanation
Indices: 4975875--4975958 Score: 68
Period size: 20 Copynumber: 4.2 Consensus size: 20
4975865 TAAAAGAATT
4975875 TAATAATTTTAAATAT-AATA
1 TAAT-ATTTTAAATATAAATA
*
4975895 TAA-A-TATAAATA-AAATA
1 TAATATTTTAAATATAAATA
* * *
4975912 TAAAAATTTTTATATAAAAATA
1 T-AATA-TTTTAAATATAAATA
*
4975934 TAATATTTTAAATATAATTA
1 TAATATTTTAAATATAAATA
4975954 TAATA
1 TAATA
4975959 AAAAAATTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
17 12 0.24
18 3 0.06
19 1 0.02
20 20 0.39
21 9 0.18
22 6 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATATTTTAAATATAAATA
Found at i:4976956 original size:30 final size:30
Alignment explanation
Indices: 4976922--4976985 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
4976912 TACGATAAAA
* *
4976922 AAAATATAATAAA-AATATTA-ATTATTTAAT
1 AAAATATAA-AAATAATA-TATAATATATAAT
4976952 AAAATATAAAAATAATATATAATATATAAT
1 AAAATATAAAAATAATATATAATATATAAT
4976982 AAAA
1 AAAA
4976986 ATTTAAATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 5 0.17
30 25 0.83
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (30 bp):
AAAATATAAAAATAATATATAATATATAAT
Found at i:4976957 original size:25 final size:24
Alignment explanation
Indices: 4976924--4977012 Score: 62
Period size: 25 Copynumber: 3.7 Consensus size: 24
4976914 CGATAAAAAA
* *
4976924 AATATAATAAAAATATTAATTATTT
1 AATAAAATAAAAATATTAA-TATAT
4976949 AATAAAATATAAAA-A-TAATATAT
1 AATAAAATA-AAAATATTAATATAT
*
4976972 AATATATAATAAAAAT-TTAA-ATAC
1 AATA-A-AATAAAAATATTAATATAT
*
4976996 AAT-TAATATAAAATATT
1 AATAAAATA-AAAATATT
4977013 TAAAATAATT
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
21 4 0.08
22 5 0.09
23 10 0.19
24 14 0.26
25 16 0.30
26 4 0.08
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (24 bp):
AATAAAATAAAAATATTAATATAT
Found at i:4978390 original size:16 final size:15
Alignment explanation
Indices: 4978352--4978386 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4978342 AATTCTCTTC
4978352 TTTTTCTACTCTATA
1 TTTTTCTACTCTATA
* *
4978367 TCTTTCTACTCTATC
1 TTTTTCTACTCTATA
4978382 TTTTT
1 TTTTT
4978387 TCTATTCTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.14, C:0.23, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTTCTACTCTATA
Found at i:4983525 original size:18 final size:18
Alignment explanation
Indices: 4983490--4983528 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4983480 TTCTCTTTTC
*
4983490 TTTTTTCTAAATTCTCTT
1 TTTTTTCTAAATTATCTT
**
4983508 TTTTTTCTACCTTATCTT
1 TTTTTTCTAAATTATCTT
4983526 TTT
1 TTT
4983529 CTATTCACTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTTCTAAATTATCTT
Found at i:4987627 original size:18 final size:18
Alignment explanation
Indices: 4987592--4987627 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4987582 AAAAATAATA
*
4987592 ATTTTCTTTCATCTCCTT
1 ATTTTCTTTCATCACCTT
*
4987610 ATTTTCTTTCCTCACCTT
1 ATTTTCTTTCATCACCTT
4987628 TTGTCTTCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.31, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTCTTTCATCACCTT
Found at i:4990585 original size:21 final size:21
Alignment explanation
Indices: 4990561--4990604 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4990551 TTGAATTGTT
4990561 TTAAAATAATTTATT-TTTAAA
1 TTAAAAT-ATTTATTATTTAAA
*
4990582 TTAAAATATTTTTTATTTAAA
1 TTAAAATATTTATTATTTAAA
4990603 TT
1 TT
4990605 TAATTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTAAAATATTTATTATTTAAA
Found at i:4990630 original size:22 final size:19
Alignment explanation
Indices: 4990599--4990640 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
4990589 ATTTTTTATT
4990599 TAAATTTAATTATAAAATATA
1 TAAATTTAATT-TAAAA-ATA
4990620 TAAATATTAATTTAAAAATA
1 TAAAT-TTAATTTAAAAATA
4990640 T
1 T
4990641 TTTTTAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 10 0.50
22 6 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TAAATTTAATTTAAAAATA
Found at i:4990856 original size:69 final size:70
Alignment explanation
Indices: 4990769--4990918 Score: 241
Period size: 70 Copynumber: 2.1 Consensus size: 70
4990759 AGATTATTAA
* * *
4990769 AATCATTGATAAAGAATTTTTTGATTTAAGTGT-AAAGAAATGAAAAAATTTATTAATAAGTTGT
1 AATCA-TGATAAAGAATTTTTTGATTTAAGTGTAAAAAAAATAAAAAAATTTATTAATAAGTCGT
4990833 AAGATT
65 AAGATT
4990839 AATCATGAT-AAGAAATTTTTTGATTTAAGTGTAAAAAAAATAAAAAAATTTATTAATAAGTCGT
1 AATCATGATAAAG-AATTTTTTGATTTAAGTGTAAAAAAAATAAAAAAATTTATTAATAAGTCGT
4990903 AAGATT
65 AAGATT
4990909 AATCATGATA
1 AATCATGATA
4990919 TTAAAAGCAA
Statistics
Matches: 74, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
68 3 0.04
69 23 0.31
70 48 0.65
ACGTcount: A:0.48, C:0.03, G:0.13, T:0.37
Consensus pattern (70 bp):
AATCATGATAAAGAATTTTTTGATTTAAGTGTAAAAAAAATAAAAAAATTTATTAATAAGTCGTA
AGATT
Found at i:4990955 original size:18 final size:18
Alignment explanation
Indices: 4990906--4990959 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
4990896 AAGTCGTAAG
4990906 ATTAATCATGATATTAAA
1 ATTAATCATGATATTAAA
** *
4990924 AGCAATGATGATATTAAA
1 ATTAATCATGATATTAAA
* *
4990942 ATTAATTATTATATTAAA
1 ATTAATCATGATATTAAA
4990960 GTTTCATTTG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (18 bp):
ATTAATCATGATATTAAA
Found at i:4991376 original size:30 final size:32
Alignment explanation
Indices: 4991337--4991395 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
4991327 ATACTAAATT
4991337 TAATAATAAAAACTAAT-ATAATTTTTTATTG
1 TAATAATAAAAACTAATAATAATTTTTTATTG
**
4991368 TAAT-ATAAAAACTTCTAATAATTTTTTA
1 TAATAATAAAAACTAATAATAATTTTTTA
4991396 CTTTTACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (32 bp):
TAATAATAAAAACTAATAATAATTTTTTATTG
Found at i:4991531 original size:20 final size:21
Alignment explanation
Indices: 4991503--4991543 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
4991493 CCTTCTATAT
4991503 ATATATTTTTAATTTT-TTCC
1 ATATATTTTTAATTTTCTTCC
* *
4991523 ATATTTTTTTTATTTTCTTCC
1 ATATATTTTTAATTTTCTTCC
4991544 GCCCTTAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.20, C:0.12, G:0.00, T:0.68
Consensus pattern (21 bp):
ATATATTTTTAATTTTCTTCC
Found at i:5001059 original size:10 final size:10
Alignment explanation
Indices: 5001032--5001062 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
5001022 AATATCATCC
*
5001032 ACATATACAT
1 ACATATATAT
5001042 ACATATATAT
1 ACATATATAT
5001052 ACATATATAT
1 ACATATATAT
5001062 A
1 A
5001063 GAAAGTAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (10 bp):
ACATATATAT
Found at i:5002549 original size:15 final size:15
Alignment explanation
Indices: 5002531--5002561 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5002521 TAATTTTTGA
*
5002531 TATAAGTTTTTTTAT
1 TATAAGTTTATTTAT
5002546 TATAAGTTTATTTAT
1 TATAAGTTTATTTAT
5002561 T
1 T
5002562 TTTTAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TATAAGTTTATTTAT
Found at i:5004525 original size:18 final size:19
Alignment explanation
Indices: 5004491--5004527 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
5004481 ACCTATTTAT
5004491 ATTAAAATAAAAAATATTA
1 ATTAAAATAAAAAATATTA
*
5004510 ATTAAAA-AATAAATATTA
1 ATTAAAATAAAAAATATTA
5004528 TGAGAGTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
ATTAAAATAAAAAATATTA
Found at i:5005237 original size:16 final size:16
Alignment explanation
Indices: 5005216--5005253 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
5005206 TAAATGTGAT
5005216 AAATTTTATTATAA-AA
1 AAATTTTATT-TAACAA
5005232 AAA-TTTATTTAACAA
1 AAATTTTATTTAACAA
5005247 AAATTTT
1 AAATTTT
5005254 TTGATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.15
15 11 0.55
16 6 0.30
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATTTTATTTAACAA
Found at i:5005550 original size:20 final size:20
Alignment explanation
Indices: 5005512--5005552 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
5005502 TTTATTACTT
*
5005512 TTTTAATTTTTAAACATAAA
1 TTTTAATTTATAAACATAAA
5005532 TTTTATATTTATAAA-ATAAA
1 TTTTA-ATTTATAAACATAAA
5005552 T
1 T
5005553 AAACCAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTAATTTATAAACATAAA
Found at i:5005689 original size:2 final size:2
Alignment explanation
Indices: 5005684--5005735 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
5005674 TTTTTAATTT
5005684 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
5005726 TA TA TA TA TA
1 TA TA TA TA TA
5005736 CTAAGAACGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5005947 original size:2 final size:2
Alignment explanation
Indices: 5005940--5005982 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
5005930 CAGTATGAGT
*
5005940 GA GA GA GA GA GA GA GA GA GA GA GA GA CA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
5005982 G
1 G
5005983 GGGTTTGCAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.02, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:5011251 original size:14 final size:15
Alignment explanation
Indices: 5011221--5011251 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
5011211 TTATCCTTTG
5011221 AAAGAATTAATTTAA
1 AAAGAATTAATTTAA
5011236 AAAGAATTAA-TTAA
1 AAAGAATTAATTTAA
5011250 AA
1 AA
5011252 TTATTTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (15 bp):
AAAGAATTAATTTAA
Found at i:5011733 original size:15 final size:16
Alignment explanation
Indices: 5011702--5011758 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
5011692 TTTAAGTTTT
* *
5011702 AATTATTATAGATTTA
1 AATTATTTTAGACTTA
*
5011718 AATTATTTT-GAGTTA
1 AATTATTTTAGACTTA
*
5011733 AGATCATTTTAGACTTA
1 A-ATTATTTTAGACTTA
*
5011750 GATTATTTT
1 AATTATTTT
5011759 TTATTTAAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 6 0.18
16 22 0.67
17 5 0.15
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.51
Consensus pattern (16 bp):
AATTATTTTAGACTTA
Found at i:5011774 original size:32 final size:31
Alignment explanation
Indices: 5011699--5011774 Score: 73
Period size: 32 Copynumber: 2.4 Consensus size: 31
5011689 CATTTTAAGT
* *
5011699 TTTAA-TTATTATAGATTTAAATTATTTTGA
1 TTTAAGTTATTTTAGACTTAAATTATTTTGA
* * * *
5011729 GTTAAGATCATTTTAGACTTAGATTATTTTTTA
1 TTTAAG-TTATTTTAGACTTAAATTA-TTTTGA
5011762 TTTAAGTTATTTT
1 TTTAAGTTATTTT
5011775 TTATTTATTT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
30 4 0.11
32 21 0.60
33 10 0.29
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.57
Consensus pattern (31 bp):
TTTAAGTTATTTTAGACTTAAATTATTTTGA
Found at i:5012169 original size:18 final size:18
Alignment explanation
Indices: 5012131--5012169 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
5012121 ATTAAAAAAT
*
5012131 AAATAAAATTTATAATTA
1 AAATAAAATTTATAATAA
* *
5012149 AAATAACATTTATCATAA
1 AAATAAAATTTATAATAA
5012167 AAA
1 AAA
5012170 ATTGATATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATAAAATTTATAATAA
Found at i:5015374 original size:22 final size:20
Alignment explanation
Indices: 5015335--5015374 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
5015325 AATTTAATTT
5015335 TTAATTAATATAAAATAATA
1 TTAATTAATATAAAATAATA
*
5015355 TTAATTTAACTATGAAATAA
1 TTAA-TTAA-TATAAAATAA
5015375 AAAAATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 4 0.24
22 9 0.53
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (20 bp):
TTAATTAATATAAAATAATA
Found at i:5016123 original size:3 final size:3
Alignment explanation
Indices: 5016115--5016140 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5016105 ATAAAAAACA
5016115 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
5016141 ACTACCGTGC
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:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:5017516 original size:22 final size:22
Alignment explanation
Indices: 5017491--5017534 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
5017481 TTTATATCTA
* *
5017491 ATAAAATATATTTTAAAATATT
1 ATAAAATATAATTCAAAATATT
5017513 ATAAAATATAATTCAAAATATT
1 ATAAAATATAATTCAAAATATT
5017535 GTTGATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
ATAAAATATAATTCAAAATATT
Found at i:5018556 original size:23 final size:24
Alignment explanation
Indices: 5018526--5018578 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
5018516 AAGCAATGAC
5018526 TTAA-TAAAAGATTTTAC-AATAA-
1 TTAATTAAAAGATTTT-CTAATAAT
*
5018548 TTAATTAAAATATTTTCTAATAAT
1 TTAATTAAAAGATTTTCTAATAAT
5018572 TTAATTA
1 TTAATTA
5018579 TTTTAGACCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 5 0.19
23 15 0.56
24 7 0.26
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (24 bp):
TTAATTAAAAGATTTTCTAATAAT
Found at i:5019955 original size:12 final size:12
Alignment explanation
Indices: 5019933--5019966 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
5019923 TATAATGTAT
*
5019933 CAAATTTTTTAA
1 CAAATTATTTAA
*
5019945 TAAATTATTTAA
1 CAAATTATTTAA
5019957 CAAATTATTT
1 CAAATTATTT
5019967 TATATAACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (12 bp):
CAAATTATTTAA
Found at i:5019974 original size:17 final size:18
Alignment explanation
Indices: 5019949--5019985 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
5019939 TTTTAATAAA
*
5019949 TTATTTAACAAATT-ATT
1 TTATATAACAAATTAATT
5019966 TTATATAACAAATTAATT
1 TTATATAACAAATTAATT
5019984 TT
1 TT
5019986 TATCCTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (18 bp):
TTATATAACAAATTAATT
Found at i:5020052 original size:17 final size:18
Alignment explanation
Indices: 5020032--5020088 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 18
5020022 ATAAATATTA
5020032 ATAAAAAATAACACA-TT
1 ATAAAAAATAACACATTT
* * *
5020049 ATAACAAA-AGCATATTT
1 ATAAAAAATAACACATTT
*
5020066 ATAAAAATATAACAAATTT
1 ATAAAAA-ATAACACATTT
5020085 ATAA
1 ATAA
5020089 TTTATTTACA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
16 4 0.13
17 15 0.48
18 1 0.03
19 11 0.35
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.28
Consensus pattern (18 bp):
ATAAAAAATAACACATTT
Found at i:5020200 original size:15 final size:15
Alignment explanation
Indices: 5020177--5020228 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
5020167 GCTTGAATCT
*
5020177 TAAATAATTTAAATA
1 TAAAAAATTTAAATA
*
5020192 TAAAAAATTTAAATT
1 TAAAAAATTTAAATA
*
5020207 TAAAAAAATTTGAATA
1 T-AAAAAATTTAAATA
5020223 -AAAAAA
1 TAAAAAA
5020229 ACTTGCACCA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
14 6 0.19
15 14 0.44
16 12 0.38
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
TAAAAAATTTAAATA
Found at i:5020227 original size:16 final size:16
Alignment explanation
Indices: 5020182--5020229 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
5020172 AATCTTAAAT
*
5020182 AATTTAAAT-ATAAAA
1 AATTTAAATAAAAAAA
**
5020197 AATTTAAATTTAAAAA
1 AATTTAAATAAAAAAA
*
5020213 AATTTGAATAAAAAAA
1 AATTTAAATAAAAAAA
5020229 A
1 A
5020230 CTTGCACCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 9 0.33
16 18 0.67
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (16 bp):
AATTTAAATAAAAAAA
Found at i:5028030 original size:2 final size:2
Alignment explanation
Indices: 5028025--5028067 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
5028015 ATATATACAT
5028025 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
5028067 A
1 A
5028068 ATGGATTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5028214 original size:28 final size:30
Alignment explanation
Indices: 5028173--5028234 Score: 101
Period size: 28 Copynumber: 2.1 Consensus size: 30
5028163 AAAAAAAATT
*
5028173 CCATAAAAAGATAATATTGATTAAACAT-A
1 CCATAAAAAGATAAAATTGATTAAACATAA
5028202 CCAT-AAAAGATAAAATTGATTAAACATAA
1 CCATAAAAAGATAAAATTGATTAAACATAA
5028231 CCAT
1 CCAT
5028235 TATCAAATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 22 0.71
29 9 0.29
ACGTcount: A:0.55, C:0.13, G:0.06, T:0.26
Consensus pattern (30 bp):
CCATAAAAAGATAAAATTGATTAAACATAA
Found at i:5029952 original size:18 final size:18
Alignment explanation
Indices: 5029931--5029969 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
5029921 TCATCGAGAT
5029931 TAATATC-ACTCAATTTAG
1 TAATATCAACTCAATTT-G
*
5029949 TAATATCAATTCAATTTG
1 TAATATCAACTCAATTTG
5029967 TAA
1 TAA
5029970 AATTATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (18 bp):
TAATATCAACTCAATTTG
Found at i:5030436 original size:14 final size:14
Alignment explanation
Indices: 5030417--5030444 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5030407 ATACTTGAGA
5030417 TTTGATAGTACTAT
1 TTTGATAGTACTAT
5030431 TTTGATAGTACTAT
1 TTTGATAGTACTAT
5030445 CAAATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (14 bp):
TTTGATAGTACTAT
Found at i:5031387 original size:15 final size:15
Alignment explanation
Indices: 5031364--5031406 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
5031354 ATTGAATATC
* *
5031364 AAATTATTTATATTA
1 AAATAATTTAAATTA
*
5031379 AAATAATTTAAATTT
1 AAATAATTTAAATTA
5031394 AAATAATTTAAAT
1 AAATAATTTAAAT
5031407 ATTAAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATAATTTAAATTA
Found at i:5031423 original size:16 final size:15
Alignment explanation
Indices: 5031398--5031452 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
5031388 AAATTTAAAT
5031398 AATTTAAAT-AT-TA
1 AATTTAAATAATATA
5031411 AATTTAAATAATATA
1 AATTTAAATAATATA
*
5031426 AATTTAAAATGATA-A
1 AATTT-AAATAATATA
*
5031441 AATTAAAATAAT
1 AATTTAAATAAT
5031453 TCATACACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
13 9 0.25
14 8 0.22
15 12 0.33
16 7 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
AATTTAAATAATATA
Found at i:5031435 original size:22 final size:21
Alignment explanation
Indices: 5031383--5031433 Score: 84
Period size: 22 Copynumber: 2.4 Consensus size: 21
5031373 ATATTAAAAT
*
5031383 AATTTAAATTTAAATAATTTA
1 AATTTAAATTTAAATAATATA
5031404 AATATTAAATTTAAATAATATA
1 AAT-TTAAATTTAAATAATATA
5031426 AATTTAAA
1 AATTTAAA
5031434 ATGATAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 8 0.29
22 20 0.71
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AATTTAAATTTAAATAATATA
Found at i:5033596 original size:5 final size:5
Alignment explanation
Indices: 5033588--5033623 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
5033578 ATTTTCTATG
5033588 TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
5033624 TCATATTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:5034934 original size:54 final size:54
Alignment explanation
Indices: 5034850--5034960 Score: 177
Period size: 54 Copynumber: 2.1 Consensus size: 54
5034840 TTGCAAGTGT
* *
5034850 AATGGACTTTCCGATATGAAACTTATAAAAGCTACTCAAGCTGGTAAACGAAGG
1 AATGGACTTTCCGATACGAAACTTACAAAAGCTACTCAAGCTGGTAAACGAAGG
* * *
5034904 AATGGACTTTTCGATACGAAACTTACAAAAGCTACTCAAGTTGGTAAATGAAGG
1 AATGGACTTTCCGATACGAAACTTACAAAAGCTACTCAAGCTGGTAAACGAAGG
5034958 AAT
1 AAT
5034961 TTTGTCAACT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (54 bp):
AATGGACTTTCCGATACGAAACTTACAAAAGCTACTCAAGCTGGTAAACGAAGG
Found at i:5037854 original size:18 final size:18
Alignment explanation
Indices: 5037826--5037871 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
5037816 ATATTTTAAT
*
5037826 TTAATATTTTACTGCTTTA
1 TTAA-ATTTTAATGCTTTA
**
5037845 TTAAATTTTAATTTTTTA
1 TTAAATTTTAATGCTTTA
5037863 TTAAATTTT
1 TTAAATTTT
5037872 GTCACTTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (18 bp):
TTAAATTTTAATGCTTTA
Found at i:5040126 original size:2 final size:2
Alignment explanation
Indices: 5040119--5040162 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
5040109 AGCTTAAGAC
5040119 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
5040161 GA
1 GA
5040163 TCAGTATACC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:5043630 original size:2 final size:2
Alignment explanation
Indices: 5043623--5043656 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
5043613 TATTGAACTC
*
5043623 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5043657 TATGTAGAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5048462 original size:20 final size:20
Alignment explanation
Indices: 5048415--5048489 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
5048405 AAAAAGACAT
*
5048415 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
5048434 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
5048455 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
5048475 AATGTATCGATACAT
1 AATGTATCGATACAT
5048490 GAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:5048483 original size:40 final size:39
Alignment explanation
Indices: 5048412--5048489 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
5048402 GGTAAAAAGA
* *
5048412 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
5048451 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
5048490 GAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:5052128 original size:20 final size:19
Alignment explanation
Indices: 5052082--5052137 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
5052072 GAAATTTAAA
**
5052082 ATTTAAAATTTATTAAATT
1 ATTTAAAATAAATTAAATT
* *
5052101 ATTAAAAATAAATTTAATT
1 ATTTAAAATAAATTAAATT
5052120 AGTTTAAAATTAAATTAA
1 A-TTTAAAA-TAAATTAA
5052138 GTAAAAAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 16 0.55
20 6 0.21
21 7 0.24
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATTTAAAATAAATTAAATT
Found at i:5053039 original size:29 final size:27
Alignment explanation
Indices: 5052981--5053039 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
5052971 AAATTAAAAC
5052981 AAAATATAAAAATATAAAAAATTAATT
1 AAAATATAAAAATATAAAAAATTAATT
*
5053008 AAAATATAACAAGATGTAAAAAA-TAATAT
1 AAAATATAA-AA-ATATAAAAAATTAAT-T
5053037 AAA
1 AAA
5053040 TGTGATATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 9 0.32
28 6 0.21
29 13 0.46
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.25
Consensus pattern (27 bp):
AAAATATAAAAATATAAAAAATTAATT
Found at i:5053730 original size:17 final size:17
Alignment explanation
Indices: 5053693--5053730 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
5053683 ATTTATATTT
5053693 TATT-ATTTAATTTTAA
1 TATTAATTTAATTTTAA
* *
5053709 AATTAATTTAATTTTCA
1 TATTAATTTAATTTTAA
5053726 TATTA
1 TATTA
5053731 TTATTACTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TATTAATTTAATTTTAA
Found at i:5053919 original size:17 final size:17
Alignment explanation
Indices: 5053894--5053928 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5053884 TTTTTTTATT
*
5053894 TTTTTATTATTATAAAA
1 TTTTGATTATTATAAAA
*
5053911 TTTTGATTATTTTAAAA
1 TTTTGATTATTATAAAA
5053928 T
1 T
5053929 CAAACTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (17 bp):
TTTTGATTATTATAAAA
Found at i:5055845 original size:50 final size:49
Alignment explanation
Indices: 5055745--5055847 Score: 116
Period size: 50 Copynumber: 2.1 Consensus size: 49
5055735 GATTTATATT
* * * * * * *
5055745 TTAATAAATTAATTATTAAATTTAATAATATAATTGTATTTATTTTAAA
1 TTAATAAATTAATAATTAAATTTAATAAAAAAATTATATATATATAAAA
* *
5055794 TTAATGAAATTAATAATTAAATTTTATAAAAAAATTATGTATATATAAAA
1 TTAAT-AAATTAATAATTAAATTTAATAAAAAAATTATATATATATAAAA
5055844 TTAA
1 TTAA
5055848 ATTAATTTTA
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
49 5 0.11
50 39 0.89
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (49 bp):
TTAATAAATTAATAATTAAATTTAATAAAAAAATTATATATATATAAAA
Found at i:5060428 original size:19 final size:19
Alignment explanation
Indices: 5060404--5060448 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
5060394 TTAATTTTAG
*
5060404 TATTTTAAAATATTTAAAT
1 TATTTTAAAAAATTTAAAT
5060423 TATTTTAAAAAATTTAAAT
1 TATTTTAAAAAATTTAAAT
5060442 T-TTTTAA
1 TATTTTAA
5060449 TTTTAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTTTAAAAAATTTAAAT
Found at i:5063448 original size:14 final size:14
Alignment explanation
Indices: 5063429--5063488 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
5063419 GTTTAATATT
5063429 TAAAAAAATTTAAA
1 TAAAAAAATTTAAA
* *
5063443 TAAAAATA-TT-AT
1 TAAAAAAATTTAAA
5063455 TAAAAAAATTTTAAA
1 TAAAAAAA-TTTAAA
* *
5063470 -AAATAAATTTAAT
1 TAAAAAAATTTAAA
5063483 TAAAAA
1 TAAAAA
5063489 TAAATCAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
12 8 0.23
13 7 0.20
14 19 0.54
15 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAAAAAATTTAAA
Found at i:5063464 original size:26 final size:28
Alignment explanation
Indices: 5063428--5063488 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
5063418 TGTTTAATAT
*
5063428 TTAAAAAAA-TTTAAATAA-AAATATT-A
1 TTAAAAAAATTTTAAAAAATAAAT-TTAA
5063454 TTAAAAAAATTTTAAAAAATAAATTTAA
1 TTAAAAAAATTTTAAAAAATAAATTTAA
5063482 TTAAAAA
1 TTAAAAA
5063489 TAAATCAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 9 0.29
27 10 0.32
28 12 0.39
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (28 bp):
TTAAAAAAATTTTAAAAAATAAATTTAA
Found at i:5063480 original size:13 final size:12
Alignment explanation
Indices: 5063430--5063481 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 12
5063420 TTTAATATTT
5063430 AAAAAAATTTAA
1 AAAAAAATTTAA
*
5063442 ATAAAAATATTATTA
1 A-AAAAA-ATT-TAA
*
5063457 AAAAAATTTTAA
1 AAAAAAATTTAA
5063469 AAAATAAATTTAA
1 AAAA-AAATTTAA
5063482 TTAAAAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
12 7 0.22
13 14 0.44
14 8 0.25
15 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAAAAATTTAA
Found at i:5063688 original size:21 final size:21
Alignment explanation
Indices: 5063664--5063703 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5063654 AACCTGTCGA
*
5063664 TTTCGTTTCTTGTCTTGTCCT
1 TTTCGTTTCCTGTCTTGTCCT
5063685 TTTCGTTTCCTGTCTTGTC
1 TTTCGTTTCCTGTCTTGTC
5063704 TTCCATGTGC
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:0.00, C:0.25, G:0.15, T:0.60
Consensus pattern (21 bp):
TTTCGTTTCCTGTCTTGTCCT
Done.